A Unique Epigenomic Landscape Defines Human Erythropoiesis

Mammalian erythropoiesis yields a highly specialized cell type, the mature erythrocyte, evolved to meet the organismal needs of increased oxygen-carrying capacity. To better understand the regulation of erythropoiesis, we performed genome-wide studies of chromatin accessibility, DNA methylation, and...

Full description

Saved in:
Bibliographic Details
Published inCell reports (Cambridge) Vol. 28; no. 11; pp. 2996 - 3009.e7
Main Authors Schulz, Vincent P., Yan, Hongxia, Lezon-Geyda, Kimberly, An, Xiuli, Hale, John, Hillyer, Christopher D., Mohandas, Narla, Gallagher, Patrick G.
Format Journal Article
LanguageEnglish
Published United States Elsevier Inc 10.09.2019
Elsevier
Subjects
anemia
chromatin
epigenomic
erythrocyte
erythropoiesis
methylation
trait
methylation
epigenomic
trait
erythropoiesis
chromatin
anemia
erythrocyte
Online AccessGet full text

Cover

Abstract Mammalian erythropoiesis yields a highly specialized cell type, the mature erythrocyte, evolved to meet the organismal needs of increased oxygen-carrying capacity. To better understand the regulation of erythropoiesis, we performed genome-wide studies of chromatin accessibility, DNA methylation, and transcriptomics using a recently developed strategy to obtain highly purified populations of primary human erythroid cells. The integration of gene expression, DNA methylation, and chromatin state dynamics reveals that stage-specific gene regulation during erythropoiesis is a stepwise and hierarchical process involving many cis-regulatory elements. Erythroid-specific, nonpromoter sites of chromatin accessibility are linked to erythroid cell phenotypic variation and inherited disease. Comparative analyses of stage-specific chromatin accessibility indicate that there is limited early chromatin priming of erythroid genes during hematopoiesis. The epigenome of terminally differentiating erythroid cells defines a distinct subset of highly specialized cells that are vastly dissimilar from other hematopoietic and nonhematopoietic cell types. These epigenomic and transcriptome data are powerful tools to study human erythropoiesis. [Display omitted] •Epigenomic landscape of erythropoiesis reveals stage-specific patterns of regulation•Epigenomic changes in erythropoiesis are linked to erythroid traits and disease genes•Erythroid cells exhibit chromatin accessibility patterns distinct from other cell types Schulz et al. use genome-wide studies of chromatin accessibility, DNA methylation, and transcriptomes in primary human erythroid cells to reveal important characteristics of erythropoiesis. Chromatin accessibility of terminal erythroid differentiation is markedly dissimilar from other hematopoietic cell types. Epigenomic changes are linked to erythroid cell traits and disease genes.
AbstractList Mammalian erythropoiesis yields a highly specialized cell type, the mature erythrocyte, evolved to meet the organismal needs of increased oxygen-carrying capacity. To better understand the regulation of erythropoiesis, we performed genome-wide studies of chromatin accessibility, DNA methylation, and transcriptomics using a recently developed strategy to obtain highly purified populations of primary human erythroid cells. The integration of gene expression, DNA methylation, and chromatin state dynamics reveals that stage-specific gene regulation during erythropoiesis is a stepwise and hierarchical process involving many cis -regulatory elements. Erythroid-specific, nonpromoter sites of chromatin accessibility are linked to erythroid cell phenotypic variation and inherited disease. Comparative analyses of stage-specific chromatin accessibility indicate that there is limited early chromatin priming of erythroid genes during hematopoiesis. The epigenome of terminally differentiating erythroid cells defines a distinct subset of highly specialized cells that are vastly dissimilar from other hematopoietic and nonhematopoietic cell types. These epigenomic and transcriptome data are powerful tools to study human erythropoiesis. Schulz et al. use genome-wide studies of chromatin accessibility, DNA methylation, and transcriptomes in primary human erythroid cells to reveal important characteristics of erythropoiesis. Chromatin accessibility of terminal erythroid differentiation is markedly dissimilar from other hematopoietic cell types. Epigenomic changes are linked to erythroid cell traits and disease genes.
Mammalian erythropoiesis yields a highly specialized cell type, the mature erythrocyte, evolved to meet the organismal needs of increased oxygen-carrying capacity. To better understand the regulation of erythropoiesis, we performed genome-wide studies of chromatin accessibility, DNA methylation, and transcriptomics using a recently developed strategy to obtain highly purified populations of primary human erythroid cells. The integration of gene expression, DNA methylation, and chromatin state dynamics reveals that stage-specific gene regulation during erythropoiesis is a stepwise and hierarchical process involving many cis-regulatory elements. Erythroid-specific, nonpromoter sites of chromatin accessibility are linked to erythroid cell phenotypic variation and inherited disease. Comparative analyses of stage-specific chromatin accessibility indicate that there is limited early chromatin priming of erythroid genes during hematopoiesis. The epigenome of terminally differentiating erythroid cells defines a distinct subset of highly specialized cells that are vastly dissimilar from other hematopoietic and nonhematopoietic cell types. These epigenomic and transcriptome data are powerful tools to study human erythropoiesis.
Mammalian erythropoiesis yields a highly specialized cell type, the mature erythrocyte, evolved to meet the organismal needs of increased oxygen-carrying capacity. To better understand the regulation of erythropoiesis, we performed genome-wide studies of chromatin accessibility, DNA methylation, and transcriptomics using a recently developed strategy to obtain highly purified populations of primary human erythroid cells. The integration of gene expression, DNA methylation, and chromatin state dynamics reveals that stage-specific gene regulation during erythropoiesis is a stepwise and hierarchical process involving many cis-regulatory elements. Erythroid-specific, nonpromoter sites of chromatin accessibility are linked to erythroid cell phenotypic variation and inherited disease. Comparative analyses of stage-specific chromatin accessibility indicate that there is limited early chromatin priming of erythroid genes during hematopoiesis. The epigenome of terminally differentiating erythroid cells defines a distinct subset of highly specialized cells that are vastly dissimilar from other hematopoietic and nonhematopoietic cell types. These epigenomic and transcriptome data are powerful tools to study human erythropoiesis.Mammalian erythropoiesis yields a highly specialized cell type, the mature erythrocyte, evolved to meet the organismal needs of increased oxygen-carrying capacity. To better understand the regulation of erythropoiesis, we performed genome-wide studies of chromatin accessibility, DNA methylation, and transcriptomics using a recently developed strategy to obtain highly purified populations of primary human erythroid cells. The integration of gene expression, DNA methylation, and chromatin state dynamics reveals that stage-specific gene regulation during erythropoiesis is a stepwise and hierarchical process involving many cis-regulatory elements. Erythroid-specific, nonpromoter sites of chromatin accessibility are linked to erythroid cell phenotypic variation and inherited disease. Comparative analyses of stage-specific chromatin accessibility indicate that there is limited early chromatin priming of erythroid genes during hematopoiesis. The epigenome of terminally differentiating erythroid cells defines a distinct subset of highly specialized cells that are vastly dissimilar from other hematopoietic and nonhematopoietic cell types. These epigenomic and transcriptome data are powerful tools to study human erythropoiesis.
