Genes, mutations, and human inherited disease at the dawn of the age of personalized genomics
The number of reported germline mutations in human nuclear genes, either underlying or associated with inherited disease, has now exceeded 100,000 in more than 3,700 different genes. The availability of these data has both revolutionized the study of the morbid anatomy of the human genome and facili...
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Published in | Human mutation Vol. 31; no. 6; pp. 631 - 655 |
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Main Authors | , , , , , , , , , |
Format | Journal Article |
Language | English |
Published |
Hoboken
Wiley Subscription Services, Inc., A Wiley Company
01.06.2010
John Wiley & Sons, Inc Wiley |
Subjects | |
Online Access | Get full text |
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Abstract | The number of reported germline mutations in human nuclear genes, either underlying or associated with inherited disease, has now exceeded 100,000 in more than 3,700 different genes. The availability of these data has both revolutionized the study of the morbid anatomy of the human genome and facilitated "personalized genomics." With ~300 new "inherited disease genes" (and ~10,000 new mutations) being identified annually, it is pertinent to ask how many "inherited disease genes" there are in the human genome, how many mutations reside within them, and where such lesions are likely to be located? To address these questions, it is necessary not only to reconsider how we define human genes but also to explore notions of gene "essentiality" and "dispensability." Answers to these questions are now emerging from recent novel insights into genome structure and function and through complete genome sequence information derived from multiple individual human genomes. However, a change in focus toward screening functional genomic elements as opposed to genes sensu stricto will be required if we are to capitalize fully on recent technical and conceptual advances and identify new types of disease-associated mutation within noncoding regions remote from the genes whose function they disrupt. Hum Mutat 31:631-655, 2010. |
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AbstractList | The number of reported germline mutations in human nuclear genes, either underlying or associated with inherited disease, has now exceeded 100,000 in more than 3,700 different genes. The availability of these data has both revolutionized the study of the morbid anatomy of the human genome and facilitated “personalized genomics.” With ∼300 new “inherited disease genes” (and ∼10,000 new mutations) being identified annually, it is pertinent to ask how many “inherited disease genes” there are in the human genome, how many mutations reside within them, and where such lesions are likely to be located? To address these questions, it is necessary not only to reconsider how we define human genes but also to explore notions of gene “essentiality” and “dispensability.” Answers to these questions are now emerging from recent novel insights into genome structure and function and through complete genome sequence information derived from multiple individual human genomes. However, a change in focus toward screening functional genomic elements as opposed to genes sensu stricto will be required if we are to capitalize fully on recent technical and conceptual advances and identify new types of disease‐associated mutation within noncoding regions remote from the genes whose function they disrupt. Hum Mutat 31:631–655, 2010. © 2010 Wiley‐Liss, Inc. The number of reported germline mutations in human nuclear genes, either underlying or associated with inherited disease, has now exceeded 100,000 in more than 3,700 different genes. The availability of these data has both revolutionized the study of the morbid anatomy of the human genome and facilitated "personalized genomics." With 300 new "inherited disease genes" (and 10,000 new mutations) being identified annually, it is pertinent to ask how many "inherited disease genes" there are in the human genome, how many mutations reside within them, and where such lesions are likely to be located? To address these questions, it is necessary not only to reconsider how we define human genes but also to explore notions of gene "essentiality" and "dispensability." Answers to these questions are now emerging from recent novel insights into genome structure and function and through complete genome sequence information derived from multiple individual human genomes. However, a change in focus toward screening functional genomic elements as opposed to genes sensu stricto will be required if we are to capitalize fully on recent technical and conceptual advances and identify new types of disease-associated mutation within noncoding regions remote from the genes whose function they disrupt. Hum Mutat 31:631-655, 2010. © 2010 Wiley-Liss, Inc. The number of reported germline mutations in human nuclear genes, either underlying or associated with inherited disease, has now exceeded 100,000 in more than 3,700 different genes. The availability of these data has both revolutionized the study of the morbid anatomy of the human genome and facilitated "personalized genomics." With approximately 300 new "inherited disease genes" (and approximately 10,000 new mutations) being identified annually, it is pertinent to ask how many "inherited disease genes" there are in the human genome, how many mutations reside within them, and where such lesions are likely to be located? To address these questions, it is necessary not only to reconsider how we define human genes but also to explore notions of gene "essentiality" and "dispensability."Answers to these questions are now emerging from recent novel insights into genome structure and function and through complete genome sequence information derived from multiple individual human genomes. However, a change in focus toward screening functional genomic elements as opposed to genes sensu stricto will be required if we are to capitalize fully on recent technical and conceptual advances and identify new types of disease-associated mutation within noncoding regions remote from the genes whose function they disrupt.The number of reported germline mutations in human nuclear genes, either underlying or associated with inherited disease, has now exceeded 100,000 in more than 3,700 different genes. The availability of these data has both revolutionized the study of the morbid anatomy of the human genome and facilitated "personalized genomics." With approximately 300 new "inherited disease genes" (and approximately 10,000 new mutations) being identified annually, it is pertinent to ask how many "inherited disease genes" there are in the human genome, how many mutations reside within them, and where such lesions are likely to be located? To address these questions, it is necessary not only to reconsider how we define human genes but also to explore notions of gene "essentiality" and "dispensability."Answers to these questions are now emerging from recent novel insights into genome structure and function and through complete genome sequence information derived from multiple individual human genomes. However, a change in focus toward screening functional genomic elements as opposed to genes sensu stricto will be required if we are to capitalize fully on recent technical and conceptual advances and identify new types of disease-associated mutation within noncoding regions remote from the genes whose function they disrupt. The number of reported germline mutations in human nuclear genes, either underlying or associated with inherited disease, has now exceeded 100,000 in more than 3,700 different genes. The availability of these data has both revolutionized the study of the morbid anatomy of the human genome and facilitated personalized genomics. With 300 new inherited disease genes (and 10,000 new mutations) being identified annually, it is pertinent to ask how many inherited disease genes there are in the human genome, how many mutations reside within them, and where such lesions are likely to be located? To address these questions, it is necessary not only to reconsider how we define human genes but also to explore notions of gene essentiality and dispensability. Answers to these questions are now emerging from recent novel insights into genome structure and function and through complete genome sequence information derived from multiple individual human genomes. However, a change in focus toward screening functional genomic elements as opposed to genes sensu stricto will be required if we are to capitalize fully on recent technical and conceptual advances and identify new types of disease-associated mutation within noncoding regions remote from the genes whose function they disrupt. Hum Mutat 31:631-655, 2010. The number of reported germline mutations in human nuclear genes, either underlying or associated with inherited disease, has now exceeded 100,000 in more than 3,700 different genes. The availability of these data has both revolutionized the study of the morbid anatomy of the human genome and facilitated "personalized genomics." With approximately 300 new "inherited disease genes" (and approximately 10,000 new mutations) being identified annually, it is pertinent to ask how many "inherited disease genes" there are in the human genome, how many mutations reside within them, and where such lesions are likely to be located? To address these questions, it is necessary not only to reconsider how we define human genes but also to explore notions of gene "essentiality" and "dispensability."Answers to these questions are now emerging from recent novel insights into genome structure and function and through complete genome sequence information derived from multiple individual human genomes. However, a change in focus toward screening functional genomic elements as opposed to genes sensu stricto will be required if we are to capitalize fully on recent technical and conceptual advances and identify new types of disease-associated mutation within noncoding regions remote from the genes whose function they disrupt. The number of reported germline mutations in human nuclear genes, either underlying or associated with inherited disease, is set tohas now exceeded 100,000 in more than 3,7600 different genes. The availability of these data has both revolutionized the study of the morbid anatomy of the human genome and facilitated ‘personalized genomics'. With ~300 new ‘inherited disease genes' (and ~10,000 new mutations) being identified annually, it is pertinent to ask how many ‘inherited disease genes' there are there in the human genome, how many mutations reside within them and where are such lesions are likely to be located? To address these questions, it is necessary not only to reconsider how we define human genes but also to explore notions of gene ‘'essentiality'' and ‘dispensability'. Answers to these questions are now emerging from recent novel insights into genome structure and function and through complete genome sequence information derived from multiple individual human genomes. However, a change in focus towards screening functional genomic elements as opposed to genes sensu stricto will be required if we are to capitalize fully on recent technical and conceptual advances and identify new types of disease-associated mutation within non-coding regions remote from the genes whose function they disrupt. |
Author | Cooper, David N Howells, Katy Phillips, Andrew D Kehrer-Sawatzki, Hildegard Stenson, Peter D Mort, Matthew Krawczak, Michael Chuzhanova, Nadia Chen, Jian-Min Ball, Edward V |
Author_xml | – sequence: 1 fullname: Cooper, David N – sequence: 2 fullname: Chen, Jian-Min – sequence: 3 fullname: Ball, Edward V – sequence: 4 fullname: Howells, Katy – sequence: 5 fullname: Mort, Matthew – sequence: 6 fullname: Phillips, Andrew D – sequence: 7 fullname: Chuzhanova, Nadia – sequence: 8 fullname: Krawczak, Michael – sequence: 9 fullname: Kehrer-Sawatzki, Hildegard – sequence: 10 fullname: Stenson, Peter D |
BackLink | https://www.ncbi.nlm.nih.gov/pubmed/20506564$$D View this record in MEDLINE/PubMed https://hal.science/hal-00552385$$DView record in HAL |
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Cites_doi | 10.1073/pnas.112212199 10.1038/ng.443 10.1093/hmg/ddn141 10.1093/bfgp/elp038 10.1038/ng2098 10.1038/nrg2083 10.1038/nature01535 10.1101/gr.5586307 10.1093/bfgp/elp022 10.1007/s00439-006-0180-7 10.1097/GIM.0b013e3181c175d2 10.1056/NEJMoa050995 10.1093/hmg/ddn247 10.1101/gr.5573107 10.1161/ATVBAHA.109.189522 10.1038/nature08835 10.1038/nrg775 10.1038/nature06862 10.1006/geno.1997.5127 10.1073/pnas.0701361104 10.1073/pnas.0903103106 10.1136/jmg.2009.067785 10.1073/pnas.0705140104 10.1126/science.1131262 10.1007/BF02923549 10.1093/bib/bbn047 10.1186/gm13 10.1038/nature03001 10.1016/j.ajhg.2009.12.016 10.1093/hmg/9.3.325 10.1016/j.jmb.2006.09.053 10.1016/j.semcdb.2009.06.005 10.1093/hmg/ddq083 10.1126/science.1171202 10.1152/physiolgenomics.00034.2008 10.1093/hmg/ddl182 10.1146/annurev.genom.7.080505.115623 10.1016/j.gde.2009.09.006 10.1093/hmg/ddl044 10.1101/gr.4145906 10.1371/journal.pgen.0010078 10.1016/j.tig.2003.10.002 10.1101/gr.3015505 10.1371/journal.pcbi.0020046 10.1371/journal.pone.0008232 10.1101/gr.6406307 10.1093/hmg/5.9.1229 10.1038/nature06884 10.1016/j.ygeno.2008.11.009 10.1002/humu.20170 10.1073/pnas.0708659104 10.1093/bioinformatics/bti781 10.1101/gr.088559.108 10.1016/S0925-4439(03)00085-1 10.1038/nature07484 10.1101/gr.6.9.858 10.1016/S0168-9525(01)02410-6 10.1126/science.1163853 10.1038/nbt1203 10.1093/hmg/ddg244 10.1186/1471-2164-10-S1-S4 10.1158/0008-5472.CAN-08-3151 10.1007/978-1-60327-411-1_2 10.1016/j.ajhg.2009.03.001 10.1146/annurev.genom.8.080706.092419 10.1093/hmg/ddp180 10.1073/pnas.0810433106 10.1093/bioinformatics/bti795 10.1002/humu.20400 10.1534/genetics.107.072553 10.1093/hmg/ddm172 10.1038/nrg2164 10.1182/blood.V76.1.221.221 10.1016/j.bbrc.2007.01.129 10.1016/j.mrrev.2008.05.001 10.1186/1471-2105-9-128 10.1007/s10048-005-0026-9 10.1186/1471-2164-11-48 10.1016/S0378-1119(03)00772-8 10.1002/humu.21206 10.1016/j.tig.2005.08.007 10.1016/j.ygeno.2010.03.009 10.1371/journal.pgen.0040022 10.1016/j.tig.2009.10.006 10.1086/513473 10.1073/pnas.0912629107 10.1016/S0168-9525(02)00006-9 10.1086/513149 10.1093/molbev/msn214 10.1186/gb-2004-5-7-r47 10.1093/nar/gkp954 10.1016/j.ymgme.2008.06.013 10.1038/sj.ejhg.5201787 10.1002/ajh.21480 10.1073/pnas.0904715106 10.1093/nar/gki531 10.1016/j.gde.2009.04.010 10.1186/1471-2164-7-165 10.1146/annurev-med-100708-204735 10.1136/jmg.2009.068361 10.1126/science.1186802 10.1038/nrg2521 10.1371/journal.pone.0006086 10.1186/gb-2009-10-9-237 10.1038/nrg2484 10.1038/ng.154 10.1016/j.tig.2008.12.003 10.1038/nature08514 10.1101/gr.5696007 10.1016/j.tig.2007.11.008 10.1038/ng.437 10.1086/449313 10.1073/pnas.0700800104 10.1042/BC20080104 10.1016/j.bbrc.2008.02.121 10.1093/carcin/bgm290 10.1038/ejhg.2009.62 10.1016/j.ajhg.2010.01.014 10.1016/j.febslet.2005.02.047 10.1371/journal.pone.0003393 10.1186/1471-2164-7-306 10.1007/s00439-009-0736-4 10.1371/journal.pgen.1000244 10.1101/gr.4137606 10.1038/ng1789 10.1038/ng.355 10.1046/j.1529-8817.2003.00072.x 10.1002/bies.080122 10.1093/hmg/ddi226 10.1186/1471-2164-11-151 10.1002/ajmg.a.31563 10.1371/journal.pgen.1000014 10.1126/science.1112009 10.1007/s00239-008-9170-9 10.1006/jmbi.2001.5255 10.1186/1471-2164-9-S2-S3 10.1136/jmg.2009.068122 10.1126/science.1138659 10.1093/oxfordjournals.molbev.a003895 10.1126/science.1160342 10.1038/nature08250 10.1002/humu.21071 10.1038/nbt1144 10.1038/ng.158 10.1126/science.1169050 10.1101/gad.1864110 10.1038/nature05295 10.1002/ijc.24008 10.1016/j.ygeno.2008.08.001 10.1016/j.tig.2006.08.001 10.1371/journal.pgen.1000522 10.1111/j.1742-4658.2009.07520.x 10.1086/522376 10.1007/s00335-008-9137-6 10.1016/j.tig.2007.03.003 10.1093/genetics/158.3.1227 10.1016/j.ajhg.2008.02.016 10.1038/nature08211 10.1101/gr.092619.109 10.4161/cc.8.23.10113 10.1093/molbev/msp219 10.1002/humu.21088 10.1002/humu.20628 10.1136/jmg.2005.033597 10.1002/humu.21196 10.1016/j.ajhg.2009.05.005 10.1093/hmg/ddi418 10.1101/gr.5486607 10.1371/journal.pgen.1000083 10.1073/pnas.0909331106 10.1016/j.copbio.2006.08.006 10.1016/j.tibtech.2005.04.003 10.1073/pnas.0701722105 10.1101/gr.083477.108 10.1186/1471-2407-10-47 10.1186/1471-2164-10-435 10.1038/nature07759 10.1038/nature07229 10.1016/j.jmb.2008.08.012 10.1038/nature05874 10.1073/pnas.0800387105 10.1172/JCI10347 10.1002/humu.21192 10.1101/gr.082503.108 10.1002/gcc.20724 10.1093/hmg/ddp152 10.1186/gb-2008-9-12-r168 10.1093/hmg/ddm375 10.1038/ng.276 10.1016/j.ygeno.2005.06.008 10.1038/ng826 10.1101/gr.5255506 10.1101/gr.6339607 10.1038/ng.312 10.1016/j.bbrc.2004.06.039 10.1006/geno.1996.0608 10.1182/blood.V78.6.1589.1589 10.1371/journal.pgen.1000766 10.1126/science.1126431 10.1073/pnas.86.19.7470 10.1056/NEJM197807272990403 10.1093/hmg/ddl029 10.1093/molbev/msh073 10.1038/ng1710 10.1016/j.ajhg.2009.06.022 10.1126/science.1130738 10.1016/j.jmb.2006.02.067 10.1002/humu.21208 10.1038/ng.242 10.1016/j.gene.2005.09.036 10.1074/jbc.M701050200 10.1371/journal.pgen.1000214 10.1371/journal.pbio.0050254 10.1126/science.1170995 10.1073/pnas.0910672106 10.4161/rna.6.1.7568 10.1038/nature07953 10.1038/ng1487 10.1016/j.jaci.2008.09.026 10.1159/000184721 10.1007/s00439-002-0854-8 10.1073/pnas.0709013104 10.1016/j.tig.2009.08.001 10.1093/hmg/3.2.279 10.1101/gr.6525007 10.1016/S1096-7192(02)00100-2 10.1159/000184688 10.1101/gr.080184.108 10.1126/science.1135308 10.1007/s00439-006-0218-x 10.1186/gb-2007-8-6-r118 10.1038/nature08516 10.1002/humu.20826 10.1159/000056940 10.1038/ng1094-117 10.1101/gr.094151.109 10.1073/pnas.0810772105 10.1093/hmg/ddn257 10.1126/science.1139247 10.1038/nature08689 10.1371/journal.pbio.1000294 10.1371/journal.pone.0005237 10.1038/ng1096-203 10.2741/2812 10.1038/nature05329 10.1038/nature03467 10.1093/hmg/10.23.2679 10.1016/j.gene.2006.11.007 10.1093/nar/gkp1098 10.1016/j.gde.2009.04.003 10.1038/ng.403 10.1126/science.1174148 10.1126/science.1142430 10.1038/nrg2641 10.1126/science.1058040 10.1007/978-94-009-0387-6 10.1038/nature02797 10.1152/physrev.00040.2007 10.1038/nature08451 10.1038/nature08795 10.1101/gr.5660607 10.1093/bioinformatics/btp528 10.1146/annurev.genom.7.080505.115630 10.1261/rna.1560209 10.1101/gr.3455305 10.1017/S1462399410001390 10.1186/1471-2164-9-292 10.1086/429252 10.1038/35057062 10.1016/j.tibtech.2009.05.003 10.1126/science.1138341 10.1054/mehy.2000.1200 10.1136/jmg.2008.063123 10.1016/j.tig.2008.07.004 10.1002/ajmg.a.32830 10.1111/j.1399-0004.2010.01387.x 10.1016/j.ajhg.2008.10.006 10.1111/j.1365-2141.2007.06758.x 10.1126/science.1155174 10.1038/35057050 10.1016/j.ymgme.2007.01.003 10.1038/ng.329 10.1186/1479-7364-3-4-301 10.1093/nar/gkh605 10.1186/1471-2350-10-141 10.1093/carcin/bgn073 10.1038/nature08390 10.1073/pnas.232565499 10.1038/ng.406 10.1007/s00439-003-1012-7 10.1038/nature07672 10.1038/ng2142 10.1101/gr.3942005 10.1126/science.1162253 10.1016/j.tig.2007.02.006 10.1093/gbe/evp013 10.1203/PDR.0b013e3181b9b4d3 10.1186/1471-2164-7-31 10.1016/j.jmb.2009.11.002 10.1126/science.1183621 10.1016/j.tig.2009.05.005 10.1371/journal.pgen.1000459 10.1073/pnas.0812824106 10.1101/gr.080531.108 10.1371/journal.pgen.1000160 10.1126/science.1098918 10.1146/annurev.genom.9.081307.164255 10.1073/pnas.0802682105 10.1002/humu.20837 10.1126/science.1184208 10.1038/nature06611 10.1016/j.ajhg.2009.01.008 10.1038/nbt.1596 10.1016/S0065-2660(07)00013-2 10.1093/gbe/evq007 10.1101/gr.091827.109 10.1038/ng.2007.57 10.1101/gr.102210.109 10.1172/JCI39832 10.1002/ajmg.b.30490 10.1111/j.1399-0004.2009.01342.x 10.1101/gr.091991.109 10.1186/gm89 10.2217/14622416.9.12.1861 10.1038/nature08727 10.1016/j.gene.2008.03.010 10.1073/pnas.0810916106 10.1093/hmg/ddn282 10.1101/gr.6036807 10.1534/genetics.104.037259 10.1126/science.1164096 10.1056/NEJMoa0908094 10.1101/gr.091868.109 10.1111/j.1538-7836.2006.01722.x 10.1073/pnas.76.6.2886 10.1111/j.1399-0004.2010.01370.x 10.1038/nature08452 10.1038/nrm2738 10.1038/ng.499 10.1128/MCB.01384-09 10.1038/ng.259 10.1159/000184687 10.1073/pnas.0802970105 10.1172/JCI0215058 10.1038/nrg2554 10.1093/hmg/ddg180 10.1002/humu.20096 10.1093/hmg/10.21.2319 10.1126/science.1068597 10.1073/pnas.240398797 10.1073/pnas.0611223104 10.1038/ng1416 10.1046/j.1365-2141.2003.04197.x 10.1002/humu.21142 10.1186/gb-2010-11-3-r26 |
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References | Pros E, Gómez C, Martín T, Fábregas P, Serra E, Lázaro C. 2008. Nature and mRNA effect of 282 different NF1 point mutations: focus on splicing alterations. Hum Mutat 29:E173-E193. Romao L, Osorio-Almeida L, Higgs DR, Lavinha J, Liebhaber SA. 1991. α-Thalassemia resulting from deletion of regulatory sequences far upstream of the alpha-globin structural genes. Blood 78:1589-1595. Pastinen T, Ge B, Hudson TJ. 2006. Influence of human genome polymorphism on gene expression. Hum Mol Genet 15 Spec No 1:R9-R16. Driscoll MC, Dobkin CS, Alter BP. 1989. γδβ-thalassemia due to a de novo mutation deleting the 5′ β-globin gene activation-region hypersensitive sites. Proc Natl Acad Sci USA 86:7470-7474. Krawczak M, Thomas NS, Hundrieser B, Mort M, Wittig M, Hampe J, Cooper DN. 2007. Single base-pair substitutions in exon-intron junctions of human genes: nature, distribution, and consequences for mRNA splicing. Hum Mutat 28:150-158. VerMilyea MD, O'Neill LP, Turner BM. 2009. Transcription-independent heritability of induced histone modifications in the mouse preimplantation embryo. PLoS One 4:e6086. Tuupanen S, Turunen M, Lehtonen R, Hallikas O, Vanharanta S, Kivioja T, Björklund M, Wei G, Yan J, Niittymäki I, Mecklin JP, Järvinen H, Ristimäki A, Di-Bernardo M, East P, Carvajal-Carmona L, Houlston RS, Tomlinson I, Palin K, Ukkonen E, Karhu A, Taipale J, Aaltonen LA. 2009. The common colorectal cancer predisposition SNP rs6983267 at chromosome 8q24 confers potential to enhanced Wnt signaling. Nat Genet 41:885-890. Azevedo L, Suriano G, van Asch B, Harding RM, Amorim A. 2006. Epistatic interactions: how strong in disease and evolution? Trends Genet 22:581-585. Jazdzewski K, Murray EL, Franssila K, Jarzab B, Schoenberg DR, de la Chapelle A. 2008. Common SNP in pre-miR-146a decreases mature miR expression and predisposes to papillary thyroid carcinoma. Proc Natl Acad Sci USA 105:7269-7274. Wang J, Wang W, Li R, Li Y, Tian G, Goodman L, Fan W, Zhang J, Li J, Zhang J, Guo Y, Feng B, Li H, Lu Y, Fang X, Liang H, Du Z, Li D, Zhao Y, Hu Y, Yang Z, Zheng H, Hellmann I, Inouye M, Pool J, Yi X, Zhao J, Duan J, Zhou Y, Qin J, Ma L, Li G, Yang Z, Zhang G, Yang B, Yu C, Liang F, Li W, Li S, Li D, Ni P, Ruan J, Li Q, Zhu H, Liu D, Lu Z, Li N, Guo G, Zhang J, Ye J, Fang L, Hao Q, Chen Q, Liang Y, Su Y, San A, Ping C, Yang S, Chen F, Li L, Zhou K, Zheng H, Ren Y, Yang L, Gao Y, Yang G, Li Z, Feng X, Kristiansen K, Wong GK, Nielsen R, Durbin R, Bolund L, Zhang X, Li S, Yang H, Wang J. 2008a. The diploid genome sequence of an Asian individual. Nature 456:60-65. Gerstein MB, Bruce C, Rozowsky JS, Zheng D, Du J, Korbel JO, Emanuelsson O, Zhang ZD, Weissman S, Snyder M. 2007. What is a gene, post-ENCODE? History and updated definition. Genome Res 17:669-681. Calin GA, Ferracin M, Cimmino A, Di Leva G, Shimizu M, Wojcik SE, Iorio MV, Visone R, Sever NI, Fabbri M, Iuliano R, Palumbo T, Pichiorri F, Roldo C, Garzon R, Sevignani C, Rassenti L, Alder H, Volinia S, Liu CG, Kipps TJ, Negrini M, Croce CM. 2005. A microRNA signature associated with prognosis and progression in chronic lymphocytic leukemia. N Engl J Med 353:1793-1801. Drake JA, Bird C, Nemesh J, Thomas DJ, Newton-Cheh C, Reymond A, Excoffier L, Attar H, Antonarakis SE, Dermitzakis ET, Hirschhorn JN. 2006. Conserved noncoding sequences are selectively constrained and not mutation cold spots. Nat Genet 38:223-227. Buschiazzo E, Gemmell NJ. 2010. Conservation of human microsatellites across 450 million years of evolution. Genome Biol Evol 2010:153-165. Hirotsune S, Yoshida N, Chen A, Garrett L, Sugiyama F, Takahashi S, Yagami K, Wynshaw-Boris A, Yoshiki A. 2003. An expressed pseudogene regulates the messenger-RNA stability of its homologous coding gene. Nature 423:91-96. Dear PH. 2009. Copy-number variation: the end of the human genome? Trends Biotechnol 27:448-454. Katayama S, Tomaru Y, Kasukawa T, Waki K, Nakanishi M, Nakamura M, Nishida H, Yap CC, Suzuki M, Kawai J, Suzuki H, Carninci P, Hayashizaki Y, Wells C, Frith M, Ravasi T, Pang KC, Hallinan J, Mattick J, Hume DA, Lipovich L, Batalov S, Engström PG, Mizuno Y, Faghihi MA, Sandelin A, Chalk AM, Mottagui-Tabar S, Liang Z, Lenhard B, Wahlestedt C, RIKEN Genome Exploration Research Group, Genome Science Group (Genome Network Project Core Group), FANTOM Consortium. 2005. Antisense transcription in the mammalian transcriptome. Science 309:1564-1566. López-Bigas N, Audit B, Ouzounis C, Parra G, Guigó R. 2005. Are splicing mutations the most frequent cause of hereditary disease? FEBS Lett 579:1900-1903. McKernan KJ, Peckham HE, Costa GL, McLaughlin SF, Fu Y, Tsung EF, Clouser CR, Duncan C, Ichikawa JK, Lee CC, Zhang Z, Ranade SS, Dimalanta ET, Hyland FC, Sokolsky TD, Zhang L, Sheridan A, Fu H, Hendrickson CL, Li B, Kotler L, Stuart JR, Malek JA, Manning JM, Antipova AA, Perez DS, Moore MP, Hayashibara KC, Lyons MR, Beaudoin RE, Coleman BE, Laptewicz MW, Sannicandro AE, Rhodes MD, Gottimukkala RK, Yang S, Bafna V, Bashir A, MacBride A, Alkan C, Kidd JM, Eichler EE, Reese MG, De La Vega FM, Blanchard AP. 2009. Sequence and structural variation in a human genome uncovered by short-read, massively parallel ligation sequencing using two-base encoding. Genome Res 19:1527-1541. Girirajan S, Rosenfeld JA, Cooper GM, Antonacci F, Siswara P, Itsara A, Vives L, Walsh T, McCarthy SE, Baker C, Mefford HC, Kidd JM, Browning SR, Browning BL, Dickel DE, Levy DL, Ballif BC, Platky K, Farber DM, Gowans GC, Wetherbee JJ, Asamoah A, Weaver DD, Mark PR, Dickerson J, Garg BP, Ellingwood SA, Smith R, Banks VC, Smith W, McDonald MT, Hoo JJ, French BN, Hudson C, Johnson JP, Ozmore JR, Moeschler JB, Surti U, Escobar LF, El-Khechen D, Gorski JL, Kussmann J, Salbert B, Lacassie Y, Biser A, McDonald-McGinn DM, Zackai EH, Deardorff MA, Shaikh TH, Haan E, Friend KL, Fichera M, Romano C, Gécz J, DeLisi LE, Sebat J, King MC, Shaffer LG, Eichler EE. 2010. A recurrent 16p12.1 microdeletion supports a two-hit model for severe developmental delay. Nat Genet 2010 42:203-209. López-Bigas N, Blencowe BJ, Ouzounis CA. 2006. Highly consistent patterns for inherited human diseases at the molecular level. Bioinformatics 22:269-277. Kidd JM, Cooper GM, Donahue WF, Hayden HS, Sampas N, Graves T, Hansen N, Teague B, Alkan C, Antonacci F, Haugen E, Zerr T, Yamada NA, Tsang P, Newman TL, Tüzün E, Cheng Z, Ebling HM, Tusneem N, David R, Gillett W, Phelps KA, Weaver M, Saranga D, Brand A, Tao W, Gustafson E, McKernan K, Chen L, Malig M, Smith JD, Korn JM, McCarroll SA, Altshuler DA, Peiffer DA, Dorschner M, Stamatoyannopoulos J, Schwartz D, Nickerson DA, Mullikin JC, Wilson RK, Bruhn L, Olson MV, Kaul R, Smith DR, Eichler EE. 2008. Mapping and sequencing of structural variation from eight human genomes. Nature 453:56-64. Boyko AR, Williamson SH, Indap AR, Degenhardt JD, Hernandez RD, Lohmueller KE, Adams MD, Schmidt S, Sninsky JJ, Sunyaev SR, White TJ, Nielsen R, Clark AG, Bustamante CD. 2008. Assessing the evolutionary impact of amino acid mutations in the human genome. PLoS Genet 4:e1000083. Conley AB, Miller WJ, Jordan IK. 2008. Human cis natural antisense transcripts initiated by transposable elements. Trends Genet 24:53-56. Asthana S, Noble WS, Kryukov G, Grant CE, Sunyaev S, Stamatoyannopoulos JA. 2007. Widely distributed noncoding purifying selection in the human genome. Proc Natl Acad Sci USA 104:12410-12415. Gross-Hardt S, Reiss J. 2002. The bicistronic MOCS1 gene has alternative start codons on two mutually exclusive exons. Mol Genet Metab 76:340-343. Dinger ME, Amaral PP, Mercer TR, Mattick JS. 2009. Pervasive transcription of the eukaryotic genome: functional indices and conceptual implications. Brief Funct Genomic Proteomic 8:407-423. Dehainault C, Michaux D, Pagès-Berhouet S, Caux-Moncoutier V, Doz F, Desjardins L, Couturier J, Parent P, Stoppa-Lyonnet D, Gauthier-Villars M, Houdayer C. 2007. A deep intronic mutation in the RB1 gene leads to intronic sequence exonisation. Eur J Hum Genet 15:473-477. de Kok YJ, Vossenaar ER, Cremers CW, Dahl N, Laporte J, Hu LJ, Lacombe D, Fischel-Ghodsian N, Friedman RA, Parnes LS, Thorpe P, Bitner-Glindzicz M, Pander HJ, Heilbronner H, Graveline J, den Dunnen JT, Brunner HG, Ropers HH, Cremers FP. 1996. Identification of a hot spot for microdeletions in patients with X-linked deafness type 3 (DFN3) 900 kb proximal to the DFN3 gene POU3F4. Hum Mol Genet 5:1229-1235. Katzman S, Kern AD, Bejerano G, Fewell G, Fulton L, Wilson RK, Salama SR, Haussler D. 2007. Human genome ultraconserved elements are ultraselected. Science 317:915. Rahimov F, Marazita ML, Visel A, Cooper ME, Hitchler MJ, Rubini M, Domann FE, Govil M, Christensen K, Bille C, Melbye M, Jugessur A, Lie RT, Wilcox AJ, Fitzpatrick DR, Green ED, Mossey PA, Little J, Steegers-Theunissen RP, Pennacchio LA, Schutte BC, Murray JC. 2008. Disruption of an AP-2α binding site in an IRF6 enhancer is associated with cleft lip. Nat Genet 40:1341-1347. Waalen J, Beutler E. 2009. Genetic screening for low-penetrance variants in protein-coding genes. Annu Rev Genomics Hum Genet 10:431-450. Hu Z, Chen J, Tian T, Zhou X, Gu H, Xu L, Zeng Y, Miao R, Jin G, Ma H, Chen Y, Shen H. 2008. Genetic variants of miRNA sequences and non-small cell lung cancer survival. J Clin Invest 118:2600-2608. Prabhu S, Pe'er I. 2009. Overlapping pools for high-throughput targeted resequencing. Genome Res 19:1254-1261. Snider L, Asawachaicharn A, Tyler AE, Geng LN, Petek LM, Maves L, Miller DG, Lemmers RJ, Winokur ST, Tawil R, van der Maarel SM, Filippova GN, Tapscott SJ. 2009. RNA transcripts, miRNA-sized fragments and proteins produced from D4Z4 units: new candidates for the pathophysiology of facioscapulohumeral dystrophy. Hum Mol Genet 18:2414-2430. Chen JM, Férec C, Cooper DN. 2006b. A systematic analysis of disease-associated variants in the 3′ regulatory regions of human protein-coding genes II: the importance of mRNA secondary structure in assessing the functionality of 3′ UTR variants. Hum Genet 120:301-333. Theuns J, Del-Favero J, Dermaut B, van Duijn C 2004; 21 2009; 89 2004; 320 2005; 170 2009; 85 2009; 84 2006a; 120 2002; 99 2004; 24 2002; 315 2004; 5 2008; 105 2008; 33 2004; 32 2009; 2009 2009; 93 2008; 29 2004; 36 2007; 176 2008; 25 2008; 118 2008; 24 2005; 76 2001; 56 2005; 77 2006; 444 2010; 8 2007; 17 2009; 66 2009; 69 2010; 2010 2007; 282 2002; 76 2005; 86 2008; 369 2006; 358 2008; 123 2008; 122 2004; 305 2007; 15 2007; 16 2004; 431 2004; 430 2008a; 456 2010a; 28 2005; 1 2008; 40 2009b; 84 2001; 158 2007; 39 2007; 389 2002; 110 2007; 143 2008b; 83 2008; 9 2009c; 46 1978; 299 2008; 3 2008; 4 2001; 107 1985; 64 1996; 38 2009b; 10 1979; 76 2010; 61 2007; 28 2007; 139 2010; 277 2010; 396 2008; 67 2009a; 25 2001; 17 2001; 18 2008; 61 1996; 5 2007; 23 2006; 365 2009; 324 2009; 325 1996; 6 2001; 10 2010; 77 2007; 365 2002; 30 2010; 127 2010 2006; 16 2009d; 119 2006; 17 2006; 15 2009 2007 2010; 362 2008; 322 2009b; 30 2007; 144B 2007; 53 2008; 321 2008; 95 2008; 320 2008; 92 2010; 86 2007; 355 2008a; 29 2009a; 10 2009; 8 2009; 6 2009; 5 2008; 455 2009; 4 2009; 3 2003; 423 2008; 453 2008; 452 2008; 451 2009; 1 2008; 82 2003; 67 2010; 12 2007; 104 2010; 11 2010; 10 2003; 318 2010; 107 2010; 19 2006; 38 2010; 104 2008b; 40 2010; 464 2005; 579 2010; 463 2006b; 120 2009; 11 2010; 20 2010; 27 2009; 10 2010; 24 1990 2006; 24 2006; 22 2000; 97 2007; 8 2009; 124 2007; 5 2009; 19 2010; 30 2009; 15 2009; 18 2009; 17 2010; 31 2010; 38 2007; 447 2010; 327 1991; 78 2005; 353 2010; 328 2007; 90 2002; 3 2009; 459 1996; 14 2009; 457 2009; 578 2009; 458 2010; 42 2007; 316 2010; 49 2007; 317 2007; 315 2008; 659 2009; 462 2008; 417 2009; 101 2007; 80 2007b; 316 2007; 81 2009a; 46 2009; 460 2009; 461 2005; 15 2009; 106 2005; 14 2001; 93 2009; 46 2009; 41 1989; 86 2009b; 324 2000; 9 2005; 21 2007a; 8 2003; 19 2003; 114 2003; 112 2008; 383 2005; 23 1998; 47 2005; 25 2003; 12 2001; 291 2005; 309 2005; 37 2005; 33 2003; 120 2009; 25 1990; 76 2009; 20 2002; 296 2008; 18 2008; 19 2005; 434 2008; 17 2006; 7 2005; 42 2008; 13 2001; 409 2006; 4 2006; 2 2006; 314 2003; 1638 2009; 27 2006; 312 2009; 29 1994; 8 2009; 30 2009; 31 2009; 149A 2010b 1994; 3 Mercer (10.1002/humu.21260-BIB213|cit213) 2009; 10 Li (10.1002/humu.21260-BIB182|cit182) 2004; 21 Yngvadottir (10.1002/humu.21260-BIB351|cit351) 2009a; 10 Dehainault (10.1002/humu.21260-BIB61|cit61) 2007; 15 Zhu (10.1002/humu.21260-BIB360|cit360) 2003; 1638 Jazdzewski (10.1002/humu.21260-BIB136|cit136) 2008; 105 Solis (10.1002/humu.21260-BIB290|cit290) 2008; 13 Sahoo (10.1002/humu.21260-BIB270|cit270) 2008; 40 Cartegni (10.1002/humu.21260-BIB32|cit32) 2002; 3 Harland (10.1002/humu.21260-BIB115|cit115) 2001; 10 Choi (10.1002/humu.21260-BIB41|cit41) 2008; 122 Zhang (10.1002/humu.21260-BIB354|cit354) 2008; 33 Kapranov (10.1002/humu.21260-BIB141|cit141) 2007b; 316 Borel (10.1002/humu.21260-BIB19|cit19) 2008; 19 Chen (10.1002/humu.21260-BIB40|cit40) 2009b; 30 Nikopoulos (10.1002/humu.21260-BIB227|cit227) 2010; 86 Bochukova (10.1002/humu.21260-BIB18|cit18) 2010; 463 Conrad (10.1002/humu.21260-BIB48|cit48) 2010; 464 Guttman (10.1002/humu.21260-BIB113|cit113) 2009; 458 Katzman (10.1002/humu.21260-BIB147|cit147) 2007; 317 Liu (10.1002/humu.21260-BIB188|cit188) 2001; 18 Sebat (10.1002/humu.21260-BIB277|cit277) 2007; 316 Shao (10.1002/humu.21260-BIB281|cit281) 2006; 22 Shlien (10.1002/humu.21260-BIB284|cit284) 2008; 105 Yngvadottir (10.1002/humu.21260-BIB352|cit352) 2009b; 84 Werner (10.1002/humu.21260-BIB337|cit337) 2009; 6 Alkan (10.1002/humu.21260-BIB3|cit3) 2009; 41 Lettice (10.1002/humu.21260-BIB172|cit172) 2003; 12 Viprakasit (10.1002/humu.21260-BIB323|cit323) 2003; 120 Zhang (10.1002/humu.21260-BIB356|cit356) 2010; 11 Buschiazzo (10.1002/humu.21260-BIB25|cit25) 2010; 2010 Capriotti (10.1002/humu.21260-BIB30|cit30) 2008; 29 Dimas (10.1002/humu.21260-BIB67|cit67) 2009; 325 Kryukov (10.1002/humu.21260-BIB163|cit163) 2005; 14 Furney (10.1002/humu.21260-BIB91|cit91) 2006; 7 Kasowski (10.1002/humu.21260-BIB145|cit145) 2010; 328 Kimura (10.1002/humu.21260-BIB155|cit155) 1985; 64 Parra (10.1002/humu.21260-BIB240|cit240) 2006; 16 Fanciulli (10.1002/humu.21260-BIB81|cit81) 2010; 77 Howard (10.1002/humu.21260-BIB127|cit127) 2004; 320 Rio Frio (10.1002/humu.21260-BIB264|cit264) 2009; 30 Xing (10.1002/humu.21260-BIB345|cit345) 2009; 19 Kryukov (10.1002/humu.21260-BIB162|cit162) 2007; 80 Azevedo (10.1002/humu.21260-BIB8|cit8) 2006; 22 Enattah (10.1002/humu.21260-BIB77|cit77) 2002; 30 Wheeler (10.1002/humu.21260-BIB338|cit338) 2008; 452 Pesole (10.1002/humu.21260-BIB244|cit244) 2008; 417 Li (10.1002/humu.21260-BIB179|cit179) 2010a; 28 Goode (10.1002/humu.21260-BIB104|cit104) 2010; 20 Suriano (10.1002/humu.21260-BIB302|cit302) 2007; 16 Fantauzzo (10.1002/humu.21260-BIB82|cit82) 2008; 17 Pruitt (10.1002/humu.21260-BIB256|cit256) 2009; 19 Shen (10.1002/humu.21260-BIB283|cit283) 2010; 10 Liao (10.1002/humu.21260-BIB184|cit184) 2008; 105 Kryukov (10.1002/humu.21260-BIB164|cit164) 2009; 106 Medvedeva (10.1002/humu.21260-BIB209|cit209) 2010; 11 Drake (10.1002/humu.21260-BIB73|cit73) 2006; 38 Griffiths-Jones (10.1002/humu.21260-BIB109|cit109) 2007; 8 Hitchins (10.1002/humu.21260-BIB125|cit125) 2009; 46 Peters (10.1002/humu.21260-BIB245|cit245) 2007; 17 Taft (10.1002/humu.21260-BIB305|cit305) 2009; 41 Chen (10.1002/humu.21260-BIB38|cit38) 2006a; 120 Glessner (10.1002/humu.21260-BIB101|cit101) 2009; 459 Thean (10.1002/humu.21260-BIB308|cit308) 2010; 49 Wang (10.1002/humu.21260-BIB331|cit331) 2009a; 10 De Gobbi (10.1002/humu.21260-BIB58|cit58) 2006; 312 D'haene (10.1002/humu.21260-BIB63|cit63) 2009; 5 Brouwer (10.1002/humu.21260-BIB23|cit23) 2009; 31 Ng (10.1002/humu.21260-BIB224|cit224) 2008; 4 Nozu (10.1002/humu.21260-BIB229|cit229) 2009; 66 Yang (10.1002/humu.21260-BIB350|cit350) 