Mammalian erythropoiesis yields a highly specialized cell type, the mature erythrocyte, evolved to meet the organismal needs of increased oxygen-carrying capacity. To better understand the regulation of erythropoiesis, we performed genome-wide studies of chromatin accessibility, DNA methylation, and transcriptomics using a recently developed strategy to obtain highly purified populations of primary human erythroid cells. The integration of gene expression, DNA methylation, and chromatin state dynamics reveals that stage-specific gene regulation during erythropoiesis is a stepwise and hierarchical process involving many cis-regulatory elements. Erythroid-specific, nonpromoter sites of chromatin accessibility are linked to erythroid cell phenotypic variation and inherited disease. Comparative analyses of stage-specific chromatin accessibility indicate that there is limited early chromatin priming of erythroid genes during hematopoiesis. The epigenome of terminally differentiating erythroid cells defines a distinct subset of highly specialized cells that are vastly dissimilar from other hematopoietic and nonhematopoietic cell types. These epigenomic and transcriptome data are powerful tools to study human erythropoiesis. : Schulz et al. use genome-wide studies of chromatin accessibility, DNA methylation, and transcriptomes in primary human erythroid cells to reveal important characteristics of erythropoiesis. Chromatin accessibility of terminal erythroid differentiation is markedly dissimilar from other hematopoietic cell types. Epigenomic changes are linked to erythroid cell traits and disease genes. Keywords: erythrocyte, erythropoiesis, epigenomic, chromatin, methylation, anemia, trait
Mammalian erythropoiesis yields a highly specialized cell type, the mature erythrocyte, evolved to meet the organismal needs of increased oxygen-carrying capacity. To better understand the regulation of erythropoiesis, we performed genome-wide studies of chromatin accessibility, DNA methylation, and transcriptomics using a recently developed strategy to obtain highly purified populations of primary human erythroid cells. The integration of gene expression, DNA methylation, and chromatin state dynamics reveals that stage-specific gene regulation during erythropoiesis is a stepwise and hierarchical process involving many cis-regulatory elements. Erythroid-specific, nonpromoter sites of chromatin accessibility are linked to erythroid cell phenotypic variation and inherited disease. Comparative analyses of stage-specific chromatin accessibility indicate that there is limited early chromatin priming of erythroid genes during hematopoiesis. The epigenome of terminally differentiating erythroid cells defines a distinct subset of highly specialized cells that are vastly dissimilar from other hematopoietic and nonhematopoietic cell types. These epigenomic and transcriptome data are powerful tools to study human erythropoiesis. [Display omitted] •Epigenomic landscape of erythropoiesis reveals stage-specific patterns of regulation•Epigenomic changes in erythropoiesis are linked to erythroid traits and disease genes•Erythroid cells exhibit chromatin accessibility patterns distinct from other cell types Schulz et al. use genome-wide studies of chromatin accessibility, DNA methylation, and transcriptomes in primary human erythroid cells to reveal important characteristics of erythropoiesis. Chromatin accessibility of terminal erythroid differentiation is markedly dissimilar from other hematopoietic cell types. Epigenomic changes are linked to erythroid cell traits and disease genes.
Author Hillyer, Christopher D.
Hale, John
Schulz, Vincent P.
An, Xiuli
Lezon-Geyda, Kimberly
Mohandas, Narla
Gallagher, Patrick G.
Yan, Hongxia
AuthorAffiliation 6 Department of Genetics, Yale University School of Medicine, New Haven, CT 06520, USA
5 Department of Pathology, Yale University School of Medicine, New Haven, CT 06520, USA
7 These authors contributed equally
1 Department of Pediatrics, Yale University School of Medicine, New Haven, CT 06520, USA
8 Lead Contact
4 College of Life Science, Zhengzhou University, Zhengzhou, Henan 450001, China
3 Laboratory of Membrane Biology, Zhengzhou University, Zhengzhou, Henan 450001, China
2 Red Cell Physiology Laboratory, New York Blood Center, New York, NY 10065, USA
AuthorAffiliation_xml – name: 6 Department of Genetics, Yale University School of Medicine, New Haven, CT 06520, USA
– name: 2 Red Cell Physiology Laboratory, New York Blood Center, New York, NY 10065, USA
– name: 5 Department of Pathology, Yale University School of Medicine, New Haven, CT 06520, USA
– name: 1 Department of Pediatrics, Yale University School of Medicine, New Haven, CT 06520, USA
– name: 3 Laboratory of Membrane Biology, Zhengzhou University, Zhengzhou, Henan 450001, China
– name: 7 These authors contributed equally
– name: 4 College of Life Science, Zhengzhou University, Zhengzhou, Henan 450001, China
– name: 8 Lead Contact
Author_xml – sequence: 1
  givenname: Vincent P.
  surname: Schulz
  fullname: Schulz, Vincent P.
  organization: Department of Pediatrics, Yale University School of Medicine, New Haven, CT 06520, USA
– sequence: 2
  givenname: Hongxia
  surname: Yan
  fullname: Yan, Hongxia
  organization: Red Cell Physiology Laboratory, New York Blood Center, New York, NY 10065, USA
– sequence: 3
  givenname: Kimberly
  surname: Lezon-Geyda
  fullname: Lezon-Geyda, Kimberly
  organization: Department of Pediatrics, Yale University School of Medicine, New Haven, CT 06520, USA
– sequence: 4
  givenname: Xiuli
  surname: An
  fullname: An, Xiuli
  organization: Red Cell Physiology Laboratory, New York Blood Center, New York, NY 10065, USA
– sequence: 5
  givenname: John
  surname: Hale
  fullname: Hale, John
  organization: Red Cell Physiology Laboratory, New York Blood Center, New York, NY 10065, USA
– sequence: 6
  givenname: Christopher D.
  surname: Hillyer
  fullname: Hillyer, Christopher D.
  organization: Red Cell Physiology Laboratory, New York Blood Center, New York, NY 10065, USA
– sequence: 7
  givenname: Narla
  surname: Mohandas
  fullname: Mohandas, Narla
  organization: Red Cell Physiology Laboratory, New York Blood Center, New York, NY 10065, USA
– sequence: 8
  givenname: Patrick G.
  surname: Gallagher
  fullname: Gallagher, Patrick G.
  email: patrick.gallagher@yale.edu
  organization: Department of Pediatrics, Yale University School of Medicine, New Haven, CT 06520, USA
BackLink https://www.ncbi.nlm.nih.gov/pubmed/31509757$$D View this record in MEDLINE/PubMed
BookMark eNqFkUFvEzEQhS1UREvoP0Boj1yyHXu93nUPSFUJtFIkLvRsObOzqaONvdibSv33OCRFbQ_gi63xzPdG771nJz54Yuwjh5IDVxebEmmINJYCuC6hLUHAG3YmBOdzLmRz8ux9ys5T2kA-CjjX8h07rXgNuqmbM3Z5Vdx592tHxWJ0a_Jh67BYWt8ltCMVX6l3nlJxs9taXyzi43QfwxgcJZc-sLe9HRKdH-8Zu_u2-Hl9M1_--H57fbWcYy30NO_7hmurFEchKwWADYDggLJplWxqbLmtqw7yorqqe1SV6nskoaGVeV-hqhm7PXC7YDdmjG5r46MJ1pk_hRDXxsbJ4UDGahS2IbKd7KUUekW4QpKWFAoUWX_GvhxY4261pQ7JT9EOL6Avf7y7N-vwYFSrKtB7wOcjIIbsWprM1qWcxWA9hV0yQrS6bqRWbW799Fzrr8iT-bnh8tCAMaQUqTfoJju5sJd2g-Fg9mGbjTmEbfZhG2hNDjsPy1fDT_z_jB0NoJzYg6NoEjrySJ2LhFO21P0b8BvCM8RF
CitedBy_id crossref_primary_10_1182_bloodadvances_2020001652
crossref_primary_10_3389_fgene_2024_1384167
crossref_primary_10_1159_000538469
crossref_primary_10_1016_j_isci_2020_101018
crossref_primary_10_2217_epi_2022_0341
crossref_primary_10_1038_s41598_023_34805_5
crossref_primary_10_1016_j_celrep_2021_108723
crossref_primary_10_3390_ijms22137109
crossref_primary_10_1002_cmdc_202000574
crossref_primary_10_1016_j_bcmd_2023_102745
crossref_primary_10_3390_jof7010037
crossref_primary_10_1186_s40779_023_00496_2
crossref_primary_10_1016_j_pharmthera_2021_107927
crossref_primary_10_3389_fcell_2023_1183176
crossref_primary_10_1111_trf_17840
crossref_primary_10_7554_eLife_90189
crossref_primary_10_1038_s41467_023_43310_2
crossref_primary_10_1016_j_stem_2024_10_012
crossref_primary_10_1053_j_seminhematol_2020_12_005
crossref_primary_10_1038_s41418_024_01305_6
crossref_primary_10_3390_cells10113018
crossref_primary_10_3389_fgene_2022_805265
crossref_primary_10_12688_f1000research_26648_1
crossref_primary_10_1038_s42003_023_04584_w
crossref_primary_10_3390_ijms23116149
crossref_primary_10_1093_nar_gkad468
crossref_primary_10_1152_physiol_00035_2024
crossref_primary_10_1097_MOH_0000000000000654
crossref_primary_10_1182_blood_2020007401
crossref_primary_10_1016_j_blre_2020_100740
crossref_primary_10_1038_s41598_022_13783_0
crossref_primary_10_1038_s41598_025_94222_8
crossref_primary_10_1016_j_gpb_2023_07_001
crossref_primary_10_1096_fj_202302017R
crossref_primary_10_1182_bloodadvances_2021005167
crossref_primary_10_1182_blood_2020009903
crossref_primary_10_1073_pnas_2303647120
crossref_primary_10_1007_s11655_021_3316_7
crossref_primary_10_1089_scd_2024_0160
crossref_primary_10_1172_JCI132284
crossref_primary_10_1126_science_aba7612
crossref_primary_10_1038_s41467_020_16179_8
Cites_doi 10.1101/gad.240101.114
10.1101/gr.121541.111
10.1101/gr.106575.110
10.1186/s13059-015-0840-9
10.1038/ncomms5719
10.1126/science.1207306
10.1186/gb-2012-13-10-r87
10.1016/j.molcel.2009.11.002
10.1101/gr.3715005
10.1182/blood-2011-09-380634
10.1038/nature08451
10.1016/j.bbagrm.2008.07.002
10.1182/blood-2012-06-292078
10.1016/j.exphem.2017.01.003
10.1242/jeb.109868
10.1371/journal.pgen.0030136
10.1038/ng1966
10.1038/nbt.1630
10.1002/ajh.21866
10.1093/hmg/ddq404
10.1128/MCB.00777-09
10.1038/sdata.2016.109
10.1016/j.cell.2012.06.038
10.1182/blood-2011-05-355107
10.1093/bioinformatics/btv145
10.1089/1066527041410472
10.1016/j.cels.2015.06.003
10.1016/j.molcel.2014.12.009
10.1007/978-1-4939-7428-3_1
10.1038/nrg2641
10.1074/jbc.M112.423756
10.1002/jcb.21820
10.3324/haematol.2009.014985
10.1126/science.1242088
10.1038/ng.650
10.1186/1471-2164-14-193
10.1242/jeb.200.2.369
10.1097/MOH.0000000000000417
10.1016/j.cell.2013.07.020
10.1016/j.cell.2006.12.048
10.1038/ng.3646
10.1038/nature07829
10.1093/bioinformatics/btq033
10.1002/jcb.22077
10.1182/blood-2011-07-356006
10.1038/nprot.2010.190
10.1186/s13072-018-0195-z
10.1093/bioinformatics/btu170
10.1186/gb-2013-14-4-r36
10.1038/nature10808
10.1093/bioinformatics/btr167
10.1182/blood-2014-07-588806
10.1093/bioinformatics/btp698
10.1073/pnas.0909296106
10.1038/nrg2636
10.1126/science.1256271
10.1038/ng.3769
10.3389/fgene.2014.00075
10.1016/0034-5687(72)90029-1
10.1016/j.cell.2013.11.033
10.1016/j.celrep.2016.06.085
10.1038/nature10730
10.1038/gene.2014.23
10.1186/s12859-015-0670-5
10.1056/NEJMoa1103070
10.1182/blood.V61.6.1242.bloodjournal6161242
10.1101/gr.147942.112
10.1371/journal.pgen.1004890
10.1182/blood-2009-01-200048
10.1038/nature11232
10.1038/nature12433
10.1182/blood-2002-04-1104
10.1016/j.devcel.2012.09.003
10.1186/gb-2010-11-2-r14
10.1101/gr.104935.110
10.1038/emboj.2010.342
10.1002/iub.226
10.1038/ncomms9324
10.1371/journal.pcbi.1003118
10.1126/science.1186176
10.1182/blood-2014-01-548305
10.1101/gr.152140.112
10.1038/ng.3467
10.1093/bioinformatics/btp616
10.1186/gb-2008-9-9-r137
10.1371/journal.pone.0155378
10.1002/ajh.25325
10.1093/bioinformatics/btt656
10.1101/gr.083089.108
10.1016/j.molcel.2012.05.051
10.1074/jbc.M112.413260
10.1172/JCI71520
10.1016/j.molcel.2010.05.004
10.1038/nsmb.2419
10.1182/bloodadvances.2018015651
10.1016/j.molcel.2009.11.001
10.1002/0471142727.mb2129s109
10.1186/s13742-015-0047-8
10.1016/j.resp.2006.02.012
10.1182/blood-2011-03-341404
10.1371/journal.pgen.1002781
10.1186/gb-2004-5-10-r80
10.1038/nature12903
10.1038/nmeth.2688
10.1101/gr.3642605
10.1182/blood-2013-01-476390
10.1073/pnas.1318948111
10.1186/gb-2010-11-3-r25
10.1038/nn.3995
10.1093/nar/gkw1133
10.1101/cshperspect.a011601
10.1101/gad.309575.117
10.1186/s13059-014-0550-8
10.1016/j.cell.2012.04.040
10.1186/s13059-019-1642-2
10.1186/s13073-014-0122-2
10.1101/gr.098921.109
ContentType Journal Article
Copyright 2019 The Author(s)
Copyright © 2019 The Author(s). Published by Elsevier Inc. All rights reserved.
Copyright_xml – notice: 2019 The Author(s)
– notice: Copyright © 2019 The Author(s). Published by Elsevier Inc. All rights reserved.
DBID 6I.