2008b; 83 Rincón (10.1002/humu.21260-BIB265|cit265) 2007; 81 Coutinho (10.1002/humu.21260-BIB52|cit52) 2005; 25 Fejes-Toth (10.1002/humu.21260-BIB84|cit84) 2009; 457 Mills (10.1002/humu.21260-BIB217|cit217) 2007; 23 Gingeras (10.1002/humu.21260-BIB99|cit99) 2009; 461 Ponjavic (10.1002/humu.21260-BIB249|cit249) 2007; 17 Cecchini (10.1002/humu.21260-BIB33|cit33) 2009; 20 Benito-Sanz (10.1002/humu.21260-BIB14|cit14) 2005; 77 Fay (10.1002/humu.21260-BIB83|cit83) 2001; 158 Pan (10.1002/humu.21260-BIB236|cit236) 2008; 40 Ferrer-Costa (10.1002/humu.21260-BIB87|cit87) 2007; 365 Lander (10.1002/humu.21260-BIB168|cit168) 2001; 409 Olds (10.1002/humu.21260-BIB231|cit231) 2003; 12 Mefford (10.1002/humu.21260-BIB210|cit210) 2009; 11 Hunt (10.1002/humu.21260-BIB132|cit132) 2009; 578 Ng (10.1002/humu.21260-BIB225|cit225) 2010; 42 Liu (10.1002/humu.21260-BIB189|cit189) 2009; 69 Ferrer-Costa (10.1002/humu.21260-BIB86|cit86) 2002; 315 Lowe (10.1002/humu.21260-BIB196|cit196) 2007; 104 Carninci (10.1002/humu.21260-BIB31|cit31) 2006; 38 Veyrieras (10.1002/humu.21260-BIB322|cit322) 2008; 4 Kapranov (10.1002/humu.21260-BIB142|cit142) 2005; 15 Sakai (10.1002/humu.21260-BIB271|cit271) 2007; 389 Lynch (10.1002/humu.21260-BIB201|cit201) 2010; 107 Maston (10.1002/humu.21260-BIB207|cit207) 2006; 7 Homolova (10.1002/humu.21260-BIB126|cit126) 2010; 31 Lohmueller (10.1002/humu.21260-BIB190|cit190) 2008; 451 Snider (10.1002/humu.21260-BIB288|cit288) 2009; 18 Parker (10.1002/humu.21260-BIB239|cit239) 2009; 324 Rung (10.1002/humu.21260-BIB269|cit269) 2009; 41 Pomerantz (10.1002/humu.21260-BIB248|cit248) 2009; 41 de Smith (10.1002/humu.21260-BIB60|cit60) 2008; 123 Collins (10.1002/humu.21260-BIB46|cit46) 2009; 25 Gerdes (10.1002/humu.21260-BIB95|cit95) 2006; 17 Stankiewicz (10.1002/humu.21260-BIB293|cit293) 2010; 61 Hindorff (10.1002/humu.21260-BIB123|cit123) 2009; 106 Keightley (10.1002/humu.21260-BIB149|cit149) 2005; 15 Waalen (10.1002/humu.21260-BIB326|cit326) 2009; 10 Fraser (10.1002/humu.21260-BIB89|cit89) 2009; 19 Morley (10.1002/humu.21260-BIB218|cit218) 2004; 430 Hu (10.1002/humu.21260-BIB129|cit129) 2008; 118 Perotti (10.1002/humu.21260-BIB243|cit243) 2004; 24 Poon (10.1002/humu.21260-BIB251|cit251) 2005; 170 Gurnett (10.1002/humu.21260-BIB112|cit112) 2007; 143 Wang (10.1002/humu.21260-BIB333|cit333) 2008b; 40 Mort (10.1002/humu.21260-BIB220|cit220) 2010; 31 Gorlov (10.1002/humu.21260-BIB106|cit106) 2006; 15 Svensson (10.1002/humu.21260-BIB304|cit304) 2006; 2 Kimchi-Sarfaty (10.1002/humu.21260-BIB154|cit154) 2007; 315 Herzog (10.1002/humu.21260-BIB122|cit122) 1996; 6 Terai (10.1002/humu.21260-BIB307|cit307) 2010; 38 Wang (10.1002/humu.21260-BIB332|cit332) 2009b; 10 Stankiewicz (10.1002/humu.21260-BIB292|cit292) 2009; 84 Nackley (10.1002/humu.21260-BIB221|cit221) 2009; 4 Velagaleti (10.1002/humu.21260-BIB318|cit318) 2005; 76 Eory (10.1002/humu.21260-BIB79|cit79) 2010; 27 Orkin (10.1002/humu.21260-BIB232|cit232) 1978; 299 Dimas (10.1002/humu.21260-BIB68|cit68) 2008; 4 Osada (10.1002/humu.21260-BIB233|cit233) 2009; 106 Pheasant (10.1002/humu.21260-BIB246|cit246) 2007; 17 Hu (10.1002/humu.21260-BIB130|cit130) 2009; 30 Shen (10.1002/humu.21260-BIB282|cit282) 2009; 124 Cai (10.1002/humu.21260-BIB26|cit26) 2003; 114 Rahimov (10.1002/humu.21260-BIB260|cit260) 2008; 40 Antonarakis (10.1002/humu.21260-BIB4|cit4) 2007 Cutler (10.1002/humu.21260-BIB54|cit54) 2008; 123 Hirotsune (10.1002/humu.21260-BIB124|cit124) 2003; 423 Cotton (10.1002/humu.21260-BIB49|cit49) 2009; 3 Katayama (10.1002/humu.21260-BIB146|cit146) 2005; 309 McLean (10.1002/humu.21260-BIB204|cit204) 2008; 18 Reich (10.1002/humu.21260-BIB263|cit263) 2001; 17 Roach (10.1002/humu.21260-BIB266|cit266) 2010; 328 Schalkwyk (10.1002/humu.21260-BIB273|cit273) 2010; 86 Khachane (10.1002/humu.21260-BIB150|cit150) 2009; 10 Aerts (10.1002/humu.21260-BIB1|cit1) 2006; 24 Zhang (10.1002/humu.21260-BIB355|cit355) 2009; 25 Lauderdale (10.1002/humu.21260-BIB169|cit169) 2000; 97 Coutinho (10.1002/humu.21260-BIB51|cit51) 2007; 144B Kleinjan (10.1002/humu.21260-BIB156|cit156) 2008; 61 VerMilyea (10.1002/humu.21260-BIB321|cit321) 2009; 4 Gingeras (10.1002/humu.21260-BIB98|cit98) 2007; 17 Pennacchio (10.1002/humu.21260-BIB242|cit242) 2006; 444 Dhir (10.1002/humu.21260-BIB64|cit64) 2010; 277 Lister (10.1002/humu.21260-BIB187|cit187) 2009; 462 Ozsolak (10.1002/humu.21260-BIB235|cit235) 2009; 461 Tuupanen (10.1002/humu.21260-BIB316|cit316) 2009; 41 Licastro (10.1002/humu.21260-BIB185|cit185) 2010; 11 Hatton (10.1002/humu.21260-BIB118|cit118) 1990; 76 Jones (10.1002/humu.21260-BIB138|cit138) 2009; 324 Theuns (10.1002/humu.21260-BIB309|cit309) 2000; 9 Mattick (10.1002/humu.21260-BIB208|cit208) 2009; 5 Rozowsky (10.1002/humu.21260-BIB268|cit268) 2007; 17 Sanford (10.1002/humu.21260-BIB272|cit272) 2009; 19 Cropley (10.1002/humu.21260-BIB53|cit53) 2008; 9 Park (10.1002/humu.21260-BIB237|cit237) 2008; 92 Asthana (10.1002/humu.21260-BIB6|cit6) 2007; 104 Flomen (10.1002/humu.21260-BIB88|cit88) 1998; 47 Gorlov (10.1002/humu.21260-BIB107|cit107) 2008; 9 Choi (10.1002/humu.21260-BIB42|cit42) 2009; 106 Dathe (10.1002/humu.21260-BIB55|cit55) 2009; 84 Jimenez-Sanchez (10.1002/humu.21260-BIB137|cit137) 2001; 409 Morris (10.1002/humu.21260-BIB219|cit219) 2001; 56 Lin (10.1002/humu.21260-BIB186|cit186) 2009; 18 Wieczorek (10.1002/humu.21260-BIB339|cit339) 2010; 31 Bandiera (10.1002/humu.21260-BIB9|cit9) 2010; 77 Haiman (10.1002/humu.21260-BIB114|cit114) 2007; 39 Grinchuk (10.1002/humu.21260-BIB110|cit110) 2010; 38 Walsh (10.1002/humu.21260-BIB327|cit327) 2008; 320 Girirajan (10.1002/humu.21260-BIB100|cit100) 2010; 42 Sebat (10.1002/humu.21260-BIB278|cit278) 2004; 305 McCarroll (10.1002/humu.21260-BIB202|cit202) 2008; 17 Prabhakar (10.1002/humu.21260-BIB252|cit252) 2006; 314 Cai (10.1002/humu.21260-BIB27|cit27) 2009; 2009 López-Bigas (10.1002/humu.21260-BIB194|cit194) 2004; 32 Walters (10.1002/humu.21260-BIB328|cit328) 2010; 463 Mefford (10.1002/humu.21260-BIB211|cit211) 2009; 19 Wong (10.1002/humu.21260-BIB342|cit342) 2009; 1 Lower (10.1002/humu.21260-BIB197|cit197) 2009; 106 McKernan (10.1002/humu.21260-BIB203|cit203) 2009; 19 Wilkins (10.1002/humu.21260-BIB341|cit341) 2009; 10 Hsiao (10.1002/humu.21260-BIB128|cit128) 2008; 4 Dixit (10.1002/humu.21260-BIB70|cit70) 2007; 104 Denoeud (10.1002/humu.21260-BIB62|cit62) 2007; 17 Frazer (10.1002/humu.21260-BIB90|cit90) 2009; 10 Yang (10.1002/humu.21260-BIB348|cit348) 2008; 9 Lomelin (10.1002/humu.21260-BIB191|cit191) 2010; 20 Benko (10.1002/humu.21260-BIB15|cit15) 2009; 41 Koenig (10.1002/humu.21260-BIB159|cit159) 2009; 84 Stra 20513140 - Hum Mutat. 2010 Jun;31(6):v |
References_xml | – reference: Thean LF, Loi C, Ho KS, Koh PK, Eu KW, Cheah PY. 2010. Genome-wide scan identifies a copy number variable region at 3q26 that regulates PPM1L in APC mutation-negative familial colorectal cancer patients. Genes Chrom Cancer 49:99-106. – reference: Kawaji H, Hayashizaki Y. 2008. Exploration of small RNAs. PLoS Genet 4:e22. – reference: Turgeon B, Meloche S. 2009. Interpreting neonatal lethal phenotypes in mouse mutants: insights into gene function and human diseases. Physiol Rev 89:1-26. – reference: Goode DL, Cooper GM, Schmutz J, Dickson M, Gonzales E, Tsai M, Karra K, Davydov E, Batzoglou S, Myers RM, Sidow A. 2010. Evolutionary constraint facilitates interpretation of genetic variation in resequenced human genomes. Genome Res 20:301-310. – reference: Dixit M, Ansseau E, Tassin A, Winokur S, Shi R, Qian H, Sauvage S, Mattéotti C, van Acker AM, Leo O, Figlewicz D, Barro M, Laoudj-Chenivesse D, Belayew A, Coppée F, Chen YW. 2007. DUX4, a candidate gene of facioscapulohumeral muscular dystrophy, encodes a transcriptional activator of PITX1. Proc Natl Acad Sci USA 104:18157-18162. – reference: Kapranov P, Cheng J, Dike S, Nix DA, Duttagupta R, Willingham AT, Stadler PF, Hertel J, Hackermüller J, Hofacker IL, Bell I, Cheung E, Drenkow J, Dumais E, Patel S, Helt G, Ganesh M, Ghosh S, Piccolboni A, Sementchenko V, Tammana H, Gingeras TR. 2007b. RNA maps reveal new RNA classes and a possible function for pervasive transcription. Science 316:1484-1488. – reference: Lower KM, Hughes JR, De Gobbi M, Henderson S, Viprakasit V, Fisher C, Goriely A, Ayyub H, Sloane-Stanley J, Vernimmen D, Langford C, Garrick D, Gibbons RJ, Higgs DR. 2009. Adventitious changes in long-range gene expression caused by polymorphic structural variation and promoter competition. Proc Natl Acad Sci USA 106:21771-21776. – reference: López-Bigas N, Ouzounis CA. 2004. Genome-wide identification of genes likely to be involved in human genetic disease. Nucleic Acids Res 32:3108-3114. – reference: Smith NG, Eyre-Walker A. 2003. Human disease genes: patterns and predictions. Gene 318:169-175. – reference: Gorlov IP, Kimmel M, Amos CI. 2006. Strength of the purifying selection against different categories of the point mutations in the coding regions of the human genome. Hum Mol Genet 15:1143-1150. – reference: Fanciulli M, Petretto E, Aitman TJ. 2010. Gene copy number variation and common human disease. Clin Genet 77:201-213. – reference: Gerdes S, Edwards R, Kubal M, Fonstein M, Stevens R, Osterman A. 2006. Essential genes on metabolic maps. Curr Opin Biotechnol 17:448-456. – reference: Vuoristo JT, Berrettini WH, Ala-Kokko L. 2001. C18orf2, a novel, highly conserved intronless gene within intron 5 of the GNAL gene on chromosome 18p11. Cytogenet Cell Genet 93:19-22. – reference: Guttman M, Amit I, Garber M, French C, Lin MF, Feldser D, Huarte M, Zuk O, Carey BW, Cassady JP, Cabili MN, Jaenisch R, Mikkelsen TS, Jacks T, Hacohen N, Bernstein BE, Kellis M, Regev A, Rinn JL, Lander ES. 2009. Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals. Nature 458:223-227. – reference: Glessner JT, Wang K, Cai G, Korvatska O, Kim CE, Wood S, Zhang H, Estes A, Brune CW, Bradfield JP, Imielinski M, Frackelton EC, Reichert J, Crawford EL, Munson J, Sleiman PM, Chiavacci R, Annaiah K, Thomas K, Hou C, Glaberson W, Flory J, Otieno F, Garris M, Soorya L, Klei L, Piven J, Meyer KJ, Anagnostou E, Sakurai T, Game RM, Rudd DS, Zurawiecki D, McDougle CJ, Davis LK, Miller J, Posey DJ, Michaels S, Kolevzon A, Silverman JM, Bernier R, Levy SE, Schultz RT, Dawson G, Owley T, McMahon WM, Wassink TH, Sweeney JA, Nurnberger JI, Coon H, Sutcliffe JS, Minshew NJ, Grant SF, Bucan M, Cook EH, Buxbaum JD, Devlin B, Schellenberg GD, Hakonarson H. 2009. Autism genome-wide copy number variation reveals ubiquitin and neuronal genes. Nature 459:569-573. – reference: Kim JI, Ju YS, Park H, Kim S, Lee S, Yi JH, Mudge J, Miller NA, Hong D, Bell CJ, Kim HS, Chung IS, Lee WC, Lee JS, Seo SH, Yun JY, Woo HN, Lee H, Suh D, Lee S, Kim HJ, Yavartanoo M, Kwak M, Zheng Y, Lee MK, Park H, Kim JY, Gokcumen O, Mills RE, Zaranek AW, Thakuria J, Wu X, Kim RW, Huntley JJ, Luo S, Schroth GP, Wu TD, Kim H, Yang KS, Park WY, Kim H, Church GM, Lee C, Kingsmore SF, Seo JS. 2009. A highly annotated whole-genome sequence of a Korean individual. Nature 460:1011-1015. – reference: Chatterjee S, Pal JK. 2009. Role of 5′- and 3′-untranslated regions of mRNAs in human diseases. Biol Cell 101:251-262. – reference: Dickson SP, Wang K, Krantz I, Hakonarson H, Goldstein DB. 2010. Rare variants create synthetic genome-wide associations. PLoS Biol 8:e1000294. – reference: Nackley AG, Shabalina SA, Lambert JE, Conrad MS, Gibson DG, Spiridonov AN, Satterfield SK, Diatchenko L. 2009. Low enzymatic activity haplotypes of the human catechol-O-methyltransferase gene: enrichment for marker SNPs. PLoS One 4:e5237. – reference: Xing J, Zhang Y, Han K, Salem AH, Sen SK, Huff CD, Zhou Q, Kirkness EF, Levy S, Batzer MA, Jorde LB. 2009. Mobile elements create structural variation: analysis of a complete human genome. Genome Res 19:1516-1526. – reference: Mercer TR, Dinger ME, Mattick JS. 2009. Long non-coding RNAs: insights into functions. Nat Rev Genet 10:155-159. – reference: Dong XY, Rodriguez C, Guo P, Sun X, Talbot JT, Zhou W, Petros J, Li Q, Vessella RL, Kibel AS, Stevens VL, Calle EE, Dong JT. 2008. SnoRNA U50 is a candidate tumor-suppressor gene at 6q14.3 with a mutation associated with clinically significant prostate cancer. Hum Mol Genet 17:1031-1042. – reference: Grinchuk OV, Jenjaroenpun P, Orlov YL, Zhou J, Kuznetsov VA. 2010. Integrative analysis of the human cis-antisense gene pairs, miRNAs and their transcription regulation patterns. Nucleic Acids Res 38:534-547. – reference: Kumar S, Suleski MP, Markov GJ, Lawrence S, Marco A, Filipski AJ. 2009. Positional conservation and amino acids shape the correct diagnosis and population frequencies of benign and damaging personal amino acid mutations. Genome Res 19:1562-1569. – reference: Lomelin D, Jorgenson E, Risch N. 2010. Human genetic variation recognizes functional elements in non-coding sequence. Genome Res 20:311-319. – reference: Zhang ZD, Frankish A, Hunt T, Harrow J, Gerstein M. 2010. Identification and analysis of unitary pseudogenes: historic and contemporary gene losses in humans and other primates. Genome Biol 11:R26. – reference: Capriotti E, Arbiza L, Casadio R, Dopazo J, Dopazo H, Marti-Renom MA. 2008. Use of estimated evolutionary strength at the codon level improves the prediction of disease-related protein mutations in humans. Hum Mutat 29:198-204. – reference: Yang MQ, Elnitski LL. 2008. Diversity of core promoter elements comprising human bidirectional promoters. BMC Genomics 9(Suppl 2):S3. – reference: Rozowsky JS, Newburger D, Sayward F, Wu J, Jordan G, Korbel JO, Nagalakshmi U, Yang J, Zheng D, Guigó R, Gingeras TR, Weissman S, Miller P, Snyder M, Gerstein MB. 2007. The DART classification of unannotated transcription within the ENCODE regions: associating transcription with known and novel loci. Genome Res 17:732-745. – reference: Khachane AN, Harrison PM. 2009. Assessing the genomic evidence for conserved transcribed pseudogenes under selection. BMC Genomics 10:435. – reference: Iafrate AJ, Feuk L, Rivera MN, Listewnik ML, Donahoe PK, Qi Y, Scherer SW, Lee C. 2004. Detection of large-scale variation in the human genome. Nat Genet 36:949-951. – reference: Wang ZQ, Tian SH, Shi YZ, Zhou PT, Wang ZY, Shu RZ, Hu L, Kong X. 2007. A single C to T transition in intron 5 of LMBR1 gene is associated with triphalangeal thumb-polysyndactyly syndrome in a Chinese family. Biochem Biophys Res Commun 355:312-317. – reference: Clamp M, Fry B, Kamal M, Xie X, Cuff J, Lin MF, Kellis M, Lindblad-Toh K, Lander ES. 2010. Distinguishing protein-coding and noncoding genes in the human genome. Proc Natl Acad Sci USA 104:19428-19433. – reference: Lee C, Scherer SW. 2010. The clinical context of copy number variation in the human genome. Expert Rev Mol Med 12:e8. – reference: Ponjavic J, Ponting CP, Lunter G. 2007. Functionality or transcriptional noise? Evidence for selection within long noncoding RNAs. Genome Res 17:556-565. – reference: Zhang F, Carvalho CM, Lupski JR. 2009. Complex human chromosomal and genomic rearrangements. Trends Genet 25:298-307. – reference: Shen J, DiCioccio R, Odunsi K, Lele SB, Zhao H. 2010. Novel genetic variants in miR-191 gene and familial ovarian cancer. BMC Cancer 10:47. – reference: Brakenhoff RH, Henskens HA, van Rossum MW, Lubsen NH, Schoenmakers JG. 1994. Activation of the gamma E-crystallin pseudogene in the human hereditary Coppock-like cataract. Hum Mol Genet 3:279-283. – reference: Park PJ. 2009. ChIP-seq: advantages and challenges of a maturing technology. Nat Rev Genet 10:669-680. – reference: Miller MP, Parker JD, Rissing SW, Kumar S. 2003. Quantifying the intragenic distribution of human disease mutations. Ann Hum Genet 67:567-579. – reference: Furney SJ, Albà MM, López-Bigas N. 2006. Differences in the evolutionary history of disease genes affected by dominant or recessive mutations. BMC Genomics 7:165. – reference: Heintzman ND, Ren B. 2009. Finding distal regulatory elements in the human genome. Curr Opin Genet Dev 19:541-549. – reference: López-Bigas N, Blencowe BJ, Ouzounis CA. 2006. Highly consistent patterns for inherited human diseases at the molecular level. Bioinformatics 22:269-277. – reference: Mefford HC, Eichler EE. 2009. Duplication hotspots, rare genomic disorders, and common disease. Curr Opin Genet Dev 19:196-204. – reference: Pennacchio LA, Ahituv N, Moses AM, Prabhakar S, Nobrega MA, Shoukry M, Minovitsky S, Dubchak I, Holt A, Lewis KD, Plajzer-Frick I, Akiyama J, De Val S, Afzal V, Black BL, Couronne O, Eisen MB, Visel A, Rubin EM. 2006. In vivo enhancer analysis of human conserved non-coding sequences. Nature 444:499-502. – reference: Li W, Duan R, Kooy F, Sherman SL, Zhou W, Jin P. 2009c. Germline mutation of microRNA-125a is associated with breast cancer. J Med Genet 46:358-360. – reference: Lander ES, Linton LM, Birren B, Nusbaum C, Zody MC, Baldwin J, Devon K, Dewar K, Doyle M, FitzHugh W, Funke R, Gage D, Harris K, Heaford A, Howland J, Kann L, Lehoczky J, LeVine R, McEwan P, McKernan K, Meldrim J, Mesirov JP, Miranda C, Morris W, Naylor J, Raymond C, Rosetti M, Santos R, Sheridan A, Sougnez C, Stange-Thomann N, Stojanovic N, Subramanian A, Wyman D, Rogers J, Sulston J, Ainscough R, Beck S, Bentley D, Burton J, Clee C, Carter N, Coulson A, Deadman R, Deloukas P, Dunham A, Dunham I, Durbin R, French L, Grafham D, Gregory S, Hubbard T, Humphray S, Hunt A, Jones M, Lloyd C, McMurray A, Matthews L, Mercer S, Milne S, Mullikin JC, Mungall A, Plumb R, Ross M, Shownkeen R, Sims S, Waterston RH, Wilson RK, Hillier LW, McPherson JD, Marra MA, Mardis ER, Fulton LA, Chinwalla AT, Pepin KH, Gish WR, Chissoe SL, Wendl MC, Delehaunty KD, Miner TL, Delehaunty A, Kramer JB, Cook LL, Fulton RS, Johnson DL, Minx PJ, Clifton SW, Hawkins T, Branscomb E, Predki P, Richardson P, Wenning S, Slezak T, Doggett N, Cheng JF, Olsen A, Lucas S, Elkin C, Uberbacher E, Frazier M, Gibbs RA, Muzny DM, Scherer SE, Bouck JB, Sodergren EJ, Worley KC, Rives CM, Gorrell JH, Metzker ML, Naylor SL, Kucherlapati RS, Nelson DL, Weinstock GM, Sakaki Y, Fujiyama A, Hattori M, Yada T, Toyoda A, Itoh T, Kawagoe C, Watanabe H, Totoki Y, Taylor T, Weissenbach J, Heilig R, Saurin W, Artiguenave F, Brottier P, Bruls T, Pelletier E, Robert C, Wincker P, Smith DR, Doucette-Stamm L, Rubenfield M, Weinstock K, Lee HM, Dubois J, Rosenthal A, Platzer M, Nyakatura G, Taudien S, Rump A, Yang H, Yu J, Wang J, Huang G, Gu J, Hood L, Rowen L, Madan A, Qin S, Davis RW, Federspiel NA, Abola AP, Proctor MJ, Myers RM, Schmutz J, Dickson M, Grimwood J, Cox DR, Olson MV, Kaul R, Raymond C, Shimizu N, Kawasaki K, Minoshima S, Evans GA, Athanasiou M, Schultz R, Roe BA, Chen F, Pan H, Ramser J, Lehrach H, Reinhardt R, McCombie WR, de la Bastide M, Dedhia N, Blöcker H, Hornischer K, Nordsiek G, Agarwala R, Aravind L, Bailey JA, Bateman A, Batzoglou S, Birney E, Bork P, Brown DG, Burge CB, Cerutti L, Chen HC, Church D, Clamp M, Copley RR, Doerks T, Eddy SR, Eichler EE, Furey TS, Galagan J, Gilbert JG, Harmon C, Hayashizaki Y, Haussler D, Hermjakob H, Hokamp K, Jang W, Johnson LS, Jones TA, Kasif S, Kaspryzk A, Kennedy S, Kent WJ, Kitts P, Koonin EV, Korf I, Kulp D, Lancet D, Lowe TM, McLysaght A, Mikkelsen T, Moran JV, Mulder N, Pollara VJ, Ponting CP, Schuler G, Schultz J, Slater G, Smit AF, Stupka E, Szustakowski J, Thierry-Mieg D, Thierry-Mieg J, Wagner L, Wallis J, Wheeler R, Williams A, Wolf YI, Wolfe KH, Yang SP, Yeh RF, Collins F, Guyer MS, Peterson J, Felsenfeld A, Wetterstrand KA, Patrinos A, Morgan MJ, de Jong P, Catanese JJ, Osoegawa K, Shizuya H, Choi S, Chen YJ, International Human Genome Sequencing Consortium. 2001. Initial sequencing and analysis of the human genome. Nature 409:860-921. – reference: Zheng D, Gerstein MB. 2007. The ambiguous boundary between genes and pseudogenes: the dead rise up, or do they? Trends Genet 23:219-224. – reference: Bird CP, Stranger BE, Liu M, Thomas DJ, Ingle CE, Beazley C, Miller W, Hurles ME, Dermitzakis ET. 2007. Fast-evolving noncoding sequences in the human genome. Genome Biol 8:R118. – reference: Cropley JE, Martin DI, Suter CM. 2008. Germline epimutation in humans. Pharmacogenomics 9:1861-1868. – reference: Chang JC, Kan YW. 1979. β0 thalassemia, a nonsense mutation in man. Proc Natl Acad Sci USA 76:2886-2889. – reference: Coulombe-Huntington J, Lam KC, Dias C, Majewski J. 2009. Fine-scale variation and genetic determinants of alternative splicing across individuals. PLoS Genet 5:e1000766. – reference: Orkin SH, Alter BP, Altay C, Mahoney MJ, Lazarus H, Hobbins JC, Nathan DG. 1978. Application of endonuclease mapping to the analysis and prenatal diagnosis of thalassemias caused by globin-gene deletion. N Engl J Med 299:166-172. – reference: Gordon CT, Tan TY, Benko S, Fitzpatrick D, Lyonnet S, Farlie PG. 2009. Long-range regulation at the SOX9 locus in development and disease. J Med Genet 46:649-656. – reference: Hitchins MP, Ward RL. 2009. Constitutional (germline) MLH1 epimutation as an aetiological mechanism for hereditary non-polyposis colorectal cancer. J Med Genet 46:793-802. – reference: Nackley AG, Shabalina SA, Tchivileva IE, Satterfield K, Korchynskyi O, Makarov SS, Maixner W, Diatchenko L. 2006. Human catechol-O-methyltransferase haplotypes modulate protein expression by altering mRNA secondary structure. Science 314:1930-1933. – reference: Ogino W, Takeshima Y, Nishiyama A, Okizuka Y, Yagi M, Tsuneishi S, Saiki K, Kugo M, Matsuo M. 2007. Mutation analysis of the ornithine transcarbamylase (OTC) gene in five Japanese OTC deficiency patients revealed two known and three novel mutations including a deep intronic mutation. Kobe J Med Sci 53:229-240. – reference: Preker P, Nielsen J, Kammler S, Lykke-Andersen S, Christensen MS, Mapendano CK, Schierup MH, Jensen TH. 2008. RNA exosome depletion reveals transcription upstream of active human promoters. Science 322:1851-1854. – reference: Aerts S, Lambrechts D, Maity S, Van Loo P, Coessens B, De Smet F, Tranchevent LC, De Moor B, Marynen P, Hassan B, Carmeliet P, Moreau Y. 2006. Gene prioritization through genomic data fusion. Nat Biotechnol 24:537-544. – reference: Snider L, Asawachaicharn A, Tyler AE, Geng LN, Petek LM, Maves L, Miller DG, Lemmers RJ, Winokur ST, Tawil R, van der Maarel SM, Filippova GN, Tapscott SJ. 2009. RNA transcripts, miRNA-sized fragments and proteins produced from D4Z4 units: new candidates for the pathophysiology of facioscapulohumeral dystrophy. Hum Mol Genet 18:2414-2430. – reference: Cai JJ, Borenstein E, Chen R, Petrov DA. 2009. Similarly strong purifying selection acts on human disease genes of all evolutionary ages. Genome Biol Evol 2009:131-144. – reference: Hedges DJ, Burges D, Powell E, Almonte C, Huang J, Young S, Boese B, Schmidt M, Pericak-Vance MA, Martin E, Zhang X, Harkins TT, Züchner S. 2009. Exome sequencing of a multigenerational human pedigree. PLoS One 4:e8232. – reference: Tress ML, Martelli PL, Frankish A, Reeves GA, Wesselink JJ, Yeats C, Olason PI, Albrecht M, Hegyi H, Giorgetti A, Raimondo D, Lagarde J, Laskowski RA, López G, Sadowski MI, Watson JD, Fariselli P, Rossi I, Nagy A, Kai W, Størling Z, Orsini M, Assenov Y, Blankenburg H, Huthmacher C, Ramírez F, Schlicker A, Denoeud F, Jones P, Kerrien S, Orchard S, Antonarakis SE, Reymond A, Birney E, Brunak S, Casadio R, Guigo R, Harrow J, Hermjakob H, Jones DT, Lengauer T, Orengo CA, Patthy L, Thornton JM, Tramontano A, Valencia A. 2007. The implications of alternative splicing in the ENCODE protein complement. Proc Natl Acad.Sci USA 104:5495-5500. – reference: McKernan KJ, Peckham HE, Costa GL, McLaughlin SF, Fu Y, Tsung EF, Clouser CR, Duncan C, Ichikawa JK, Lee CC, Zhang Z, Ranade SS, Dimalanta ET, Hyland FC, Sokolsky TD, Zhang L, Sheridan A, Fu H, Hendrickson CL, Li B, Kotler L, Stuart JR, Malek JA, Manning JM, Antipova AA, Perez DS, Moore MP, Hayashibara KC, Lyons MR, Beaudoin RE, Coleman BE, Laptewicz MW, Sannicandro AE, Rhodes MD, Gottimukkala RK, Yang S, Bafna V, Bashir A, MacBride A, Alkan C, Kidd JM, Eichler EE, Reese MG, De La Vega FM, Blanchard AP. 2009. Sequence and structural variation in a human genome uncovered by short-read, massively parallel ligation sequencing using two-base encoding. Genome Res 19:1527-1541. – reference: Pros E, Gómez C, Martín T, Fábregas P, Serra E, Lázaro C. 2008. Nature and mRNA effect of 282 different NF1 point mutations: focus on splicing alterations. Hum Mutat 29:E173-E193. – reference: Dimas AS, Stranger BE, Beazley C, Finn RD, Ingle CE, Forrest MS, Ritchie ME, Deloukas P, Tavaré S, Dermitzakis ET. 2008. Modifier effects between regulatory and protein-coding variation. PLoS Genet 4:e1000244. – reference: Klooster R, Straasheijm K, Shah B, Sowden J, Frants R, Thornton C, Tawil R, van der Maarel S. 2009. Comprehensive expression analysis of FSHD candidate genes at the mRNA and protein level. Eur J Hum Genet 17:1615-1624. – reference: Kleinjan DA, Lettice LA. 2008. Long-range gene control and genetic disease. Adv Genet 61:339-388. – reference: Griffiths-Jones S. 2007. Annotating noncoding RNA genes. Annu Rev Genomics Hum Genet 8:279-298. – reference: Ozsolak F, Platt AR, Jones DR, Reifenberger JG, Sass LE, McInerney P, Thompson JF, Bowers J, Jarosz M, Milos PM. 2009. Direct RNA sequencing. Nature 461:814-818. – reference: Subramanian S, Kumar S. 2006. Evolutionary anatomies of positions and types of disease-associated and neutral amino acid mutations in the human genome. BMC Genomics 7:306. – reference: Gerstein MB, Bruce C, Rozowsky JS, Zheng D, Du J, Korbel JO, Emanuelsson O, Zhang ZD, Weissman S, Snyder M. 2007. What is a gene, post-ENCODE? History and updated definition. Genome Res 17:669-681. – reference: Wu M, Jolicoeur N, Li Z, Zhang L, Fortin Y, L'Abbe D, Yu Z, Shen SH. 2008. Genetic variations of microRNAs in human cancer and their effects on the expression of miRNAs. Carcinogenesis 29:1710-1716. – reference: Shen J, Ambrosone CB, Zhao H. 2009. Novel genetic variants in microRNA genes and familial breast cancer. Int J Cancer 124:1178-1182. – reference: Pheasant M, Mattick JS. 2007. Raising the estimate of functional human sequences. Genome Res 17:1245-1253. – reference: Sebat J, Lakshmi B, Malhotra D, Troge J, Lese-Martin C, Walsh T, Yamrom B, Yoon S, Krasnitz A, Kendall J, Leotta A, Pai D, Zhang R, Lee YH, Hicks J, Spence SJ, Lee AT, Puura K, Lehtimäki T, Ledbetter D, Gregersen PK, Bregman J, Sutcliffe JS, Jobanputra V, Chung W, Warburton D, King MC, Skuse D, Geschwind DH, Gilliam TC, Ye K, Wigler M. 2007. Strong association of de novo copy number mutations with autism. Science 316:445-449. – reference: Pesole G. 2008. What is a gene? An updated operational definition. Gene 417:1-4. – reference: Poon A, Davis BH, Chao L. 2005. The coupon collector and the suppressor mutation: estimating the number of compensatory mutations by maximum likelihood. Genetics 170:1323-1332. – reference: Chen CT, Wang JC, Cohen BA. 2007. The strength of selection on ultraconserved elements in the human genome. Am J Hum Genet 80:692-704. – reference: Conrad DF, Pinto D, Redon R, Feuk L, Gokcumen O, Zhang Y, Aerts J, Andrews TD, Barnes C, Campbell P, Fitzgerald T, Hu M, Ihm CH, Kristiansson K, Macarthur DG, Macdonald JR, Onyiah I, Pang AW, Robson S, Stirrups K, Valsesia A, Walter K, Wei J, The Wellcome Trust Case Control Consortium, Tyler-Smith C, Carter NP, Lee C, Scherer SW, Hurles ME. 2010. Origins and functional impact of copy number variation in the human genome. Nature 464:704-712. – reference: Schork NJ, Murray SS, Frazer KA, Topol EJ. 2009. Common vs. rare allele hypotheses for complex diseases. Curr Opin Genet Dev 19:212-219. – reference: Fantauzzo KA, Tadin-Strapps M, You Y, Mentzer SE, Baumeister FA, Cianfarani S, Van Maldergem L, Warburton D, Sundberg JP, Christiano AM. 2008. A position effect on TRPS1 is associated with Ambras syndrome in humans and the Koala phenotype in mice. Hum Mol Genet 17:3539-3551. – reference: Kryukov GV, Shpunt A, Stamatoyannopoulos JA, Sunyaev SR. 2009. Power of deep, all-exon resequencing for discovery of human trait genes. Proc Natl Acad Sci USA 106:3871-3876. – reference: Velagaleti GV, Bien-Willner GA, Northup JK, Lockhart LH, Hawkins JC, Jalal SM, Withers M, Lupski JR, Stankiewicz P. 2005. Position effects due to chromosome breakpoints that map approximately 900 Kb upstream and approximately 1.3 Mb downstream of SOX9 in two patients with campomelic dysplasia. Am J Hum Genet 76:652-662. – reference: Gorlov IP, Gorlova OY, Amos CI. 2008. Relative effects of mutability and selection on single nucleotide polymorphisms in transcribed regions of the human genome. BMC Genomics 9:292. – reference: McCarroll SA. 2008. Extending genome-wide association studies to copy-number variation. Hum Mol Genet 17(R2):R135-142. – reference: Barral DC, Ramalho JS, Anders R, Hume AN, Knapton HJ, Tolmachova T, Collinson LM, Goulding D, Authi KS, Seabra MC. 2002. Functional redundancy of Rab27 proteins and the pathogenesis of Griscelli syndrome. J Clin Invest 110:247-257. – reference: Fejes-Toth K, Sotirova V, Sachidanandam R, Assaf G, Hannon GJ, Kapranov P, Foissac S, Willingham AT, Duttagupta R, Dumais E, Gingeras TR. 2009. Post-transcriptional processing generates a diversity of 5′-modified long and short RNAs. Nature 457:1028-1032. – reference: Howard OM, Turpin JA, Goldman R, Modi WS. 2004. Functional redundancy of the human CCL4 and CCL4L1 chemokine genes. Biochem Biophys Res Commun 320:927-931. – reference: Katzman S, Kern AD, Bejerano G, Fewell G, Fulton L, Wilson RK, Salama SR, Haussler D. 2007. Human genome ultraconserved elements are ultraselected. Science 317:915. – reference: Dinger ME, Amaral PP, Mercer TR, Mattick JS. 2009. Pervasive transcription of the eukaryotic genome: functional indices and conceptual implications. Brief Funct Genomic Proteomic 8:407-423. – reference: Gingeras TR. 2007. Origin of phenotypes: genes and transcripts. Genome Res 17:682-690. – reference: Elia J, Gai X, Xie HM, Perin JC, Geiger E, Glessner JT, D'arcy M, Deberardinis R, Frackelton E, Kim C, Lantieri F, Muganga BM, Wang L, Takeda T, Rappaport EF, Grant SF, Berrettini W, Devoto M, Shaikh TH, Hakonarson H, White PS. 2009. Rare structural variants found in attention-deficit hyperactivity disorder are preferentially associated with neurodevelopmental genes. Mol Psychiatry (in press). – reference: Liang H, Li W-H. 2009. Functional compensation by duplicated genes in mouse. Trends Genet 25:441-442. – reference: Dear A, Daly J, Brennan SO, Tuckfield A, George PM. 2006. An intronic mutation within FGB (IVS1+2076 a→g) is associated with afibrinogenemia and recurrent transient ischemic attacks. J Thromb Haemost 4:471-472. – reference: Su Z, Gu X. 2008. Predicting the proportion of essential genes in mouse duplicates based on biased mouse knockout genes. J Mol Evol 67:705-709. – reference: Wang X, Wang K, Radovich M, Wang Y, Wang G, Feng W, Sanford JR, Liu Y. 2009a. Genome-wide prediction of cis-acting RNA elements regulating tissue-specific pre-mRNA alternative splicing. BMC Genomics 10(Suppl 1):S4. – reference: Wen Y, Liu Y, Xu Y, Zhao Y, Hua R, Wang K, Sun M, Li Y, Yang S, Zhang XJ, Kruse R, Cichon S, Betz RC, Nöthen MM, van Steensel MA, van Geel M, Steijlen PM, Hohl D, Huber M, Dunnill GS, Kennedy C, Messenger A, Munro CS, Terrinoni A, Hovnanian A, Bodemer C, de Prost Y, Paller AS, Irvine AD, Sinclair R, Green J, Shang D, Liu Q, Luo Y, Jiang L, Chen HD, Lo WH, McLean WH, He CD, Zhang X. 2009. Loss-of-function mutations of an inhibitory upstream ORF in the human hairless transcript cause Marie Unna hereditary hypotrichosis. Nat Genet 41:228-233. – reference: Lage K, Hansen NT, Karlberg EO, Eklund AC, Roque FS, Donahoe PK, Szallasi Z, Jensen TS, Brunak S. 2008. A large-scale analysis of tissue-specific pathology and gene expression of human disease genes and complexes. Proc Natl Acad Sci USA 105:20870-20875. – reference: Solis AS, Shariat N, Patton JG. 2008. Splicing fidelity, enhancers, and disease. Front Biosci 13:1926-1942. – reference: Li SC, Chan WC, Hu LY, Lai CH, Hsu CN, Lin WC. 2010b. Identification of homologous microRNAs in 56 animal genomes. Genomics (in press). – reference: de Smith AJ, Walters RG, Froguel P, Blakemore AI. 2008. Human genes involved in copy number variation: mechanisms of origin, functional effects and implications for disease. Cytogenet Genome Res 123:17-26. – reference: Lettice LA, Horikoshi T, Heaney SJ, van Baren MJ, van der Linde HC, Breedveld GJ, Joosse M, Akarsu N, Oostra BA, Endo N, Shibata M, Suzuki M, Takahashi E, Shinka T, Nakahori Y, Ayusawa D, Nakabayashi K, Scherer SW, Heutink P, Hill RE, Noji S. 2002. Disruption of a long-range cis-acting regulator for Shh causes preaxial polydactyly. Proc Natl Acad Sci USA 99:7548-7553. – reference: Rasmussen M, Li Y, Lindgreen S, Pedersen JS, Albrechtsen A, Moltke I, Metspalu M, Metspalu E, Kivisild T, Gupta R, Bertalan M, Nielsen K, Gilbert MT, Wang Y, Raghavan M, Campos PF, Kamp HM, Wilson AS, Gledhill A, Tridico S, Bunce M, Lorenzen ED, Binladen J, Guo X, Zhao J, Zhang X, Zhang H, Li Z, Chen M, Orlando L, Kristiansen K, Bak M, Tommerup N, Bendixen C, Pierre TL, Grønnow B, Meldgaard M, Andreasen C, Fedorova SA, Osipova LP, Higham TF, Ramsey CB, Hansen TV, Nielsen FC, Crawford MH, Brunak S, Sicheritz-Pontén T, Villems R, Nielsen R, Krogh A, Wang J, Willerslev E. 2010. Ancient human genome sequence of an extinct Palaeo-Eskimo. Nature 463:757-762. – reference: Theuns J, Del-Favero J, Dermaut B, van Duijn CM, Backhovens H, Van den Broeck MV, Serneels S, Corsmit E, Van Broeckhoven CV, Cruts M. 2000. Genetic variability in the regulatory region of presenilin 1 associated with risk for Alzheimer's disease and variable expression. Hum Mol Genet 9:325-331. – reference: Taft RJ, Glazov EA, Cloonan N, Simons C, Stephen S, Faulkner GJ, Lassmann T, Forrest AR, Grimmond SM, Schroder K, Irvine K, Arakawa T, Nakamura M, Kubosaki A, Hayashida K, Kawazu C, Murata M, Nishiyori H, Fukuda S, Kawai J, Daub CO, Hume DA, Suzuki H, Orlando V, Carninci P, Hayashizaki Y, Mattick JS. 2009. Tiny RNAs associated with transcription start sites in animals. Nat Genet 41:572-578. – reference: Stranger BE, Forrest MS, Clark AG, Minichiello MJ, Deutsch S, Lyle R, Hunt S, Kahl B, Antonarakis SE, Tavaré S, Deloukas P, Dermitzakis ET. 2005. Genome-wide associations of gene expression variation in humans. PLoS Genet 1:e78. – reference: Bochukova EG, Huang N, Keogh J, Henning E, Purmann C, Blaszczyk K, Saeed S, Hamilton-Shield J, Clayton-Smith J, O'Rahilly S, Hurles ME, Farooqi IS. 2010. Large, rare chromosomal deletions associated with severe early-onset obesity. Nature 463:666-670. – reference: Wang J, Wang W, Li R, Li Y, Tian G, Goodman L, Fan W, Zhang J, Li J, Zhang J, Guo Y, Feng B, Li H, Lu Y, Fang X, Liang H, Du Z, Li D, Zhao Y, Hu Y, Yang Z, Zheng H, Hellmann I, Inouye M, Pool J, Yi X, Zhao J, Duan J, Zhou Y, Qin J, Ma L, Li G, Yang Z, Zhang G, Yang B, Yu C, Liang F, Li W, Li S, Li D, Ni P, Ruan J, Li Q, Zhu H, Liu D, Lu Z, Li N, Guo G, Zhang J, Ye J, Fang L, Hao Q, Chen Q, Liang Y, Su Y, San A, Ping C, Yang S, Chen F, Li L, Zhou K, Zheng H, Ren Y, Yang L, Gao Y, Yang G, Li Z, Feng X, Kristiansen K, Wong GK, Nielsen R, Durbin R, Bolund L, Zhang X, Li S, Yang H, Wang J. 2008a. The diploid genome sequence of an Asian individual. Nature 456:60-65. – reference: Dimas AS, Deutsch S, Stranger BE, Montgomery SB, Borel C, Attar-Cohen H, Ingle C, Beazley C, Gutierrez Arcelus M, Sekowska M, Gagnebin M, Nisbett J, Deloukas P, Dermitzakis ET, Antonarakis SE. 2009. Common regulatory variation impacts gene expression in a cell type-dependent manner. Science 325:1246-1250. – reference: Hindorff LA, Sethupathy P, Junkins HA, Ramos EM, Mehta JP, Collins FS, Manolio TA. 2009. Potential etiologic and functional implications of genome-wide association loci for human diseases and traits. Proc Natl Acad Sci USA 106:9362-9367. – reference: Nozu K, Iijima K, Nozu Y, Ikegami E, Imai T, Fu XJ, Kaito H, Nakanishi K, Yoshikawa N, Matsuo M. 2009. A deep intronic mutation in the SLC12A3 gene leads to Gitelman syndrome. Pediatr Res 66:590-593. – reference: Thornburg BG, Gotea V, Makałowski W. 2006. Transposable elements as a significant source of transcription regulating signals. Gene 365:104-110. – reference: Dehainault C, Michaux D, Pagès-Berhouet S, Caux-Moncoutier V, Doz F, Desjardins L, Couturier J, Parent P, Stoppa-Lyonnet D, Gauthier-Villars M, Houdayer