AAFTH
AAYXX
CITATION
NPM
7X8
5PM
DOA
DOI 10.1016/j.celrep.2019.08.020
DatabaseName ScienceDirect Open Access Titles
Elsevier:ScienceDirect:Open Access
CrossRef
PubMed
MEDLINE - Academic
PubMed Central (Full Participant titles)
DOAJ Directory of Open Access Journals
DatabaseTitle CrossRef
PubMed
MEDLINE - Academic
DatabaseTitleList
PubMed
MEDLINE - Academic
Database_xml – sequence: 1
  dbid: DOA
  name: DOAJ Directory of Open Access Journals
  url: https://www.doaj.org/
  sourceTypes: Open Website
– sequence: 2
  dbid: NPM
  name: PubMed
  url: https://proxy.k.utb.cz/login?url=http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed
  sourceTypes: Index Database
DeliveryMethod fulltext_linktorsrc
Discipline Biology
EISSN 2211-1247
EndPage 3009.e7
ExternalDocumentID oai_doaj_org_article_a9c2a7eead4f4429becbce4ae6c2c224
PMC6863094
31509757
10_1016_j_celrep_2019_08_020
S2211124719310538
Genre Journal Article
Research Support, N.I.H., Extramural
GrantInformation_xml – fundername: NIDDK NIH HHS
  grantid: U54 DK106857
– fundername: NIAMS NIH HHS
  grantid: R01 AR068994
– fundername: NHGRI NIH HHS
  grantid: UM1 HG009409
– fundername: NIDDK NIH HHS
  grantid: R01 DK104046
– fundername: NIDDK NIH HHS
  grantid: P01 DK032094
GroupedDBID 0R~
0SF
4.4
457
53G
5VS
6I.
AACTN
AAEDT
AAEDW
AAFTH
AAIKJ
AAKRW
AALRI
AAUCE
AAXUO
ABMAC
ABMWF
ACGFO
ACGFS
ADBBV
ADEZE
AENEX
AEXQZ
AFTJW
AGHFR
AITUG
ALKID
ALMA_UNASSIGNED_HOLDINGS
AMRAJ
BAWUL
BCNDV
DIK
EBS
EJD
FCP
FDB
FRP
GROUPED_DOAJ
GX1
IXB
KQ8
M41
M48
NCXOZ
O-L
O9-
OK1
RCE
RIG
ROL
SSZ
AAMRU
AAYWO
AAYXX
ACVFH
ADCNI
ADVLN
AEUPX
AFPUW
AIGII
AKBMS
AKRWK
AKYEP
APXCP
CITATION
HZ~
IPNFZ
NPM
7X8
5PM
ID FETCH-LOGICAL-c529t-ff719a661c243600c700210c4786475c81a53d0247935fc636ffce29084601263
IEDL.DBID IXB
ISSN 2211-1247
IngestDate Wed Aug 27 01:30:46 EDT 2025
Thu Aug 21 18:12:17 EDT 2025
Fri Jul 11 06:05:56 EDT 2025
Thu Apr 03 07:07:03 EDT 2025
Thu Apr 24 23:01:11 EDT 2025
Tue Jul 01 02:59:04 EDT 2025
Wed May 17 00:05:52 EDT 2023
IsDoiOpenAccess true
IsOpenAccess true
IsPeerReviewed true
IsScholarly true
Issue 11
Keywords methylation
epigenomic
trait
erythropoiesis
chromatin
anemia
erythrocyte
Language English
License This is an open access article under the CC BY-NC-ND license.
Copyright © 2019 The Author(s). Published by Elsevier Inc. All rights reserved.
This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).
LinkModel DirectLink
MergedId FETCHMERGED-LOGICAL-c529t-ff719a661c243600c700210c4786475c81a53d0247935fc636ffce29084601263
Notes ObjectType-Article-1
SourceType-Scholarly Journals-1
ObjectType-Feature-2
content type line 23
AUTHOR CONTRIBUTIONS
H.Y., J.H., and K.L.-G. performed the experiments. X.A., N.M., and P.G.G. designed the experiments and analyzed the data. V.P.S. analyzed the data and wrote the manuscript with P.G.G.
OpenAccessLink https://www.sciencedirect.com/science/article/pii/S2211124719310538
PMID 31509757
PQID 2289574968
PQPubID 23479
ParticipantIDs doaj_primary_oai_doaj_org_article_a9c2a7eead4f4429becbce4ae6c2c224
pubmedcentral_primary_oai_pubmedcentral_nih_gov_6863094
proquest_miscellaneous_2289574968
pubmed_primary_31509757
crossref_citationtrail_10_1016_j_celrep_2019_08_020
crossref_primary_10_1016_j_celrep_2019_08_020
elsevier_sciencedirect_doi_10_1016_j_celrep_2019_08_020
ProviderPackageCode CITATION
AAYXX
PublicationCentury 2000
PublicationDate 2019-09-10
PublicationDateYYYYMMDD 2019-09-10
PublicationDate_xml – month: 09
  year: 2019
  text: 2019-09-10
  day: 10
PublicationDecade 2010
PublicationPlace United States
PublicationPlace_xml – name: United States
PublicationTitle Cell reports (Cambridge)
PublicationTitleAlternate Cell Rep
PublicationYear 2019
Publisher Elsevier Inc
Elsevier
Publisher_xml – name: Elsevier Inc
– name: Elsevier
References Barski, Zhao (bib7) 2009; 107
Stadhouders, Aktuna, Thongjuea, Aghajanirefah, Pourfarzad, van Ijcken, Lenhard, Rooks, Best, Menzel (bib97) 2014; 124
West, Cook, Alver, Stadtfeld, Deaton, Hochedlinger, Park, Tolstorukov, Kingston (bib109) 2014; 5
Hu, Liu, Xue, Halverson, Reid, Guo, Chen, Raza, Galili, Jaffray (bib46) 2013; 121
Hartley, Mullikin (bib40) 2015; 16
Robinson, McCarthy, Smyth (bib85) 2010; 26
Scott, Milsom (bib91) 2006; 154
Armstrong, Zidovetzki, Alarcón-Riquelme, Tsao, Criswell, Kimberly, Harley, Sivils, Vyse, Gaffney (bib5) 2014; 15
Doré, Chlon, Brown, White, Crispino (bib27) 2012; 119
Schmidt, Wilson, Ballester, Schwalie, Brown, Marshall, Kutter, Watt, Martinez-Jimenez, Mackay (bib89) 2010; 328
Lloyd (bib69) 2018; 1698
Degner, Pai, Pique-Regi, Veyrieras, Gaffney, Pickrell, De Leon, Michelini, Lewellen, Crawford (bib26) 2012; 482
Wilson, Miranda-Saavedra, Kinston, Bonadies, Foster, Calero-Nieto, Dawson, Donaldson, Dumon, Frampton (bib110) 2009; 113
Corces, Buenrostro, Wu, Greenside, Chan, Koenig, Snyder, Pritchard, Kundaje, Greenleaf (bib25) 2016; 48
Farnham (bib30) 2009; 10
King, Taylor, Elnitski, Chiaromonte, Miller, Hardison (bib55) 2005; 15
Visel, Rubin, Pennacchio (bib108) 2009; 461
Kim, Pertea, Trapnell, Pimentel, Kelley, Salzberg (bib53) 2013; 14
Nord, Blow, Attanasio, Akiyama, Holt, Hosseini, Phouanenavong, Plajzer-Frick, Shoukry, Afzal (bib77) 2013; 155
Siepel, Haussler (bib94) 2004; 11
Tsiftsoglou, Vizirianakis, Strouboulis (bib105) 2009; 61
Cheng, Wu, Kumar, Yu, Deng, Tripic, King, Chen, Zhang, Drautz (bib22) 2009; 19
Sankaran, Xu, Byron, Greisman, Fisher, Weatherall, Sabath, Groudine, Orkin, Premawardhena, Bender (bib88) 2011; 365
Liang, Moghimi, Yang, Strouboulis, Bungert (bib67) 2008; 105
Miyai, Takano, Endo, Kawakami, Agata, Motomura, Kubo, Kashima, Suzuki, Kawamoto, Ikawa (bib74) 2018; 32
Gautier, Ducamp, Leduc, Salnot, Guillonneau, Dussiot, Hale, Giarratana, Raimbault, Douay (bib34) 2016; 16
Neph, Stergachis, Reynolds, Sandstrom, Borenstein, Stamatoyannopoulos (bib75) 2012; 150
Steiner, Schulz, Makismova, Lezon-Geyda, Gallagher (bib99) 2016; 11
Krueger, Andrews (bib57) 2011; 27
Dzierzak, Philipsen (bib29) 2013; 3
Nikinmaa (bib76) 1997; 200
Frank, Liu, Wijayatunge, Song, Biegler, Yang, Vockley, Safi, Gersbach, Crawford, West (bib31) 2015; 18
Lara-Astiaso, Weiner, Lorenzo-Vivas, Zaretsky, Jaitin, David, Keren-Shaul, Mildner, Winter, Jung (bib59) 2014; 345
Yu, Riva, Xie, Schindler, Moran, Cheng, Yu, Hardison, Weiss, Orkin (bib118) 2009; 36
Lenfant, Johansen (bib61) 1972; 14
Robinson, Oshlack (bib84) 2010; 11
Wong, Hattangadi, Cheng, Frampton, Young, Lodish (bib111) 2011; 118
Li, Durbin (bib63) 2010; 26
Qu, Zaba, Giresi, Li, Longmire, Kim, Greenleaf, Chang (bib82) 2015; 1
Heintzman, Stuart, Hon, Fu, Ching, Hawkins, Barrera, Van Calcar, Qu, Ching (bib42) 2007; 39
Lessard, Beaudoin, Benkirane, Lettre (bib62) 2015; 7
Carroll, Liang, Salama, Stark, de Santiago (bib18) 2014; 5
Bauer, Kamran, Orkin (bib9) 2012; 120
Kim, Abdullaev, Smith, Ching, Loukinov, Green, Zhang, Lobanenkov, Ren (bib52) 2007; 128
Song, Zhang, Grasfeder, Boyle, Giresi, Lee, Sheffield, Gräf, Huss, Keefe (bib96) 2011; 21
Park (bib79) 2009; 10
Steiner, Maksimova, Schulz, Wong, Raha, Mahajan, Weissman, Gallagher (bib98) 2009; 29
Shearstone, Pop, Bock, Boyle, Meissner, Socolovsky (bib92) 2011; 334
Blow, McCulley, Li, Zhang, Akiyama, Holt, Plajzer-Frick, Shoukry, Wright, Chen (bib13) 2010; 42
Lawrence, Huber, Pagès, Aboyoun, Carlson, Gentleman, Morgan, Carey (bib60) 2013; 9
Bonifer, Cockerill (bib15) 2017; 49
Kadauke, Blobel (bib48) 2009; 1789
Akalin, Garrett-Bakelman, Kormaksson, Busuttil, Zhang, Khrebtukova, Milne, Huang, Biswas, Hess (bib2) 2012; 8
Chen, Liu, Heck, Chasis, An, Mohandas (bib20) 2009; 106
An, Schulz, Li, Wu, Liu, Xue, Hu, Mohandas, Gallagher (bib4) 2014; 123
Quinlan, Hall (bib83) 2010; 26
Ulirsch, Lacy, An, Mohandas, Mikkelsen, Sankaran (bib106) 2014; 10
Varley, Gertz, Bowling, Parker, Reddy, Pauli-Behn, Cross, Williams, Stamatoyannopoulos, Crawford (bib107) 2013; 23
McLean, Bristor, Hiller, Clarke, Schaar, Lowe, Wenger, Bejerano (bib73) 2010; 28
Heuston, Keller, Lichtenberg, Giardine, Anderson, Hardison, Bodine (bib45) 2018; 11
Dover, Chan, Sieber (bib28) 1983; 61
Glomski, Tamburlin, Hard, Chainani (bib38) 1997; 12
Gentleman, Carey, Bates, Bolstad, Dettling, Dudoit, Ellis, Gautier, Ge, Gentry (bib35) 2004; 5
Russo, Esposito, Asci, Gambale, Perrotta, Ramenghi, Forni, Uygun, Delaunay, Iolascon (bib87) 2010; 85
Sheffield, Thurman, Song, Safi, Stamatoyannopoulos, Lenhard, Crawford, Furey (bib93) 2013; 23
Cheng, King, Dore, Zhang, Zhou, Zhang, Dorman, Abebe, Kumar, Chiaromonte (bib21) 2008; 18
Heinz, Benner, Spann, Bertolino, Lin, Laslo, Cheng, Murre, Singh, Glass (bib44) 2010; 38
Kim, Li, Ferreiro-Neira, Ho, Luyten, Nalapareddy, Long, Verzi, Shivdasani (bib54) 2014; 506
Li, Peterson, Fang, Stamatoyannopoulos (bib64) 2002; 100
Xu, Shao, Glass, Bauer, Pinello, Van Handel, Hou, Stamatoyannopoulos, Mikkola, Yuan, Orkin (bib113) 2012; 23
Akalin, Kormaksson, Li, Garrett-Bakelman, Figueroa, Melnick, Mason (bib3) 2012; 13
Chang, Chow, Tellier, Vattikuti, Purcell, Lee (bib19) 2015; 4
Choukrallah, Song, Rolink, Burger, Matthias (bib24) 2015; 6
Li, Hale, Bhagia, Xue, Chen, Jaffray, Yan, Lane, Gallagher, Mohandas (bib65) 2014; 124
Liao, Smyth, Shi (bib68) 2014; 30
Yu, Wang, He (bib117) 2015; 31
Tallack, Whitington, Yuen, Wainwright, Keys, Gardiner, Nourbakhsh, Cloonan, Grimmond, Bailey, Perkins (bib102) 2010; 20
Buenrostro, Giresi, Zaba, Chang, Greenleaf (bib16) 2013; 10
Koh, Sinha, Barkal, Morganti, Chen, Weissman, Ang, Kundaje, Loh (bib56) 2016; 3
Bao, Rubin, Qu, Zhang, Giresi, Chang, Khavari (bib6) 2015; 16
Chlon, Doré, Crispino (bib23) 2012; 47
Young, Wakefield, Smyth, Oshlack (bib116) 2010; 11
Stergachis, Neph, Reynolds, Humbert, Miller, Paige, Vernot, Cheng, Thurman, Sandstrom (bib100) 2013; 154
Abraham, Cui, Tang, Zhao (bib1) 2013; 14
Teif, Vainshtein, Caudron-Herger, Mallm, Marth, Höfer, Rippe (bib103) 2012; 19
Luyten, Zang, Liu, Shivdasani (bib71) 2014; 28