C. 2007. A deep intronic mutation in the RB1 gene leads to intronic sequence exonisation. Eur J Hum Genet 15:473-477. – reference: Harrison PM, Zheng D, Zhang Z, Carriero N, Gerstein M. 2005. Transcribed processed pseudogenes in the human genome: an intermediate form of expressed retrosequence lacking protein-coding ability. Nucleic Acids Res 33:2374-2383. – reference: Dathe K, Kjaer KW, Brehm A, Meinecke P, Nürnberg P, Neto JC, Brunoni D, Tommerup N, Ott CE, Klopocki E, Seemann P, Mundlos S. 2009. Duplications involving a conserved regulatory element downstream of BMP2 are associated with brachydactyly type A2. Am J Hum Genet 84:483-492. – reference: Hsiao T-L, Vitkup D. 2008. Role of duplicate genes in robustness against deleterious human mutations. PLoS Genet 4:e1000014. – reference: Tuupanen S, Turunen M, Lehtonen R, Hallikas O, Vanharanta S, Kivioja T, Björklund M, Wei G, Yan J, Niittymäki I, Mecklin JP, Järvinen H, Ristimäki A, Di-Bernardo M, East P, Carvajal-Carmona L, Houlston RS, Tomlinson I, Palin K, Ukkonen E, Karhu A, Taipale J, Aaltonen LA. 2009. The common colorectal cancer predisposition SNP rs6983267 at chromosome 8q24 confers potential to enhanced Wnt signaling. Nat Genet 41:885-890. – reference: Eory L, Halligan DL, Keightley PD. 2010. Distributions of selectively constrained sites and deleterious mutation rates in the hominid and murid genomes. Mol Biol Evol 27:177-192. – reference: Wang Z, Gerstein M, Snyder M. 2009b. RNA-Seq: a revolutionary tool for transcriptomics. Nat Rev Genet 10:57-63. – reference: Enattah NS, Sahi T, Savilahti E, Terwilliger JD, Peltonen L, Järvelä I. 2002. Identification of a variant associated with adult-type hypolactasia. Nat Genet 30:233-237. – reference: Yagi M, Takeshima Y, Wada H, Nakamura H, Matsuo M. 2003. Two alternative exons can result from activation of the cryptic splice acceptor site deep within intron 2 of the dystrophin gene in a patient with as yet asymptomatic dystrophinopathy. Hum Genet 112:164-170. – reference: Walsh T, McClellan JM, McCarthy SE, Addington AM, Pierce SB, Cooper GM, Nord AS, Kusenda M, Malhotra D, Bhandari A, Stray SM, Rippey CF, Roccanova P, Makarov V, Lakshmi B, Findling RL, Sikich L, Stromberg T, Merriman B, Gogtay N, Butler P, Eckstrand K, Noory L, Gochman P, Long R, Chen Z, Davis S, Baker C, Eichler EE, Meltzer PS, Nelson SF, Singleton AB, Lee MK, Rapoport JL, King MC, Sebat J. 2008. Rare structural variants disrupt multiple genes in neurodevelopmental pathways in schizophrenia. Science 320:539-543. – reference: Attanasio C, Reymond A, Humbert R, Lyle R, Kuehn MS, Neph S, Sabo PJ, Goldy J, Weaver M, Haydock A, Lee K, Dorschner M, Dermitzakis ET, Antonarakis SE, Stamatoyannopoulos JA. 2008. Assaying the regulatory potential of mammalian conserved non-coding sequences in human cells. Genome Biol 9:R168. – reference: Hu Z, Chen J, Tian T, Zhou X, Gu H, Xu L, Zeng Y, Miao R, Jin G, Ma H, Chen Y, Shen H. 2008. Genetic variants of miRNA sequences and non-small cell lung cancer survival. J Clin Invest 118:2600-2608. – reference: Ng PC, Levy S, Huang J, Stockwell TB, Walenz BP, Li K, Axelrod N, Busam DA, Strausberg RL, Venter JC. 2008. Genetic variation in an individual human exome. PLoS Genet 4:e1000160. – reference: Calvo SE, Pagliarini DJ, Mootha VK. 2009. Upstream open reading frames cause widespread reduction of protein expression and are polymorphic among humans. Proc Natl Acad Sci USA 106:7507-7512. – reference: Yang TL, Chen XD, Guo Y, Lei SF, Wang JT, Zhou Q, Pan F, Chen Y, Zhang ZX, Dong SS, Xu XH, Yan H, Liu X, Qiu C, Zhu XZ, Chen T, Li M, Zhang H, Zhang L, Drees BM, Hamilton JJ, Papasian CJ, Recker RR, Song XP, Cheng J, Deng HW. 2008b. Genome-wide copy-number-variation study identified a susceptibility gene, UGT2B17, for osteoporosis. Am J Hum Genet 83:663-674. – reference: Cotton RGH. 2009. Collection of variation causing disease-the Human Variome Project. Hum Genomics 3:301-303. – reference: Liu JC, Makova KD, Adkins RM, Gibson S, Li WH. 2001. Episodic evolution of growth hormone in primates and emergence of the species specificity of human growth hormone receptor. Mol Biol Evol 18:945-953. – reference: Hatton CS, Wilkie AO, Drysdale HC, Wood WG, Vickers MA, Sharpe J, Ayyub H, Pretorius IM, Buckle VJ, Higgs DR. 1990. α-Thalassemia caused by a large (62 kb) deletion upstream of the human α-globin gene cluster. Blood 76:221-227. – reference: Wilkins JM, Southam L, Mustafa Z, Chapman K, Loughlin J. 2009. Association of a functional microsatellite within intron 1 of the BMP5 gene with susceptibility to osteoarthritis. BMC Med Genet 10:141. – reference: Chen JM, Férec C, Cooper DN. 2006a. A systematic analysis of disease-associated variants in the 3′ regulatory regions of human protein-coding genes I: general principles and overview. Hum Genet 120:1-21. – reference: Prabhu S, Pe'er I. 2009. Overlapping pools for high-throughput targeted resequencing. Genome Res 19:1254-1261. – reference: Flomen RH, Vatcheva R, Gorman PA, Baptista PR, Groet J, Barisić I, Ligutic I, Nizetić D. 1998. Construction and analysis of a sequence-ready map in 4q25: Rieger syndrome can be caused by haploinsufficiency of RIEG, but also by chromosome breaks approximately 90 kb upstream of this gene. Genomics 47:409-413. – reference: Jones S, Hruban RH, Kamiyama M, Borges M, Zhang X, Parsons DW, Lin JC, Palmisano E, Brune K, Jaffee EM, Iacobuzio-Donahue CA, Maitra A, Parmigiani G, Kern SE, Velculescu VE, Kinzler KW, Vogelstein B, Eshleman JR, Goggins M, Klein AP. 2009. Exomic sequencing identifies PALB2 as a pancreatic cancer susceptibility gene. Science 324:217. – reference: Miller MP, Kumar S. 2001. Understanding human disease mutations through the use of interspecific genetic variation. Hum Mol Genet 10:2319-2328. – reference: Boyko AR, Williamson SH, Indap AR, Degenhardt JD, Hernandez RD, Lohmueller KE, Adams MD, Schmidt S, Sninsky JJ, Sunyaev SR, White TJ, Nielsen R, Clark AG, Bustamante CD. 2008. Assessing the evolutionary impact of amino acid mutations in the human genome. PLoS Genet 4:e1000083. – reference: Pomerantz MM, Ahmadiyeh N, Jia L, Herman P, Verzi MP, Doddapaneni H, Beckwith CA, Chan JA, Hills A, Davis M, Yao K, Kehoe SM, Lenz HJ, Haiman CA, Yan C, Henderson BE, Frenkel B, Barretina J, Bass A, Tabernero J, Baselga J, Regan MM, Manak JR, Shivdasani R, Coetzee GA, Freedman ML. 2009. The 8q24 cancer risk variant rs6983267 shows long-range interaction with MYC in colorectal cancer. Nat Genet 41:882-884. – reference: Cartegni L, Chew SL, Krainer AR. 2002. Listening to silence and understanding nonsense: exonic mutations that affect splicing. Nat Rev Genet 3:285-298. – reference: Chen J, Wildhardt G, Zhong Z, Röth R, Weiss B, Steinberger D, Decker J, Blum WF, Rappold G. 2009a. Enhancer deletions of the SHOX gene as a frequent cause of short stature: the essential role of a 250 kb downstream regulatory domain. J Med Genet 46:834-839. – reference: Chun S, Fay JC. 2009. Identification of deleterious mutations within three human genomes. Genome Res 19:1553-1561. – reference: Khalil AM, Guttman M, Huarte M, Garber M, Raj A, Rivea Morales D, Thomas K, Presser A, Bernstein BE, van Oudenaarden A, Regev A, Lander ES, Rinn JL. 2009. Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression. Proc Natl Acad Sci USA 106:11667-11672. – reference: Stenson PD, Mort M, Ball EV, Howells K, Phillips AD, Thomas NS, Cooper DN. 2009. The Human Gene Mutation Database: 2008 update. Genome Med 1:13. – reference: Herzog H, Darby K, Hort YJ, Shine J. 1996. Intron 17 of the human retinoblastoma susceptibility gene encodes an actively transcribed G protein-coupled receptor gene. Genome Res 6:858-861. – reference: Ng PC, Henikoff S. 2006. Predicting the effects of amino acid substitutions on protein function. Annu Rev Genomics Hum Genet 7:61-80. – reference: Alkan C, Kidd JM, Marques-Bonet T, Aksay G, Antonacci F, Hormozdiari F, Kitzman JO, Baker C, Malig M, Mutlu O, Sahinalp SC, Gibbs RA, Eichler EE. 2009. Personalized copy number and segmental duplication maps using next-generation sequencing. Nat Genet 41:1061-1067. – reference: International Human Genome Sequencing Consortium. 2004. Finishing the euchromatic sequence of the human genome. Nature 431:931-945. – reference: Lupski JR, Reid JG, Gonzaga-Jauregui C, Rio Deiros D, Chen DC, Nazareth L, Bainbridge M, Dinh H, Jing C, Wheeler DA, McGuire AL, Zhang F, Stankiewicz P, Halperin JJ, Yang C, Gehman C, Guo D, Irikat RK, Tom W, Fantin NJ, Muzny DM, Gibbs RA. 2010. Whole-genome sequencing in a patient with Charcot-Marie-Tooth neuropathy. New Engl J Med 362:1181-1191. – reference: Peters BA, St Croix B, Sjöblom T, Cummins JM, Silliman N, Ptak J, Saha S, Kinzler KW, Hatzis C, Velculescu VE. 2007. Large-scale identification of novel transcripts in the human genome. Genome Res 17:287-292. – reference: Kleinjan DJ, Coutinho P. 2009. Cis-ruption mechanisms: disruption of cis-regulatory control as a cause of human genetic disease. Brief Funct Genomic Proteomic 8:317-332. – reference: ENCODE Project Consortium, 2007. 2007. Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature 447:799-816. – reference: Hu Z, Liang J, Wang Z, Tian T, Zhou X, Chen J, Miao R, Wang Y, Wang X, Shen H. 2009. Common genetic variants in pre-microRNAs were associated with increased risk of breast cancer in Chinese women. Hum Mutat 30:79-84. – reference: Goh KI, Cusick ME, Valle D, Childs B, Vidal M, Barabási AL. 2007. The human disease network. Proc Natl Acad Sci USA 104:8685-8690. – reference: Mills RE, Bennett EA, Iskow RC, Devine SE. 2007. Which transposable elements are active in the human genome? Trends Genet 23:183-191. – reference: Li H, Xie H, Liu W, Hu R, Huang B, Tan YF, Xu K, Sheng ZF, Zhou HD, Wu XP, Luo XH. 2009d. A novel microRNA targeting HDAC5 regulates osteoblast differentiation in mice and contributes to primary osteoporosis in humans. J Clin Invest 119:3666-3677. – reference: Azevedo L, Suriano G, van Asch B, Harding RM, Amorim A. 2006. Epistatic interactions: how strong in disease and evolution? Trends Genet 22:581-585. – reference: Kapranov P, Cawley SE, Drenkow J, Bekiranov S, Strausberg RL, Fodor SP, Gingeras TR. 2002. Large-scale transcriptional activity in chromosomes 21 and 22. Science 296:916-919. – reference: Borel C, Antonarakis SE. 2008. Functional genetic variation of human miRNAs and phenotypic consequences. Mamm Genome 19:503-509. – reference: Morley M, Molony CM, Weber TM, Devlin JL, Ewens KG, Spielman RS, Cheung VG. 2004. Genetic analysis of genome-wide variation in human gene expression. Nature 430:743-747. – reference: Driscoll MC, Dobkin CS, Alter BP. 1989. γδβ-thalassemia due to a de novo mutation deleting the 5′ β-globin gene activation-region hypersensitive sites. Proc Natl Acad Sci USA 86:7470-7474. – reference: Brouwer JR, Willemsen R, Oostra BA. 2009. Microsatellite repeat instability and neurological disease. Bioessays 31:71-83. – reference: Girirajan S, Rosenfeld JA, Cooper GM, Antonacci F, Siswara P, Itsara A, Vives L, Walsh T, McCarthy SE, Baker C, Mefford HC, Kidd JM, Browning SR, Browning BL, Dickel DE, Levy DL, Ballif BC, Platky K, Farber DM, Gowans GC, Wetherbee JJ, Asamoah A, Weaver DD, Mark PR, Dickerson J, Garg BP, Ellingwood SA, Smith R, Banks VC, Smith W, McDonald MT, Hoo JJ, French BN, Hudson C, Johnson JP, Ozmore JR, Moeschler JB, Surti U, Escobar LF, El-Khechen D, Gorski JL, Kussmann J, Salbert B, Lacassie Y, Biser A, McDonald-McGinn DM, Zackai EH, Deardorff MA, Shaikh TH, Haan E, Friend KL, Fichera M, Romano C, Gécz J, DeLisi LE, Sebat J, King MC, Shaffer LG, Eichler EE. 2010. A recurrent 16p12.1 microdeletion supports a two-hit model for severe developmental delay. Nat Genet 2010 42:203-209. – reference: Walters RG, Jacquemont S, Valsesia A, de Smith AJ, Martinet D, Andersson J, Falchi M, Chen F, Andrieux J, Lobbens S, Delobel B, Stutzmann F, El-Sayed Moustafa JS, Chèvre JC, Lecoeur C, Vatin V, Bouquillon S, Buxton JL, Boute O, Holder-Espinasse M, Cuisset JM, Lemaitre MP, Ambresin AE, Brioschi A, Gaillard M, Giusti V, Fellmann F, Ferrarini A, Hadjikhani N, Campion D, Guilmatre A, Goldenberg A, Calmels N, Mandel JL, Le Caignec C, David A, Isidor B, Cordier MP, Dupuis-Girod S, Labalme A, Sanlaville D, Béri-Dexheimer M, Jonveaux P, Leheup B, Ounap K, Bochukova EG, Henning E, Keogh J, Ellis RJ, Macdermot KD, van Haelst MM, Vincent-Delorme C, Plessis G, Touraine R, Philippe A, Malan V, Mathieu-Dramard M, Chiesa J, Blaumeiser B, Kooy RF, Caiazzo R, Pigeyre M, Balkau B, Sladek R, Bergmann S, Mooser V, Waterworth D, Reymond A, Vollenweider P, Waeber G, Kurg A, Palta P, Esko T, Metspalu A, Nelis M, Elliott P, Hartikainen AL, McCarthy MI, Peltonen L, Carlsson L, Jacobson P, Sjöström L, Huang N, Hurles ME, O'Rahilly S, Farooqi IS, Männik K, Jarvelin MR, Pattou F, Meyre D, Walley AJ, Coin LJ, Blakemore AI, Froguel P, Beckmann JS. 2010. A new highly penetrant form of obesity due to deletions on chromosome 16p11.2. Nature 463:671-675. – reference: Yu P, Ma D, Xu M. 2005. Nested genes in the human genome. Genomics 86:414-422. – reference: Gurnett CA, Bowcock AM, Dietz FR, Morcuende JA, Murray JC, Dobbs MB. 2007. Two novel point mutations in the long-range SHH enhancer in three families with triphalangeal thumb and preaxial polydactyly. Am J Med Genet A 143:27-32. – reference: Chen JM, Férec C, Cooper DN. 2009b. Closely spaced multiple mutations as potential signatures of transient hypermutability in human genes. Hum Mutat 30:1435-1448. – reference: Werner A, Carlile M, Swan D. 2009. What do natural antisense transcripts regulate? RNA Biol 6:43-48. – reference: Venter JC, Adams MD, Myers EW, Li PW, Mural RJ, Sutton GG, Smith HO, Yandell M, Evans CA, Holt RA, Gocayne JD, Amanatides P, Ballew RM, Huson DH, Wortman JR, Zhang Q, Kodira CD, Zheng XH, Chen L, Skupski M, Subramanian G, Thomas PD, Zhang J, Gabor Miklos GL, Nelson C, Broder S, Clark AG, Nadeau J, McKusick VA, Zinder N, Levine AJ, Roberts RJ, Simon M, Slayman C, Hunkapiller M, Bolanos R, Delcher A, Dew I, Fasulo D, Flanigan M, Florea L, Halpern A, Hannenhalli S, Kravitz S, Levy S, Mobarry C, Reinert K, Remington K, Abu-Threideh J, Beasley E, Biddick K, Bonazzi V, Brandon R, Cargill M, Chandramouliswaran I, Charlab R, Chaturvedi K, Deng Z, Di Francesco V, Dunn P, Eilbeck K, Evangelista C, Gabrielian AE, Gan W, Ge W, Gong F, Gu Z, Guan P, Heiman TJ, Higgins ME, Ji RR, Ke Z, Ketchum KA, Lai Z, Lei Y, Li Z, Li J, Liang Y, Lin X, Lu F, Merkulov GV, Milshina N, Moore HM, Naik AK, Narayan VA, Neelam B, Nusskern D, Rusch DB, Salzberg S, Shao W, Shue B, Sun J, Wang Z, Wang A, Wang X, Wang J, Wei M, Wides R, Xiao C, Yan C, Yao A, Ye J, Zhan M, Zhang W, Zhang H, Zhao Q, Zheng L, Zhong F, Zhong W, Zhu S, Zhao S, Gilbert D, Baumhueter S, Spier G, Carter C, Cravchik A, Woodage T, Ali F, An H, Awe A, Baldwin D, Baden H, Barnstead M, Barrow I, Beeson K, Busam D, Carver A, Center A, Cheng ML, Curry L, Danaher S, Davenport L, Desilets R, Dietz S, Dodson K, Doup L, Ferriera S, Garg N, Gluecksmann A, Hart B, Haynes J, Haynes C, Heiner C, Hladun S, Hostin D, Houck J, Howland T, Ibegwam C, Johnson J, Kalush F, Kline L, Koduru S, Love A, Mann F, May D, McCawley S, McIntosh T, McMullen I, Moy M, Moy L, Murphy B, Nelson K, Pfannkoch C, Pratts E, Puri V, Qureshi H, Reardon M, Rodriguez R, Rogers YH, Romblad D, Ruhfel B, Scott R, Sitter C, Smallwood M, Stewart E, Strong R, Suh E, Thomas R, Tint NN, Tse S, Vech C, Wang G, Wetter J, Williams S, Williams M, Windsor S, Winn-Deen E, Wolfe K, Zaveri J, Zaveri K, Abril JF, Guigó R, Campbell MJ, Sjolander KV, Karlak B, Kejariwal A, Mi H, Lazareva B, Hatton T, Narechania A, Diemer K, Muruganujan A, Guo N, Sato S, Bafna V, Istrail S, Lippert R, Schwartz R, Walenz B, Yooseph S, Allen D, Basu A, Baxendale J, Blick L, Caminha M, Carnes-Stine J, Caulk P, Chiang YH, Coyne M, Dahlke C, Mays A, Dombroski M, Donnelly M, Ely D, Esparham S, Fosler C, Gire H, Glanowski S, Glasser K, Glodek A, Gorokhov M, Graham K, Gropman B, Harris M, Heil J, Henderson S, Hoover J, Jennings D, Jordan C, Jordan J, Kasha J, Kagan L, Kraft C, Levitsky A, Lewis M, Liu X, Lopez J, Ma D, Majoros W, McDaniel J, Murphy S, Newman M, Nguyen T, Nguyen N, Nodell M, Pan S, Peck J, Peterson M, Rowe W, Sanders R, Scott J, Simpson M, Smith T, Sprague A, Stockwell T, Turner R, Venter E, Wang M, Wen M, Wu D, Wu M, Xia A, Zandieh A, Zhu X. 2001. The sequence of the human genome. Science 291:1304-1351. – reference: Wong E, Wei CL. 2009. ChIP'ing the mammalian genome: technical advances and insights into functional elements. Genome Med 1:89. – reference: Jimenez-Sanchez G, Childs B, Valle D. 2001. Human disease genes. Nature 409:853-855. – reference: Sultan M, Schulz MH, Richard H, Magen A, Klingenhoff A, Scherf M, Seifert M, Borodina T, Soldatov A, Parkhomchuk D, Schmidt D, O'Keeffe S, Haas S, Vingron M, Lehrach H, Yaspo ML. 2008. A global view of gene activity and alternative splicing by deep sequencing of the human transcriptome. Science 321:956-960. – reference: Mefford HC. 2009. Genotype to phenotype-discovery and characterization of novel genomic disorders in a "genotype-first" era. Genet Med 11:836-842. – reference: Arbiza L, Duchi S, Montaner D, Burguet J, Pantoja-Uceda D, Pineda-Lucena A, Dopazo J, Dopazo H. 2006. Selective pressures at a codon-level predict deleterious mutations in human disease genes. J Mol Biol 358:1390-1404. – reference: Lettice LA, Heaney SJ, Purdie LA, Li L, de Beer P, Oostra BA, Goode D, Elgar G, Hill RE, de Graaff E. 2003. A long-range Shh enhancer regulates expression in the developing limb and fin and is associated with preaxial polydactyly. Hum Mol Genet 12:1725-1735. – reference: Borel C, Gagnebin M, Gehrig C, Kriventseva EV, Zdobnov EM, Antonarakis SE. 2008. Mapping of small RNAs in the human ENCODE regions. Am J Hum Genet 82:971-981. – reference: Romao L, Osorio-Almeida L, Higgs DR, Lavinha J, Liebhaber SA. 1991. α-Thalassemia resulting from deletion of regulatory sequences far upstream of the alpha-globin structural genes. Blood 78:1589-1595. – reference: Snyder M, Du J, Gerstein M. 2010. Personal genome sequencing: current approaches and challenges. Genes Dev 24:423-431. – reference: Kapranov P, Willingham AT, Gingeras TR. 2007a. Genome-wide transcription and the implications for genomic organization. Nat Rev Genet 8:413-423. – reference: Nikopoulos K, Gilissen C, Hoischen A, van Nouhuys CE, Boonstra FN, Blokland EA, Arts P, Wieskamp N, Strom TM, Ayuso C, Tilanus MA, Bouwhuis S, Mukhopadhyay A, Scheffer H, Hoefsloot LH, Veltman JA, Cremers FP, Collin RW. 2010. Next-generation sequencing of a 40 Mb linkage interval reveals TSPAN12 mutations in patients with familial exudative vitreoretinopathy. Am J Hum Genet 86:240-247. – reference: Visel A, Rubin EM, Pennacchio LA. 2009. Genomic views of distant-acting enhancers. Nature 461:199-205. – reference: Sahoo T, del Gaudio D, German JR, Shinawi M, Peters SU, Person RE, Garnica A, Cheung SW, Beaudet AL. 2008. Prader-Willi phenotype caused by paternal deficiency for the HBII-85 C/D box small nucleolar RNA cluster. Nat Genet 40:719-721. – reference: Rung J, Cauchi S, Albrechtsen A, Shen L, Rocheleau G, Cavalcanti-Proença C, Bacot F, Balkau B, Belisle A, Borch-Johnsen K, Charpentier G, Dina C, Durand E, Elliott P, Hadjadj S, Järvelin MR, Laitinen J, Lauritzen T, Marre M, Mazur A, Meyre D, Montpetit A, Pisinger C, Posner B, Poulsen P, Pouta A, Prentki M, Ribel-Madsen R, Ruokonen A, Sandbaek A, Serre D, Tichet J, Vaxillaire M, Wojtaszewski JF, Vaag A, Hansen T, Polychronakos C, Pedersen O, Froguel P, Sladek R. 2009. Genetic variant near IRS1 is associated with type 2 diabetes, insulin resistance and hyperinsulinemia. Nat Genet 41:1110-1115. – reference: Pan Q, Shai O, Lee LJ, Frey BJ, Blencowe BJ. 2008. Deep surveying of alternative splicing complexity in the human transcriptome by high-throughput sequencing. Nat Genet 40:1413-1415. – reference: Hirotsune S, Yoshida N, Chen A, Garrett L, Sugiyama F, Takahashi S, Yagami K, Wynshaw-Boris A, Yoshiki A. 2003. An expressed pseudogene regulates the messenger-RNA stability of its homologous coding gene. Nature 423:91-96. – reference: Beckmann JS, Sharp AJ, Antonarakis SE. 2008. CNVs and genetic medicine (excitement and consequences of a rediscovery). Cytogenet Genome Res 123:7-16. – reference: Kimchi-Sarfaty C, Oh JM, Kim IW, Sauna ZE, Calcagno AM, Ambudkar SV, Gottesman MM. 2007. A "silent" polymorphism in the MDR1 gene changes substrate specificity. Science 315:525-528. – reference: Ng SB, Buckingham KJ, Lee C, Bigham AW, Tabor HK, Dent KM, Huff CD, Shannon PT, Jabs EW, Nickerson DA, Shendure J, Bamshad MJ. 2010. Exome sequencing identifies the cause of a mendelian disorder. Nat Genet 42:30-35. – reference: Bandiera S, Hatem E, Lyonnet S, Henrion-Caude A. 2010. microRNAs in diseases: from candidate to modifier genes. Clin Genet 77:306-313. – reference: Benito-Sanz S, Thomas NS, Huber C, Gorbenko del Blanco D, Aza-Carmona M, Crolla JA, Maloney V, Rappold G, Argente J, Campos-Barros A, Cormier-Daire V, Heath KE. 2005. A novel class of pseudoautosomal region 1 deletions downstream of SHOX is associated with Leri-Weill dyschondrosteosis. Am J Hum Genet 77:533-544. – reference: Stranger BE, Nica AC, Forrest MS, Dimas A, Bird CP, Beazley C, Ingle CE, Dunning M, Flicek P, Koller D, Montgomery S, Tavaré S, Deloukas P, Dermitzakis ET. 2007. Population genomics of human gene expression. Nat Genet 39:1217-1224. – reference: Wieczorek D, Pawlik B, Li Y, Akarsu NA, Caliebe A, May KJ, Schweiger B, Vargas FR, Balci S, Gillessen-Kaesbach G, Wollnik B. 2010. A specific mutation in the distant sonic hedgehog (SHH) cis-regulator (ZRS) causes Werner mesomelic syndrome (WMS) while complete ZRS duplications underlie Haas type polysyndactyly and preaxial polydactyly (PPD) with or without triphalangeal thumb. Hum Mutat 31:81-89. – reference: Wheeler DA, Srinivasan M, Egholm M, Shen Y, Chen L, McGuire A, He W, Chen YJ, Makhijani V, Roth GT, Gomes X, Tartaro K, Niazi F, Turcotte CL, Irzyk GP, Lupski JR, Chinault C, Song XZ, Liu Y, Yuan Y, Nazareth L, Qin X, Muzny DM, Margulies M, Weinstock GM, Gibbs RA, Rothberg JM. 2008. The complete genome of an individual by massively parallel DNA sequencing. Nature 452:872-876. – reference: Bittles AH, Neel JV. 1994. The costs of human inbreeding and their implications for variations at the DNA level. Nat Genet 8:117-121. – reference: Shlien A, Tabori U, Marshall CR, Pienkowska M, Feuk L, Novokmet A, Nanda S, Druker H, Scherer SW, Malkin D. 2008. Excessive genomic DNA copy number variation in the Li-Fraumeni cancer predisposition syndrome. Proc Natl Acad Sci USA 105:11264-11269. – reference: Simon D, Laloo B, Barillot M, Barnetche T, Blanchard C, Rooryck C, Marche M, Burgelin I, Coupry I, Chassaing N, Gilbert-Dussardier B, Lacombe D, Grosset C, Arveiler B. 2010. A mutation in the 3′-UTR of the HDAC6 gene abolishing the post-transcriptional regulation mediated by hsa-miR-433 is linked to a new form of dominant X-linked chondrodysplasia. Hum Mol Genet 19:2015-2027. – reference: Buschiazzo E, Gemmell NJ. 2010. Conservation of human microsatellites across 450 million years of evolution. Genome Biol Evol 2010:153-165. – reference: Luco RF, Pan Q, Tominaga K, Blencowe BJ, Pereira-Smith OM, Misteli T. 2010. Regulation of alternative splicing by histone modifications. Science 327:996-1000. – reference: Tsai CJ, Sauna ZE, Kimchi-Sarfaty C, Ambudkar SV, Gottesman MM, Nussinov R. 2008. Synonymous mutations and ribosome stalling can lead to altered folding pathways and distinct minima. J Mol Biol 383:281-291. – reference: Perotti D, De Vecchi G, Testi MA, Lualdi E, Modena P, Mondini P, Ravagnani F, Collini P, Di Renzo F, Spreafico F, Terenziani M, Sozzi G, Fossati-Bellani F, Radice P. 2004. Germline mutations of the POU6F2 gene in Wilms tumors with loss of heterozygosity on chromosome 7p14. Hum Mutat 24:400-407. – reference: Jazdzewski K, Murray EL, Franssila K, Jarzab B, Schoenberg DR, de la Chapelle A. 2008. Common SNP in pre-miR-146a decreases mature miR expression and predisposes to papillary thyroid carcinoma. Proc Natl Acad Sci USA 105:7269-7274. – reference: Park D, Park J, Park SG, Park T, Choi SS. 2008. Analysis of human disease genes in the context of gene essentiality. Genomics 92:414-418. – reference: Piriyapongsa J, Mariño-Ramírez L, Jordan IK. 2007. Origin and evolution of human microRNAs from transposable elements. Genetics 176:1323-1337. – reference: Chorley BN, Wang X, Campbell MR, Pittman GS, Noureddine MA, Bell DA. 2008. Discovery and verification of functional single nucleotide polymorphisms in regulatory genomic regions: current and developing technologies. Mutat Res 659:147-157. – reference: Karchin R. 2009. Next generation tools for the annotation of human SNPs. Brief Bioinform 10:35-52. – reference: Choi M, Scholl UI, Ji W, Liu T, Tikhonova IR, Zumbo P, Nayir A, Bakkaloglu A, Ozen S, Sanjad S, Nelson-Williams C, Farhi A, Mane S, Lifton RP. 2009. Genetic diagnosis by whole exome capture and massively parallel DNA sequencing. Proc Natl Acad Sci USA 106:19096-19101. – reference: Schalkwyk LC, Meaburn EL, Smith R, Dempster EL, Jeffries AR, Davies MN, Plomin R, Mill J. 2010. Allelic skewing of DNA methylation is widespread across the genome. Am J Hum Genet 86:196-212. – reference: Haiman CA, Le Marchand L, Yamamato J, Stram DO, Sheng X, Kolonel LN, Wu AH, Reich D, Henderson BE. 2007. A common genetic risk factor for colorectal and prostate cancer. Nat Genet 39:954-956. – reference: Kasowski M, Grubert F, Heffelfinger C, Hariharan M, Asabere A, Waszak SM, Habegger L, Rozowsky J, Shi M, Urban AE, Hong MY, Karczewski KJ, Huber W, Weissman SM, Gerstein MB, Korbel JO, Snyder M. 2010. Variation in transcription factor binding among humans. Science 328:232-235. – reference: Rio Frio T, McGee TL, Wade NM, Iseli C, Beckmann JS, Berson EL, Rivolta C. 2009. A single-base substitution within an intronic repetitive element causes dominant retinitis pigmentosa with reduced penetrance. Hum Mutat 30:1340-1347. – reference: Sanford JR, Wang X, Mort M, Vanduyn N, Cooper DN, Mooney SD, Edenberg HJ, Liu Y. 2009. Splicing factor SFRS1 recognizes a functionally diverse landscape of RNA transcripts. Genome Res 19:381-394. – reference: Wang GS, Cooper TA. 2007. Splicing in disease: disruption of the splicing code and the decoding machinery. Nat Rev Genet 8:749-761. – reference: de Kok YJ, Vossenaar ER, Cremers CW, Dahl N, Laporte J, Hu LJ, Lacombe D, Fischel-Ghodsian N, Friedman RA, Parnes LS, Thorpe P, Bitner-Glindzicz M, Pander HJ, Heilbronner H, Graveline J, den Dunnen JT, Brunner HG, Ropers HH, Cremers FP. 1996. Identification of a hot spot for microdeletions in patients with X-linked deafness type 3 (DFN3) 900 kb proximal to the DFN3 gene POU3F4. Hum Mol Genet 5:1229-1235. – reference: Sakai H, Koyanagi KO, Imanishi T, Itoh T, Gojobori T. 2007. Frequent emergence and functional resurrection of processed pseudogenes in the human and mouse genomes. Gene 389:196-203. – reference: Kidd JM, Cooper GM, Donahue WF, Hayden HS, Sampas N, Graves T, Hansen N, Teague B, Alkan C, Antonacci F, Haugen E, Zerr T, Yamada NA, Tsang P, Newman TL, Tüzün E, Cheng Z, Ebling HM, Tusneem N, David R, Gillett W, Phelps KA, Weaver M, Saranga D, Brand A, Tao W, Gustafson E, McKernan K, Chen L, Malig M, Smith JD, Korn JM, McCarroll SA, Altshuler DA, Peiffer DA, Dorschner M, Stamatoyannopoulos J, Schwartz D, Nickerson DA, Mullikin JC, Wilson RK, Bruhn L, Olson MV, Kaul R, Smith DR, Eichler EE. 2008. Mapping and sequencing of structural variation from eight human genomes. Nature 453:56-64. – reference: Smith AD, Xuan Z, Zhang MQ. 2008. Using quality scores and longer reads improves accuracy of Solexa read mapping. BMC Bioinformatics 9:128. – reference: Kwan T, Benovoy D, Dias C, Gurd S, Provencher C, Beaulieu P, Hudson TJ, Sladek R, Majewski J. 2008. Genome-wide analysis of transcript isoform variation in humans. Nat Genet 40:225-231. – reference: Roach JC, Glusman G, Smit AF, Huff CD, Hubley R, Shannon PT, Rowen L, Pant KP, Goodman N, Bamshad M, Shendure J, Drmanac R, Jorde LB, Hood L, Galas DJ. 2010. Analysis of genetic inheritance in a family quartet by whole-genome sequencing. Science 328:636-639. – reference: Sethupathy P, Collins FS. 2008. MicroRNA target site polymorphisms and human disease. Trends Genet 24:489-497. – reference: Grant SF, Reid DM, Blake G, Herd R, Fogelman I, Ralston SH. 1996. Reduced bone density and osteoporosis associated with a polymorphic Sp1 binding site in the collagen type I alpha 1 gene. Nat Genet 14:203-205. – reference: Lecointre C, Pichon O, Hamel A, Heloury Y, Michel-Calemard L, Morel Y, David A, Le Caignec C. 2009. Familial acampomelic form of campomelic dysplasia caused by a 960 kb deletion upstream of SOX9. Am J Med Genet 149A:1183-1189. – reference: Li R, Li Y, Zheng H, Luo R, Zhu H, Li Q, Qian W, Ren Y, Tian G, Li J, Zhou G, Zhu X, Wu H, Qin J, Jin X, Li D, Cao H, Hu X, Blanche H, Cann H, Zhang X, Li S, Bolund L, Kristiansen K, Yang H, Wang J, Wang J. 2010a. Building the sequence map of the human pan-genome. Nat Biotechnol 28:57-63. – reference: Lin L, Jiang P, Shen S, Sato S, Davidson BL, Xing Y. 2009. Large-scale analysis of exonized mammalian-wide interspersed repeats in primate genomes. Hum Mol Genet 18:2204-2214. – reference: Li B, Krishnan VG, Mort ME, Xin F, Kamati KK, Cooper DN, Mooney SD, Radivojac P. 2009a. Automated inference of molecular mechanisms of disease from amino acid substitutions. Bioinformatics 25:2744-2750. – reference: Sebat J, Lakshmi B, Troge J, Alexander J, Young J, Lundin P, Mo̊nér S, Massa H, Walker M, Chi M, Navin N, Lucito R, Healy J, Hicks J, Ye K, Reiner A, Gilliam TC, Trask B, Patterson N, Zetterberg A, Wigler M. 2004. Large-scale copy number polymorphism in the human genome. Science 305:525-528. – reference: Krawczak M, Thomas NS, Hundrieser B, Mort M, Wittig M, Hampe J, Cooper DN. 2007. Single base-pair substitutions in exon-intron junctions of human genes: nature, distribution, and consequences for mRNA splicing. Hum Mutat 28:150-158. – reference: Dear PH. 2009. Copy-number variation: the end of the human genome? Trends Biotechnol 27:448-454. – reference: Fraser HB, Xie X. 2009. Common polymorphic transcript variation in human disease. Genome Res 19:567-575. – reference: Veyrieras JB, Kudaravalli S, Kim SY, Dermitzakis ET, Gilad Y, Stephens M, Pritchard JK. 2008. High-resolution mapping of expression-QTLs yields insight into human gene regulation. PLoS Genet 4:e1000214. – reference: Gao L, Zhang J. 2003. Why are some human disease-associated mutations fixed in mice? Trends Genet 19:678-681. – reference: Medvedeva YA, Fridman MV, Oparina NJ, Malko DB, Ermakova EO, Kulakovskiy IV, Heinzel A, Makeev VJ. 2010. Intergenic, gene terminal, and intragenic CpG islands in the human genome. BMC Genomics 11:48. – reference: Lynch M. 2010. Rate, molecular spectrum, and consequences of human mutation. Proc Natl Acad Sci USA 107:961-968. – reference: Levy S, Sutton G, Ng PC, Feuk L, Halpern AL, Walenz BP, Axelrod N, Huang J, Kirkness EF, Denisov G, Lin Y, MacDonald JR, Pang AW, Shago M, Stockwell TB, Tsiamouri A, Bafna V, Bansal V, Kravitz SA, Busam DA, Beeson KY, McIntosh TC, Remington KA, Abril JF, Gill J, Borman J, Rogers YH, Frazier ME, Scherer SW, Strausberg RL, Venter JC. 2007. The diploid genome sequence of an individual human. PLoS Biol 5:e254. – reference: Jarinova O, Stewart AF, Roberts R, Wells G, Lau P, Naing T, Buerki C, McLean BW, Cook RC, Parker JS, McPherson R. 2009. Functional analysis of the chromosome 9p21.3 coronary artery disease risk locus. Arterioscler Thromb Vasc Biol 29:1671-1677. – reference: Mort M, Evani US, Krishnan VG, Kamati KK, Baenziger PH, Bagchi A, Peters B, Sathyesh R, Li B, Sun Y, Xue B, Shah N, Kann M, Cooper DN, Radivojac P, Mooney SD. 2010. In silico functional profiling of human disease-associated and polymorphic amino acid substitutions. Hum Mutat 31:335-346. – reference: Terai G, Yoshizawa A, Okida H, Asai K, Mituyama T. 2010. Discovery of short pseudogenes derived from messenger RNAs. Nucleic Acids Res 38:1163-1171. – reference: Collins LJ, Penny D. 2009. The RNA infrastructure: dark matter of the eukaryotic cell? Trends Genet 25:120-128. – reference: Reich DE, Lander ES. 2001. On the allelic spectrum of human disease. Trends Genet 17:502-510. – reference: Koenig SC, Becirevic E, Hellberg MS, Li MY, So JC, Hankins JS, Ware RE, McMahon L, Steinberg MH, Luo HY, Chui DH. 2009. Sickle cell disease caused by heterozygosity for Hb S and novel LCR deletion: Report of two patients. Am J Hematol 84:603-606. – reference: Li YC, Korol AB, Fahima T, Nevo E. 2004. Microsatellites within genes: structure, function, and evolution. Mol Biol Evol 21:991-1007. – reference: Suriano G, Azevedo L, Novais M, Boscolo B, Seruca R, Amorim A, Ghibaudi EM. 2007. In vitro demonstration of intra-locus compensation using the ornithine transcarbamylase protein as model. Hum Mol Genet 16:2209-2214. – reference: Waalen J, Beutler E. 2009. Genetic screening for low-penetrance variants in protein-coding genes. Annu Rev Genomics Hum Genet 10:431-450. – reference: Gross-Hardt S, Reiss J. 2002. The bicistronic MOCS1 gene has alternative start codons on two mutually exclusive exons. Mol Genet Metab 76:340-343. – reference: Lewinsky RH, Jensen TG, Møller J, Stensballe A, Olsen J, Troelsen JT. 2005. T-13910 DNA variant associated with lactase persistence interacts with Oct-1 and stimulates lactase promoter activity in vitro. Hum Mol Genet 14:3945-3953. – reference: Mattick JS. 2009. The genetic signatures of noncoding RNAs. PloS Genet 5:e1000459. – reference: Cecchini KR, Raja Banerjee A, Kim TH. 2009. Towards a genome-wide reconstruction of cis-regulatory networks in the human genome. Semin Cell Dev Biol 20:842-848. – reference: Morris JA. 2001. How many deleterious mutations are there in the human genome? Med Hypotheses 56:646-652. – reference: Nishihara H, Smit AF, Okada N. 2006. Functional noncoding sequences derived from SINEs in the mammalian genome. Genome Res 16:864-874. – reference: Purevsuren J, Fukao T, Hasegawa Y, Fukuda S, Kobayashi H, Yamaguchi S. 2008. Study of deep intronic sequence exonization in a Japanese neonate with a mitochondrial trifunctional protein deficiency. Mol Genet Metab 95:46-51. – reference: Kimura M. 1985. The role of compensatory neutral mutations in molecular evolution. J Genet 64:7-19. – reference: Merikangas AK, Corvin AP, Gallagher L. 2009. Copy-number variants in neurodevelopmental disorders: promises and challenges. Trends Genet 25:536-544. – reference: Chen JM, Férec C, Cooper DN. 2006b. A systematic analysis of disease-associated variants in the 3′ regulatory regions of human protein-coding genes II: the importance of mRNA secondary structure in assessing the functionality of 3′ UTR variants. Hum Genet 120:301-333. – reference: Lauderdale JD, Wilensky JS, Oliver ER, Walton DS, Glaser T. 2000. 