Thurman, Rynes, Humbert, Vierstra, Maurano, Haugen, Sheffield, Stergachis, Wang, Vernot (bib104) 2012; 489
Yu, Mo, Ebenezer, Bhattacharyya, Liu, Sundaravel, Giricz, Wontakal, Cartier, Caces (bib119) 2013; 288
Xu, Shao, Li, Xie, Kim, Huang, Taylor, Pinello, Glass, Jaffe (bib114) 2015; 57
Li, Schulz, Look, Begemann, Zenke, Costa (bib66) 2019; 20
Hattangadi, Wong, Zhang, Flygare, Lodish (bib41) 2011; 118
Buenrostro, Wu, Chang, Greenleaf (bib17) 2015; 109
Kellis, Wold, Snyder, Bernstein, Kundaje, Marinov, Ward, Birney, Crawford, Dekker (bib51) 2014; 111
Su, Steiner, Bogardus, Mishra, Schulz, Hardison, Gallagher (bib101) 2013; 288
Kumasaka, Knights, Gaffney (bib58) 2016; 48
Glomski, Tamburlin, Chainani (bib37) 1992; 7
Love, Huber, Anders (bib70) 2014; 15
Zhang, Liu, Meyer, Eeckhoute, Johnson, Bernstein, Nusbaum, Myers, Brown, Li, Liu (bib120) 2008; 9
Xi, Shulha, Lin, Vales, Fu, Bodine, McKay, Chenoweth, Tesar, Furey (bib112) 2007; 3
Fujiwara, O’Geen, Keles, Blahnik, Linnemann, Kang, Choi, Farnham, Bresnick (bib32) 2009; 36
Heintzman, Hon, Hawkins, Kheradpour, Stark, Harp, Ye, Lee, Stuart, Ching (bib43) 2009; 459
Ziller, Gu, Müller, Donaghey, Tsai, Kohlbacher, De Jager, Rosen, Bennett, Bernstein (bib121) 2013; 500
Xu, Carter, Gendrel, Attia, Loftus, Greenleaf, Tibshirani, Heard, Chang (bib115) 2017; 49
Scott (bib90) 2015; 218
Palii, Perez-Iratxeta, Yao, Cao, Dai, Davison, Atkins, Allan, Dilworth, Gentleman (bib78) 2011; 30
Iolascon, Russo, Esposito, Asci, Piscopo, Perrotta, Fénéant-Thibault, Garçon, Delaunay (bib47) 2010; 95
Ross-Innes, Stark, Teschendorff, Holmes, Ali, Dunning, Brown, Gojis, Ellis, Green (bib86) 2012; 481
Kadauke, Udugama, Pawlicki, Achtman, Jain, Cheng, Hardison, Blobel (bib49) 2012; 150
Kassouf, Hughes, Taylor, McGowan, Soneji, Green, Vyas, Porcher (bib50) 2010; 20
Bianchi, Fermo, Glader, Kanno, Agarwal, Barcellini, Eber, Hoyer, Kuter, Maia (bib11) 2019; 94
Siepel, Bejerano, Pedersen, Hinrichs, Hou, Rosenbloom, Clawson, Spieth, Hillier, Richards (bib95) 2005; 15
Bauer, Kamran, Lessard, Xu, Fujiwara, Lin, Shao, Canver, Smith, Pinello (bib10) 2013; 342
Glomski, Tamburlin (bib36) 1990; 5
Gu, Smith, Bock, Boyle, Gnirke, Meissner (bib39) 2011; 6
Bartholdy, Lajugie, Yan, Zhang, Mukhopadhyay, Greally, Suzuki, Bouhassira (bib8) 2018; 2
Birney, Lieb, Furey, Crawford, Iyer (bib12) 2010; 19
Bolger, Lohse, Usadel (bib14) 2014; 30
Garrett-Bakelman, Sheridan, Kacmarczyk, Ishii, Betel, Alonso, Mason, Figueroa, Melnick (bib33) 2015
MacArthur, Bowler, Cerezo, Gil, Hall, Hastings, Junkins, McMahon, Milano, Morales (bib72) 2017; 45
Philpott (bib80) 2018; 25
Pilon, Ajay, Kumar, Steiner, Cherukuri, Wincovitch, Anderson, Mullikin, Gallagher, Hardison (bib81) 2011; 118
Kadauke (10.1016/j.celrep.2019.08.020_bib48) 2009; 1789
Dzierzak (10.1016/j.celrep.2019.08.020_bib29) 2013; 3
Sankaran (10.1016/j.celrep.2019.08.020_bib88) 2011; 365
Russo (10.1016/j.celrep.2019.08.020_bib87) 2010; 85
Kadauke (10.1016/j.celrep.2019.08.020_bib49) 2012; 150
Degner (10.1016/j.celrep.2019.08.020_bib26) 2012; 482
Yu (10.1016/j.celrep.2019.08.020_bib117) 2015; 31
Hartley (10.1016/j.celrep.2019.08.020_bib40) 2015; 16
Fujiwara (10.1016/j.celrep.2019.08.020_bib32) 2009; 36
Wong (10.1016/j.celrep.2019.08.020_bib111) 2011; 118
Li (10.1016/j.celrep.2019.08.020_bib65) 2014; 124
Buenrostro (10.1016/j.celrep.2019.08.020_bib16) 2013; 10
Kassouf (10.1016/j.celrep.2019.08.020_bib50) 2010; 20
Luyten (10.1016/j.celrep.2019.08.020_bib71) 2014; 28
Young (10.1016/j.celrep.2019.08.020_bib116) 2010; 11
Steiner (10.1016/j.celrep.2019.08.020_bib98) 2009; 29
Xu (10.1016/j.celrep.2019.08.020_bib115) 2017; 49
Corces (10.1016/j.celrep.2019.08.020_bib25) 2016; 48
An (10.1016/j.celrep.2019.08.020_bib4) 2014; 123
Scott (10.1016/j.celrep.2019.08.020_bib91) 2006; 154
Heintzman (10.1016/j.celrep.2019.08.020_bib42) 2007; 39
Ross-Innes (10.1016/j.celrep.2019.08.020_bib86) 2012; 481
Philpott (10.1016/j.celrep.2019.08.020_bib80) 2018; 25
Heinz (10.1016/j.celrep.2019.08.020_bib44) 2010; 38
Qu (10.1016/j.celrep.2019.08.020_bib82) 2015; 1
Bonifer (10.1016/j.celrep.2019.08.020_bib15) 2017; 49
Heintzman (10.1016/j.celrep.2019.08.020_bib43) 2009; 459
Glomski (10.1016/j.celrep.2019.08.020_bib36) 1990; 5
Scott (10.1016/j.celrep.2019.08.020_bib90) 2015; 218
Xi (10.1016/j.celrep.2019.08.020_bib112) 2007; 3
West (10.1016/j.celrep.2019.08.020_bib109) 2014; 5
Schmidt (10.1016/j.celrep.2019.08.020_bib89) 2010; 328
Robinson (10.1016/j.celrep.2019.08.020_bib84) 2010; 11
Bolger (10.1016/j.celrep.2019.08.020_bib14) 2014; 30
Lloyd (10.1016/j.celrep.2019.08.020_bib69) 2018; 1698
Xu (10.1016/j.celrep.2019.08.020_bib114) 2015; 57
Gautier (10.1016/j.celrep.2019.08.020_bib34) 2016; 16
Tallack (10.1016/j.celrep.2019.08.020_bib102) 2010; 20
Hu (10.1016/j.celrep.2019.08.020_bib46) 2013; 121
Kellis (10.1016/j.celrep.2019.08.020_bib51) 2014; 111
Palii (10.1016/j.celrep.2019.08.020_bib78) 2011; 30
Quinlan (10.1016/j.celrep.2019.08.020_bib83) 2010; 26
Bartholdy (10.1016/j.celrep.2019.08.020_bib8) 2018; 2
Yu (10.1016/j.celrep.2019.08.020_bib119) 2013; 288
Kim (10.1016/j.celrep.2019.08.020_bib53) 2013; 14
Bao (10.1016/j.celrep.2019.08.020_bib6) 2015; 16
Siepel (10.1016/j.celrep.2019.08.020_bib94) 2004; 11
Thurman (10.1016/j.celrep.2019.08.020_bib104) 2012; 489
Robinson (10.1016/j.celrep.2019.08.020_bib85) 2010; 26
Steiner (10.1016/j.celrep.2019.08.020_bib99) 2016; 11
King (10.1016/j.celrep.2019.08.020_bib55) 2005; 15
Dover (10.1016/j.celrep.2019.08.020_bib28) 1983; 61
Varley (10.1016/j.celrep.2019.08.020_bib107) 2013; 23
Yu (10.1016/j.celrep.2019.08.020_bib118) 2009; 36
Liao (10.1016/j.celrep.2019.08.020_bib68) 2014; 30
Hattangadi (10.1016/j.celrep.2019.08.020_bib41) 2011; 118
Park (10.1016/j.celrep.2019.08.020_bib79) 2009; 10
Bauer (10.1016/j.celrep.2019.08.020_bib10) 2013; 342
Garrett-Bakelman (10.1016/j.celrep.2019.08.020_bib33) 2015
Akalin (10.1016/j.celrep.2019.08.020_bib2) 2012; 8
Liang (10.1016/j.celrep.2019.08.020_bib67) 2008; 105
Lawrence (10.1016/j.celrep.2019.08.020_bib60) 2013; 9
Wilson (10.1016/j.celrep.2019.08.020_bib110) 2009; 113
Birney (10.1016/j.celrep.2019.08.020_bib12) 2010; 19
Tsiftsoglou (10.1016/j.celrep.2019.08.020_bib105) 2009; 61
Zhang (10.1016/j.celrep.2019.08.020_bib120) 2008; 9
Gentleman (10.1016/j.celrep.2019.08.020_bib35) 2004; 5
Koh (10.1016/j.celrep.2019.08.020_bib56) 2016; 3
Bianchi (10.1016/j.celrep.2019.08.020_bib11) 2019; 94
Kim (10.1016/j.celrep.2019.08.020_bib52) 2007; 128
Gu (10.1016/j.celrep.2019.08.020_bib39) 2011; 6
Armstrong (10.1016/j.celrep.2019.08.020_bib5) 2014; 15
Su (10.1016/j.celrep.2019.08.020_bib101) 2013; 288
Sheffield (10.1016/j.celrep.2019.08.020_bib93) 2013; 23
Stadhouders (10.1016/j.celrep.2019.08.020_bib97) 2014; 124
Cheng (10.1016/j.celrep.2019.08.020_bib21) 2008; 18
Abraham (10.1016/j.celrep.2019.08.020_bib1) 2013; 14
Chen (10.1016/j.celrep.2019.08.020_bib20) 2009; 106
Teif (10.1016/j.celrep.2019.08.020_bib103) 2012; 19
Nord (10.1016/j.celrep.2019.08.020_bib77) 2013; 155
Ulirsch (10.1016/j.celrep.2019.08.020_bib106) 2014; 10
Pilon (10.1016/j.celrep.2019.08.020_bib81) 2011; 118
Chang (10.1016/j.celrep.2019.08.020_bib19) 2015; 4
Blow (10.1016/j.celrep.2019.08.020_bib13) 2010; 42
Kumasaka (10.1016/j.celrep.2019.08.020_bib58) 2016; 48
McLean (10.1016/j.celrep.2019.08.020_bib73) 2010; 28
Farnham (10.1016/j.celrep.2019.08.020_bib30) 2009; 10
Kim (10.1016/j.celrep.2019.08.020_bib54) 2014; 506
Iolascon (10.1016/j.celrep.2019.08.020_bib47) 2010; 95
Lara-Astiaso (10.1016/j.celrep.2019.08.020_bib59) 2014; 345
Song (10.1016/j.celrep.2019.08.020_bib96) 2011; 21
Visel (10.1016/j.celrep.2019.08.020_bib108) 2009; 461
Carroll (10.1016/j.celrep.2019.08.020_bib18) 2014; 5
Akalin (10.1016/j.celrep.2019.08.020_bib3) 2012; 13
Li (10.1016/j.celrep.2019.08.020_bib63) 2010; 26
Nikinmaa (10.1016/j.celrep.2019.08.020_bib76) 1997; 200
Buenrostro (10.1016/j.celrep.2019.08.020_bib17) 2015; 109
Bauer (10.1016/j.celrep.2019.08.020_bib9) 2012; 120
Siepel (10.1016/j.celrep.2019.08.020_bib95) 2005; 15
Barski (10.1016/j.celrep.2019.08.020_bib7) 2009; 107
Lessard (10.1016/j.celrep.2019.08.020_bib62) 2015; 7
Choukrallah (10.1016/j.celrep.2019.08.020_bib24) 2015; 6
Krueger (10.1016/j.celrep.2019.08.020_bib57) 2011; 27
Li (10.1016/j.celrep.2019.08.020_bib66) 2019; 20
Lenfant (10.1016/j.celrep.2019.08.020_bib61) 1972; 14
Glomski (10.1016/j.celrep.2019.08.020_bib37) 1992; 7
Neph (10.1016/j.celrep.2019.08.020_bib75) 2012; 150
Stergachis (10.1016/j.celrep.2019.08.020_bib100) 2013; 154
MacArthur (10.1016/j.celrep.2019.08.020_bib72) 2017; 45
Miyai (10.1016/j.celrep.2019.08.020_bib74) 2018; 32
Shearstone (10.1016/j.celrep.2019.08.020_bib92) 2011; 334
Cheng (10.1016/j.celrep.2019.08.020_bib22) 2009; 19
Frank (10.1016/j.celrep.2019.08.020_bib31) 2015; 18
Li (10.1016/j.celrep.2019.08.020_bib64) 2002; 100
Chlon (10.1016/j.celrep.2019.08.020_bib23) 2012; 47
Love (10.1016/j.celrep.2019.08.020_bib70) 2014; 15
Heuston (10.1016/j.celrep.2019.08.020_bib45) 2018; 11
Xu (10.1016/j.celrep.2019.08.020_bib113) 2012; 23
Ziller (10.1016/j.celrep.2019.08.020_bib121) 2013; 500
Glomski (10.1016/j.celrep.2019.08.020_bib38) 1997; 12
Doré (10.1016/j.celrep.2019.08.020_bib27) 2012; 119
References_xml – volume: 95
  start-page: 708
  year: 2010
  end-page: 715
  ident: bib47
  article-title: Molecular analysis of 42 patients with congenital dyserythropoietic anemia type II: new mutations in the SEC23B gene and a search for a genotype-phenotype relationship
  publication-title: Haematologica
– volume: 36
  start-page: 667
  year: 2009
  end-page: 681
  ident: bib32
  article-title: Discovering hematopoietic mechanisms through genome-wide analysis of GATA factor chromatin occupancy
  publication-title: Mol. Cell
– start-page: e52246
  year: 2015
  ident: bib33
  article-title: Enhanced reduced representation bisulfite sequencing for assessment of DNA methylation at base pair resolution
  publication-title: J. Vis. Exp.