3′ deletions cause aniridia by preventing PAX6 gene expression. Proc Natl Acad Sci USA 97:13755-13759. – reference: Venturin M, Moncini S, Villa V, Russo S, Bonati MT, Larizza L, Riva P. 2006. Mutations and novel polymorphisms in coding regions and UTRs of CDK5R1 and OMG genes in patients with non-syndromic mental retardation. Neurogenetics 7:59-66. – reference: Faghihi MA, Wahlestedt C. 2009. Regulatory roles of natural antisense transcripts. Nat Rev Mol Cell Biol 10:637-643. – reference: Shao X, Shepelev V, Fedorov A. 2006. Bioinformatic analysis of exon repetition, exon scrambling and trans-splicing in humans. Bioinformatics 22:692-698. – reference: Stefansson H, Rujescu D, Cichon S, Pietiläinen OP, Ingason A, Steinberg S, Fossdal R, Sigurdsson E, Sigmundsson T, Buizer-Voskamp JE, Hansen T, Jakobsen KD, Muglia P, Francks C, Matthews PM, Gylfason A, Halldorsson BV, Gudbjartsson D, Thorgeirsson TE, Sigurdsson A, Jonasdottir A, Jonasdottir A, Bjornsson A, Mattiasdottir S, Blondal T, Haraldsson M, Magnusdottir BB, Giegling I, Möller HJ, Hartmann A, Shianna KV, Ge D, Need AC, Crombie C, Fraser G, Walker N, Lonnqvist J, Suvisaari J, Tuulio-Henriksson A, Paunio T, Toulopoulou T, Bramon E, Di Forti M, Murray R, Ruggeri M, Vassos E, Tosato S, Walshe M, Li T, Vasilescu C, Mühleisen TW, Wang AG, Ullum H, Djurovic S, Melle I, Olesen J, Kiemeney LA, Franke B; GROUP, Sabatti C, Freimer NB, Gulcher JR, Thorsteinsdottir U, Kong A, Andreassen OA, Ophoff RA, Georgi A, Rietschel M, Werge T, Petursson H, Goldstein DB, Nöthen MM, Peltonen L, Collier DA, St Clair D, Stefansson K. 2008. Large recurrent microdeletions associated with schizophrenia. Nature 455:232-236. – reference: De Gobbi M, Viprakasit V, Hughes JR, Fisher C, Buckle VJ, Ayyub H, Gibbons RJ, Vernimmen D, Yoshinaga Y, de Jong P, Cheng JF, Rubin EM, Wood WG, Bowden D, Higgs DR. 2006. A regulatory SNP causes a human genetic disease by creating a new transcriptional promoter. Science 312:1215-1217. – reference: Asthana S, Noble WS, Kryukov G, Grant CE, Sunyaev S, Stamatoyannopoulos JA. 2007. Widely distributed noncoding purifying selection in the human genome. Proc Natl Acad Sci USA 104:12410-12415. – reference: Fay JC, Wyckoff GJ, Wu CI. 2001. Positive and negative selection on the human genome. Genetics 158:1227-1234. – reference: Conley AB, Miller WJ, Jordan IK. 2008. Human cis natural antisense transcripts initiated by transposable elements. Trends Genet 24:53-56. – reference: Cai J, Goodman BK, Patel AS, Mulliken JB, Van Maldergem L, Hoganson GE, Paznekas WA, Ben-Neriah Z, Sheffer R, Cunningham ML, Daentl DL, Jabs EW. 2003. Increased risk for developmental delay in Saethre-Chotzen syndrome is associated with TWIST deletions: an improved strategy for TWIST mutation screening. Hum Genet 114:68-76. – reference: Ponting CP, Lunter G. 2006. Signatures of adaptive evolution within human non-coding sequence. Hum Mol Genet 15:R170-R175. – reference: Redon R, Ishikawa S, Fitch KR, Feuk L, Perry GH, Andrews TD, Fiegler H, Shapero MH, Carson AR, Chen W, Cho EK, Dallaire S, Freeman JL, González JR, Gratacòs M, Huang J, Kalaitzopoulos D, Komura D, MacDonald JR, Marshall CR, Mei R, Montgomery L, Nishimura K, Okamura K, Shen F, Somerville MJ, Tchinda J, Valsesia A, Woodwark C, Yang F, Zhang J, Zerjal T, Zhang J, Armengol L, Conrad DF, Estivill X, Tyler-Smith C, Carter NP, Aburatani H, Lee C, Jones KW, Scherer SW, Hurles ME. 2006. Global variation in copy number in the human genome. Nature 444:444-454. – reference: Harteveld CL, Voskamp A, Phylipsen M, Akkermans N, den Dunnen JT, White SJ, Giordano PC. 2005. Nine unknown rearrangements in 16p13.3 and 11p15.4 causing α- and β-thalassaemia characterised by high resolution multiplex ligation-dependent probe amplification. J Med Genet 42:922-931. – reference: Schuster SC, Miller W, Ratan A, Tomsho LP, Giardine B, Kasson LR, Harris RS, Petersen DC, Zhao F, Qi J, Alkan C, Kidd JM, Sun Y, Drautz DI, Bouffard P, Muzny DM, Reid JG, Nazareth LV, Wang Q, Burhans R, Riemer C, Wittekindt NE, Moorjani P, Tindall EA, Danko CG, Teo WS, Buboltz AM, Zhang Z, Ma Q, Oosthuysen A, Steenkamp AW, Oostuisen H, Venter P, Gajewski J, Zhang Y, Pugh BF, Makova KD, Nekrutenko A, Mardis ER, Patterson N, Pringle TH, Chiaromonte F, Mullikin JC, Eichler EE, Hardison RC, Gibbs RA, Harkins TT, Hayes VM. 2010. Complete Khoisan and Bantu genomes from southern Africa. Nature 463:943-947. – reference: Emison ES, McCallion AS, Kashuk CS, Bush RT, Grice E, Lin S, Portnoy ME, Cutler DJ, Green ED, Chakravarti A. 2005. A common sex-dependent mutation in a RET enhancer underlies Hirschsprung disease risk. Nature 434:857-863. – reference: Coutinho AM, Oliveira G, Katz C, Feng J, Yan J, Yang C, Marques C, Ataíde A, Miguel TS, Borges L, Almeida J, Correia C, Currais A, Bento C, Mota-Vieira L, Temudo T, Santos M, Maciel P, Sommer SS, Vicente AM. 2007. MECP2 coding sequence and 3′UTR variation in 172 unrelated autistic patients. Am J Med Genet B Neuropsychiatr Genet 144B:475-483. – reference: Yang R, Frank B, Hemminki K, Bartram CR, Wappenschmidt B, Sutter C, Kiechle M, Bugert P, Schmutzler RK, Arnold N, Weber BH, Niederacher D, Meindl A, Burwinkel B. 2008a. SNPs in ultraconserved elements and familial breast cancer risk. Carcinogenesis 29:351-355. – reference: Spena S, Asselta R, Platé M, Castaman G, Duga S, Tenchini ML. 2007. Pseudo-exon activation caused by a deep-intronic mutation in the fibrinogen gamma-chain gene as a novel mechanism for congenital afibrinogenaemia. Br J Haematol 139:128-132. – reference: Harland M, Mistry S, Bishop DT, Bishop JA. 2001. A deep intronic mutation in CDKN2A is associated with disease in a subset of melanoma pedigrees. Hum Mol Genet 10:2679-2686. – reference: Barešić A, Hopcroft LE, Rogers HH, Hurst JM, Martin AC. 2010. Compensated pathogenic deviations: analysis of structural effects. J Mol Biol 396:19-30. – reference: Ferrer-Costa C, Orozco M, de la Cruz X. 2007. Characterization of compensated mutations in terms of structural and physico-chemical properties. J Mol Biol 365:249-256. – reference: Sun G, Yan J, Noltner K, Feng J, Li H, Sarkis DA, Sommer SS, Rossi JJ. 2009. SNPs in human miRNA genes affect biogenesis and function. RNA 15:1640-1651. – reference: Gale JS. 1990. Theoretical population genetics. London: Unwin Hyman, p 325-343. – reference: Keightley PD, Kryukov GV, Sunyaev S, Halligan DL, Gaffney DJ. 2005. Evolutionary constraints in conserved nongenic sequences of mammals. Genome Res 15:1373-1378. – reference: He Y, Vogelstein B, Velculescu VE, Papadopoulos N, Kinzler KW. 2008. The antisense transcriptomes of human cells. Science 322:1855-1857. – reference: Benko S, Fantes JA, Amiel J, Kleinjan DJ, Thomas S, Ramsay J, Jamshidi N, Essafi A, Heaney S, Gordon CT, McBride D, Golzio C, Fisher M, Perry P, Abadie V, Ayuso C, Holder-Espinasse M, Kilpatrick N, Lees MM, Picard A, Temple IK, Thomas P, Vazquez MP, Vekemans M, Crollius HR, Hastie ND, Munnich A, Etchevers HC, Pelet A, Farlie PG, Fitzpatrick DR, Lyonnet S. 2009. Highly conserved non-coding elements on either side of SOX9 associated with Pierre Robin sequence. Nat Genet 41:359-364. – reference: Kapranov P, Drenkow J, Cheng J, Long J, Helt G, Dike S, Gingeras TR. 2005. Examples of the complex architecture of the human transcriptome revealed by RACE and high-density tiling arrays. Genome Res 15:987-997. – reference: Liao BY, Zhang J. 2008. Null mutations in human and mouse orthologs frequently result in different phenotypes. Proc Natl Acad Sci USA 105:6987-6992. – reference: Feldman I, Rzhetsky A, Vitkup D. 2008. Network properties of genes harboring inherited disease mutations. Proc Natl Acad Sci USA 105:4323-4328. – reference: VerMilyea MD, O'Neill LP, Turner BM. 2009. Transcription-independent heritability of induced histone modifications in the mouse preimplantation embryo. PLoS One 4:e6086. – reference: Zhang ZD, Paccanaro A, Fu Y, Weissman S, Weng Z, Chang J, Snyder M, Gerstein MB. 2007. Statistical analysis of the genomic distribution and correlation of regulatory elements in the ENCODE regions. Genome Res 17:787-797. – reference: Coutinho G, Xie J, Du L, Brusco A, Krainer AR, Gatti RA. 2005. Functional significance of a deep intronic mutation in the ATM gene and evidence for an alternative exon 28a. Hum Mutat 25:118-124. – reference: Glinskii AB, Ma J, Ma S, Grant D, Lim CU, Sell S, Glinsky GV. 2009. Identification of intergenic trans-regulatory RNAs containing a disease-linked SNP sequence and targeting cell cycle progression/differentiation pathways in multiple common human disorders. Cell Cycle 8:3925-3942. – reference: Pastinen T, Ge B, Hudson TJ. 2006. Influence of human genome polymorphism on gene expression. Hum Mol Genet 15 Spec No 1:R9-R16. – reference: Bastepe M, Fröhlich LF, Linglart A, Abu-Zahra HS, Tojo K, Ward LM, Jüppner H. 2005. Deletion of the NESP55 differentially methylated region causes loss of maternal GNAS imprints and pseudohypoparathyroidism type Ib. Nat Genet 37:25-27. – reference: Choi JW, Park CS, Hwang M, Nam HY, Chang HS, Park SG, Han BG, Kimm K, Kim HL, Oh B, Kim Y. 2008. A common intronic variant of CXCR3 is functionally associated with gene expression levels and the polymorphic immune cell responses to stimuli. J Allergy Clin Immunol 122:1119-1126.e7. – reference: Osada N, Mano S, Gojobori J. 2009. Quantifying dominance and deleterious effect on human disease genes. Proc Natl Acad Sci USA 106:841-846. – reference: Frazer KA, Murray SS, Schork NJ, Topol EJ. 2009. Human genetic variation and its contribution to complex traits. Nat Rev Genet 10:241-251. – reference: Yamaguchi-Kabata Y, Shimada MK, Hayakawa Y, Minoshima S, Chakraborty R, Gojobori T, Imanishi T. 2008. Distribution and effects of nonsense polymorphisms in human genes. PLoS One 3:e3393. – reference: Viprakasit V, Kidd AM, Ayyub H, Horsley S, Hughes J, Higgs DR. 2003. De novo deletion within the telomeric region flanking the human α-globin locus as a cause of α-thalassaemia. Br J Haematol 120:867-875. – reference: Wright JB, Brown SJ, Cole MD. 2010. Upregulation of c-MYC in cis through a large chromatin loop linked to a cancer risk-associated single-nucleotide polymorphism in colorectal cancer cells. Mol Cell Biol 30:1411-1420. – reference: Ng SB, Turner EH, Robertson PD, Flygare SD, Bigham AW, Lee C, Shaffer T, Wong M, Bhattacharjee A, Eichler EE, Bamshad M, Nickerson DA, Shendure J. 2009. Targeted capture and massively parallel sequencing of 12 human exomes. Nature 461:272-276. – reference: Kryukov GV, Pennacchio LA, Sunyaev SR. 2007. Most rare missense alleles are deleterious in humans: implications for complex disease and association studies. Am J Hum Genet 80:727-739. – reference: Lualdi S, Tappino B, Di Duca M, Dardis A, Anderson CJ, Biassoni R, Thompson PW, Corsolini F, Di Rocco M, Bembi B, Regis S, Cooper DN, Filocamo M. 2010. Enigmatic in vivo iduronate-2-sulfatase (IDS) mutant transcript correction to wild-type in Hunter syndrome. Hum Mutat 31:E1261-E1285. – reference: Pruitt KD, Harrow J, Harte RA, Wallin C, Diekhans M, Maglott DR, Searle S, Farrell CM, Loveland JE, Ruef BJ, Hart E, Suner MM, Landrum MJ, Aken B, Ayling S, Baertsch R, Fernandez-Banet J, Cherry JL, Curwen V, Dicuccio M, Kellis M, Lee J, Lin MF, Schuster M, Shkeda A, Amid C, Brown G, Dukhanina O, Frankish A, Hart J, Maidak BL, Mudge J, Murphy MR, Murphy T, Rajan J, Rajput B, Riddick LD, Snow C, Steward C, Webb D, Weber JA, Wilming L, Wu W, Birney E, Haussler D, Hubbard T, Ostell J, Durbin R, Lipman D. 2009. The consensus coding sequence (CCDS) project: identifying a common protein-coding gene set for the human and mouse genomes. Genome Res 19:1316-1323. – reference: Katayama S, Tomaru Y, Kasukawa T, Waki K, Nakanishi M, Nakamura M, Nishida H, Yap CC, Suzuki M, Kawai J, Suzuki H, Carninci P, Hayashizaki Y, Wells C, Frith M, Ravasi T, Pang KC, Hallinan J, Mattick J, Hume DA, Lipovich L, Batalov S, Engström PG, Mizuno Y, Faghihi MA, Sandelin A, Chalk AM, Mottagui-Tabar S, Liang Z, Lenhard B, Wahlestedt C, RIKEN Genome Exploration Research Group, Genome Science Group (Genome Network Project Core Group), FANTOM Consortium. 2005. Antisense transcription in the mammalian transcriptome. Science 309:1564-1566. – reference: Gibbs RA, Rogers J, Katze MG, Bumgarner R, Weinstock GM, Mardis ER, Remington KA, Strausberg RL, Venter JC, Wilson RK, Batzer MA, Bustamante CD, Eichler EE, Hahn MW, Hardison RC, Makova KD, Miller W, Milosavljevic A, Palermo RE, Siepel A, Sikela JM, Attaway T, Bell S, Bernard KE, Buhay CJ, Chandrabose MN, Dao M, Davis C, Delehaunty KD, Ding Y, Dinh HH, Dugan-Rocha S, Fulton LA, Gabisi RA, Garner TT, Godfrey J, Hawes AC, Hernandez J, Hines S, Holder M, Hume J, Jhangiani SN, Joshi V, Khan ZM, Kirkness EF, Cree A, Fowler RG, Lee S, Lewis LR, Li Z, Liu YS, Moore SM, Muzny D, Nazareth LV, Ngo DN, Okwuonu GO, Pai G, Parker D, Paul HA, Pfannkoch C, Pohl CS, Rogers YH, Ruiz SJ, Sabo A, Santibanez J, Schneider BW, Smith SM, Sodergren E, Svatek AF, Utterback TR, Vattathil S, Warren W, White CS, Chinwalla AT, Feng Y, Halpern AL, Hillier LW, Huang X, Minx P, Nelson JO, Pepin KH, Qin X, Sutton GG, Venter E, Walenz BP, Wallis JW, Worley KC, Yang SP, Jones SM, Marra MA, Rocchi M, Schein JE, Baertsch R, Clarke L, Csürös M, Glasscock J, Harris RA, Havlak P, Jackson AR, Jiang H, Liu Y, Messina DN, Shen Y, Song HX, Wylie T, Zhang L, Birney E, Han K, Konkel MK, Lee J, Smit AF, Ullmer B, Wang H, Xing J, Burhans R, Cheng Z, Karro JE, Ma J, Raney B, She X, Cox MJ, Demuth JP, Dumas LJ, Han SG, Hopkins J, Karimpour-Fard A, Kim YH, Pollack JR, Vinar T, Addo-Quaye C, Degenhardt J, Denby A, Hubisz MJ, Indap A, Kosiol C, Lahn BT, Lawson HA, Marklein A, Nielsen R, Vallender EJ, Clark AG, Ferguson B, Hernandez RD, Hirani K, Kehrer-Sawatzki H, Kolb J, Patil S, Pu LL, Ren Y, Smith DG, Wheeler DA, Schenck I, Ball EV, Chen R, Cooper DN, Giardine B, Hsu F, Kent WJ, Lesk A, Nelson DL, O'Brien WE, Prüfer K, Stenson PD, Wallace JC, Ke H, Liu XM, Wang P, Xiang AP, Yang F, Barber GP, Haussler D, Karolchik D, Kern AD, Kuhn RM, Smith KE, Zwieg AS. 2007. Evolutionary and biomedical insights from the rhesus macaque genome. Science 316:222-234. – reference: Di Rienzo A, Hudson RR. 2005. An evolutionary framework for common diseases: the ancestral-susceptibility model. Trends Genet 21:596-601. – reference: Liu W, Sun J, Li G, Zhu Y, Zhang S, Kim ST, Sun J, Wiklund F, Wiley K, Isaacs SD, Stattin P, Xu J, Duggan D, Carpten JD, Isaacs WB, Grönberg H, Zheng SL, Chang BL. 2009. Association of a germ-line copy number variation at 2p24.3 and risk for aggressive prostate cancer. Cancer Res 69: 2176-2179. – reference: Dhir A, Buratti E. 2010. Alternative splicing: role of pseudoexons in human disease and potential therapeutic strategies. FEBS J 277:841-855. – reference: Rahimov F, Marazita ML, Visel A, Cooper ME, Hitchler MJ, Rubini M, Domann FE, Govil M, Christensen K, Bille C, Melbye M, Jugessur A, Lie RT, Wilcox AJ, Fitzpatrick DR, Green ED, Mossey PA, Little J, Steegers-Theunissen RP, Pennacchio LA, Schutte BC, Murray JC. 2008. Disruption of an AP-2α binding site in an IRF6 enhancer is associated with cleft lip. Nat Genet 40:1341-1347. – reference: Carninci P, Sandelin A, Lenhard B, Katayama S, Shimokawa K, Ponjavic J, Semple CA, Taylor MS, Engström PG, Frith MC, Forrest AR, Alkema WB, Tan SL, Plessy C, Kodzius R, Ravasi T, Kasukawa T, Fukuda S, Kanamori-Katayama M, Kitazume Y, Kawaji H, Kai C, Nakamura M, Konno H, Nakano K, Mottagui-Tabar S, Arner P, Chesi A, Gustincich S, Persichetti F, Suzuki H, Grimmond SM, Wells CA, Orlando V, Wahlestedt C, Liu ET, Harbers M, Kawai J, Bajic VB, Hume DA, Hayashizaki Y. 2006. Genome-wide analysis of mammalian promoter architecture and evolution. Nat Genet 38:626-635. – reference: Washietl S, Hofacker IL, Lukasser M, Hüttenhofer A, Stadler PF. 2005. Mapping of conserved RNA secondary structures predicts thousands of functional noncoding RNAs in the human genome. Nat Biotechnol 23:1383-1390. – reference: Yngvadottir B, MacArthur DG, Jin H, Tyler-Smith C. 2009a. The promise and reality of personal genomics. Genome Biol 10:237. – reference: Ferrer-Costa C, Orozco M, de la Cruz X. 2002. Characterization of disease-associated single amino acid polymorphisms in terms of sequence and structure properties. J Mol Biol 315:771-786. – reference: Martin MM, Buckenberger JA, Jiang J, Malana GE, Nuovo GJ, Chotani M, Feldman DS, Schmittgen TD, Elton TS. 2007. The human angiotensin II type 1 receptor +1166 A/C polymorphism attenuates microrna-155 binding. J Biol Chem 282:24262-24269. – reference: Tucker T, Marra M, Friedman JM. 2009. Massively parallel sequencing: the next big thing in genetic medicine. Am J Hum Genet 85:142-154. – reference: van Bokhoven H, Rawson RB, Merkx GF, Cremers FP, Seabra MC. 1996. cDNA cloning and chromosomal localization of the genes encoding the alpha- and beta-subunits of human Rab geranylgeranyl transferase: the 3′ end of the alpha-subunit gene overlaps with the transglutaminase 1 gene promoter. Genomics 38:133-140. – reference: Ovcharenko I, Loots GG, Nobrega MA, Hardison RC, Miller W, Stubbs L. 2005. Evolution and functional classification of vertebrate gene deserts. Genome Res 15:137-145. – reference: Lister R, Pelizzola M, Dowen RH, Hawkins RD, Hon G, Tonti-Filippini J, Nery JR, Lee L, Ye Z, Ngo QM, Edsall L, Antosiewicz-Bourget J, Stewart R, Ruotti V, Millar AH, Thomson JA, Ren B, Ecker JR. 2009. Human DNA methylomes at base resolution show widespread epigenomic differences. Nature 462:315-322. – reference: Taylor J. 2005. Clues to function in gene deserts. Trends Biotechnol 23:269-271. – reference: Li JB, Levanon EY, Yoon JK, Aach J, Xie B, Leproust E, Zhang K, Gao Y, Church GM. 2009b. Genome-wide identification of human RNA editing sites by parallel DNA capturing and sequencing. Science 324:1210-1213. – reference: Tu Z, Wang L, Xu M, Zhou X, Chen T, Sun F. 2006. Further understanding human disease genes by comparing with housekeeping genes and other genes. BMC Genomics 7:31. – reference: Jordan IK, Rogozin IB, Glazko GV, Koonin EV. 2003. Origin of a substantial fraction of human regulatory sequences from transposable elements. Trends Genet 19:68-72. – reference: Wang Z, Zang C, Rosenfeld JA, Schones DE, Barski A, Cuddapah S, Cui K, Roh TY, Peng W, Zhang MQ, Zhao K. 2008b. Combinatorial patterns of histone acetylations and methylations in the human genome. Nat Genet 40:897-903. – reference: Susa S, Daimon M, Sakabe J, Sato H, Oizumi T, Karasawa S, Wada K, Jimbu Y, Kameda W, Emi M, Muramatsu M, Kato T. 2008. A functional polymorphism of the TNF-α gene that is associated with type 2 DM. Biochem Biophys Res Commun 369:943-947. – reference: Wilch E, Azaiez H, Fisher RA, Elfenbein J, Murgia A, Birkenhäger R, Bolz H, da Silva-Costa SM, Del Castillo I, Haaf T, Hoefsloot L, Kremer H, Kubisch C, Le Marechal C, Pandya A, Sartorato EL, Schneider E, Van Camp G, Wuyts W, Smith RJ, Friderici KH. 2010. A novel DFNB1 deletion allele supports the existence of a distant cis-regulatory region that controls GJB2 and GJB6 expression. Clin Genet (in press). – reference: Akiva P, Toporik A, Edelheit S, Peretz Y, Diber A, Shemesh R, Novik A, Sorek R. 2006. Transcription-mediated gene fusion in the human genome. Genome Res 16:30-36. – reference: Parra G, Reymond A, Dabbouseh N, Dermitzakis ET, Castelo R, Thomson TM, Antonarakis SE, Guigó R. 2006. Tandem chimerism as a means to increase protein complexity in the human genome. Genome Res 16:37-44. – reference: Hunt R, Sauna ZE, Ambudkar SV, Gottesman MM, Kimchi-Sarfaty C. 2009. Silent (synonymous) SNPs: should we care about them? Methods Mol Biol 578:23-39. – reference: Louro R, Smirnova AS, Verjovski-Almeida S. 2009. Long intronic noncoding RNA transcription: expression noise or expression choice? Genomics 93:291-298. – reference: Zheng D, Frankish A, Baertsch R, Kapranov P, Reymond A, Choo SW, Lu Y, Denoeud F, Antonarakis SE, Snyder M, Ruan Y, Wei CL, Gingeras TR, Guigó R, Harrow J, Gerstein MB. 2007. Pseudogenes in the ENCODE regions: consensus annotation, analysis of transcription, and evolution. Genome Res 17:839-851. – reference: Cutler G, Kassner PD. 2008. Copy number variation in the mouse genome: implications for the mouse as a model organism for human disease. Cytogenet Genome Res 123:297-306. – reference: Drake JA, Bird C, Nemesh J, Thomas DJ, Newton-Cheh C, Reymond A, Excoffier L, Attar H, Antonarakis SE, Dermitzakis ET, Hirschhorn JN. 2006. Conserved noncoding sequences are selectively constrained and not mutation cold spots. Nat Genet 38:223-227. – reference: Homolova K, Zavadakova P, Doktor TK, Schroeder LD, Kozich V, Andresen BS. 2010. The deep intronic c.903+469T>C mutation in the MTRR gene creates an SF2/ASF binding exonic splicing enhancer, which leads to pseudoexon activation and causes the cblE type of homocystinuria. Hum Mutat 31:437-444. – reference: Parker SC, Hansen L, Abaan HO, Tullius TD, Margulies EH. 2009. Local DNA topography correlates with functional noncoding regions of the human genome. Science 324:389-392. – reference: Huang H, Winter EE, Wang H, Weinstock KG, Xing H, Goodstadt L, Stenson PD, Cooper DN, Smith D, Albà MM, Ponting CP, Fechtel K. 2004. Evolutionary conservation and selection of human disease gene orthologs in the rat and mouse genomes. Genome Biol 5:R47. – reference: Mencía A, Modamio-Hłybjør S, Redshaw N, Morín M, Mayo-Merino F, Olavarrieta L, Aguirre LA, del Castillo I, Steel KP, Dalmay T, Moreno F, Moreno-Pelayo MA. 2009. Mutations in the seed region of human miR-96 are responsible for nonsyndromic progressive hearing loss. Nat Genet 41:609-613. – reference: Calin GA, Ferracin M, Cimmino A, Di Leva G, Shimizu M, Wojcik SE, Iorio MV, Visone R, Sever NI, Fabbri M, Iuliano R, Palumbo T, Pichiorri F, Roldo C, Garzon R, Sevignani C, Rassenti L, Alder H, Volinia S, Liu CG, Kipps TJ, Negrini M, Croce CM. 2005. A microRNA signature associated with prognosis and progression in chronic lymphocytic leukemia. N Engl J Med 353:1793-1801. – reference: Yngvadottir B, Xue Y, Searle S, Hunt S, Delgado M, Morrison J, Whittaker P, Deloukas P, Tyler-Smith C. 2009b. A genome-wide survey of the prevalence and evolutionary forces acting on human nonsense SNPs. Am J Hum Genet 84:224-234. – reference: Stankiewicz P, Sen P, Bhatt SS, Storer M, Xia Z, Bejjani BA, Ou Z, Wiszniewska J, Driscoll DJ, Maisenbacher MK, Bolivar J, Bauer M, Zackai EH, McDonald-McGinn D, Nowaczyk MM, Murray M, Hustead V, Mascotti K, Schultz R, Hallam L, McRae D, Nicholson AG, Newbury R, Durham-O'Donnell J, Knight G, Kini U, Shaikh TH, Martin V, Tyreman M, Simonic I, Willatt L, Paterson J, Mehta S, Rajan D, Fitzgerald T, Gribble S, Prigmore E, Patel A, Shaffer LG, Carter NP, Cheung SW, Langston C, Shaw-Smith C. 2009. Genomic and genic deletions of the FOX gene cluster on 16q24.1 and inactivating mutations of FOXF1 cause alveolar capillary dysplasia and other malformations. Am J Hum Genet 84:780-791. – reference: Seila AC, Calabrese JM, Levine SS, Yeo GW, Rahl PB, Flynn RA, Young RA, Sharp PA. 2008. Divergent transcription from active promoters. Science 322:1849-1851. – reference: Furniss D, Lettice LA, Taylor IB, Critchley PS, Giele H, Hill RE, Wilkie AO. 2008. A variant in the sonic hedgehog regulatory sequence (ZRS) is associated with triphalangeal thumb and deregulates expression in the developing limb. Hum Mol Genet 17:2417-2423. – reference: D'haene B, Attanasio C, Beysen D, Dostie J, Lemire E, Bouchard P, Field M, Jones K, Lorenz B, Menten B, Buysse K, Pattyn F, Friedli M, Ucla C, Rossier C, Wyss C, Speleman F, De Paepe A, Dekker J, Antonarakis SE, De Baere E. 2009. Disease-causing 7.4 kb cis-regulatory deletion disrupting conserved non-coding sequences and their interaction with the FOXL2 promotor: implications for mutation screening. PLoS Genet 5:e1000522. – reference: López-Bigas N, Audit B, Ouzounis C, Parra G, Guigó R. 2005. Are splicing mutations the most frequent cause of hereditary disease? FEBS Lett 579:1900-1903. – reference: Lohmueller KE, Indap AR, Schmidt S, Boyko AR, Hernandez RD, Hubisz MJ, Sninsky JJ, White TJ, Sunyaev SR, Nielsen R, Clark AG, Bustamante CD. 2008. Proportionally more deleterious genetic variation in European than in African populations. Nature 451:994-997. – reference: Kondrashov AS, Sunyaev S, Kondrashov FA. 2002. Dobzhansky-Muller incompatibilities in protein evolution. Proc Natl Acad Sci USA 99:14878-14883. – reference: Lowe CB, Bejerano G, Haussler D. 2007. Thousands of human mobile element fragments undergo strong purifying selection near developmental genes. Proc Natl Acad Sci USA 104:8005-8010. – reference: Rincón A, Aguado C, Desviat LR, Sánchez-Alcudia R, Ugarte M, Pérez B. 2007. Propionic and methylmalonic acidemia: antisense therapeutics for intronic variations causing aberrantly spliced messenger RNA. Am J Hum Genet 81:1262-1270. – reference: Zhang C. 2008. MicroRNomics: a newly emerging approach for disease biology. Physiol. Genomics 33:139-147. – reference: Licastro D, Gennarino VA, Petrera F, Sanges R, Banfi S, Stupka E. 2010. Promiscuity of enhancer, coding and non-coding transcription functions in ultraconserved elements. BMC Genomics 11:151. – reference: Olds LC, Sibley E. 2003. Lactase persistence DNA variant enhances lactase promoter activity in vitro: functional role as a cis regulatory element. Hum Mol Genet 12:2333-2340. – reference: Brown KK, Reiss JA, Crow K, Ferguson HL, Kelly C, Fritzsch B, Morton CC. 2010. Deletion of an enhancer near DLX5 and DLX6 in a family with hearing loss, craniofacial defects, and an inv(7)(q21.3q35). Hum Genet 127:19-31. – reference: Stankiewicz P, Lupski JR. 2010. Structural variation in the human genome and its role in disease. Annu Rev Med 61:437-455. – reference: Maston GA, Evans SK, Green MR. 2006. Transcriptional regulatory elements in the human genome. Annu Rev Genomics Hum Genet 7:29-59. – reference: Svensson O, Arvestad L, Lagergren J. 2006. Genome-wide survey for biologically functional pseudogenes. PLoS Comput. Biol 2:e46. – reference: Prabhakar S, Noonan JP, Pääbo S, Rubin EM. 2006. Accelerated evolution of conserved noncoding sequences in humans. Science 314:786. – reference: Kryukov GV, Schmidt S, Sunyaev S. 2005. Small fitness effect of mutations in highly conserved non-coding regions. Hum Mol Genet 14:2221-2229. – reference: Gingeras TR. 2009. Implications of chimaeric non-co-linear transcripts. Nature 461:206-211. – reference: Quemener S, Chen JM, Chuzhanova N, Bénech C, Casals T, MacekJr M, Bienvenu T, McDevitt T, Farrell PM, Loumi O, Messaoud T, Cuppens H, Cutting GR, Stenson PD, Giteau K, Audrézet MP, Cooper DN, Férec C. 2010. Complete ascertainment of intragenic copy number mutations (CNMs) in the CFTR gene and its implications for CNM formation at other autosomal loci. Hum Mutat 31:421-428. – reference: McLean C, Bejerano G. 2008. Dispensability of mammalian DNA. Genome Res 18:1743-1751. – reference: Schollen E, Keldermans L, Foulquier F, Briones P, Chabas A, Sánchez-Valverde F, Adamowicz M, Pronicka E, Wevers R, Matthijs G. 2007. Characterization of two unusual truncating PMM2 mutations in two CDG-Ia patients. Mol Genet Metab 90:408-413. – reference: Domazet-Lošo T, Tautz D. 2008. An ancient evolutionary origin of genes associated with human genetic diseases. Mol Biol Evol 25:2699-2707. – reference: Zhu QS, Xing W, Qian B, von Dippe P, Shneider BL, Fox VL, Levy D. 2003. Inhibition of human m-epoxide hydrolase gene expression in a case of hypercholanemia. Biochim Biophys Acta 1638:208-216. – reference: Denoeud F, Kapranov P, Ucla C, Frankish A, Castelo R, Drenkow J, Lagarde J, Alioto T, Manzano C, Chrast J, Dike S, Wyss C, Henrichsen CN, Holroyd N, Dickson MC, Taylor R, Hance Z, Foissac S, Myers RM, Rogers J, Hubbard T, Harrow J, Guigó R, Gingeras TR, Antonarakis SE, Reymond A. 2007. Prominent use of distal 5′ transcription start sites and discovery of a large number of additional exons in ENCODE regions. Genome Res 17:746-759. – reference: Mann V, Hobson EE, Li B, Stewart TL, Grant SF, Robins SP, Aspden RM, Ralston SH. 2001. A COL1A1 Sp1 binding site polymorphism predisposes to osteoporotic fracture by affecting bone density and quality. J Clin Invest 107:899-907. – reference: Rademakers R, Eriksen JL, Baker M, Robinson T, Ahmed Z, Lincoln SJ, Finch N, Rutherford NJ, Crook RJ, Josephs KA, Boeve BF, Knopman DS, Petersen RC, Parisi JE, Caselli RJ, Wszolek ZK, Uitti RJ, Feldman H, Hutton ML, Mackenzie IR, Graff-Radford NR, Dickson DW. 2008. Common variation in the miR-659 binding-site of GRN is a major risk factor for TDP43-positive frontotemporal dementia. Hum Mol Genet 17:3631-3642. – volume: 8 start-page: 413 year: 2007a end-page: 423 article-title: Genome‐wide transcription and the implications for genomic organization publication-title: Nat Rev Genet – volume: 25 start-page: 536 year: 2009 end-page: 544 article-title: Copy‐number variants in neurodevelopmental disorders: promises and challenges publication-title: Trends Genet – volume: 86 start-page: 240 year: 2010 end-page: 247 article-title: Next‐generation sequencing of a 40 Mb linkage interval reveals mutations in patients with familial exudative vitreoretinopathy publication-title: Am J Hum Genet – volume: 1 start-page: 89 year: 2009 article-title: ChIP'ing the mammalian genome: technical advances and insights into functional elements publication-title: Genome Med – year: 2010b article-title: Identification of homologous microRNAs in 56 animal genomes publication-title: Genomics – volume: 158 start-page: 1227 year: 2001 end-page: 1234 article-title: Positive and negative selection on the human genome publication-title: Genetics – volume: 10 start-page: 141 year: 2009 article-title: Association of a functional microsatellite within intron 1 of the gene with susceptibility to osteoarthritis publication-title: BMC Med Genet – volume: 28 start-page: 150 year: 2007 end-page: 158 article-title: Single base‐pair substitutions in exon‐intron junctions of human genes: nature, distribution, and consequences for mRNA splicing publication-title: Hum Mutat – volume: 120 start-page: 301 year: 2006b end-page: 333 article-title: A systematic analysis of disease‐associated variants in the 3′ regulatory regions of human protein‐coding genes II: the importance of mRNA secondary structure in assessing the functionality of 3′ UTR variants publication-title: Hum Genet – volume: 81 start-page: 1262 year: 2007 end-page: 1270 article-title: Propionic and methylmalonic acidemia: antisense therapeutics for intronic variations causing aberrantly spliced messenger RNA publication-title: Am J Hum Genet – volume: 24 start-page: 489 year: 2008 end-page: 497 article-title: MicroRNA target site polymorphisms and human disease publication-title: Trends Genet – volume: 8 start-page: 279 year: 2007 end-page: 298 article-title: Annotating noncoding RNA genes publication-title: Annu Rev Genomics Hum Genet – volume: 106 start-page: 11667 year: 2009 end-page: 11672 article-title: Many human large intergenic noncoding RNAs associate with chromatin‐modifying complexes and affect gene expression publication-title: Proc Natl Acad Sci USA – volume: 6 start-page: 858 year: 1996 end-page: 861 article-title: Intron 17 of the human retinoblastoma susceptibility gene encodes an actively transcribed G protein‐coupled receptor gene publication-title: Genome Res – volume: 17 start-page: 787 year: 2007 end-page: 797 article-title: Statistical analysis of the genomic distribution and correlation of regulatory elements in the ENCODE regions publication-title: Genome Res – volume: 321 start-page: 956 year: 2008 end-page: 960 article-title: A global view of gene activity and alternative splicing by deep sequencing of the human transcriptome publication-title: Science – volume: 8 start-page: 407 year: 2009 end-page: 423 article-title: Pervasive transcription of the eukaryotic genome: functional indices and conceptual implications publication-title: Brief Funct Genomic Proteomic – volume: 25 start-page: 118 year: 2005 end-page: 124 article-title: Functional significance of a deep intronic mutation in the gene and evidence for an alternative exon 28a publication-title: Hum Mutat – volume: 8 start-page: 749 year: 2007 end-page: 761 article-title: Splicing in disease: disruption of the splicing code and the decoding machinery publication-title: Nat Rev Genet – volume: 3 start-page: e3393 year: 2008 article-title: Distribution and effects of nonsense polymorphisms in human genes publication-title: PLoS One – volume: 277 start-page: 841 year: 2010 end-page: 855 article-title: Alternative splicing: role of pseudoexons in human disease and potential therapeutic strategies publication-title: FEBS J – volume: 19 start-page: 503 year: 2008 end-page: 509 article-title: Functional genetic variation of human miRNAs and phenotypic consequences publication-title: Mamm Genome – volume: 123 start-page: 17 year: 2008 end-page: 26 article-title: Human genes involved in copy number variation: mechanisms of origin, functional effects and implications for disease publication-title: Cytogenet Genome Res – volume: 328 start-page: 232 year: 2010 end-page: 235 article-title: Variation in transcription factor binding among humans publication-title: Science – volume: 320 start-page: 927 year: 2004 end-page: 931 article-title: Functional redundancy of the human and chemokine genes publication-title: Biochem Biophys Res Commun – volume: 314 start-page: 1930 year: 2006 end-page: 1933 article-title: Human catechol‐O‐methyltransferase haplotypes modulate protein expression by altering mRNA secondary structure publication-title: Science – volume: 20 start-page: 842 year: 2009 end-page: 848 article-title: Towards a genome‐wide reconstruction of cis‐regulatory networks in the human genome publication-title: Semin Cell Dev Biol – volume: 19 start-page: 567 year: 2009 end-page: 575 article-title: Common polymorphic transcript variation in human disease publication-title: Genome Res – volume: 28 start-page: 57 year: 2010a end-page: 63 article-title: Building the sequence map of the human pan‐genome publication-title: Nat Biotechnol – volume: 53 start-page: 229 year: 2007 end-page: 240 article-title: Mutation analysis of the ornithine transcarbamylase ( ) gene in five Japanese OTC deficiency patients revealed two known and three novel mutations including a deep intronic mutation publication-title: Kobe J Med Sci – volume: 10 start-page: 435 year: 2009 article-title: Assessing the genomic evidence for conserved transcribed pseudogenes under selection publication-title: BMC Genomics – volume: 10 start-page: 35 year: 2009 end-page: 52 article-title: Next generation tools for the annotation of human SNPs publication-title: Brief Bioinform – volume: 1 start-page: e78 year: 2005 article-title: Genome‐wide associations of gene expression variation in humans publication-title: PLoS Genet – volume: 324 start-page: 1210 year: 2009b end-page: 1213 article-title: Genome‐wide identification of human RNA editing sites by parallel DNA capturing and sequencing publication-title: Science – volume: 37 start-page: 25 year: 2005 end-page: 27 article-title: Deletion of the NESP55 differentially methylated region causes loss of maternal imprints and pseudohypoparathyroidism type Ib publication-title: Nat Genet – volume: 19 start-page: 196 year: 2009 end-page: 204 article-title: Duplication hotspots, rare genomic disorders, and common disease publication-title: Curr Opin Genet Dev – volume: 90 start-page: 408 year: 2007 end-page: 413 article-title: Characterization of two unusual truncating mutations in two CDG‐Ia patients publication-title: Mol Genet Metab – volume: 85 start-page: 142 year: 2009 end-page: 154 article-title: Massively parallel sequencing: the next big thing in genetic medicine publication-title: Am J Hum Genet – volume: 30 start-page: 1411 year: 2010 end-page: 1420 article-title: Upregulation of c‐ in cis through a large chromatin loop linked to a cancer risk‐associated single‐nucleotide polymorphism in colorectal cancer cells publication-title: Mol Cell Biol – volume: 20 start-page: 301 year: 2010 end-page: 310 article-title: Evolutionary constraint facilitates interpretation of genetic variation in resequenced human genomes publication-title: Genome Res – volume: 16 start-page: 2209 year: 2007 end-page: 2214 article-title: In vitro demonstration of intra‐locus compensation using the ornithine transcarbamylase protein as model publication-title: Hum Mol Genet – volume: 84 start-page: 224 year: 2009b end-page: 234 article-title: A genome‐wide survey of the prevalence and evolutionary forces acting on human nonsense SNPs publication-title: Am J Hum Genet – volume: 12 start-page: 2333 year: 2003 end-page: 2340 article-title: Lactase persistence DNA variant enhances lactase promoter activity : functional role as a regulatory element publication-title: Hum Mol Genet – volume: 4 start-page: e8232 year: 2009 article-title: Exome sequencing of a multigenerational human pedigree publication-title: PLoS One – volume: 46 start-page: 649 year: 2009 end-page: 656 article-title: Long‐range regulation at the locus in development and disease publication-title: J Med Genet – volume: 29 start-page: 351 year: 2008a end-page: 355 article-title: SNPs in ultraconserved elements and familial breast cancer risk publication-title: Carcinogenesis – volume: 5 start-page: e1000459 year: 2009 article-title: The genetic signatures of noncoding RNAs publication-title: PloS Genet – volume: 24 start-page: 53 year: 2008 end-page: 56 article-title: Human natural antisense transcripts initiated by transposable elements publication-title: Trends Genet – volume: 15 start-page: 987 year: 2005 end-page: 997 article-title: Examples of the complex architecture of the human transcriptome revealed by RACE and high‐density tiling arrays publication-title: Genome Res – volume: 17 start-page: 1245 year: 2007 end-page: 1253 article-title: Raising the estimate of functional human sequences publication-title: Genome Res – volume: 69 start-page: 2176 year: 2009 end-page: 2179 article-title: Association of a germ‐line copy number variation at 2p24.3 and risk for aggressive prostate cancer publication-title: Cancer Res – volume: 11 start-page: 48 year: 2010 article-title: Intergenic, gene terminal, and intragenic CpG islands in the human genome publication-title: BMC Genomics – volume: 23 start-page: 183 year: 2007 end-page: 191 article-title: Which transposable elements are active in the human genome? publication-title: Trends Genet – volume: 431 start-page: 931 year: 2004 end-page: 945 article-title: Finishing the euchromatic sequence of the human genome publication-title: Nature – volume: 38 start-page: 534 year: 2010 end-page: 547 article-title: Integrative analysis of the human ‐antisense gene pairs, miRNAs and their transcription regulation patterns publication-title: Nucleic Acids Res – volume: 33 start-page: 2374 year: 2005 end-page: 2383 article-title: Transcribed processed pseudogenes in the human genome: an intermediate form of expressed retrosequence lacking protein‐coding ability publication-title: Nucleic Acids Res – volume: 7 start-page: 29 year: 2006 end-page: 59 article-title: Transcriptional regulatory elements in the human genome publication-title: Annu Rev Genomics Hum Genet – volume: 17 start-page: 1031 year: 2008 end-page: 1042 article-title: SnoRNA U50 is a candidate tumor‐suppressor gene at 6q14.3 with a mutation associated with clinically significant prostate cancer publication-title: Hum Mol Genet – volume: 10 start-page: 431 year: 2009 end-page: 450 article-title: Genetic screening for low‐penetrance variants in protein‐coding genes publication-title: Annu Rev Genomics Hum Genet – volume: 315 start-page: 525 year: 2007 end-page: 528 article-title: A “silent” polymorphism in the gene changes substrate specificity publication-title: Science – volume: 322 start-page: 1849 year: 2008 end-page: 1851 article-title: Divergent transcription from active promoters publication-title: Science – volume: 93 start-page: 19 year: 2001 end-page: 22 article-title: , a novel, highly conserved intronless gene within intron 5 of the gene on chromosome 18p11 publication-title: Cytogenet Cell Genet – volume: 444 start-page: 499 year: 2006 end-page: 502 article-title: In vivo enhancer analysis of human conserved non‐coding sequences publication-title: Nature – volume: 46 start-page: 834 year: 2009a end-page: 839 article-title: Enhancer deletions of the gene as a frequent cause of short stature: the essential role of a 250 kb downstream regulatory domain publication-title: J Med Genet – volume: 16 start-page: 37 year: 2006 end-page: 44 article-title: Tandem chimerism as a means to increase protein complexity in the human genome publication-title: Genome Res – volume: 452 start-page: 872 year: 2008 end-page: 876 article-title: The complete genome of an individual by massively parallel DNA sequencing publication-title: Nature – volume: 317 start-page: 915 year: 2007 article-title: Human genome ultraconserved elements are ultraselected publication-title: Science – volume: 24 start-page: 423 year: 2010 end-page: 431 article-title: Personal genome sequencing: current approaches and challenges publication-title: Genes Dev – volume: 9 start-page: 325 year: 2000 end-page: 331 article-title: Genetic variability in the regulatory region of presenilin 1 associated with risk for Alzheimer's disease and variable expression publication-title: Hum Mol Genet – volume: 40 start-page: 1413 year: 2008 end-page: 1415 article-title: Deep surveying of alternative splicing complexity in the human transcriptome by high‐throughput sequencing publication-title: Nat Genet – volume: 14 start-page: 2221 year: 2005 end-page: 2229 article-title: Small fitness effect of mutations in highly conserved non‐coding regions publication-title: Hum Mol Genet – volume: 42 start-page: 203 year: 2010 end-page: 209 article-title: A recurrent 16p12.1 microdeletion supports a two‐hit model for severe developmental delay publication-title: Nat Genet 2010 – volume: 107 start-page: 961 year: 2010 end-page: 968 article-title: Rate, molecular spectrum, and consequences of human mutation publication-title: Proc Natl Acad Sci USA – volume: 4 start-page: e6086 year: 2009 article-title: Transcription‐independent heritability of induced histone modifications in the mouse preimplantation embryo publication-title: PLoS One – volume: 106 start-page: 9362 year: 2009 end-page: 9367 article-title: Potential etiologic and functional implications of genome‐wide association loci for human diseases and traits publication-title: Proc Natl Acad Sci USA – volume: 61 start-page: 339 year: 2008 end-page: 388 article-title: Long‐range gene control and genetic disease publication-title: Adv Genet – volume: 120 start-page: 1 year: 2006a end-page: 21 article-title: A systematic analysis of disease‐associated variants in the 3′ regulatory regions of human protein‐coding genes I: general principles and overview publication-title: Hum Genet – volume: 80 start-page: 727 year: 2007 end-page: 739 article-title: Most rare missense alleles are deleterious in humans: implications for complex disease and association studies publication-title: Am J Hum Genet – volume: 47 start-page: 409 year: 1998 end-page: 413 article-title: Construction and analysis of a sequence‐ready map in 4q25: Rieger syndrome can be caused by haploinsufficiency of , but also by chromosome breaks approximately 90 kb upstream of this gene publication-title: Genomics – volume: 11 start-page: R26 year: 2010 article-title: Identification and analysis of unitary pseudogenes: historic and contemporary gene losses in humans and other primates publication-title: Genome Biol – volume: 19 start-page: 678 year: 2003 end-page: 681 article-title: Why are some human disease‐associated mutations fixed in mice? publication-title: Trends Genet – volume: 106 start-page: 21771 year: 2009 end-page: 21776 article-title: Adventitious changes in long‐range gene expression caused by polymorphic structural variation and promoter competition publication-title: Proc Natl Acad Sci USA – volume: 29 start-page: 198 year: 2008 end-page: 204 article-title: Use of estimated evolutionary strength at the codon level improves the prediction of disease‐related protein mutations in humans publication-title: Hum Mutat – year: 2009 article-title: Rare structural variants found in attention‐deficit hyperactivity disorder are preferentially associated with neurodevelopmental genes publication-title: Mol Psychiatry – volume: 31 start-page: 71 year: 2009 end-page: 83 article-title: Microsatellite repeat instability and neurological disease publication-title: Bioessays – volume: 41 start-page: 609 year: 2009 end-page: 613 article-title: Mutations in the seed region of human miR‐96 are responsible for nonsyndromic progressive hearing loss publication-title: Nat Genet – volume: 105 start-page: 11264 year: 2008 end-page: 11269 article-title: Excessive genomic DNA copy number variation in the Li‐Fraumeni cancer predisposition syndrome publication-title: Proc Natl Acad Sci USA – volume: 105 start-page: 7269 year: 2008 end-page: 7274 article-title: Common SNP in pre‐miR‐146a decreases mature miR expression and predisposes to papillary thyroid carcinoma publication-title: Proc Natl Acad Sci USA – volume: 18 start-page: 1743 year: 2008 end-page: 1751 article-title: Dispensability of mammalian DNA publication-title: Genome Res – volume: 19 start-page: 212 year: 2009 end-page: 219 article-title: Common vs. rare allele hypotheses for complex diseases publication-title: Curr Opin Genet Dev – volume: 2010 start-page: 153 year: 2010 end-page: 165 article-title: Conservation of human microsatellites across 450 million years of evolution publication-title: Genome Biol Evol – volume: 41 start-page: 572 year: 2009 end-page: 578 article-title: Tiny RNAs associated with transcription start sites in animals publication-title: Nat Genet – volume: 1 start-page: 13 year: 2009 article-title: The Human Gene Mutation Database: 2008 update publication-title: Genome Med – volume: 27 start-page: 448 year: 2009 end-page: 454 article-title: Copy‐number variation: the end of the human genome? publication-title: Trends Biotechnol – volume: 31 start-page: 335 year: 2010 end-page: 346 article-title: functional profiling of human disease‐associated and polymorphic amino acid substitutions publication-title: Hum Mutat – volume: 21 start-page: 991 year: 2004 end-page: 1007 article-title: Microsatellites within genes: structure, function, and evolution publication-title: Mol Biol Evol – volume: 6 start-page: 43 year: 2009 end-page: 48 article-title: What do natural antisense transcripts regulate? publication-title: RNA Biol – volume: 106 start-page: 19096 year: 2009 end-page: 19101 article-title: Genetic diagnosis by whole exome capture and massively parallel DNA sequencing publication-title: Proc Natl Acad Sci USA – volume: 12 start-page: 1725 year: 2003 end-page: 1735 article-title: A long‐range Shh enhancer regulates expression in the developing limb and fin and is associated with preaxial polydactyly publication-title: Hum Mol Genet – volume: 56 start-page: 646 year: 2001 end-page: 652 article-title: How many deleterious mutations are there in the human genome? publication-title: Med Hypotheses – volume: 25 start-page: 441 year: 2009 end-page: 442 article-title: Functional compensation by duplicated genes in mouse publication-title: Trends Genet – volume: 423 start-page: 91 year: 2003 end-page: 96 article-title: An expressed pseudogene regulates the messenger‐RNA stability of its homologous coding gene publication-title: Nature – volume: 305 start-page: 525 year: 2004 end-page: 528 article-title: Large‐scale copy number polymorphism in the human genome publication-title: Science – volume: 5 start-page: e1000766 year: 2009 article-title: Fine‐scale variation and genetic determinants of alternative splicing across individuals publication-title: PLoS Genet – volume: 430 start-page: 743 year: 2004 end-page: 747 article-title: Genetic analysis of genome‐wide variation in human gene expression publication-title: Nature – volume: 328 start-page: 636 year: 2010 end-page: 639 article-title: Analysis of genetic inheritance in a family quartet by whole‐genome sequencing publication-title: Science – volume: 112 start-page: 164 year: 2003 end-page: 170 article-title: Two alternative exons can result from activation of the cryptic splice acceptor site deep within intron 2 of the dystrophin gene in a patient with as yet asymptomatic dystrophinopathy publication-title: Hum Genet – volume: 4 start-page: e1000244 year: 2008 article-title: Modifier effects between regulatory and protein‐coding variation publication-title: PLoS Genet – volume: 30 start-page: 233 year: 2002 end-page: 237 article-title: Identification of a variant associated with adult‐type hypolactasia publication-title: Nat Genet – volume: 11 start-page: 836 year: 2009 end-page: 842 article-title: Genotype to phenotype‐discovery and characterization of novel genomic disorders in a “genotype‐first” era publication-title: Genet Med – volume: 15 start-page: 473 year: 2007 end-page: 477 article-title: A deep intronic mutation in the gene leads to intronic sequence exonisation publication-title: Eur J Hum Genet – volume: 46 start-page: 358 year: 2009c end-page: 360 article-title: Germline mutation of microRNA‐125a is associated with breast cancer publication-title: J Med Genet – volume: 18 start-page: 945 year: 2001 end-page: 953 article-title: Episodic evolution of growth hormone in primates and emergence of the species specificity of human growth hormone receptor publication-title: Mol Biol Evol – volume: 299 start-page: 166 year: 1978 end-page: 172 article-title: Application of endonuclease mapping to the analysis and prenatal diagnosis of thalassemias caused by globin‐gene deletion publication-title: N Engl J Med – volume: 10 start-page: 669 year: 2009 end-page: 680 article-title: ChIP‐seq: advantages and challenges of a maturing technology publication-title: Nat Rev Genet – volume: 127 start-page: 19 year: 2010 end-page: 31 article-title: Deletion of an enhancer near DLX5 and DLX6 in a family with hearing loss, craniofacial defects, and an inv(7)(q21.3q35) publication-title: Hum Genet – volume: 463 start-page: 671 year: 2010 end-page: 675 article-title: A new highly penetrant form of obesity due to deletions on chromosome 16p11.2 publication-title: Nature – volume: 80 start-page: 692 year: 2007 end-page: 704 article-title: The strength of selection on ultraconserved elements in the human genome publication-title: Am J Hum Genet – volume: 66 start-page: 590 year: 2009 end-page: 593 article-title: A deep intronic mutation in the gene leads to Gitelman syndrome publication-title: Pediatr Res – volume: 36 start-page: 949 year: 2004 end-page: 951 article-title: Detection of large‐scale variation in the human genome publication-title: Nat Genet – volume: 659 start-page: 147 year: 2008 end-page: 157 article-title: Discovery and verification of functional single nucleotide polymorphisms in regulatory genomic regions: current and developing technologies publication-title: Mutat Res – volume: 461 start-page: 206 year: 2009 end-page: 211 article-title: Implications of chimaeric non‐co‐linear transcripts publication-title: Nature – volume: 84 start-page: 483 year: 2009 end-page: 492 article-title: Duplications involving a conserved regulatory element downstream of are associated with brachydactyly type A2 publication-title: Am J Hum Genet – volume: 139 start-page: 128 year: 2007 end-page: 132 article-title: Pseudo‐exon activation caused by a deep‐intronic mutation in the fibrinogen gamma‐chain gene as a novel mechanism for congenital afibrinogenaemia publication-title: Br J Haematol – volume: 11 start-page: 151 year: 2010 article-title: Promiscuity of enhancer, coding and non‐coding transcription functions in ultraconserved elements publication-title: BMC Genomics – volume: 322 start-page: 1855 year: 2008 end-page: 1857 article-title: The antisense transcriptomes of human cells publication-title: Science – volume: 434 start-page: 857 year: 2005 end-page: 863 article-title: A common sex‐dependent mutation in a enhancer underlies Hirschsprung disease risk publication-title: Nature – volume: 17 start-page: 732 year: 2007 end-page: 745 article-title: The DART classification of unannotated transcription within the ENCODE regions: associating transcription with known and novel loci publication-title: Genome Res – volume: 456 start-page: 60 year: 2008a end-page: 65 article-title: The diploid genome sequence of an Asian individual publication-title: Nature – volume: 15 start-page: 1143 year: 2006 end-page: 1150 article-title: Strength of the purifying selection against different categories of the point mutations in the coding regions of the human genome publication-title: Hum Mol Genet – volume: 124 start-page: 1178 year: 2009 end-page: 1182 article-title: Novel genetic variants in microRNA genes and familial breast cancer publication-title: Int J Cancer – volume: 463 start-page: 943 year: 2010 end-page: 947 article-title: Complete Khoisan and Bantu genomes from southern Africa publication-title: Nature – volume: 10 start-page: 47 year: 2010 article-title: Novel genetic variants in miR‐191 gene and familial ovarian cancer publication-title: BMC Cancer – volume: 77 start-page: 306 year: 2010 end-page: 313 article-title: microRNAs in diseases: from candidate to modifier genes publication-title: Clin Genet – volume: 77 start-page: 533 year: 2005 end-page: 544 article-title: A novel class of pseudoautosomal region 1 deletions downstream of is associated with Leri‐Weill dyschondrosteosis publication-title: Am J Hum Genet – volume: 5 start-page: e254 year: 2007 article-title: The diploid genome sequence of an individual human publication-title: PLoS Biol – volume: 17 start-page: 3631 year: 2008 end-page: 3642 article-title: Common variation in the miR‐659 binding‐site of is a major risk factor for TDP43‐positive frontotemporal dementia publication-title: Hum Mol Genet – volume: 3 start-page: 285 year: 2002 end-page: 298 article-title: Listening to silence and understanding nonsense: exonic mutations that affect splicing publication-title: Nat Rev Genet – volume: 101 start-page: 251 year: 2009 end-page: 262 article-title: Role of 5′‐ and 3′‐untranslated regions of mRNAs in human diseases publication-title: Biol Cell – volume: 120 start-page: 867 year: 2003 end-page: 875 article-title: deletion within the telomeric region flanking the human α‐globin locus as a cause of α‐thalassaemia publication-title: Br J Haematol – volume: 23 start-page: 1383 year: 2005 end-page: 1390 article-title: Mapping of conserved RNA secondary structures predicts thousands of functional noncoding RNAs in the human genome publication-title: Nat Biotechnol – volume: 579 start-page: 1900 year: 2005 end-page: 1903 article-title: Are splicing mutations the most frequent cause of hereditary disease? publication-title: FEBS Lett – volume: 64 start-page: 7 year: 1985 end-page: 19 article-title: The role of compensatory neutral mutations in molecular evolution publication-title: J Genet – volume: 316 start-page: 445 year: 2007 end-page: 449 article-title: Strong association of copy number mutations with autism publication-title: Science – volume: 83 start-page: 663 year: 2008b end-page: 674 article-title: Genome‐wide copy‐number‐variation study identified a susceptibility gene, , for osteoporosis publication-title: Am J Hum Genet – volume: 123 start-page: 7 year: 2008 end-page: 16 article-title: CNVs and genetic medicine (excitement and consequences of a rediscovery) publication-title: Cytogenet Genome Res – volume: 40 start-page: 897 year: 2008b end-page: 903 article-title: Combinatorial patterns of histone acetylations and methylations in the human genome publication-title: Nat Genet – volume: 396 start-page: 19 year: 2010 end-page: 30 article-title: Compensated pathogenic deviations: analysis of structural effects publication-title: J Mol Biol – volume: 39 start-page: 954 year: 2007 end-page: 956 article-title: A common genetic risk factor for colorectal and prostate cancer publication-title: Nat Genet – volume: 383 start-page: 281 year: 2008 end-page: 291 article-title: Synonymous mutations and ribosome stalling can lead to altered folding pathways and distinct minima publication-title: J Mol Biol – volume: 22 start-page: 581 year: 2006 end-page: 585 article-title: Epistatic interactions: how strong in disease and evolution? publication-title: Trends Genet – volume: 296 start-page: 916 year: 2002 end-page: 919 article-title: Large‐scale transcriptional activity in chromosomes 21 and 22 publication-title: Science – volume: 8 start-page: 3925 year: 2009 end-page: 3942 article-title: Identification of intergenic trans‐regulatory RNAs containing a disease‐linked SNP sequence and targeting cell cycle progression/differentiation pathways in multiple common human disorders publication-title: Cell Cycle – volume: 389 start-page: 196 year: 2007 end-page: 203 article-title: Frequent emergence and functional resurrection of processed pseudogenes in the human and mouse genomes publication-title: Gene – volume: 41 start-page: 885 year: 2009 end-page: 890 article-title: The common colorectal cancer predisposition SNP rs6983267 at chromosome 8q24 confers potential to enhanced Wnt signaling publication-title: Nat Genet – volume: 10 start-page: 2319 year: 2001 end-page: 2328 article-title: Understanding human disease mutations through the use of interspecific genetic variation publication-title: Hum Mol Genet – volume: 30 start-page: 1435 year: 2009b end-page: 1448 article-title: Closely spaced multiple mutations as potential signatures of transient hypermutability in human genes publication-title: Hum Mutat – volume: 31 start-page: 437 year: 2010 end-page: 444 article-title: The deep intronic c.903+469T>C mutation in the gene creates an SF2/ASF binding exonic splicing enhancer, which leads to pseudoexon activation and causes the cblE type of homocystinuria publication-title: Hum Mutat – volume: 40 start-page: 719 year: 2008 end-page: 721 article-title: Prader‐Willi phenotype caused by paternal deficiency for the HBII‐85 C/D box small nucleolar RNA cluster publication-title: Nat Genet – volume: 38 start-page: 223 year: 2006 end-page: 227 article-title: Conserved noncoding sequences are selectively constrained and not mutation cold spots publication-title: Nat Genet – volume: 99 start-page: 7548 year: 2002 end-page: 7553 article-title: Disruption of a long‐range ‐acting regulator for Shh causes preaxial polydactyly publication-title: Proc Natl Acad Sci USA – volume: 20 start-page: 311 year: 2010 end-page: 319 article-title: Human genetic variation recognizes functional elements in non‐coding sequence publication-title: Genome Res – volume: 17 start-page: 669 year: 2007 end-page: 681 article-title: What is a gene, post‐ENCODE? History and updated definition publication-title: Genome Res – volume: 451 start-page: 994 year: 2008 end-page: 997 article-title: Proportionally more deleterious genetic variation in European than in African populations publication-title: Nature – volume: 84 start-page: 603 year: 2009 end-page: 606 article-title: Sickle cell disease caused by heterozygosity for Hb S and novel LCR deletion: Report of two patients publication-title: Am J Hematol – volume: 15 start-page: 137 year: 2005 end-page: 145 article-title: Evolution and functional classification of vertebrate gene deserts publication-title: Genome Res – volume: 1638 start-page: 208 year: 2003 end-page: 216 article-title: Inhibition of human m‐epoxide hydrolase gene expression in a case of hypercholanemia publication-title: Biochim Biophys Acta – volume: 2009 start-page: 131 year: 2009 end-page: 144 article-title: Similarly strong purifying selection acts on human disease genes of all evolutionary ages publication-title: Genome Biol Evol – volume: 9 start-page: 1861 year: 2008 end-page: 1868 article-title: Germline epimutation in humans publication-title: Pharmacogenomics – year: 2010 article-title: A novel DFNB1 deletion allele supports the existence of a distant ‐regulatory region that controls and expression publication-title: Clin Genet – volume: 10 start-page: 155 year: 2009 end-page: 159 article-title: Long non‐coding RNAs: insights into functions publication-title: Nat Rev Genet – volume: 24 start-page: 537 year: 2006 end-page: 544 article-title: Gene prioritization through genomic data fusion publication-title: Nat Biotechnol – volume: 40 start-page: 225 year: 2008 end-page: 231 article-title: Genome‐wide analysis of transcript isoform variation in humans publication-title: Nat Genet – volume: 8 start-page: 317 year: 2009 end-page: 332 article-title: Cis‐ruption mechanisms: disruption of cis‐regulatory control as a cause of human genetic disease publication-title: Brief Funct Genomic Proteomic – volume: 17 start-page: R135 issue: R2 year: 2008 end-page: 142 article-title: Extending genome‐wide association studies to copy‐number variation publication-title: Hum Mol Genet – volume: 76 start-page: 340 year: 2002 end-page: 343 article-title: The bicistronic gene has alternative start codons on two mutually exclusive exons publication-title: Mol Genet Metab – volume: 104 start-page: 19428 year: 2010 end-page: 19433 article-title: Distinguishing protein‐coding and noncoding genes in the human genome publication-title: Proc Natl Acad Sci USA – volume: 409 start-page: 853 year: 2001 end-page: 855 article-title: Human disease genes publication-title: Nature – volume: 105 start-page: 20870 year: 2008 end-page: 20875 article-title: A large‐scale analysis of tissue‐specific pathology and gene expression of human disease genes and complexes publication-title: Proc Natl Acad Sci USA – volume: 19 start-page: 1553 year: 2009 end-page: 1561 article-title: Identification of deleterious mutations within three human genomes publication-title: Genome Res – volume: 7 start-page: 31 year: 2006 article-title: Further understanding human disease genes by comparing with housekeeping genes and other genes publication-title: BMC Genomics – volume: 29 start-page: 1710 year: 2008 end-page: 1716 article-title: Genetic variations of microRNAs in human cancer and their effects on the expression of miRNAs publication-title: Carcinogenesis – volume: 24 start-page: 400 year: 2004 end-page: 407 article-title: Germline mutations of the gene in Wilms tumors with loss of heterozygosity on chromosome 7p14 publication-title: Hum Mutat – volume: 9 start-page: 292 year: 2008 article-title: Relative effects of mutability and selection on single nucleotide polymorphisms in transcribed regions of the human genome publication-title: BMC Genomics – volume: 104 start-page: 5495 year: 2007 end-page: 5500 article-title: The implications of alternative splicing in the ENCODE protein complement publication-title: Proc Natl Acad.Sci USA – volume: 32 start-page: 3108 year: 2004 end-page: 3114 article-title: Genome‐wide identification of genes likely to be involved in human genetic disease publication-title: Nucleic Acids Res – volume: 76 start-page: 2886 year: 1979 end-page: 2889 article-title: β thalassemia, a nonsense mutation in man publication-title: Proc Natl Acad Sci USA – volume: 17 start-page: 2417 year: 2008 end-page: 2423 article-title: A variant in the sonic hedgehog regulatory sequence (ZRS) is associated with triphalangeal thumb and deregulates expression in the developing limb publication-title: Hum Mol Genet – volume: 38 start-page: 626 year: 2006 end-page: 635 article-title: Genome‐wide analysis of mammalian promoter architecture and evolution publication-title: Nat Genet – volume: 144B start-page: 475 year: 2007 end-page: 483 article-title: coding sequence and 3′UTR variation in 172 unrelated autistic patients publication-title: Am J Med Genet B Neuropsychiatr Genet – volume: 76 start-page: 652 year: 2005 end-page: 662 article-title: Position effects due to chromosome breakpoints that map approximately 900 Kb upstream and approximately 1.3 Mb downstream of in two patients with campomelic dysplasia publication-title: Am J Hum Genet – volume: 31 start-page: 81 year: 2010 end-page: 89 article-title: A specific mutation in the distant sonic hedgehog ( ) cis‐regulator (ZRS) causes Werner mesomelic syndrome (WMS) while complete ZRS duplications underlie Haas type polysyndactyly and preaxial polydactyly (PPD) with or without triphalangeal thumb publication-title: Hum Mutat – volume: 453 start-page: 56 year: 2008 end-page: 64 article-title: Mapping and sequencing of structural variation from eight human genomes publication-title: Nature – volume: 17 start-page: 1615 year: 2009 end-page: 1624 article-title: Comprehensive expression analysis of FSHD candidate genes at the mRNA and protein level publication-title: Eur J Hum Genet – volume: 89 start-page: 1 year: 2009 end-page: 26 article-title: Interpreting neonatal lethal phenotypes in mouse mutants: insights into gene function and human diseases publication-title: Physiol Rev – volume: 324 start-page: 217 year: 2009 article-title: Exomic sequencing identifies as a pancreatic cancer susceptibility gene publication-title: Science – volume: 25 start-page: 298 year: 2009 end-page: 307 article-title: Complex human chromosomal and genomic rearrangements publication-title: Trends Genet – volume: 316 start-page: 222 year: 2007 end-page: 234 article-title: Evolutionary and biomedical insights from the rhesus macaque genome publication-title: Science – volume: 67 start-page: 567 year: 2003 end-page: 579 article-title: Quantifying the intragenic distribution of human disease mutations publication-title: Ann Hum Genet – volume: 9 start-page: R168 year: 2008 article-title: Assaying the regulatory potential of mammalian conserved non‐coding sequences in human cells publication-title: Genome Biol – volume: 9 start-page: 128 year: 2008 article-title: Using quality scores and longer reads improves accuracy of Solexa read mapping publication-title: BMC Bioinformatics – volume: 30 start-page: 1340 year: 2009 end-page: 1347 article-title: A single‐base substitution within an intronic repetitive element causes dominant retinitis pigmentosa with reduced penetrance publication-title: Hum Mutat – volume: 25 start-page: 2744 year: 2009a end-page: 2750 article-title: Automated inference of molecular mechanisms of disease from amino acid substitutions publication-title: Bioinformatics – volume: 4 start-page: e1000214 year: 2008 article-title: High‐resolution mapping of expression‐QTLs yields insight into human gene regulation publication-title: PLoS Genet – volume: 23 start-page: 269 year: 2005 end-page: 271 article-title: Clues to function in gene deserts publication-title: Trends Biotechnol – volume: 3 start-page: 301 year: 2009 end-page: 303 article-title: Collection of variation causing disease—the Human Variome Project publication-title: Hum Genomics – volume: 409 start-page: 860 year: 2001 end-page: 921 article-title: Initial sequencing and analysis of the human genome publication-title: Nature – volume: 17 start-page: 448 year: 2006 end-page: 456 article-title: Essential genes on metabolic maps publication-title: Curr Opin Biotechnol – volume: 27 start-page: 177 year: 2010 end-page: 192 article-title: Distributions of selectively constrained sites and deleterious mutation rates in the hominid and murid genomes publication-title: Mol Biol Evol – volume: 462 start-page: 315 year: 2009 end-page: 322 article-title: Human DNA methylomes at base resolution show widespread epigenomic differences publication-title: Nature – volume: 7 start-page: 306 year: 2006 article-title: Evolutionary anatomies of positions and types of disease‐associated and neutral amino acid mutations in the human genome publication-title: BMC Genomics – volume: 316 start-page: 1484 year: 2007b end-page: 1488 article-title: RNA maps reveal new RNA classes and a possible function for pervasive transcription publication-title: Science – volume: 143 start-page: 27 year: 2007 end-page: 32 article-title: Two novel point mutations in the long‐range enhancer in three families with triphalangeal thumb and preaxial polydactyly publication-title: Am J Med Genet A – volume: 17 start-page: 839 year: 2007 end-page: 851 article-title: Pseudogenes in the ENCODE regions: consensus annotation, analysis of transcription, and evolution publication-title: Genome Res – volume: 41 start-page: 359 year: 2009 end-page: 364 article-title: Highly conserved non‐coding elements on either side of associated with Pierre Robin sequence publication-title: Nat Genet – volume: 93 start-page: 291 year: 2009 end-page: 298 article-title: Long intronic noncoding RNA transcription: expression noise or expression choice? publication-title: Genomics – volume: 365 start-page: 249 year: 2007 end-page: 256 article-title: Characterization of compensated mutations in terms of structural and physico‐chemical properties publication-title: J Mol Biol – volume: 320 start-page: 539 year: 2008 end-page: 543 article-title: Rare structural variants disrupt multiple genes in neurodevelopmental pathways in schizophrenia publication-title: Science – volume: 106 start-page: 3871 year: 2009 end-page: 3876 article-title: Power of deep, all‐exon resequencing for discovery of human trait genes publication-title: Proc Natl Acad Sci USA – volume: 318 start-page: 169 year: 2003 end-page: 175 article-title: Human disease genes: patterns and predictions publication-title: Gene – volume: 3 start-page: 279 year: 1994 end-page: 283 article-title: Activation of the gamma E‐crystallin pseudogene in the human hereditary Coppock‐like cataract publication-title: Hum Mol Genet – volume: 4 start-page: e1000083 year: 2008 article-title: Assessing the evolutionary impact of amino acid mutations in the human genome publication-title: PLoS Genet – volume: 5 start-page: 1229 year: 1996 end-page: 1235 article-title: Identification of a hot spot for microdeletions in patients with X‐linked deafness type 3 (DFN3) 900 kb proximal to the DFN3 gene publication-title: Hum Mol Genet – volume: 355 start-page: 312 year: 2007 end-page: 317 article-title: A single C to T transition in intron 5 of gene is associated with triphalangeal thumb‐polysyndactyly syndrome in a Chinese family publication-title: Biochem Biophys Res Commun – volume: 15 start-page: R170 year: 2006 end-page: R175 article-title: Signatures of adaptive evolution within human non‐coding sequence publication-title: Hum Mol Genet – volume: 15 start-page: 1373 year: 2005 end-page: 1378 article-title: Evolutionary constraints in conserved nongenic sequences of mammals publication-title: Genome Res – volume: 460 start-page: 1011 year: 2009 end-page: 1015 article-title: A highly annotated whole‐genome sequence of a Korean individual publication-title: Nature – volume: 463 start-page: 757 year: 2010 end-page: 762 article-title: Ancient human genome sequence of an extinct Palaeo‐Eskimo publication-title: Nature – volume: 19 start-page: 541 year: 2009 end-page: 549 article-title: Finding distal regulatory elements in the human genome publication-title: Curr Opin Genet Dev – volume: 19 start-page: 381 year: 2009 end-page: 394 article-title: Splicing factor SFRS1 recognizes a functionally diverse landscape of RNA transcripts publication-title: Genome Res – volume: 13 start-page: 1926 year: 2008 end-page: 1942 article-title: Splicing fidelity, enhancers, and disease publication-title: Front Biosci – volume: 76 start-page: 221 year: 1990 end-page: 227 article-title: α‐Thalassemia caused by a large (62 kb) deletion upstream of the human α‐globin gene cluster publication-title: Blood – volume: 110 start-page: 247 year: 2002 end-page: 257 article-title: Functional redundancy of Rab27 proteins and the pathogenesis of Griscelli syndrome publication-title: J Clin Invest – volume: 312 start-page: 1215 year: 2006 end-page: 1217 article-title: A regulatory SNP causes a human genetic disease by creating a new transcriptional promoter publication-title: Science – volume: 19 start-page: 1527 year: 2009 end-page: 1541 article-title: Sequence and structural variation in a human genome uncovered by short‐read, massively parallel ligation sequencing using two‐base encoding publication-title: Genome Res – volume: 29 start-page: 1671 year: 2009 end-page: 1677 article-title: Functional analysis of the chromosome 9p21.3 coronary artery disease risk locus publication-title: Arterioscler Thromb Vasc Biol – volume: 19 start-page: 1316 year: 2009 end-page: 1323 article-title: The consensus coding sequence (CCDS) project: identifying a common protein‐coding gene set for the human and mouse genomes publication-title: Genome Res – volume: 41 start-page: 228 year: 2009 end-page: 233 article-title: Loss‐of‐function mutations of an inhibitory upstream ORF in the human hairless transcript cause Marie Unna hereditary hypotrichosis publication-title: Nat Genet – volume: 7 start-page: 59 year: 2006 end-page: 66 article-title: Mutations and novel polymorphisms in coding regions and UTRs of and genes in patients with non‐syndromic mental retardation publication-title: Neurogenetics – volume: 10 start-page: 637 year: 2009 end-page: 643 article-title: Regulatory roles of natural antisense transcripts publication-title: Nat Rev Mol Cell Biol – volume: 78 start-page: 1589 year: 1991 end-page: 1595 article-title: α‐Thalassemia resulting from deletion of regulatory sequences far upstream of the alpha‐globin structural genes publication-title: Blood – volume: 9 start-page: S3 issue: Suppl 2 year: 2008 article-title: Diversity of core promoter elements comprising human bidirectional promoters publication-title: BMC Genomics – volume: 291 start-page: 1304 year: 2001 end-page: 1351 article-title: The sequence of the human genome publication-title: Science – start-page: 325 year: 1990 end-page: 343 – volume: 7 start-page: 61 year: 2006 end-page: 80 article-title: Predicting the effects of amino acid substitutions on protein function publication-title: Annu Rev Genomics Hum Genet – volume: 33 start-page: 139 year: 2008 end-page: 147 article-title: MicroRNomics: a newly emerging approach for disease biology publication-title: Physiol. Genomics – volume: 15 start-page: 1640 year: 2009 end-page: 1651 article-title: SNPs in human miRNA genes affect biogenesis and function publication-title: RNA – volume: 106 start-page: 7507 year: 2009 end-page: 7512 article-title: Upstream open reading frames cause widespread reduction of protein expression and are polymorphic among humans publication-title: Proc Natl Acad Sci USA – volume: 104 start-page: 18157 year: 2007 end-page: 18162 article-title: , a candidate gene of facioscapulohumeral muscular dystrophy, encodes a transcriptional activator of PITX1 publication-title: Proc Natl Acad Sci USA – volume: 77 start-page: 201 year: 2010 end-page: 213 article-title: Gene copy number variation and common human disease publication-title: Clin Genet – volume: 578 start-page: 23 year: 2009 end-page: 39 article-title: Silent (synonymous) SNPs: should we care about them? publication-title: Methods Mol Biol – volume: 358 start-page: 1390 year: 2006 end-page: 1404 article-title: Selective pressures at a codon‐level predict deleterious mutations in human disease genes publication-title: J Mol Biol – volume: 30 start-page: 79 year: 2009 end-page: 84 article-title: Common genetic variants in pre‐microRNAs were associated with increased risk of breast cancer in Chinese women publication-title: Hum Mutat – volume: 461 start-page: 272 year: 2009 end-page: 276 article-title: Targeted capture and massively parallel sequencing of 12 human exomes publication-title: Nature – volume: 324 start-page: 389 year: 2009 end-page: 392 article-title: Local DNA topography correlates with functional noncoding regions of the human genome publication-title: Science – volume: 447 start-page: 799 year: 2007 end-page: 816 article-title: Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project publication-title: Nature – volume: 10 start-page: 241 year: 2009 end-page: 251 article-title: Human genetic variation and its contribution to complex traits publication-title: Nat Rev Genet – volume: 14 start-page: 3945 year: 2005 end-page: 3953 article-title: T‐13910 DNA variant associated with lactase persistence interacts with Oct‐1 and stimulates lactase promoter activity in vitro publication-title: Hum Mol Genet – volume: 17 start-page: 682 year: 2007 end-page: 690 article-title: Origin of phenotypes: genes and transcripts publication-title: Genome Res – volume: 31 start-page: 421 year: 2010 end-page: 428 article-title: Complete ascertainment of intragenic copy number mutations (CNMs) in the gene and its implications for CNM formation at other autosomal loci publication-title: Hum Mutat – volume: 25 start-page: 120 year: 2009 end-page: 128 article-title: The RNA infrastructure: dark matter of the eukaryotic cell? publication-title: Trends Genet – volume: 369 start-page: 943 year: 2008 end-page: 947 article-title: A functional polymorphism of the TNF‐α gene that is associated with type 2 DM publication-title: Biochem Biophys Res Commun – volume: 49 start-page: 99 year: 2010 end-page: 106 article-title: Genome‐wide scan identifies a copy number variable region at 3q26 that regulates in mutation‐negative familial colorectal cancer patients publication-title: Genes Chrom Cancer – volume: 86 start-page: 196 year: 2010 end-page: 212 article-title: Allelic skewing of DNA methylation is widespread across the genome publication-title: Am J Hum Genet – volume: 46 start-page: 793 year: 2009 end-page: 802 article-title: Constitutional (germline) epimutation as an aetiological mechanism for hereditary non‐polyposis colorectal cancer publication-title: J Med Genet – volume: 18 start-page: 2414 year: 2009 end-page: 2430 article-title: RNA transcripts, miRNA‐sized fragments and proteins produced from D4Z4 units: new candidates for the pathophysiology of facioscapulohumeral dystrophy publication-title: Hum Mol Genet – volume: 31 start-page: E1261 year: 2010 end-page: E1285 article-title: Enigmatic in vivo iduronate‐2‐sulfatase ( ) mutant transcript correction to wild‐type in Hunter syndrome publication-title: Hum Mutat – volume: 4 start-page: e1000160 year: 2008 article-title: Genetic variation in an individual human exome publication-title: PLoS Genet – volume: 114 start-page: 68 year: 2003 end-page: 76 article-title: Increased risk for developmental delay in Saethre‐Chotzen syndrome is associated with deletions: an improved strategy for mutation screening publication-title: Hum Genet – volume: 282 start-page: 24262 year: 2007 end-page: 24269 article-title: The human angiotensin II type 1 receptor +1166 A/C polymorphism attenuates microrna‐155 binding publication-title: J Biol Chem – volume: 82 start-page: 971 year: 2008 end-page: 981 article-title: Mapping of small RNAs in the human ENCODE regions publication-title: Am J Hum Genet – volume: 61 start-page: 437 year: 2010 end-page: 455 article-title: Structural variation in the human genome and its role in disease publication-title: Annu Rev Med – volume: 22 start-page: 692 year: 2006 end-page: 698 article-title: Bioinformatic analysis of exon repetition, exon scrambling and trans‐splicing in humans publication-title: Bioinformatics – volume: 99 start-page: 14878 year: 2002 end-page: 14883 article-title: Dobzhansky‐Muller incompatibilities in protein evolution publication-title: Proc Natl Acad Sci USA – volume: 38 start-page: 133 year: 1996 end-page: 140 article-title: cDNA cloning and chromosomal localization of the genes encoding the alpha‐ and beta‐subunits of human Rab geranylgeranyl transferase: the 3′ end of the alpha‐subunit gene overlaps with the transglutaminase 1 gene promoter publication-title: Genomics – volume: 5 start-page: R47 year: 2004 article-title: Evolutionary conservation and selection of human disease gene orthologs in the rat and mouse genomes publication-title: Genome Biol – volume: 122 start-page: 1119 year: 2008 end-page: 1126 article-title: A common intronic variant of is functionally associated with gene expression levels and the polymorphic immune cell responses to stimuli publication-title: J Allergy Clin Immunol – volume: 22 start-page: 269 year: 2006 end-page: 277 article-title: Highly consistent patterns for inherited human diseases at the molecular level publication-title: Bioinformatics – volume: 14 start-page: 203 year: 1996 end-page: 205 article-title: Reduced bone density and osteoporosis associated with a polymorphic Sp1 binding site in the collagen type I alpha 1 gene publication-title: Nat Genet – volume: 7 start-page: 165 year: 2006 article-title: Differences in the evolutionary history of disease genes affected by dominant or recessive mutations publication-title: BMC Genomics – volume: 123 start-page: 297 year: 2008 end-page: 306 article-title: Copy number variation in the mouse genome: implications for the mouse as a model organism for human disease publication-title: Cytogenet Genome Res – volume: 314 start-page: 786 year: 2006 article-title: Accelerated evolution of conserved noncoding sequences in humans publication-title: Science – volume: 19 start-page: 1516 year: 2009 end-page: 1526 article-title: Mobile elements create structural variation: analysis of a complete human genome publication-title: Genome Res – start-page: 101 year: 2007 end-page: 128 – volume: 95 start-page: 46 year: 2008 end-page: 51 article-title: Study of deep intronic sequence exonization in a Japanese neonate with a mitochondrial trifunctional protein deficiency publication-title: Mol Genet Metab – volume: 4 start-page: e1000014 year: 2008 article-title: Role of duplicate genes in robustness against deleterious human mutations publication-title: PLoS Genet – volume: 464 start-page: 704 year: 2010 end-page: 712 article-title: Origins and functional impact of copy number variation in the human genome publication-title: Nature – volume: 8 start-page: 117 year: 1994 end-page: 121 article-title: The costs of human inbreeding and their implications for variations at the DNA level publication-title: Nat Genet – volume: 458 start-page: 223 year: 2009 end-page: 227 article-title: Chromatin signature reveals over a thousand highly conserved large non‐coding RNAs in mammals publication-title: Nature – volume: 8 start-page: R118 year: 2007 article-title: Fast‐evolving noncoding sequences in the human genome publication-title: Genome Biol – volume: 86 start-page: 7470 year: 1989 end-page: 7474 article-title: γδβ‐thalassemia due to a mutation deleting the 5′ β‐globin gene activation‐region hypersensitive sites publication-title: Proc Natl Acad Sci USA – volume: 42 start-page: 922 year: 2005 end-page: 931 article-title: Nine unknown rearrangements in 16p13.3 and 11p15.4 causing α‐ and β‐thalassaemia characterised by high resolution multiplex ligation‐dependent probe amplification publication-title: J Med Genet – volume: 353 start-page: 1793 year: 2005 end-page: 1801 article-title: A microRNA signature associated with prognosis and progression in chronic lymphocytic leukemia publication-title: N Engl J Med – volume: 2 start-page: e46 year: 2006 article-title: Genome‐wide survey for biologically functional pseudogenes publication-title: PLoS Comput. Biol – volume: 105 start-page: 4323 year: 2008 end-page: 4328 article-title: Network properties of genes harboring inherited disease mutations publication-title: Proc Natl Acad Sci USA – volume: 18 start-page: 2204 year: 2009 end-page: 2214 article-title: Large‐scale analysis of exonized mammalian‐wide interspersed repeats in primate genomes publication-title: Hum Mol Genet – volume: 362 start-page: 1181 year: 2010 end-page: 1191 article-title: Whole‐genome sequencing in a patient with Charcot‐Marie‐Tooth neuropathy publication-title: New Engl J Med – volume: 461 start-page: 814 year: 2009 end-page: 818 article-title: Direct RNA sequencing publication-title: Nature – volume: 105 start-page: 6987 year: 2008 end-page: 6992 article-title: Null mutations in human and mouse orthologs frequently result in different phenotypes publication-title: Proc Natl Acad Sci USA – volume: 84 start-page: 780 year: 2009 end-page: 791 article-title: Genomic and genic deletions of the FOX gene cluster on 16q24.1 and inactivating mutations of cause alveolar capillary dysplasia and other malformations publication-title: Am J Hum Genet – volume: 176 start-page: 1323 year: 2007 end-page: 1337 article-title: Origin and evolution of human microRNAs from transposable elements publication-title: Genetics – volume: 4 start-page: 471 year: 2006 end-page: 472 article-title: An intronic mutation within (IVS1+2076 a→g) is associated with afibrinogenemia and recurrent transient ischemic attacks publication-title: J Thromb Haemost – volume: 92 start-page: 414 year: 2008 end-page: 418 article-title: Analysis of human disease genes in the context of gene essentiality publication-title: Genomics – volume: 309 start-page: 1564 year: 2005 end-page: 1566 article-title: Antisense transcription in the mammalian transcriptome publication-title: Science – volume: 461 start-page: 199 year: 2009 end-page: 205 article-title: Genomic views of distant‐acting enhancers publication-title: Nature – volume: 17 start-page: 3539 year: 2008 end-page: 3551 article-title: A position effect on is associated with Ambras syndrome in humans and the Koala phenotype in mice publication-title: Hum Mol Genet – volume: 4 start-page: e5237 year: 2009 article-title: Low enzymatic activity haplotypes of the human catechol‐O‐methyltransferase gene: enrichment for marker SNPs publication-title: PLoS One – volume: 21 start-page: 596 year: 2005 end-page: 601 article-title: An evolutionary framework for common diseases: the ancestral‐susceptibility model publication-title: Trends Genet – volume: 459 start-page: 569 year: 2009 end-page: 573 article-title: Autism genome‐wide copy number variation reveals ubiquitin and neuronal genes publication-title: Nature – volume: 19 start-page: 1562 year: 2009 end-page: 1569 article-title: Positional conservation and amino acids shape the correct diagnosis and population frequencies of benign and damaging personal amino acid mutations publication-title: Genome Res – volume: 4 start-page: e22 year: 2008 article-title: Exploration of small RNAs publication-title: PLoS Genet – volume: 322 start-page: 1851 year: 2008 end-page: 1854 article-title: RNA exosome depletion reveals transcription upstream of active human promoters publication-title: Science – volume: 86 start-page: 414 year: 2005 end-page: 422 article-title: Nested genes in the human genome publication-title: Genomics – volume: 10 start-page: 2679 year: 2001 end-page: 2686 article-title: A deep intronic mutation in is associated with disease in a subset of melanoma pedigrees publication-title: Hum Mol Genet – volume: 17 start-page: 556 year: 2007 end-page: 565 article-title: Functionality or transcriptional noise? Evidence for selection within long noncoding RNAs publication-title: Genome Res – volume: 38 start-page: 1163 year: 2010 end-page: 1171 article-title: Discovery of short pseudogenes derived from messenger RNAs publication-title: Nucleic Acids Res – volume: 8 start-page: e1000294 year: 2010 article-title: Rare variants create synthetic genome‐wide associations publication-title: PLoS Biol – volume: 16 start-page: 30 year: 2006 end-page: 36 article-title: Transcription‐mediated gene fusion in the human genome publication-title: Genome Res – volume: 327 start-page: 996 year: 2010 end-page: 1000 article-title: Regulation of alternative splicing by histone modifications publication-title: Science – volume: 106 start-page: 841 year: 2009 end-page: 846 article-title: Quantifying dominance and deleterious effect on human disease genes publication-title: Proc Natl Acad Sci USA – volume: 170 start-page: 1323 year: 2005 end-page: 1332 article-title: The coupon collector and the suppressor mutation: estimating the number of compensatory mutations by maximum likelihood publication-title: Genetics – volume: 39 start-page: 1217 year: 2007 end-page: 1224 article-title: Population genomics of human gene expression publication-title: Nat Genet – volume: 12 start-page: e8 year: 2010 article-title: The clinical context of copy number variation in the human genome publication-title: Expert Rev Mol Med – volume: 17 start-page: 287 year: 2007 end-page: 292 article-title: Large‐scale identification of novel transcripts in the human genome publication-title: Genome Res – volume: 16 start-page: 864 year: 2006 end-page: 874 article-title: Functional noncoding sequences derived from SINEs in the mammalian genome publication-title: Genome Res – volume: 457 start-page: 1028 year: 2009 end-page: 1032 article-title: Post‐transcriptional processing generates a diversity of 5′‐modified long and short RNAs publication-title: Nature – volume: 97 start-page: 13755 year: 2000 end-page: 13759 article-title: 3′ deletions cause aniridia by preventing gene expression publication-title: Proc Natl Acad Sci USA – volume: 444 start-page: 444 year: 2006 end-page: 454 article-title: Global variation in copy number in the human genome publication-title: Nature – volume: 104 start-page: 8685 year: 2007 end-page: 8690 article-title: The human disease network publication-title: Proc Natl Acad Sci USA – volume: 5 start-page: e1000522 year: 2009 article-title: Disease‐causing 7.4 kb ‐regulatory deletion disrupting conserved non‐coding sequences and their interaction with the promotor: implications for mutation screening publication-title: PLoS Genet – volume: 67 start-page: 705 year: 2008 end-page: 709 article-title: Predicting the proportion of essential genes in mouse duplicates based on biased mouse knockout genes publication-title: J Mol Evol – volume: 15 start-page: R9 year: 2006 end-page: R16 article-title: Influence of human genome polymorphism on gene expression publication-title: Hum Mol Genet – volume: 325 start-page: 1246 year: 2009 end-page: 1250 article-title: Common regulatory variation impacts gene expression in a cell type‐dependent manner publication-title: Science – volume: 10 start-page: S4 issue: Suppl 1 year: 2009a article-title: Genome‐wide prediction of ‐acting RNA elements regulating tissue‐specific pre‐mRNA alternative splicing publication-title: BMC Genomics – volume: 19 start-page: 1254 year: 2009 end-page: 1261 article-title: Overlapping pools for high‐throughput targeted resequencing publication-title: Genome Res – volume: 40 start-page: 1341 year: 2008 end-page: 1347 article-title: Disruption of an AP‐2α binding site in an enhancer is associated with cleft lip publication-title: Nat Genet – volume: 17 start-page: 746 year: 2007 end-page: 759 article-title: Prominent use of distal 5′ transcription start sites and discovery of a large number of additional exons in ENCODE regions publication-title: Genome Res – volume: 118 start-page: 2600 year: 2008 end-page: 2608 article-title: Genetic variants of miRNA sequences and non‐small cell lung cancer survival publication-title: J Clin Invest – volume: 104 start-page: 8005 year: 2007 end-page: 8010 article-title: Thousands of human mobile element fragments undergo strong purifying selection near developmental genes publication-title: Proc Natl Acad Sci USA – volume: 41 start-page: 1061 year: 2009 end-page: 1067 article-title: Personalized copy number and segmental duplication maps using next‐generation sequencing publication-title: Nat Genet – volume: 42 start-page: 30 year: 2010 end-page: 35 article-title: Exome sequencing identifies the cause of a mendelian disorder publication-title: Nat Genet – volume: 25 start-page: 2699 year: 2008 end-page: 2707 article-title: An ancient evolutionary origin of genes associated with human genetic diseases publication-title: Mol Biol Evol – volume: 315 start-page: 771 year: 2002 end-page: 786 article-title: Characterization of disease‐associated single amino acid polymorphisms in terms of sequence and structure properties publication-title: J Mol Biol – volume: 29 start-page: E173 year: 2008 end-page: E193 article-title: Nature and mRNA effect of 282 different point mutations: focus on splicing alterations publication-title: Hum Mutat – volume: 10 start-page: 57 year: 2009b end-page: 63 article-title: RNA‐Seq: a revolutionary tool for transcriptomics publication-title: Nat Rev Genet – volume: 119 start-page: 3666 year: 2009d end-page: 3677 article-title: A novel microRNA targeting regulates osteoblast differentiation in mice and contributes to primary osteoporosis in humans publication-title: J Clin Invest – volume: 10 start-page: 237 year: 2009a article-title: The promise and reality of personal genomics publication-title: Genome Biol – volume: 17 start-page: 502 year: 2001 end-page: 510 article-title: On the allelic spectrum of human disease publication-title: Trends Genet – volume: 23 start-page: 219 year: 2007 end-page: 224 article-title: The ambiguous boundary between genes and pseudogenes: the dead rise up, or do they? publication-title: Trends Genet – volume: 365 start-page: 104 year: 2006 end-page: 110 article-title: Transposable elements as a significant source of transcription regulating signals publication-title: Gene – volume: 104 start-page: 12410 year: 2007 end-page: 12415 article-title: Widely distributed noncoding purifying selection in the human genome publication-title: Proc Natl Acad Sci USA – volume: 41 start-page: 882 year: 2009 end-page: 884 article-title: The 8q24 cancer risk variant rs6983267 shows long‐range interaction with in colorectal cancer publication-title: Nat Genet – volume: 19 start-page: 2015 year: 2010 end-page: 2027 article-title: A mutation in the 3′‐UTR of the gene abolishing the post‐transcriptional regulation mediated by hsa‐miR‐433 is linked to a new form of dominant X‐linked chondrodysplasia publication-title: Hum Mol Genet – volume: 107 start-page: 899 year: 2001 end-page: 907 article-title: A Sp1 binding site polymorphism predisposes to osteoporotic fracture by affecting bone density and quality publication-title: J Clin Invest – volume: 455 start-page: 232 year: 2008 end-page: 236 article-title: Large recurrent microdeletions associated with schizophrenia publication-title: Nature – volume: 417 start-page: 1 year: 2008 end-page: 4 article-title: What is a gene? An updated operational definition publication-title: Gene – volume: 463 start-page: 666 year: 2010 end-page: 670 article-title: Large, rare chromosomal deletions associated with severe early‐onset obesity publication-title: Nature – volume: 19 start-page: 68 year: 2003 end-page: 72 article-title: Origin of a substantial fraction of human regulatory sequences from transposable elements publication-title: Trends Genet – volume: 149A start-page: 1183 year: 2009 end-page: 1189 article-title: Familial acampomelic form of campomelic dysplasia caused by a 960 kb deletion upstream of publication-title: Am J Med Genet – volume: 41 start-page: 1110 year: 2009 end-page: 1115 article-title: Genetic variant near is associated with type 2 diabetes, insulin resistance and hyperinsulinemia publication-title: Nat Genet – volume: 99 start-page: 7548 year: 2002 ident: 10.1002/humu.21260-BIB173|cit173 article-title: Disruption of a long-range cis-acting regulator for Shh causes preaxial polydactyly publication-title: Proc Natl Acad Sci USA doi: 10.1073/pnas.112212199 – volume: 41 start-page: 1110 year: 2009 ident: 10.1002/humu.21260-BIB269|cit269 article-title: Genetic variant near IRS1 is associated with type 2 diabetes, insulin resistance and hyperinsulinemia publication-title: Nat Genet doi: 10.1038/ng.443 – volume: 17 start-page: 2417 year: 2008 ident: 10.1002/humu.21260-BIB92|cit92 article-title: A variant in the sonic hedgehog regulatory sequence (ZRS) is associated with triphalangeal thumb and deregulates expression in the developing limb publication-title: Hum Mol Genet doi: 10.1093/hmg/ddn141 – volume: 8 start-page: 407 year: 2009 ident: 10.1002/humu.21260-BIB69|cit69 article-title: Pervasive transcription of the eukaryotic genome: functional indices and conceptual implications publication-title: Brief Funct Genomic Proteomic doi: 10.1093/bfgp/elp038 – volume: 39 start-page: 954 year: 2007 ident: 10.1002/humu.21260-BIB114|cit114 article-title: A common genetic risk factor for colorectal and prostate cancer publication-title: Nat Genet doi: 10.1038/ng2098 – volume: 8 start-page: 413 year: 2007a ident: 10.1002/humu.21260-BIB143|cit143 article-title: Genome-wide transcription and the implications for genomic organization publication-title: Nat Rev Genet doi: 10.1038/nrg2083 – volume: 423 start-page: 91 year: 2003 ident: 10.1002/humu.21260-BIB124|cit124 article-title: An expressed pseudogene regulates the messenger-RNA stability of its homologous coding gene publication-title: Nature doi: 10.1038/nature01535 – volume: 17 start-page: 839 year: 2007 ident: 10.1002/humu.21260-BIB358|cit358 article-title: Pseudogenes in the ENCODE regions: consensus annotation, analysis of transcription, and evolution publication-title: Genome Res doi: 10.1101/gr.5586307 – volume: 8 start-page: 317 year: 2009 ident: 10.1002/humu.21260-BIB157|cit157 article-title: Cis-ruption mechanisms: disruption of cis-regulatory control as a cause of human genetic disease publication-title: Brief Funct Genomic Proteomic doi: 10.1093/bfgp/elp022 – volume: 120 start-page: 1 year: 2006a ident: 10.1002/humu.21260-BIB38|cit38 article-title: A systematic analysis of disease-associated variants in the 3′ regulatory regions of human protein-coding genes I: general principles and overview publication-title: Hum Genet doi: 10.1007/s00439-006-0180-7 – volume: 11 start-page: 836 year: 2009 ident: 10.1002/humu.21260-BIB210|cit210 article-title: Genotype to phenotype-discovery and characterization of novel genomic disorders in a “genotype-first” era publication-title: Genet Med doi: 10.1097/GIM.0b013e3181c175d2 – volume: 353 start-page: 1793 year: 2005 ident: 10.1002/humu.21260-BIB28|cit28 article-title: A microRNA signature associated with prognosis and progression in chronic lymphocytic leukemia publication-title: N Engl J Med doi: 10.1056/NEJMoa050995 – volume: 17 start-page: 3539 year: 2008 ident: 10.1002/humu.21260-BIB82|cit82 article-title: A position effect on TRPS1 is associated with Ambras syndrome in humans and the Koala phenotype in mice publication-title: Hum Mol Genet doi: 10.1093/hmg/ddn247 – volume: 17 start-page: 787 year: 2007 ident: 10.1002/humu.21260-BIB357|cit357 article-title: Statistical analysis of the genomic distribution and correlation of regulatory elements in the ENCODE regions publication-title: Genome Res doi: 10.1101/gr.5573107 – volume: 29 start-page: 1671 year: 2009 ident: 10.1002/humu.21260-BIB135|cit135 article-title: Functional analysis of the chromosome 9p21.3 coronary artery disease risk locus publication-title: Arterioscler Thromb Vasc Biol doi: 10.1161/ATVBAHA.109.189522 – volume: 463 start-page: 757 year: 2010 ident: 10.1002/humu.21260-BIB261|cit261 article-title: Ancient human genome sequence of an extinct Palaeo-Eskimo publication-title: Nature doi: 10.1038/nature08835 – volume: 118 start-page: 2600 year: 2008 ident: 10.1002/humu.21260-BIB129|cit129 article-title: Genetic variants of miRNA sequences and non-small cell lung cancer survival publication-title: J Clin Invest – volume: 3 start-page: 285 year: 2002 ident: 10.1002/humu.21260-BIB32|cit32 article-title: Listening to silence and understanding nonsense: exonic mutations that affect splicing publication-title: Nat Rev Genet doi: 10.1038/nrg775 – volume: 453 start-page: 56 year: 2008 ident: 10.1002/humu.21260-BIB152|cit152 article-title: Mapping and sequencing of structural variation from eight human genomes publication-title: Nature doi: 10.1038/nature06862 – volume: 47 start-page: 409 year: 1998 ident: 10.1002/humu.21260-BIB88|cit88 article-title: Construction and analysis of a sequence-ready map in 4q25: Rieger syndrome can be caused by haploinsufficiency of RIEG, but also by chromosome breaks approximately 90 kb upstream of this gene publication-title: Genomics doi: 10.1006/geno.1997.5127 – volume: 104 start-page: 8685 year: 2007 ident: 10.1002/humu.21260-BIB103|cit103 article-title: The human disease network publication-title: Proc Natl Acad Sci USA doi: 10.1073/pnas.0701361104 – volume: 106 start-page: 9362 year: 2009 ident: 10.1002/humu.21260-BIB123|cit123 article-title: Potential etiologic and functional implications of genome-wide association loci for human diseases and traits publication-title: Proc Natl Acad Sci USA doi: 10.1073/pnas.0903103106 – year: 2009 ident: 10.1002/humu.21260-BIB75|cit75 article-title: Rare structural variants found in attention-deficit hyperactivity disorder are preferentially associated with neurodevelopmental genes publication-title: Mol Psychiatry – volume: 46 start-page: 834 year: 2009a ident: 10.1002/humu.21260-BIB37|cit37 article-title: Enhancer deletions of the SHOX gene as a frequent cause of short stature: the essential role of a 250 kb downstream regulatory domain publication-title: J Med Genet doi: 10.1136/jmg.2009.067785 – volume: 104 start-page: 12410 year: 2007 ident: 10.1002/humu.21260-BIB6|cit6 article-title: Widely distributed noncoding purifying selection in the human genome publication-title: Proc Natl Acad Sci USA doi: 10.1073/pnas.0705140104 – volume: 314 start-page: 1930 year: 2006 ident: 10.1002/humu.21260-BIB222|cit222 article-title: Human catechol-O-methyltransferase haplotypes modulate protein expression by altering mRNA secondary structure publication-title: Science doi: 10.1126/science.1131262 – volume: 64 start-page: 7 year: 1985 ident: 10.1002/humu.21260-BIB155|cit155 article-title: The role of compensatory neutral mutations in molecular evolution publication-title: J Genet doi: 10.1007/BF02923549 – volume: 10 start-page: 35 year: 2009 ident: 10.1002/humu.21260-BIB144|cit144 article-title: Next generation tools for the annotation of human SNPs publication-title: Brief Bioinform doi: 10.1093/bib/bbn047 – volume: 1 start-page: 13 year: 2009 ident: 10.1002/humu.21260-BIB295|cit295 article-title: The Human Gene Mutation Database: 2008 update publication-title: Genome Med doi: 10.1186/gm13 – volume: 431 start-page: 931 year: 2004 ident: 10.1002/humu.21260-BIB134|cit134 article-title: Finishing the euchromatic sequence of the human genome publication-title: Nature doi: 10.1038/nature03001 – volume: 86 start-page: 240 year: 2010 ident: 10.1002/humu.21260-BIB227|cit227 article-title: Next-generation sequencing of a 40 Mb linkage interval reveals TSPAN12 mutations in patients with familial exudative vitreoretinopathy publication-title: Am J Hum Genet doi: 10.1016/j.ajhg.2009.12.016 – volume: 9 start-page: 325 year: 2000 ident: 10.1002/humu.21260-BIB309|cit309 article-title: Genetic variability in the regulatory region of presenilin 1 associated with risk for Alzheimer's disease and variable expression publication-title: Hum Mol Genet doi: 10.1093/hmg/9.3.325 – volume: 365 start-page: 249 year: 2007 ident: 10.1002/humu.21260-BIB87|cit87 article-title: Characterization of compensated mutations in terms of structural and physico-chemical properties publication-title: J Mol Biol doi: 10.1016/j.jmb.2006.09.053 – volume: 20 start-page: 842 year: 2009 ident: 10.1002/humu.21260-BIB33|cit33 article-title: Towards a genome-wide reconstruction of cis-regulatory networks in the human genome publication-title: Semin Cell Dev Biol doi: 10.1016/j.semcdb.2009.06.005 – volume: 19 start-page: 2015 year: 2010 ident: 10.1002/humu.21260-BIB285|cit285 article-title: A mutation in the 3′-UTR of the HDAC6 gene abolishing the post-transcriptional regulation mediated by hsa-miR-433 is linked to a new form of dominant X-linked chondrodysplasia publication-title: Hum Mol Genet doi: 10.1093/hmg/ddq083 – volume: 324 start-page: 217 year: 2009 ident: 10.1002/humu.21260-BIB138|cit138 article-title: Exomic sequencing identifies PALB2 as a pancreatic cancer susceptibility gene publication-title: Science doi: 10.1126/science.1171202 – volume: 33 start-page: 139 year: 2008 ident: 10.1002/humu.21260-BIB354|cit354 article-title: MicroRNomics: a newly emerging approach for disease biology publication-title: Physiol. Genomics doi: 10.1152/physiolgenomics.00034.2008 – volume: 15 start-page: R170 year: 2006 ident: 10.1002/humu.21260-BIB250|cit250 article-title: Signatures of adaptive evolution within human non-coding sequence publication-title: Hum Mol Genet doi: 10.1093/hmg/ddl182 – volume: 7 start-page: 29 year: 2006 ident: 10.1002/humu.21260-BIB207|cit207 article-title: Transcriptional regulatory elements in the human genome publication-title: Annu Rev Genomics Hum Genet doi: 10.1146/annurev.genom.7.080505.115623 – volume: 19 start-page: 541 year: 2009 ident: 10.1002/humu.21260-BIB121|cit121 article-title: Finding distal regulatory elements in the human genome publication-title: Curr Opin Genet Dev doi: 10.1016/j.gde.2009.09.006 – volume: 15 start-page: R9 year: 2006 ident: 10.1002/humu.21260-BIB241|cit241 article-title: Influence of human genome polymorphism on gene expression publication-title: Hum Mol Genet doi: 10.1093/hmg/ddl044 – volume: 16 start-page: 37 year: 2006 ident: 10.1002/humu.21260-BIB240|cit240 article-title: Tandem chimerism as a means to increase protein complexity in the human genome publication-title: Genome Res doi: 10.1101/gr.4145906 – volume: 1 start-page: e78 year: 2005 ident: 10.1002/humu.21260-BIB296|cit296 article-title: Genome-wide associations of gene expression variation in humans publication-title: PLoS Genet doi: 10.1371/journal.pgen.0010078 – volume: 19 start-page: 678 year: 2003 ident: 10.1002/humu.21260-BIB93|cit94 article-title: Why are some human disease-associated mutations fixed in mice? publication-title: Trends Genet doi: 10.1016/j.tig.2003.10.002 – volume: 15 start-page: 137 year: 2005 ident: 10.1002/humu.21260-BIB234|cit234 article-title: Evolution and functional classification of vertebrate gene deserts publication-title: Genome Res doi: 10.1101/gr.3015505 – volume: 2 start-page: e46 year: 2006 ident: 10.1002/humu.21260-BIB304|cit304 article-title: Genome-wide survey for biologically functional pseudogenes publication-title: PLoS Comput. Biol doi: 10.1371/journal.pcbi.0020046 – volume: 4 start-page: e8232 year: 2009 ident: 10.1002/humu.21260-BIB120|cit120 article-title: Exome sequencing of a multigenerational human pedigree publication-title: PLoS One doi: 10.1371/journal.pone.0008232 – volume: 17 start-page: 1245 year: 2007 ident: 10.1002/humu.21260-BIB246|cit246 article-title: Raising the estimate of functional human sequences publication-title: Genome Res doi: 10.1101/gr.6406307 – volume: 5 start-page: 1229 year: 1996 ident: 10.1002/humu.21260-BIB59|cit59 article-title: Identification of a hot spot for microdeletions in patients with X-linked deafness type 3 (DFN3) 900 kb proximal to the DFN3 gene POU3F4 publication-title: Hum Mol Genet doi: 10.1093/hmg/5.9.1229 – volume: 452 start-page: 872 year: 2008 ident: 10.1002/humu.21260-BIB338|cit338 article-title: The complete genome of an individual by massively parallel DNA sequencing publication-title: Nature doi: 10.1038/nature06884 – volume: 93 start-page: 291 year: 2009 ident: 10.1002/humu.21260-BIB195|cit195 article-title: Long intronic noncoding RNA transcription: expression noise or expression choice? publication-title: Genomics doi: 10.1016/j.ygeno.2008.11.009 – volume: 25 start-page: 118 year: 2005 ident: 10.1002/humu.21260-BIB52|cit52 article-title: Functional significance of a deep intronic mutation in the ATM gene and evidence for an alternative exon 28a publication-title: Hum Mutat doi: 10.1002/humu.20170 – volume: 104 start-page: 18157 year: 2007 ident: 10.1002/humu.21260-BIB70|cit70 article-title: DUX4, a candidate gene of facioscapulohumeral muscular dystrophy, encodes a transcriptional activator of PITX1 publication-title: Proc Natl Acad Sci USA doi: 10.1073/pnas.0708659104 – volume: 22 start-page: 269 year: 2006 ident: 10.1002/humu.21260-BIB193|cit193 article-title: Highly consistent patterns for inherited human diseases at the molecular level publication-title: Bioinformatics doi: 10.1093/bioinformatics/bti781 – volume: 19 start-page: 1254 year: 2009 ident: 10.1002/humu.21260-BIB253|cit253 article-title: Overlapping pools for high-throughput targeted resequencing publication-title: Genome Res doi: 10.1101/gr.088559.108 – volume: 1638 start-page: 208 year: 2003 ident: 10.1002/humu.21260-BIB360|cit360 article-title: Inhibition of human m-epoxide hydrolase gene expression in a case of hypercholanemia publication-title: Biochim Biophys Acta doi: 10.1016/S0925-4439(03)00085-1 – volume: 456 start-page: 60 year: 2008a ident: 10.1002/humu.21260-BIB330|cit330 article-title: The diploid genome sequence of an Asian individual publication-title: Nature doi: 10.1038/nature07484 – volume: 6 start-page: 858 year: 1996 ident: 10.1002/humu.21260-BIB122|cit122 article-title: Intron 17 of the human retinoblastoma susceptibility gene encodes an actively transcribed G protein-coupled receptor gene publication-title: Genome Res doi: 10.1101/gr.6.9.858 – volume: 17 start-page: 502 year: 2001 ident: 10.1002/humu.21260-BIB263|cit263 article-title: On the allelic spectrum of human disease publication-title: Trends Genet doi: 10.1016/S0168-9525(01)02410-6 – volume: 322 start-page: 1855 year: 2008 ident: 10.1002/humu.21260-BIB119|cit119 article-title: The antisense transcriptomes of human cells publication-title: Science doi: 10.1126/science.1163853 – volume: 24 start-page: 537 year: 2006 ident: 10.1002/humu.21260-BIB1|cit1 article-title: Gene prioritization through genomic data fusion publication-title: Nat Biotechnol doi: 10.1038/nbt1203 – volume: 12 start-page: 2333 year: 2003 ident: 10.1002/humu.21260-BIB231|cit231 article-title: Lactase persistence DNA variant enhances lactase promoter activity in vitro: functional role as a cis regulatory element publication-title: Hum Mol Genet doi: 10.1093/hmg/ddg244 – volume: 10 start-page: S4 issue: Suppl 1 year: 2009a ident: 10.1002/humu.21260-BIB331|cit331 article-title: Genome-wide prediction of cis-acting RNA elements regulating tissue-specific pre-mRNA alternative splicing publication-title: BMC Genomics doi: 10.1186/1471-2164-10-S1-S4 – volume: 69 start-page: 2176 year: 2009 ident: 10.1002/humu.21260-BIB189|cit189 article-title: Association of a germ-line copy number variation at 2p24.3 and risk for aggressive prostate cancer publication-title: Cancer Res doi: 10.1158/0008-5472.CAN-08-3151 – volume: 578 start-page: 23 year: 2009 ident: 10.1002/humu.21260-BIB132|cit132 article-title: Silent (synonymous) SNPs: should we care about them? publication-title: Methods Mol Biol doi: 10.1007/978-1-60327-411-1_2 – volume: 84 start-page: 483 year: 2009 ident: 10.1002/humu.21260-BIB55|cit55 article-title: Duplications involving a conserved regulatory element downstream of BMP2 are associated with brachydactyly type A2 publication-title: Am J Hum Genet doi: 10.1016/j.ajhg.2009.03.001 – volume: 8 start-page: 279 year: 2007 ident: 10.1002/humu.21260-BIB109|cit109 article-title: Annotating noncoding RNA genes publication-title: Annu Rev Genomics Hum Genet doi: 10.1146/annurev.genom.8.080706.092419 – volume: 18 start-page: 2414 year: 2009 ident: 10.1002/humu.21260-BIB288|cit288 article-title: RNA transcripts, miRNA-sized fragments and proteins produced from D4Z4 units: new candidates for the pathophysiology of facioscapulohumeral dystrophy publication-title: Hum Mol Genet doi: 10.1093/hmg/ddp180 – volume: 106 start-page: 841 year: 2009 ident: 10.1002/humu.21260-BIB233|cit233 article-title: Quantifying dominance and deleterious effect on human disease genes publication-title: Proc Natl Acad Sci USA doi: 10.1073/pnas.0810433106 – volume: 22 start-page: 692 year: 2006 ident: 10.1002/humu.21260-BIB281|cit281 article-title: Bioinformatic analysis of exon repetition, exon scrambling and trans-splicing in humans publication-title: Bioinformatics doi: 10.1093/bioinformatics/bti795 – volume: 28 start-page: 150 year: 2007 ident: 10.1002/humu.21260-BIB161|cit161 article-title: Single base-pair substitutions in exon-intron junctions of human genes: nature, distribution, and consequences for mRNA splicing publication-title: Hum Mutat doi: 10.1002/humu.20400 – volume: 176 start-page: 1323 year: 2007 ident: 10.1002/humu.21260-BIB247|cit247 article-title: Origin and evolution of human microRNAs from transposable elements publication-title: Genetics doi: 10.1534/genetics.107.072553 – volume: 16 start-page: 2209 year: 2007 ident: 10.1002/humu.21260-BIB302|cit302 article-title: In vitro demonstration of intra-locus compensation using the ornithine transcarbamylase protein as model publication-title: Hum Mol Genet doi: 10.1093/hmg/ddm172 – volume: 8 start-page: 749 year: 2007 ident: 10.1002/humu.21260-BIB329|cit329 article-title: Splicing in disease: disruption of the splicing code and the decoding machinery publication-title: Nat Rev Genet doi: 10.1038/nrg2164 – volume: 76 start-page: 221 year: 1990 ident: 10.1002/humu.21260-BIB118|cit118 article-title: α-Thalassemia caused by a large (62 kb) deletion upstream of the human α-globin gene cluster publication-title: Blood doi: 10.1182/blood.V76.1.221.221 – volume: 355 start-page: 312 year: 2007 ident: 10.1002/humu.21260-BIB334|cit334 article-title: A single C to T transition in intron 5 of LMBR1 gene is associated with triphalangeal thumb-polysyndactyly syndrome in a Chinese family publication-title: Biochem Biophys Res Commun doi: 10.1016/j.bbrc.2007.01.129 – volume: 659 start-page: 147 year: 2008 ident: 10.1002/humu.21260-BIB43|cit43 article-title: Discovery and verification of functional single nucleotide polymorphisms in regulatory genomic regions: current and developing technologies publication-title: Mutat Res doi: 10.1016/j.mrrev.2008.05.001 – volume: 9 start-page: 128 year: 2008 ident: 10.1002/humu.21260-BIB287|cit287 article-title: Using quality scores and longer reads improves accuracy of Solexa read mapping publication-title: BMC Bioinformatics doi: 10.1186/1471-2105-9-128 – volume: 7 start-page: 59 year: 2006 ident: 10.1002/humu.21260-BIB320|cit320 article-title: Mutations and novel polymorphisms in coding regions and UTRs of CDK5R1 and OMG genes in patients with non-syndromic mental retardation publication-title: Neurogenetics doi: 10.1007/s10048-005-0026-9 – volume: 11 start-page: 48 year: 2010 ident: 10.1002/humu.21260-BIB209|cit209 article-title: Intergenic, gene terminal, and intragenic CpG islands in the human genome publication-title: BMC Genomics doi: 10.1186/1471-2164-11-48 – volume: 318 start-page: 169 year: 2003 ident: 10.1002/humu.21260-BIB286|cit286 article-title: Human disease genes: patterns and predictions publication-title: Gene doi: 10.1016/S0378-1119(03)00772-8 – volume: 31 start-page: 437 year: 2010 ident: 10.1002/humu.21260-BIB126|cit126 article-title: The deep intronic c.903+469T>C mutation in the MTRR gene creates an SF2/ASF binding exonic splicing enhancer, which leads to pseudoexon activation and causes the cblE type of homocystinuria publication-title: Hum Mutat doi: 10.1002/humu.21206 – volume: 21 start-page: 596 year: 2005 ident: 10.1002/humu.21260-BIB65|cit65 article-title: An evolutionary framework for common diseases: the ancestral-susceptibility model publication-title: Trends Genet doi: 10.1016/j.tig.2005.08.007 – year: 2010b ident: 10.1002/humu.21260-BIB180|cit180 article-title: Identification of homologous microRNAs in 56 animal genomes publication-title: Genomics doi: 10.1016/j.ygeno.2010.03.009 – volume: 4 start-page: e22 year: 2008 ident: 10.1002/humu.21260-BIB148|cit148 article-title: Exploration of small RNAs publication-title: PLoS Genet doi: 10.1371/journal.pgen.0040022 – volume: 25 start-page: 536 year: 2009 ident: 10.1002/humu.21260-BIB214|cit214 article-title: Copy-number variants in neurodevelopmental disorders: promises and challenges publication-title: Trends Genet doi: 10.1016/j.tig.2009.10.006 – volume: 80 start-page: 727 year: 2007 ident: 10.1002/humu.21260-BIB162|cit162 article-title: Most rare missense alleles are deleterious in humans: implications for complex disease and association studies publication-title: Am J Hum Genet doi: 10.1086/513473 – volume: 107 start-page: 961 year: 2010 ident: 10.1002/humu.21260-BIB201|cit201 article-title: Rate, molecular spectrum, and consequences of human mutation publication-title: Proc Natl Acad Sci USA doi: 10.1073/pnas.0912629107 – volume: 19 start-page: 68 year: 2003 ident: 10.1002/humu.21260-BIB139|cit139 article-title: Origin of a substantial fraction of human regulatory sequences from transposable elements publication-title: Trends Genet doi: 10.1016/S0168-9525(02)00006-9 – volume: 80 start-page: 692 year: 2007 ident: 10.1002/humu.21260-BIB36|cit36 article-title: The strength of selection on ultraconserved elements in the human genome publication-title: Am J Hum Genet doi: 10.1086/513149 – volume: 25 start-page: 2699 year: 2008 ident: 10.1002/humu.21260-BIB71|cit71 article-title: An ancient evolutionary origin of genes associated with human genetic diseases publication-title: Mol Biol Evol doi: 10.1093/molbev/msn214 – volume: 5 start-page: R47 year: 2004 ident: 10.1002/humu.21260-BIB131|cit131 article-title: Evolutionary conservation and selection of human disease gene orthologs in the rat and mouse genomes publication-title: Genome Biol doi: 10.1186/gb-2004-5-7-r47 – volume: 38 start-page: 534 year: 2010 ident: 10.1002/humu.21260-BIB110|cit110 article-title: Integrative analysis of the human cis-antisense gene pairs, miRNAs and their transcription regulation patterns publication-title: Nucleic Acids Res doi: 10.1093/nar/gkp954 – volume: 95 start-page: 46 year: 2008 ident: 10.1002/humu.21260-BIB257|cit257 article-title: Study of deep intronic sequence exonization in a Japanese neonate with a mitochondrial trifunctional protein deficiency publication-title: Mol Genet Metab doi: 10.1016/j.ymgme.2008.06.013 – volume: 15 start-page: 473 year: 2007 ident: 10.1002/humu.21260-BIB61|cit61 article-title: A deep intronic mutation in the RB1 gene leads to intronic sequence exonisation publication-title: Eur J Hum Genet doi: 10.1038/sj.ejhg.5201787 – volume: 84 start-page: 603 year: 2009 ident: 10.1002/humu.21260-BIB159|cit159 article-title: Sickle cell disease caused by heterozygosity for Hb S and novel LCR deletion: Report of two patients publication-title: Am J Hematol doi: 10.1002/ajh.21480 – volume: 106 start-page: 11667 year: 2009 ident: 10.1002/humu.21260-BIB151|cit151 article-title: Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression publication-title: Proc Natl Acad Sci USA doi: 10.1073/pnas.0904715106 – volume: 33 start-page: 2374 year: 2005 ident: 10.1002/humu.21260-BIB116|cit116 article-title: Transcribed processed pseudogenes in the human genome: an intermediate form of expressed retrosequence lacking protein-coding ability publication-title: Nucleic Acids Res doi: 10.1093/nar/gki531 – volume: 19 start-page: 212 year: 2009 ident: 10.1002/humu.21260-BIB275|cit275 article-title: Common vs. rare allele hypotheses for complex diseases publication-title: Curr Opin Genet Dev doi: 10.1016/j.gde.2009.04.010 – volume: 7 start-page: 165 year: 2006 ident: 10.1002/humu.21260-BIB91|cit91 article-title: Differences in the evolutionary history of disease genes affected by dominant or recessive mutations publication-title: BMC Genomics doi: 10.1186/1471-2164-7-165 – volume: 61 start-page: 437 year: 2010 ident: 10.1002/humu.21260-BIB293|cit293 article-title: Structural variation in the human genome and its role in disease publication-title: Annu Rev Med doi: 10.1146/annurev-med-100708-204735 – volume: 46 start-page: 649 year: 2009 ident: 10.1002/humu.21260-BIB105|cit105 article-title: Long-range regulation at the SOX9 locus in development and disease publication-title: J Med Genet doi: 10.1136/jmg.2009.068361 – volume: 328 start-page: 636 year: 2010 ident: 10.1002/humu.21260-BIB266|cit266 article-title: Analysis of genetic inheritance in a family quartet by whole-genome sequencing publication-title: Science doi: 10.1126/science.1186802 – volume: 10 start-page: 155 year: 2009 ident: 10.1002/humu.21260-BIB213|cit213 article-title: Long non-coding RNAs: insights into functions publication-title: Nat Rev Genet doi: 10.1038/nrg2521 – volume: 4 start-page: e6086 year: 2009 ident: 10.1002/humu.21260-BIB321|cit321 article-title: Transcription-independent heritability of induced histone modifications in the mouse preimplantation embryo publication-title: PLoS One doi: 10.1371/journal.pone.0006086 – volume: 10 start-page: 237 year: 2009a ident: 10.1002/humu.21260-BIB351|cit351 article-title: The promise and reality of personal genomics publication-title: Genome Biol doi: 10.1186/gb-2009-10-9-237 – volume: 10 start-page: 57 year: 2009b ident: 10.1002/humu.21260-BIB332|cit332 article-title: RNA-Seq: a revolutionary tool for transcriptomics publication-title: Nat Rev Genet doi: 10.1038/nrg2484 – volume: 40 start-page: 897 year: 2008b ident: 10.1002/humu.21260-BIB333|cit333 article-title: Combinatorial patterns of histone acetylations and methylations in the human genome publication-title: Nat Genet doi: 10.1038/ng.154 – volume: 25 start-page: 120 year: 2009 ident: 10.1002/humu.21260-BIB46|cit46 article-title: The RNA infrastructure: dark matter of the eukaryotic cell? publication-title: Trends Genet doi: 10.1016/j.tig.2008.12.003 – volume: 462 start-page: 315 year: 2009 ident: 10.1002/humu.21260-BIB187|cit187 article-title: Human DNA methylomes at base resolution show widespread epigenomic differences publication-title: Nature doi: 10.1038/nature08514 – volume: 17 start-page: 732 year: 2007 ident: 10.1002/humu.21260-BIB268|cit268 article-title: The DART classification of unannotated transcription within the ENCODE regions: associating transcription with known and novel loci publication-title: Genome Res doi: 10.1101/gr.5696007 – volume: 24 start-page: 53 year: 2008 ident: 10.1002/humu.21260-BIB47|cit47 article-title: Human cis natural antisense transcripts initiated by transposable elements publication-title: Trends Genet doi: 10.1016/j.tig.2007.11.008 – volume: 41 start-page: 1061 year: 2009 ident: 10.1002/humu.21260-BIB3|cit3 article-title: Personalized copy number and segmental duplication maps using next-generation sequencing publication-title: Nat Genet doi: 10.1038/ng.437 – volume: 77 start-page: 533 year: 2005 ident: 10.1002/humu.21260-BIB14|cit14 article-title: A novel class of pseudoautosomal region 1 deletions downstream of SHOX is associated with Leri-Weill dyschondrosteosis publication-title: Am J Hum Genet doi: 10.1086/449313 – volume: 104 start-page: 5495 year: 2007 ident: 10.1002/humu.21260-BIB311|cit311 article-title: The implications of alternative splicing in the ENCODE protein complement publication-title: Proc Natl Acad.Sci USA doi: 10.1073/pnas.0700800104 – volume: 101 start-page: 251 year: 2009 ident: 10.1002/humu.21260-BIB35|cit35 article-title: Role of 5′- and 3′-untranslated regions of mRNAs in human diseases publication-title: Biol Cell doi: 10.1042/BC20080104 – volume: 369 start-page: 943 year: 2008 ident: 10.1002/humu.21260-BIB303|cit303 article-title: A functional polymorphism of the TNF-α gene that is associated with type 2 DM publication-title: Biochem Biophys Res Commun doi: 10.1016/j.bbrc.2008.02.121 – volume: 29 start-page: 351 year: 2008a ident: 10.1002/humu.21260-BIB349|cit349 article-title: SNPs in ultraconserved elements and familial breast cancer risk publication-title: Carcinogenesis doi: 10.1093/carcin/bgm290 – volume: 17 start-page: 1615 year: 2009 ident: 10.1002/humu.21260-BIB158|cit158 article-title: Comprehensive expression analysis of FSHD candidate genes at the mRNA and protein level publication-title: Eur J Hum Genet doi: 10.1038/ejhg.2009.62 – volume: 86 start-page: 196 year: 2010 ident: 10.1002/humu.21260-BIB273|cit273 article-title: Allelic skewing of DNA methylation is widespread across the genome publication-title: Am J Hum Genet doi: 10.1016/j.ajhg.2010.01.014 – volume: 579 start-page: 1900 year: 2005 ident: 10.1002/humu.21260-BIB192|cit192 article-title: Are splicing mutations the most frequent cause of hereditary disease? publication-title: FEBS Lett doi: 10.1016/j.febslet.2005.02.047 – volume: 3 start-page: e3393 year: 2008 ident: 10.1002/humu.21260-BIB347|cit347 article-title: Distribution and effects of nonsense polymorphisms in human genes publication-title: PLoS One doi: 10.1371/journal.pone.0003393 – volume: 7 start-page: 306 year: 2006 ident: 10.1002/humu.21260-BIB299|cit299 article-title: Evolutionary anatomies of positions and types of disease-associated and neutral amino acid mutations in the human genome publication-title: BMC Genomics doi: 10.1186/1471-2164-7-306 – volume: 127 start-page: 19 year: 2010 ident: 10.1002/humu.21260-BIB24|cit24 article-title: Deletion of an enhancer near DLX5 and DLX6 in a family with hearing loss, craniofacial defects, and an inv(7)(q21.3q35) publication-title: Hum Genet doi: 10.1007/s00439-009-0736-4 – volume: 4 start-page: e1000244 year: 2008 ident: 10.1002/humu.21260-BIB68|cit68 article-title: Modifier effects between regulatory and protein-coding variation publication-title: PLoS Genet doi: 10.1371/journal.pgen.1000244 – volume: 16 start-page: 30 year: 2006 ident: 10.1002/humu.21260-BIB2|cit2 article-title: Transcription-mediated gene fusion in the human genome publication-title: Genome Res doi: 10.1101/gr.4137606 – volume: 38 start-page: 626 year: 2006 ident: 10.1002/humu.21260-BIB31|cit31 article-title: Genome-wide analysis of mammalian promoter architecture and evolution publication-title: Nat Genet doi: 10.1038/ng1789 – volume: 41 start-page: 609 year: 2009 ident: 10.1002/humu.21260-BIB212|cit212 article-title: Mutations in the seed region of human miR-96 are responsible for nonsyndromic progressive hearing loss publication-title: Nat Genet doi: 10.1038/ng.355 – volume: 67 start-page: 567 year: 2003 ident: 10.1002/humu.21260-BIB216|cit216 article-title: Quantifying the intragenic distribution of human disease mutations publication-title: Ann Hum Genet doi: 10.1046/j.1529-8817.2003.00072.x – volume: 31 start-page: 71 year: 2009 ident: 10.1002/humu.21260-BIB23|cit23 article-title: Microsatellite repeat instability and neurological disease publication-title: Bioessays doi: 10.1002/bies.080122 – volume: 14 start-page: 2221 year: 2005 ident: 10.1002/humu.21260-BIB163|cit163 article-title: Small fitness effect of mutations in highly conserved non-coding regions publication-title: Hum Mol Genet doi: 10.1093/hmg/ddi226 – volume: 11 start-page: 151 year: 2010 ident: 10.1002/humu.21260-BIB185|cit185 article-title: Promiscuity of enhancer, coding and non-coding transcription functions in ultraconserved elements publication-title: BMC Genomics doi: 10.1186/1471-2164-11-151 – volume: 143 start-page: 27 year: 2007 ident: 10.1002/humu.21260-BIB112|cit112 article-title: Two novel point mutations in the long-range SHH enhancer in three families with triphalangeal thumb and preaxial polydactyly publication-title: Am J Med Genet A doi: 10.1002/ajmg.a.31563 – volume: 4 start-page: e1000014 year: 2008 ident: 10.1002/humu.21260-BIB128|cit128 article-title: Role of duplicate genes in robustness against deleterious human mutations publication-title: PLoS Genet doi: 10.1371/journal.pgen.1000014 – volume: 309 start-page: 1564 year: 2005 ident: 10.1002/humu.21260-BIB146|cit146 article-title: Antisense transcription in the mammalian transcriptome publication-title: Science doi: 10.1126/science.1112009 – volume: 67 start-page: 705 year: 2008 ident: 10.1002/humu.21260-BIB298|cit298 article-title: Predicting the proportion of essential genes in mouse duplicates based on biased mouse knockout genes publication-title: J Mol Evol doi: 10.1007/s00239-008-9170-9 – volume: 315 start-page: 771 year: 2002 ident: 10.1002/humu.21260-BIB86|cit86 article-title: Characterization of disease-associated single amino acid polymorphisms in terms of sequence and structure properties publication-title: J Mol Biol doi: 10.1006/jmbi.2001.5255 – volume: 9 start-page: S3 issue: Suppl 2 year: 2008 ident: 10.1002/humu.21260-BIB348|cit348 article-title: Diversity of core promoter elements comprising human bidirectional promoters publication-title: BMC Genomics doi: 10.1186/1471-2164-9-S2-S3 – volume: 46 start-page: 793 year: 2009 ident: 10.1002/humu.21260-BIB125|cit125 article-title: Constitutional (germline) MLH1 epimutation as an aetiological mechanism for hereditary non-polyposis colorectal cancer publication-title: J Med Genet doi: 10.1136/jmg.2009.068122 – volume: 316 start-page: 445 year: 2007 ident: 10.1002/humu.21260-BIB277|cit277 article-title: Strong association of de novo copy number mutations with autism publication-title: Science doi: 10.1126/science.1138659 – volume: 18 start-page: 945 year: 2001 ident: 10.1002/humu.21260-BIB188|cit188 article-title: Episodic evolution of growth hormone in primates and emergence of the species specificity of human growth hormone receptor publication-title: Mol Biol Evol doi: 10.1093/oxfordjournals.molbev.a003895 – volume: 321 start-page: 956 year: 2008 ident: 10.1002/humu.21260-BIB300|cit300 article-title: A global view of gene activity and alternative splicing by deep sequencing of the human transcriptome publication-title: Science doi: 10.1126/science.1160342 – volume: 461 start-page: 272 year: 2009 ident: 10.1002/humu.21260-BIB226|cit226 article-title: Targeted capture and massively parallel sequencing of 12 human exomes publication-title: Nature doi: 10.1038/nature08250 – volume: 30 start-page: 1340 year: 2009 ident: 10.1002/humu.21260-BIB264|cit264 article-title: A single-base substitution within an intronic repetitive element causes dominant retinitis pigmentosa with reduced penetrance publication-title: Hum Mutat doi: 10.1002/humu.21071 – volume: 23 start-page: 1383 year: 2005 ident: 10.1002/humu.21260-BIB335|cit335 article-title: Mapping of conserved RNA secondary structures predicts thousands of functional noncoding RNAs in the human genome publication-title: Nat Biotechnol doi: 10.1038/nbt1144 – volume: 40 start-page: 719 year: 2008 ident: 10.1002/humu.21260-BIB270|cit270 article-title: Prader-Willi phenotype caused by paternal deficiency for the HBII-85 C/D box small nucleolar RNA cluster publication-title: Nat Genet doi: 10.1038/ng.158 – volume: 324 start-page: 389 year: 2009 ident: 10.1002/humu.21260-BIB239|cit239 article-title: Local DNA topography correlates with functional noncoding regions of the human genome publication-title: Science doi: 10.1126/science.1169050 – volume: 24 start-page: 423 year: 2010 ident: 10.1002/humu.21260-BIB289|cit289 article-title: Personal genome sequencing: current approaches and challenges publication-title: Genes Dev doi: 10.1101/gad.1864110 – volume: 444 start-page: 499 year: 2006 ident: 10.1002/humu.21260-BIB242|cit242 article-title: In vivo enhancer analysis of human conserved non-coding sequences publication-title: Nature doi: 10.1038/nature05295 – volume: 124 start-page: 1178 year: 2009 ident: 10.1002/humu.21260-BIB282|cit282 article-title: Novel genetic variants in microRNA genes and familial breast cancer publication-title: Int J Cancer doi: 10.1002/ijc.24008 – volume: 92 start-page: 414 year: 2008 ident: 10.1002/humu.21260-BIB237|cit237 article-title: Analysis of human disease genes in the context of gene essentiality publication-title: Genomics doi: 10.1016/j.ygeno.2008.08.001 – volume: 22 start-page: 581 year: 2006 ident: 10.1002/humu.21260-BIB8|cit8 article-title: Epistatic interactions: how strong in disease and evolution? publication-title: Trends Genet doi: 10.1016/j.tig.2006.08.001 – volume: 5 start-page: e1000522 year: 2009 ident: 10.1002/humu.21260-BIB63|cit63 article-title: Disease-causing 7.4 kb cis-regulatory deletion disrupting conserved non-coding sequences and their interaction with the FOXL2 promotor: implications for mutation screening publication-title: PLoS Genet doi: 10.1371/journal.pgen.1000522 – volume: 277 start-page: 841 year: 2010 ident: 10.1002/humu.21260-BIB64|cit64 article-title: Alternative splicing: role of pseudoexons in human disease and potential therapeutic strategies publication-title: FEBS J doi: 10.1111/j.1742-4658.2009.07520.x – volume: 81 start-page: 1262 year: 2007 ident: 10.1002/humu.21260-BIB265|cit265 article-title: Propionic and methylmalonic acidemia: antisense therapeutics for intronic variations causing aberrantly spliced messenger RNA publication-title: Am J Hum Genet doi: 10.1086/522376 – volume: 19 start-page: 503 year: 2008 ident: 10.1002/humu.21260-BIB19|cit19 article-title: Functional genetic variation of human miRNAs and phenotypic consequences publication-title: Mamm Genome doi: 10.1007/s00335-008-9137-6 – volume: 23 start-page: 219 year: 2007 ident: 10.1002/humu.21260-BIB359|cit359 article-title: The ambiguous boundary between genes and pseudogenes: the dead rise up, or do they? publication-title: Trends Genet doi: 10.1016/j.tig.2007.03.003 – volume: 158 start-page: 1227 year: 2001 ident: 10.1002/humu.21260-BIB83|cit83 article-title: Positive and negative selection on the human genome publication-title: Genetics doi: 10.1093/genetics/158.3.1227 – volume: 82 start-page: 971 year: 2008 ident: 10.1002/humu.21260-BIB20|cit20 article-title: Mapping of small RNAs in the human ENCODE regions publication-title: Am J Hum Genet doi: 10.1016/j.ajhg.2008.02.016 – volume: 460 start-page: 1011 year: 2009 ident: 10.1002/humu.21260-BIB153|cit153 article-title: A highly annotated whole-genome sequence of a Korean individual publication-title: Nature doi: 10.1038/nature08211 – volume: 19 start-page: 1553 year: 2009 ident: 10.1002/humu.21260-BIB44|cit44 article-title: Identification of deleterious mutations within three human genomes publication-title: Genome Res doi: 10.1101/gr.092619.109 – volume: 8 start-page: 3925 year: 2009 ident: 10.1002/humu.21260-BIB102|cit102 article-title: Identification of intergenic trans-regulatory RNAs containing a disease-linked SNP sequence and targeting cell cycle progression/differentiation pathways in multiple common human disorders publication-title: Cell Cycle doi: 10.4161/cc.8.23.10113 – volume: 27 start-page: 177 year: 2010 ident: 10.1002/humu.21260-BIB79|cit79 article-title: Distributions of selectively constrained sites and deleterious mutation rates in the hominid and murid genomes publication-title: Mol Biol Evol doi: 10.1093/molbev/msp219 – volume: 30 start-page: 1435 year: 2009b ident: 10.1002/humu.21260-BIB40|cit40 article-title: Closely spaced multiple mutations as potential signatures of transient hypermutability in human genes publication-title: Hum Mutat doi: 10.1002/humu.21088 – volume: 29 start-page: 198 year: 2008 ident: 10.1002/humu.21260-BIB30|cit30 article-title: Use of estimated evolutionary strength at the codon level improves the prediction of disease-related protein mutations in humans publication-title: Hum Mutat doi: 10.1002/humu.20628 – volume: 42 start-page: 922 year: 2005 ident: 10.1002/humu.21260-BIB117|cit117 article-title: Nine unknown rearrangements in 16p13.3 and 11p15.4 causing α- and β-thalassaemia characterised by high resolution multiplex ligation-dependent probe amplification publication-title: J Med Genet doi: 10.1136/jmg.2005.033597 – volume: 31 start-page: 421 year: 2010 ident: 10.1002/humu.21260-BIB258|cit258 article-title: Complete ascertainment of intragenic copy number mutations (CNMs) in the CFTR gene and its implications for CNM formation at other autosomal loci publication-title: Hum Mutat doi: 10.1002/humu.21196 – volume: 84 start-page: 780 year: 2009 ident: 10.1002/humu.21260-BIB292|cit292 article-title: Genomic and genic deletions of the FOX gene cluster on 16q24.1 and inactivating mutations of FOXF1 cause alveolar capillary dysplasia and other malformations publication-title: Am J Hum Genet doi: 10.1016/j.ajhg.2009.05.005 – volume: 14 start-page: 3945 year: 2005 ident: 10.1002/humu.21260-BIB175|cit175 article-title: T-13910 DNA variant associated with lactase persistence interacts with Oct-1 and stimulates lactase promoter activity in vitro publication-title: Hum Mol Genet doi: 10.1093/hmg/ddi418 – volume: 17 start-page: 287 year: 2007 ident: 10.1002/humu.21260-BIB245|cit245 article-title: Large-scale identification of novel transcripts in the human genome publication-title: Genome Res doi: 10.1101/gr.5486607 – volume: 4 start-page: e1000083 year: 2008 ident: 10.1002/humu.21260-BIB21|cit21 article-title: Assessing the evolutionary impact of amino acid mutations in the human genome publication-title: PLoS Genet doi: 10.1371/journal.pgen.1000083 – volume: 106 start-page: 21771 year: 2009 ident: 10.1002/humu.21260-BIB197|cit197 article-title: Adventitious changes in long-range gene expression caused by polymorphic structural variation and promoter competition publication-title: Proc Natl Acad Sci USA doi: 10.1073/pnas.0909331106 – volume: 17 start-page: 448 year: 2006 ident: 10.1002/humu.21260-BIB95|cit95 article-title: Essential genes on metabolic maps publication-title: Curr Opin Biotechnol doi: 10.1016/j.copbio.2006.08.006 – volume: 23 start-page: 269 year: 2005 ident: 10.1002/humu.21260-BIB306|cit306 article-title: Clues to function in gene deserts publication-title: Trends Biotechnol doi: 10.1016/j.tibtech.2005.04.003 – volume: 105 start-page: 4323 year: 2008 ident: 10.1002/humu.21260-BIB85|cit85 article-title: Network properties of genes harboring inherited disease mutations publication-title: Proc Natl Acad Sci USA doi: 10.1073/pnas.0701722105 – volume: 19 start-page: 567 year: 2009 ident: 10.1002/humu.21260-BIB89|cit89 article-title: Common polymorphic transcript variation in human disease publication-title: Genome Res doi: 10.1101/gr.083477.108 – volume: 10 start-page: 47 year: 2010 ident: 10.1002/humu.21260-BIB283|cit283 article-title: Novel genetic variants in miR-191 gene and familial ovarian cancer publication-title: BMC Cancer doi: 10.1186/1471-2407-10-47 – volume: 10 start-page: 435 year: 2009 ident: 10.1002/humu.21260-BIB150|cit150 article-title: Assessing the genomic evidence for conserved transcribed pseudogenes under selection publication-title: BMC Genomics doi: 10.1186/1471-2164-10-435 – volume: 457 start-page: 1028 year: 2009 ident: 10.1002/humu.21260-BIB84|cit84 article-title: Post-transcriptional processing generates a diversity of 5′-modified long and short RNAs publication-title: Nature doi: 10.1038/nature07759 – volume: 455 start-page: 232 year: 2008 ident: 10.1002/humu.21260-BIB294|cit294 article-title: Large recurrent microdeletions associated with schizophrenia publication-title: Nature doi: 10.1038/nature07229 – volume: 383 start-page: 281 year: 2008 ident: 10.1002/humu.21260-BIB312|cit312 article-title: Synonymous mutations and ribosome stalling can lead to altered folding pathways and distinct minima publication-title: J Mol Biol doi: 10.1016/j.jmb.2008.08.012 – volume: 447 start-page: 799 year: 2007 ident: 10.1002/humu.21260-BIB78|cit78 article-title: Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project publication-title: Nature doi: 10.1038/nature05874 – volume: 105 start-page: 6987 year: 2008 ident: 10.1002/humu.21260-BIB184|cit184 article-title: Null mutations in human and mouse orthologs frequently result in different phenotypes publication-title: Proc Natl Acad Sci USA doi: 10.1073/pnas.0800387105 – volume: 107 start-page: 899 year: 2001 ident: 10.1002/humu.21260-BIB205|cit205 article-title: A COL1A1 Sp1 binding site polymorphism predisposes to osteoporotic fracture by affecting bone density and quality publication-title: J Clin Invest doi: 10.1172/JCI10347 – volume: 31 start-page: 335 year: 2010 ident: 10.1002/humu.21260-BIB220|cit220 article-title: In silico functional profiling of human disease-associated and polymorphic amino acid substitutions publication-title: Hum Mutat doi: 10.1002/humu.21192 – volume: 19 start-page: 381 year: 2009 ident: 10.1002/humu.21260-BIB272|cit272 article-title: Splicing factor SFRS1 recognizes a functionally diverse landscape of RNA transcripts publication-title: Genome Res doi: 10.1101/gr.082503.108 – volume: 49 start-page: 99 year: 2010 ident: 10.1002/humu.21260-BIB308|cit308 article-title: Genome-wide scan identifies a copy number variable region at 3q26 that regulates PPM1L in APC mutation-negative familial colorectal cancer patients publication-title: Genes Chrom Cancer doi: 10.1002/gcc.20724 – volume: 18 start-page: 2204 year: 2009 ident: 10.1002/humu.21260-BIB186|cit186 article-title: Large-scale analysis of exonized mammalian-wide interspersed repeats in primate genomes publication-title: Hum Mol Genet doi: 10.1093/hmg/ddp152 – volume: 9 start-page: R168 year: 2008 ident: 10.1002/humu.21260-BIB7|cit7 article-title: Assaying the regulatory potential of mammalian conserved non-coding sequences in human cells publication-title: Genome Biol doi: 10.1186/gb-2008-9-12-r168 – volume: 17 start-page: 1031 year: 2008 ident: 10.1002/humu.21260-BIB72|cit72 article-title: SnoRNA U50 is a candidate tumor-suppressor gene at 6q14.3 with a mutation associated with clinically significant prostate cancer publication-title: Hum Mol Genet doi: 10.1093/hmg/ddm375 – volume: 41 start-page: 228 year: 2009 ident: 10.1002/humu.21260-BIB336|cit336 article-title: Loss-of-function mutations of an inhibitory upstream ORF in the human hairless transcript cause Marie Unna hereditary hypotrichosis publication-title: Nat Genet doi: 10.1038/ng.276 – volume: 86 start-page: 414 year: 2005 ident: 10.1002/humu.21260-BIB353|cit353 article-title: Nested genes in the human genome publication-title: Genomics doi: 10.1016/j.ygeno.2005.06.008 – volume: 30 start-page: 233 year: 2002 ident: 10.1002/humu.21260-BIB77|cit77 article-title: Identification of a variant associated with adult-type hypolactasia publication-title: Nat Genet doi: 10.1038/ng826 – volume: 16 start-page: 864 year: 2006 ident: 10.1002/humu.21260-BIB228|cit228 article-title: Functional noncoding sequences derived from SINEs in the mammalian genome publication-title: Genome Res doi: 10.1101/gr.5255506 – volume: 17 start-page: 669 year: 2007 ident: 10.1002/humu.21260-BIB96|cit96 article-title: What is a gene, post-ENCODE? History and updated definition publication-title: Genome Res doi: 10.1101/gr.6339607 – volume: 41 start-page: 572 year: 2009 ident: 10.1002/humu.21260-BIB305|cit305 article-title: Tiny RNAs associated with transcription start sites in animals publication-title: Nat Genet doi: 10.1038/ng.312 – volume: 320 start-page: 927 year: 2004 ident: 10.1002/humu.21260-BIB127|cit127 article-title: Functional redundancy of the human CCL4 and CCL4L1 chemokine genes publication-title: Biochem Biophys Res Commun doi: 10.1016/j.bbrc.2004.06.039 – volume: 38 start-page: 133 year: 1996 ident: 10.1002/humu.21260-BIB317|cit317 article-title: cDNA cloning and chromosomal localization of the genes encoding the alpha- and beta-subunits of human Rab geranylgeranyl transferase: the 3′ end of the alpha-subunit gene overlaps with the transglutaminase 1 gene promoter publication-title: Genomics doi: 10.1006/geno.1996.0608 – volume: 78 start-page: 1589 year: 1991 ident: 10.1002/humu.21260-BIB267|cit267 article-title: α-Thalassemia resulting from deletion of regulatory sequences far upstream of the alpha-globin structural genes publication-title: Blood doi: 10.1182/blood.V78.6.1589.1589 – volume: 5 start-page: e1000766 year: 2009 ident: 10.1002/humu.21260-BIB50|cit50 article-title: Fine-scale variation and genetic determinants of alternative splicing across individuals publication-title: PLoS Genet doi: 10.1371/journal.pgen.1000766 – volume: 312 start-page: 1215 year: 2006 ident: 10.1002/humu.21260-BIB58|cit58 article-title: A regulatory SNP causes a human genetic disease by creating a new transcriptional promoter publication-title: Science doi: 10.1126/science.1126431 – volume: 86 start-page: 7470 year: 1989 ident: 10.1002/humu.21260-BIB74|cit74 article-title: γδβ-thalassemia due to a de novo mutation deleting the 5′ β-globin gene activation-region hypersensitive sites publication-title: Proc Natl Acad Sci USA doi: 10.1073/pnas.86.19.7470 – volume: 299 start-page: 166 year: 1978 ident: 10.1002/humu.21260-BIB232|cit232 article-title: Application of endonuclease mapping to the analysis and prenatal diagnosis of thalassemias caused by globin-gene deletion publication-title: N Engl J Med doi: 10.1056/NEJM197807272990403 – volume: 15 start-page: 1143 year: 2006 ident: 10.1002/humu.21260-BIB106|cit106 article-title: Strength of the purifying selection against different categories of the point mutations in the coding regions of the human genome publication-title: Hum Mol Genet doi: 10.1093/hmg/ddl029 – volume: 21 start-page: 991 year: 2004 ident: 10.1002/humu.21260-BIB182|cit182 article-title: Microsatellites within genes: structure, function, and evolution publication-title: Mol Biol Evol doi: 10.1093/molbev/msh073 – volume: 38 start-page: 223 year: 2006 ident: 10.1002/humu.21260-BIB73|cit73 article-title: Conserved noncoding sequences are selectively constrained and not mutation cold spots publication-title: Nat Genet doi: 10.1038/ng1710 – volume: 85 start-page: 142 year: 2009 ident: 10.1002/humu.21260-BIB314|cit314 article-title: Massively parallel sequencing: the next big thing in genetic medicine publication-title: Am J Hum Genet doi: 10.1016/j.ajhg.2009.06.022 – volume: 314 start-page: 786 year: 2006 ident: 10.1002/humu.21260-BIB252|cit252 article-title: Accelerated evolution of conserved noncoding sequences in humans publication-title: Science doi: 10.1126/science.1130738 – volume: 358 start-page: 1390 year: 2006 ident: 10.1002/humu.21260-BIB5|cit5 article-title: Selective pressures at a codon-level predict deleterious mutations in human disease genes publication-title: J Mol Biol doi: 10.1016/j.jmb.2006.02.067 – volume: 31 start-page: E1261 year: 2010 ident: 10.1002/humu.21260-BIB198|cit198 article-title: Enigmatic in vivo iduronate-2-sulfatase (IDS) mutant transcript correction to wild-type in Hunter syndrome publication-title: Hum Mutat doi: 10.1002/humu.21208 – volume: 40 start-page: 1341 year: 2008 ident: 10.1002/humu.21260-BIB260|cit260 article-title: Disruption of an AP-2α binding site in an IRF6 enhancer is associated with cleft lip publication-title: Nat Genet doi: 10.1038/ng.242 – volume: 365 start-page: 104 year: 2006 ident: 10.1002/humu.21260-BIB310|cit310 article-title: Transposable elements as a significant source of transcription regulating signals publication-title: Gene doi: 10.1016/j.gene.2005.09.036 – volume: 282 start-page: 24262 year: 2007 ident: 10.1002/humu.21260-BIB206|cit206 article-title: The human angiotensin II type 1 receptor +1166 A/C polymorphism attenuates microrna-155 binding publication-title: J Biol Chem doi: 10.1074/jbc.M701050200 – volume: 4 start-page: e1000214 year: 2008 ident: 10.1002/humu.21260-BIB322|cit322 article-title: High-resolution mapping of expression-QTLs yields insight into human gene regulation publication-title: PLoS Genet doi: 10.1371/journal.pgen.1000214 – volume: 5 start-page: e254 year: 2007 ident: 10.1002/humu.21260-BIB174|cit174 article-title: The diploid genome sequence of an individual human publication-title: PLoS Biol doi: 10.1371/journal.pbio.0050254 – volume: 324 start-page: 1210 year: 2009b ident: 10.1002/humu.21260-BIB178|cit178 article-title: Genome-wide identification of human RNA editing sites by parallel DNA capturing and sequencing publication-title: Science doi: 10.1126/science.1170995 – volume: 106 start-page: 19096 year: 2009 ident: 10.1002/humu.21260-BIB42|cit42 article-title: Genetic diagnosis by whole exome capture and massively parallel DNA sequencing publication-title: Proc Natl Acad Sci USA doi: 10.1073/pnas.0910672106 – volume: 6 start-page: 43 year: 2009 ident: 10.1002/humu.21260-BIB337|cit337 article-title: What do natural antisense transcripts regulate? publication-title: RNA Biol doi: 10.4161/rna.6.1.7568 – volume: 459 start-page: 569 year: 2009 ident: 10.1002/humu.21260-BIB101|cit101 article-title: Autism genome-wide copy number variation reveals ubiquitin and neuronal genes publication-title: Nature doi: 10.1038/nature07953 – volume: 37 start-page: 25 year: 2005 ident: 10.1002/humu.21260-BIB12|cit12 article-title: Deletion of the NESP55 differentially methylated region causes loss of maternal GNAS imprints and pseudohypoparathyroidism type Ib publication-title: Nat Genet doi: 10.1038/ng1487 – volume: 122 start-page: 1119 year: 2008 ident: 10.1002/humu.21260-BIB41|cit41 article-title: A common intronic variant of CXCR3 is functionally associated with gene expression levels and the polymorphic immune cell responses to stimuli publication-title: J Allergy Clin Immunol doi: 10.1016/j.jaci.2008.09.026 – volume: 123 start-page: 297 year: 2008 ident: 10.1002/humu.21260-BIB54|cit54 article-title: Copy number variation in the mouse genome: implications for the mouse as a model organism for human disease publication-title: Cytogenet Genome Res doi: 10.1159/000184721 – volume: 112 start-page: 164 year: 2003 ident: 10.1002/humu.21260-BIB346|cit346 article-title: Two alternative exons can result from activation of the cryptic splice acceptor site deep within intron 2 of the dystrophin gene in a patient with as yet asymptomatic dystrophinopathy publication-title: Hum Genet doi: 10.1007/s00439-002-0854-8 – volume: 104 start-page: 19428 year: 2010 ident: 10.1002/humu.21260-BIB45|cit45 article-title: Distinguishing protein-coding and noncoding genes in the human genome publication-title: Proc Natl Acad Sci USA doi: 10.1073/pnas.0709013104 – volume: 25 start-page: 441 year: 2009 ident: 10.1002/humu.21260-BIB183|cit183 article-title: Functional compensation by duplicated genes in mouse publication-title: Trends Genet doi: 10.1016/j.tig.2009.08.001 – volume: 3 start-page: 279 year: 1994 ident: 10.1002/humu.21260-BIB22|cit22 article-title: Activation of the gamma E-crystallin pseudogene in the human hereditary Coppock-like cataract publication-title: Hum Mol Genet doi: 10.1093/hmg/3.2.279 – volume: 17 start-page: 682 year: 2007 ident: 10.1002/humu.21260-BIB98|cit98 article-title: Origin of phenotypes: genes and transcripts publication-title: Genome Res doi: 10.1101/gr.6525007 – volume: 76 start-page: 340 year: 2002 ident: 10.1002/humu.21260-BIB111|cit111 article-title: The bicistronic MOCS1 gene has alternative start codons on two mutually exclusive exons publication-title: Mol Genet Metab doi: 10.1016/S1096-7192(02)00100-2 – volume: 123 start-page: 17 year: 2008 ident: 10.1002/humu.21260-BIB60|cit60 article-title: Human genes involved in copy number variation: mechanisms of origin, functional effects and implications for disease publication-title: Cytogenet Genome Res doi: 10.1159/000184688 – volume: 18 start-page: 1743 year: 2008 ident: 10.1002/humu.21260-BIB204|cit204 article-title: Dispensability of mammalian DNA publication-title: Genome Res doi: 10.1101/gr.080184.108 – volume: 315 start-page: 525 year: 2007 ident: 10.1002/humu.21260-BIB154|cit154 article-title: A “silent” polymorphism in the MDR1 gene changes substrate specificity publication-title: Science doi: 10.1126/science.1135308 – volume: 42 start-page: 203 year: 2010 ident: 10.1002/humu.21260-BIB100|cit100 article-title: A recurrent 16p12.1 microdeletion supports a two-hit model for severe developmental delay publication-title: Nat Genet 2010 – volume: 120 start-page: 301 year: 2006b ident: 10.1002/humu.21260-BIB39|cit39 article-title: A systematic analysis of disease-associated variants in the 3′ regulatory regions of human protein-coding genes II: the importance of mRNA secondary structure in assessing the functionality of 3′ UTR variants publication-title: Hum Genet doi: 10.1007/s00439-006-0218-x – volume: 8 start-page: R118 year: 2007 ident: 10.1002/humu.21260-BIB16|cit16 article-title: Fast-evolving noncoding sequences in the human genome publication-title: Genome Biol doi: 10.1186/gb-2007-8-6-r118 – volume: 464 start-page: 704 year: 2010 ident: 10.1002/humu.21260-BIB48|cit48 article-title: Origins and functional impact of copy number variation in the human genome publication-title: Nature doi: 10.1038/nature08516 – volume: 29 start-page: E173 year: 2008 ident: 10.1002/humu.21260-BIB255|cit255 article-title: Nature and mRNA effect of 282 different NF1 point mutations: focus on splicing alterations publication-title: Hum Mutat doi: 10.1002/humu.20826 – volume: 93 start-page: 19 year: 2001 ident: 10.1002/humu.21260-BIB325|cit325 article-title: C18orf2, a novel, highly conserved intronless gene within intron 5 of the GNAL gene on chromosome 18p11 publication-title: Cytogenet Cell Genet doi: 10.1159/000056940 – volume: 8 start-page: 117 year: 1994 ident: 10.1002/humu.21260-BIB17|cit17 article-title: The costs of human inbreeding and their implications for variations at the DNA level publication-title: Nat Genet doi: 10.1038/ng1094-117 – volume: 20 start-page: 311 year: 2010 ident: 10.1002/humu.21260-BIB191|cit191 article-title: Human genetic variation recognizes functional elements in non-coding sequence publication-title: Genome Res doi: 10.1101/gr.094151.109 – volume: 105 start-page: 20870 year: 2008 ident: 10.1002/humu.21260-BIB167|cit167 article-title: A large-scale analysis of tissue-specific pathology and gene expression of human disease genes and complexes publication-title: Proc Natl Acad Sci USA doi: 10.1073/pnas.0810772105 – volume: 17 start-page: 3631 year: 2008 ident: 10.1002/humu.21260-BIB259|cit259 article-title: Common variation in the miR-659 binding-site of GRN is a major risk factor for TDP43-positive frontotemporal dementia publication-title: Hum Mol Genet doi: 10.1093/hmg/ddn257 – volume: 316 start-page: 222 year: 2007 ident: 10.1002/humu.21260-BIB97|cit97 article-title: Evolutionary and biomedical insights from the rhesus macaque genome publication-title: Science doi: 10.1126/science.1139247 – volume: 463 start-page: 666 year: 2010 ident: 10.1002/humu.21260-BIB18|cit18 article-title: Large, rare chromosomal deletions associated with severe early-onset obesity publication-title: Nature doi: 10.1038/nature08689 – volume: 8 start-page: e1000294 year: 2010 ident: 10.1002/humu.21260-BIB66|cit66 article-title: Rare variants create synthetic genome-wide associations publication-title: PLoS Biol doi: 10.1371/journal.pbio.1000294 – volume: 4 start-page: e5237 year: 2009 ident: 10.1002/humu.21260-BIB221|cit221 article-title: Low enzymatic activity haplotypes of the human catechol-O-methyltransferase gene: enrichment for marker SNPs publication-title: PLoS One doi: 10.1371/journal.pone.0005237 – volume: 14 start-page: 203 year: 1996 ident: 10.1002/humu.21260-BIB108|cit108 article-title: Reduced bone density and osteoporosis associated with a polymorphic Sp1 binding site in the collagen type I alpha 1 gene publication-title: Nat Genet doi: 10.1038/ng1096-203 – volume: 13 start-page: 1926 year: 2008 ident: 10.1002/humu.21260-BIB290|cit290 article-title: Splicing fidelity, enhancers, and disease publication-title: Front Biosci doi: 10.2741/2812 – volume: 444 start-page: 444 year: 2006 ident: 10.1002/humu.21260-BIB262|cit262 article-title: Global variation in copy number in the human genome publication-title: Nature doi: 10.1038/nature05329 – volume: 434 start-page: 857 year: 2005 ident: 10.1002/humu.21260-BIB76|cit76 article-title: A common sex-dependent mutation in a RET enhancer underlies Hirschsprung disease risk publication-title: Nature doi: 10.1038/nature03467 – volume: 10 start-page: 2679 year: 2001 ident: 10.1002/humu.21260-BIB115|cit115 article-title: A deep intronic mutation in CDKN2A is associated with disease in a subset of melanoma pedigrees publication-title: Hum Mol Genet doi: 10.1093/hmg/10.23.2679 – volume: 389 start-page: 196 year: 2007 ident: 10.1002/humu.21260-BIB271|cit271 article-title: Frequent emergence and functional resurrection of processed pseudogenes in the human and mouse genomes publication-title: Gene doi: 10.1016/j.gene.2006.11.007 – volume: 38 start-page: 1163 year: 2010 ident: 10.1002/humu.21260-BIB307|cit307 article-title: Discovery of short pseudogenes derived from messenger RNAs publication-title: Nucleic Acids Res doi: 10.1093/nar/gkp1098 – volume: 19 start-page: 196 year: 2009 ident: 10.1002/humu.21260-BIB211|cit211 article-title: Duplication hotspots, rare genomic disorders, and common disease publication-title: Curr Opin Genet Dev doi: 10.1016/j.gde.2009.04.003 – volume: 41 start-page: 882 year: 2009 ident: 10.1002/humu.21260-BIB248|cit248 article-title: The 8q24 cancer risk variant rs6983267 shows long-range interaction with MYC in colorectal cancer publication-title: Nat Genet doi: 10.1038/ng.403 – volume: 325 start-page: 1246 year: 2009 ident: 10.1002/humu.21260-BIB67|cit67 article-title: Common regulatory variation impacts gene expression in a cell type-dependent manner publication-title: Science doi: 10.1126/science.1174148 – volume: 317 start-page: 915 year: 2007 ident: 10.1002/humu.21260-BIB147|cit147 article-title: Human genome ultraconserved elements are ultraselected publication-title: Science doi: 10.1126/science.1142430 – volume: 10 start-page: 669 year: 2009 ident: 10.1002/humu.21260-BIB238|cit238 article-title: ChIP-seq: advantages and challenges of a maturing technology publication-title: Nat Rev Genet doi: 10.1038/nrg2641 – volume: 291 start-page: 1304 year: 2001 ident: 10.1002/humu.21260-BIB319|cit319 article-title: The sequence of the human genome publication-title: Science doi: 10.1126/science.1058040 – start-page: 325 volume-title: Theoretical population genetics year: 1990 ident: 10.1002/humu.21260-BIB94|cit93 doi: 10.1007/978-94-009-0387-6 – volume: 430 start-page: 743 year: 2004 ident: 10.1002/humu.21260-BIB218|cit218 article-title: Genetic analysis of genome-wide variation in human gene expression publication-title: Nature doi: 10.1038/nature02797 – volume: 89 start-page: 1 year: 2009 ident: 10.1002/humu.21260-BIB315|cit315 article-title: Interpreting neonatal lethal phenotypes in mouse mutants: insights into gene function and human diseases publication-title: Physiol Rev doi: 10.1152/physrev.00040.2007 – volume: 461 start-page: 199 year: 2009 ident: 10.1002/humu.21260-BIB324|cit324 article-title: Genomic views of distant-acting enhancers publication-title: Nature doi: 10.1038/nature08451 – volume: 463 start-page: 943 year: 2010 ident: 10.1002/humu.21260-BIB276|cit276 article-title: Complete Khoisan and Bantu genomes from southern Africa publication-title: Nature doi: 10.1038/nature08795 – volume: 17 start-page: 746 year: 2007 ident: 10.1002/humu.21260-BIB62|cit62 article-title: Prominent use of distal 5′ transcription start sites and discovery of a large number of additional exons in ENCODE regions publication-title: Genome Res doi: 10.1101/gr.5660607 – volume: 25 start-page: 2744 year: 2009a ident: 10.1002/humu.21260-BIB176|cit176 article-title: Automated inference of molecular mechanisms of disease from amino acid substitutions publication-title: Bioinformatics doi: 10.1093/bioinformatics/btp528 – volume: 7 start-page: 61 year: 2006 ident: 10.1002/humu.21260-BIB223|cit223 article-title: Predicting the effects of amino acid substitutions on protein function publication-title: Annu Rev Genomics Hum Genet doi: 10.1146/annurev.genom.7.080505.115630 – volume: 15 start-page: 1640 year: 2009 ident: 10.1002/humu.21260-BIB301|cit301 article-title: SNPs in human miRNA genes affect biogenesis and function publication-title: RNA doi: 10.1261/rna.1560209 – volume: 15 start-page: 987 year: 2005 ident: 10.1002/humu.21260-BIB142|cit142 article-title: Examples of the complex architecture of the human transcriptome revealed by RACE and high-density tiling arrays publication-title: Genome Res doi: 10.1101/gr.3455305 – volume: 12 start-page: e8 year: 2010 ident: 10.1002/humu.21260-BIB171|cit171 article-title: The clinical context of copy number variation in the human genome publication-title: Expert Rev Mol Med doi: 10.1017/S1462399410001390 – volume: 9 start-page: 292 year: 2008 ident: 10.1002/humu.21260-BIB107|cit107 article-title: Relative effects of mutability and selection on single nucleotide polymorphisms in transcribed regions of the human genome publication-title: BMC Genomics doi: 10.1186/1471-2164-9-292 – volume: 76 start-page: 652 year: 2005 ident: 10.1002/humu.21260-BIB318|cit318 article-title: Position effects due to chromosome breakpoints that map approximately 900 Kb upstream and approximately 1.3 Mb downstream of SOX9 in two patients with campomelic dysplasia publication-title: Am J Hum Genet doi: 10.1086/429252 – volume: 409 start-page: 860 year: 2001 ident: 10.1002/humu.21260-BIB168|cit168 article-title: Initial sequencing and analysis of the human genome publication-title: Nature doi: 10.1038/35057062 – volume: 53 start-page: 229 year: 2007 ident: 10.1002/humu.21260-BIB230|cit230 article-title: Mutation analysis of the ornithine transcarbamylase (OTC) gene in five Japanese OTC deficiency patients revealed two known and three novel mutations including a deep intronic mutation publication-title: Kobe J Med Sci – volume: 27 start-page: 448 year: 2009 ident: 10.1002/humu.21260-BIB57|cit57 article-title: Copy-number variation: the end of the human genome? publication-title: Trends Biotechnol doi: 10.1016/j.tibtech.2009.05.003 – volume: 316 start-page: 1484 year: 2007b ident: 10.1002/humu.21260-BIB141|cit141 article-title: RNA maps reveal new RNA classes and a possible function for pervasive transcription publication-title: Science doi: 10.1126/science.1138341 – volume: 56 start-page: 646 year: 2001 ident: 10.1002/humu.21260-BIB219|cit219 article-title: How many deleterious mutations are there in the human genome? publication-title: Med Hypotheses doi: 10.1054/mehy.2000.1200 – volume: 46 start-page: 358 year: 2009c ident: 10.1002/humu.21260-BIB181|cit181 article-title: Germline mutation of microRNA-125a is associated with breast cancer publication-title: J Med Genet doi: 10.1136/jmg.2008.063123 – volume: 24 start-page: 489 year: 2008 ident: 10.1002/humu.21260-BIB280|cit280 article-title: MicroRNA target site polymorphisms and human disease publication-title: Trends Genet doi: 10.1016/j.tig.2008.07.004 – volume: 149A start-page: 1183 year: 2009 ident: 10.1002/humu.21260-BIB170|cit170 article-title: Familial acampomelic form of campomelic dysplasia caused by a 960 kb deletion upstream of SOX9 publication-title: Am J Med Genet doi: 10.1002/ajmg.a.32830 – year: 2010 ident: 10.1002/humu.21260-BIB340|cit340 article-title: A novel DFNB1 deletion allele supports the existence of a distant cis-regulatory region that controls GJB2 and GJB6 expression publication-title: Clin Genet doi: 10.1111/j.1399-0004.2010.01387.x – volume: 83 start-page: 663 year: 2008b ident: 10.1002/humu.21260-BIB350|cit350 article-title: Genome-wide copy-number-variation study identified a susceptibility gene, UGT2B17, for osteoporosis publication-title: Am J Hum Genet doi: 10.1016/j.ajhg.2008.10.006 – volume: 139 start-page: 128 year: 2007 ident: 10.1002/humu.21260-BIB291|cit291 article-title: Pseudo-exon activation caused by a deep-intronic mutation in the fibrinogen gamma-chain gene as a novel mechanism for congenital afibrinogenaemia publication-title: Br J Haematol doi: 10.1111/j.1365-2141.2007.06758.x – volume: 320 start-page: 539 year: 2008 ident: 10.1002/humu.21260-BIB327|cit327 article-title: Rare structural variants disrupt multiple genes in neurodevelopmental pathways in schizophrenia publication-title: Science doi: 10.1126/science.1155174 – volume: 409 start-page: 853 year: 2001 ident: 10.1002/humu.21260-BIB137|cit137 article-title: Human disease genes publication-title: Nature doi: 10.1038/35057050 – volume: 90 start-page: 408 year: 2007 ident: 10.1002/humu.21260-BIB274|cit274 article-title: Characterization of two unusual truncating PMM2 mutations in two CDG-Ia patients publication-title: Mol Genet Metab doi: 10.1016/j.ymgme.2007.01.003 – volume: 41 start-page: 359 year: 2009 ident: 10.1002/humu.21260-BIB15|cit15 article-title: Highly conserved non-coding elements on either side of SOX9 associated with Pierre Robin sequence publication-title: Nat Genet doi: 10.1038/ng.329 – volume: 3 start-page: 301 year: 2009 ident: 10.1002/humu.21260-BIB49|cit49 article-title: Collection of variation causing disease-the Human Variome Project publication-title: Hum Genomics doi: 10.1186/1479-7364-3-4-301 – volume: 32 start-page: 3108 year: 2004 ident: 10.1002/humu.21260-BIB194|cit194 article-title: Genome-wide identification of genes likely to be involved in human genetic disease publication-title: Nucleic Acids Res doi: 10.1093/nar/gkh605 – volume: 10 start-page: 141 year: 2009 ident: 10.1002/humu.21260-BIB341|cit341 article-title: Association of a functional microsatellite within intron 1 of the BMP5 gene with susceptibility to osteoarthritis publication-title: BMC Med Genet doi: 10.1186/1471-2350-10-141 – volume: 29 start-page: 1710 year: 2008 ident: 10.1002/humu.21260-BIB344|cit344 article-title: Genetic variations of microRNAs in human cancer and their effects on the expression of miRNAs publication-title: Carcinogenesis doi: 10.1093/carcin/bgn073 – volume: 461 start-page: 814 year: 2009 ident: 10.1002/humu.21260-BIB235|cit235 article-title: Direct RNA sequencing publication-title: Nature doi: 10.1038/nature08390 – volume: 99 start-page: 14878 year: 2002 ident: 10.1002/humu.21260-BIB160|cit160 article-title: Dobzhansky-Muller incompatibilities in protein evolution publication-title: Proc Natl Acad Sci USA doi: 10.1073/pnas.232565499 – volume: 41 start-page: 885 year: 2009 ident: 10.1002/humu.21260-BIB316|cit316 article-title: The common colorectal cancer predisposition SNP rs6983267 at chromosome 8q24 confers potential to enhanced Wnt signaling publication-title: Nat Genet doi: 10.1038/ng.406 – volume: 114 start-page: 68 year: 2003 ident: 10.1002/humu.21260-BIB26|cit26 article-title: Increased risk for developmental delay in Saethre-Chotzen syndrome is associated with TWIST deletions: an improved strategy for TWIST mutation screening publication-title: Hum Genet doi: 10.1007/s00439-003-1012-7 – volume: 458 start-page: 223 year: 2009 ident: 10.1002/humu.21260-BIB113|cit113 article-title: Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals publication-title: Nature doi: 10.1038/nature07672 – volume: 39 start-page: 1217 year: 2007 ident: 10.1002/humu.21260-BIB297|cit297 article-title: Population genomics of human gene expression publication-title: Nat Genet doi: 10.1038/ng2142 – volume: 15 start-page: 1373 year: 2005 ident: 10.1002/humu.21260-BIB149|cit149 article-title: Evolutionary constraints in conserved nongenic sequences of mammals publication-title: Genome Res doi: 10.1101/gr.3942005 – volume: 322 start-page: 1849 year: 2008 ident: 10.1002/humu.21260-BIB279|cit279 article-title: Divergent transcription from active promoters publication-title: Science doi: 10.1126/science.1162253 – volume: 23 start-page: 183 year: 2007 ident: 10.1002/humu.21260-BIB217|cit217 article-title: Which transposable elements are active in the human genome? publication-title: Trends Genet doi: 10.1016/j.tig.2007.02.006 – volume: 2009 start-page: 131 year: 2009 ident: 10.1002/humu.21260-BIB27|cit27 article-title: Similarly strong purifying selection acts on human disease genes of all evolutionary ages publication-title: Genome Biol Evol doi: 10.1093/gbe/evp013 – volume: 66 start-page: 590 year: 2009 ident: 10.1002/humu.21260-BIB229|cit229 article-title: A deep intronic mutation in the SLC12A3 gene leads to Gitelman syndrome publication-title: Pediatr Res doi: 10.1203/PDR.0b013e3181b9b4d3 – volume: 7 start-page: 31 year: 2006 ident: 10.1002/humu.21260-BIB313|cit313 article-title: Further understanding human disease genes by comparing with housekeeping genes and other genes publication-title: BMC Genomics doi: 10.1186/1471-2164-7-31 – volume: 396 start-page: 19 year: 2010 ident: 10.1002/humu.21260-BIB10|cit10 article-title: Compensated pathogenic deviations: analysis of structural effects publication-title: J Mol Biol doi: 10.1016/j.jmb.2009.11.002 – volume: 328 start-page: 232 year: 2010 ident: 10.1002/humu.21260-BIB145|cit145 article-title: Variation in transcription factor binding among humans publication-title: Science doi: 10.1126/science.1183621 – volume: 25 start-page: 298 year: 2009 ident: 10.1002/humu.21260-BIB355|cit355 article-title: Complex human chromosomal and genomic rearrangements publication-title: Trends Genet doi: 10.1016/j.tig.2009.05.005 – volume: 5 start-page: e1000459 year: 2009 ident: 10.1002/humu.21260-BIB208|cit208 article-title: The genetic signatures of noncoding RNAs publication-title: PloS Genet doi: 10.1371/journal.pgen.1000459 – volume: 106 start-page: 3871 year: 2009 ident: 10.1002/humu.21260-BIB164|cit164 article-title: Power of deep, all-exon resequencing for discovery of human trait genes publication-title: Proc Natl Acad Sci USA doi: 10.1073/pnas.0812824106 – volume: 19 start-page: 1316 year: 2009 ident: 10.1002/humu.21260-BIB256|cit256 article-title: The consensus coding sequence (CCDS) project: identifying a common protein-coding gene set for the human and mouse genomes publication-title: Genome Res doi: 10.1101/gr.080531.108 – volume: 4 start-page: e1000160 year: 2008 ident: 10.1002/humu.21260-BIB224|cit224 article-title: Genetic variation in an individual human exome publication-title: PLoS Genet doi: 10.1371/journal.pgen.1000160 – volume: 305 start-page: 525 year: 2004 ident: 10.1002/humu.21260-BIB278|cit278 article-title: Large-scale copy number polymorphism in the human genome publication-title: Science doi: 10.1126/science.1098918 – volume: 10 start-page: 431 year: 2009 ident: 10.1002/humu.21260-BIB326|cit326 article-title: Genetic screening for low-penetrance variants in protein-coding genes publication-title: Annu Rev Genomics Hum Genet doi: 10.1146/annurev.genom.9.081307.164255 – volume: 105 start-page: 7269 year: 2008 ident: 10.1002/humu.21260-BIB136|cit136 article-title: Common SNP in pre-miR-146a decreases mature miR expression and predisposes to papillary thyroid carcinoma publication-title: Proc Natl Acad Sci USA doi: 10.1073/pnas.0802682105 – volume: 30 start-page: 79 year: 2009 ident: 10.1002/humu.21260-BIB130|cit130 article-title: Common genetic variants in pre-microRNAs were associated with increased risk of breast cancer in Chinese women publication-title: Hum Mutat doi: 10.1002/humu.20837 – volume: 327 start-page: 996 year: 2010 ident: 10.1002/humu.21260-BIB199|cit199 article-title: Regulation of alternative splicing by histone modifications publication-title: Science doi: 10.1126/science.1184208 – volume: 451 start-page: 994 year: 2008 ident: 10.1002/humu.21260-BIB190|cit190 article-title: Proportionally more deleterious genetic variation in European than in African populations publication-title: Nature doi: 10.1038/nature06611 – volume: 84 start-page: 224 year: 2009b ident: 10.1002/humu.21260-BIB352|cit352 article-title: A genome-wide survey of the prevalence and evolutionary forces acting on human nonsense SNPs publication-title: Am J Hum Genet doi: 10.1016/j.ajhg.2009.01.008 – volume: 28 start-page: 57 year: 2010a ident: 10.1002/humu.21260-BIB179|cit179 article-title: Building the sequence map of the human pan-genome publication-title: Nat Biotechnol doi: 10.1038/nbt.1596 – volume: 61 start-page: 339 year: 2008 ident: 10.1002/humu.21260-BIB156|cit156 article-title: Long-range gene control and genetic disease publication-title: Adv Genet doi: 10.1016/S0065-2660(07)00013-2 – volume: 2010 start-page: 153 year: 2010 ident: 10.1002/humu.21260-BIB25|cit25 article-title: Conservation of human microsatellites across 450 million years of evolution publication-title: Genome Biol Evol doi: 10.1093/gbe/evq007 – volume: 19 start-page: 1516 year: 2009 ident: 10.1002/humu.21260-BIB345|cit345 article-title: Mobile elements create structural variation: analysis of a complete human genome publication-title: Genome Res doi: 10.1101/gr.091827.109 – volume: 40 start-page: 225 year: 2008 ident: 10.1002/humu.21260-BIB166|cit166 article-title: Genome-wide analysis of transcript isoform variation in humans publication-title: Nat Genet doi: 10.1038/ng.2007.57 – volume: 20 start-page: 301 year: 2010 ident: 10.1002/humu.21260-BIB104|cit104 article-title: Evolutionary constraint facilitates interpretation of genetic variation in resequenced human genomes publication-title: Genome Res doi: 10.1101/gr.102210.109 – volume: 119 start-page: 3666 year: 2009d ident: 10.1002/humu.21260-BIB177|cit177 article-title: A novel microRNA targeting HDAC5 regulates osteoblast differentiation in mice and contributes to primary osteoporosis in humans publication-title: J Clin Invest doi: 10.1172/JCI39832 – volume: 144B start-page: 475 year: 2007 ident: 10.1002/humu.21260-BIB51|cit51 article-title: MECP2 coding sequence and 3′UTR variation in 172 unrelated autistic patients publication-title: Am J Med Genet B Neuropsychiatr Genet doi: 10.1002/ajmg.b.30490 – volume: 77 start-page: 201 year: 2010 ident: 10.1002/humu.21260-BIB81|cit81 article-title: Gene copy number variation and common human disease publication-title: Clin Genet doi: 10.1111/j.1399-0004.2009.01342.x – volume: 19 start-page: 1562 year: 2009 ident: 10.1002/humu.21260-BIB165|cit165 article-title: Positional conservation and amino acids shape the correct diagnosis and population frequencies of benign and damaging personal amino acid mutations publication-title: Genome Res doi: 10.1101/gr.091991.109 – volume: 1 start-page: 89 year: 2009 ident: 10.1002/humu.21260-BIB342|cit342 article-title: ChIP'ing the mammalian genome: technical advances and insights into functional elements publication-title: Genome Med doi: 10.1186/gm89 – volume: 9 start-page: 1861 year: 2008 ident: 10.1002/humu.21260-BIB53|cit53 article-title: Germline epimutation in humans publication-title: Pharmacogenomics doi: 10.2217/14622416.9.12.1861 – volume: 463 start-page: 671 year: 2010 ident: 10.1002/humu.21260-BIB328|cit328 article-title: A new highly penetrant form of obesity due to deletions on chromosome 16p11.2 publication-title: Nature doi: 10.1038/nature08727 – volume: 417 start-page: 1 year: 2008 ident: 10.1002/humu.21260-BIB244|cit244 article-title: What is a gene? An updated operational definition publication-title: Gene doi: 10.1016/j.gene.2008.03.010 – volume: 106 start-page: 7507 year: 2009 ident: 10.1002/humu.21260-BIB29|cit29 article-title: Upstream open reading frames cause widespread reduction of protein expression and are polymorphic among humans publication-title: Proc Natl Acad Sci USA doi: 10.1073/pnas.0810916106 – volume: 17 start-page: R135 issue: R2 year: 2008 ident: 10.1002/humu.21260-BIB202|cit202 article-title: Extending genome-wide association studies to copy-number variation publication-title: Hum Mol Genet doi: 10.1093/hmg/ddn282 – volume: 17 start-page: 556 year: 2007 ident: 10.1002/humu.21260-BIB249|cit249 article-title: Functionality or transcriptional noise? Evidence for selection within long noncoding RNAs publication-title: Genome Res doi: 10.1101/gr.6036807 – volume: 170 start-page: 1323 year: 2005 ident: 10.1002/humu.21260-BIB251|cit251 article-title: The coupon collector and the suppressor mutation: estimating the number of compensatory mutations by maximum likelihood publication-title: Genetics doi: 10.1534/genetics.104.037259 – volume: 322 start-page: 1851 year: 2008 ident: 10.1002/humu.21260-BIB254|cit254 article-title: RNA exosome depletion reveals transcription upstream of active human promoters publication-title: Science doi: 10.1126/science.1164096 – volume: 362 start-page: 1181 year: 2010 ident: 10.1002/humu.21260-BIB200|cit200 article-title: Whole-genome sequencing in a patient with Charcot-Marie-Tooth neuropathy publication-title: New Engl J Med doi: 10.1056/NEJMoa0908094 – volume: 19 start-page: 1527 year: 2009 ident: 10.1002/humu.21260-BIB203|cit203 article-title: Sequence and structural variation in a human genome uncovered by short-read, massively parallel ligation sequencing using two-base encoding publication-title: Genome Res doi: 10.1101/gr.091868.109 – volume: 4 start-page: 471 year: 2006 ident: 10.1002/humu.21260-BIB56|cit56 article-title: An intronic mutation within FGB (IVS1+2076 a→g) is associated with afibrinogenemia and recurrent transient ischemic attacks publication-title: J Thromb Haemost doi: 10.1111/j.1538-7836.2006.01722.x – volume: 76 start-page: 2886 year: 1979 ident: 10.1002/humu.21260-BIB34|cit34 article-title: β0 thalassemia, a nonsense mutation in man publication-title: Proc Natl Acad Sci USA doi: 10.1073/pnas.76.6.2886 – volume: 77 start-page: 306 year: 2010 ident: 10.1002/humu.21260-BIB9|cit9 article-title: microRNAs in diseases: from candidate to modifier genes publication-title: Clin Genet doi: 10.1111/j.1399-0004.2010.01370.x – volume: 461 start-page: 206 year: 2009 ident: 10.1002/humu.21260-BIB99|cit99 article-title: Implications of chimaeric non-co-linear transcripts publication-title: Nature doi: 10.1038/nature08452 – volume: 10 start-page: 637 year: 2009 ident: 10.1002/humu.21260-BIB80|cit80 article-title: Regulatory roles of natural antisense transcripts publication-title: Nat Rev Mol Cell Biol doi: 10.1038/nrm2738 – volume: 42 start-page: 30 year: 2010 ident: 10.1002/humu.21260-BIB225|cit225 article-title: Exome sequencing identifies the cause of a mendelian disorder publication-title: Nat Genet doi: 10.1038/ng.499 – volume: 30 start-page: 1411 year: 2010 ident: 10.1002/humu.21260-BIB343|cit343 article-title: Upregulation of c-MYC in cis through a large chromatin loop linked to a cancer risk-associated single-nucleotide polymorphism in colorectal cancer cells publication-title: Mol Cell Biol doi: 10.1128/MCB.01384-09 – volume: 40 start-page: 1413 year: 2008 ident: 10.1002/humu.21260-BIB236|cit236 article-title: Deep surveying of alternative splicing complexity in the human transcriptome by high-throughput sequencing publication-title: Nat Genet doi: 10.1038/ng.259 – volume: 123 start-page: 7 year: 2008 ident: 10.1002/humu.21260-BIB13|cit13 article-title: CNVs and genetic medicine (excitement and consequences of a rediscovery) publication-title: Cytogenet Genome Res doi: 10.1159/000184687 – volume: 105 start-page: 11264 year: 2008 ident: 10.1002/humu.21260-BIB284|cit284 article-title: Excessive genomic DNA copy number variation in the Li-Fraumeni cancer predisposition syndrome publication-title: Proc Natl Acad Sci USA doi: 10.1073/pnas.0802970105 – volume: 110 start-page: 247 year: 2002 ident: 10.1002/humu.21260-BIB11|cit11 article-title: Functional redundancy of Rab27 proteins and the pathogenesis of Griscelli syndrome publication-title: J Clin Invest doi: 10.1172/JCI0215058 – volume: 10 start-page: 241 year: 2009 ident: 10.1002/humu.21260-BIB90|cit90 article-title: Human genetic variation and its contribution to complex traits publication-title: Nat Rev Genet doi: 10.1038/nrg2554 – volume: 12 start-page: 1725 year: 2003 ident: 10.1002/humu.21260-BIB172|cit172 article-title: A long-range Shh enhancer regulates expression in the developing limb and fin and is associated with preaxial polydactyly publication-title: Hum Mol Genet doi: 10.1093/hmg/ddg180 – volume: 24 start-page: 400 year: 2004 ident: 10.1002/humu.21260-BIB243|cit243 article-title: Germline mutations of the POU6F2 gene in Wilms tumors with loss of heterozygosity on chromosome 7p14 publication-title: Hum Mutat doi: 10.1002/humu.20096 – volume: 10 start-page: 2319 year: 2001 ident: 10.1002/humu.21260-BIB215|cit215 article-title: Understanding human disease mutations through the use of interspecific genetic variation publication-title: Hum Mol Genet doi: 10.1093/hmg/10.21.2319 – volume: 296 start-page: 916 year: 2002 ident: 10.1002/humu.21260-BIB140|cit140 article-title: Large-scale transcriptional activity in chromosomes 21 and 22 publication-title: Science doi: 10.1126/science.1068597 – volume: 97 start-page: 13755 year: 2000 ident: 10.1002/humu.21260-BIB169|cit169 article-title: 3′ deletions cause aniridia by preventing PAX6 gene expression publication-title: Proc Natl Acad Sci USA doi: 10.1073/pnas.240398797 – volume: 104 start-page: 8005 year: 2007 ident: 10.1002/humu.21260-BIB196|cit196 article-title: Thousands of human mobile element fragments undergo strong purifying selection near developmental genes publication-title: Proc Natl Acad Sci USA doi: 10.1073/pnas.0611223104 – volume: 36 start-page: 949 year: 2004 ident: 10.1002/humu.21260-BIB133|cit133 article-title: Detection of large-scale variation in the human genome publication-title: Nat Genet doi: 10.1038/ng1416 – volume: 120 start-page: 867 year: 2003 ident: 10.1002/humu.21260-BIB323|cit323 article-title: De novo deletion within the telomeric region flanking the human α-globin locus as a cause of α-thalassaemia publication-title: Br J Haematol doi: 10.1046/j.1365-2141.2003.04197.x – start-page: 101 volume-title: Principles and practice of medical genetics year: 2007 ident: 10.1002/humu.21260-BIB4|cit4 – volume: 31 start-page: 81 year: 2010 ident: 10.1002/humu.21260-BIB339|cit339 article-title: A specific mutation in the distant sonic hedgehog (SHH) cis-regulator (ZRS) causes Werner mesomelic syndrome (WMS) while complete ZRS duplications underlie Haas type polysyndactyly and preaxial polydactyly (PPD) with or without triphalangeal thumb publication-title: Hum Mutat doi: 10.1002/humu.21142 – volume: 11 start-page: R26 year: 2010 ident: 10.1002/humu.21260-BIB356|cit356 article-title: Identification and analysis of unitary pseudogenes: historic and contemporary gene losses in humans and other primates publication-title: Genome Biol doi: 10.1186/gb-2010-11-3-r26 – reference: 20513140 - Hum Mutat. 2010 Jun;31(6):v |
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SubjectTerms | disease genes functionome gene definition gene essentiality gene number Genetic Diseases, Inborn - genetics Genetic Predisposition to Disease - genetics Genome, Human - genetics Genomics - methods Genomics - statistics & numerical data Genomics - trends HGMD Human Gene Mutation Database human genome Humans inherited mutations Mutation mutation detection mutome noncoding regions Open Reading Frames - genetics Polymorphism, Genetic Regulatory Sequences, Nucleic Acid - genetics |
Title | Genes, mutations, and human inherited disease at the dawn of the age of personalized genomics |
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