– volume: 1
  start-page: 51
  year: 2015
  end-page: 61
  ident: bib82
  article-title: Individuality and variation of personal regulomes in primary human T cells
  publication-title: Cell Syst.
– volume: 20
  start-page: 45
  year: 2019
  ident: bib66
  article-title: Identification of transcription factor binding sites using ATAC-seq
  publication-title: Genome Biol.
– volume: 11
  start-page: R14
  year: 2010
  ident: bib116
  article-title: Gene ontology analysis for RNA-seq: accounting for selection bias
  publication-title: Genome Biol.
– volume: 48
  start-page: 206
  year: 2016
  end-page: 213
  ident: bib58
  article-title: Fine-mapping cellular QTLs with RASQUAL and ATAC-seq
  publication-title: Nat. Genet.
– volume: 155
  start-page: 1521
  year: 2013
  end-page: 1531
  ident: bib77
  article-title: Rapid and pervasive changes in genome-wide enhancer usage during mammalian development
  publication-title: Cell
– volume: 365
  start-page: 807
  year: 2011
  end-page: 814
  ident: bib88
  article-title: A functional element necessary for fetal hemoglobin silencing
  publication-title: N. Engl. J. Med.
– volume: 7
  start-page: 1
  year: 2015
  ident: bib62
  article-title: Comparison of DNA methylation profiles in human fetal and adult red blood cell progenitors
  publication-title: Genome Med.
– volume: 342
  start-page: 253
  year: 2013
  end-page: 257
  ident: bib10
  article-title: An erythroid enhancer of BCL11A subject to genetic variation determines fetal hemoglobin level
  publication-title: Science
– volume: 18
  start-page: 1896
  year: 2008
  end-page: 1905
  ident: bib21
  article-title: Transcriptional enhancement by GATA1-occupied DNA segments is strongly associated with evolutionary constraint on the binding site motif
  publication-title: Genome Res.
– volume: 9
  start-page: e1003118
  year: 2013
  ident: bib60
  article-title: Software for computing and annotating genomic ranges
  publication-title: PLoS Comput. Biol.
– volume: 14
  start-page: 211
  year: 1972
  end-page: 218
  ident: bib61
  article-title: Gas exchange in gill, skin, and lung breathing
  publication-title: Respir. Physiol.
– volume: 8
  start-page: e1002781
  year: 2012
  ident: bib2
  article-title: Base-pair resolution DNA methylation sequencing reveals profoundly divergent epigenetic landscapes in acute myeloid leukemia
  publication-title: PLoS Genet.
– volume: 489
  start-page: 75
  year: 2012
  end-page: 82
  ident: bib104
  article-title: The accessible chromatin landscape of the human genome
  publication-title: Nature
– volume: 26
  start-page: 589
  year: 2010
  end-page: 595
  ident: bib63
  article-title: Fast and accurate long-read alignment with Burrows-Wheeler transform
  publication-title: Bioinformatics
– volume: 12
  start-page: 147
  year: 1997
  end-page: 170
  ident: bib38
  article-title: The phylogenetic odyssey of the erythrocyte. IV. The amphibians
  publication-title: Histol. Histopathol.
– volume: 334
  start-page: 799
  year: 2011
  end-page: 802
  ident: bib92
  article-title: Global DNA demethylation during mouse erythropoiesis in vivo
  publication-title: Science
– volume: 26
  start-page: 139
  year: 2010
  end-page: 140
  ident: bib85
  article-title: edgeR: a Bioconductor package for differential expression analysis of digital gene expression data
  publication-title: Bioinformatics
– volume: 118
  start-page: 6258
  year: 2011
  end-page: 6268
  ident: bib41
  article-title: From stem cell to red cell: regulation of erythropoiesis at multiple levels by multiple proteins, RNAs, and chromatin modifications
  publication-title: Blood
– volume: 109
  start-page: 21.29.1
  year: 2015
  end-page: 21.29.9
  ident: bib17
  article-title: ATAC-seq: A Method for Assaying Chromatin Accessibility Genome-Wide
  publication-title: Curr. Protoc. Mol. Biol.
– volume: 482
  start-page: 390
  year: 2012
  end-page: 394
  ident: bib26
  article-title: DNase I sensitivity QTLs are a major determinant of human expression variation
  publication-title: Nature
– volume: 29
  start-page: 5399
  year: 2009
  end-page: 5412
  ident: bib98
  article-title: Chromatin architecture and transcription factor binding regulate expression of erythrocyte membrane protein genes
  publication-title: Mol. Cell. Biol.
– volume: 118
  start-page: e128
  year: 2011
  end-page: e138
  ident: bib111
  article-title: Gene induction and repression during terminal erythropoiesis are mediated by distinct epigenetic changes
  publication-title: Blood
– volume: 85
  start-page: 915
  year: 2010
  end-page: 920
  ident: bib87
  article-title: Mutational spectrum in congenital dyserythropoietic anemia type II: identification of 19 novel variants in SEC23B gene
  publication-title: Am. J. Hematol.
– volume: 31
  start-page: 2382
  year: 2015
  end-page: 2383
  ident: bib117
  article-title: ChIPseeker: an R/Bioconductor package for ChIP peak annotation, comparison and visualization
  publication-title: Bioinformatics
– volume: 39
  start-page: 311
  year: 2007
  end-page: 318
  ident: bib42
  article-title: Distinct and predictive chromatin signatures of transcriptional promoters and enhancers in the human genome
  publication-title: Nat. Genet.
– volume: 23
  start-page: 555
  year: 2013
  end-page: 567
  ident: bib107
  article-title: Dynamic DNA methylation across diverse human cell lines and tissues
  publication-title: Genome Res.
– volume: 2
  start-page: 1833
  year: 2018
  end-page: 1852
  ident: bib8
  article-title: Mechanisms of establishment and functional significance of DNA demethylation during erythroid differentiation
  publication-title: Blood Adv.
– volume: 20
  start-page: 1064
  year: 2010
  end-page: 1083
  ident: bib50
  article-title: Genome-wide identification of TAL1’s functional targets: insights into its mechanisms of action in primary erythroid cells
  publication-title: Genome Res.
– volume: 16
  start-page: 1470
  year: 2016
  end-page: 1484
  ident: bib34
  article-title: Comprehensive Proteomic Analysis of Human Erythropoiesis
  publication-title: Cell Rep.
– volume: 36
  start-page: 682
  year: 2009
  end-page: 695
  ident: bib118
  article-title: Insights into GATA-1-mediated gene activation versus repression via genome-wide chromatin occupancy analysis
  publication-title: Mol. Cell
– volume: 16
  start-page: 224
  year: 2015
  ident: bib40
  article-title: QoRTs: a comprehensive toolset for quality control and data processing of RNA-Seq experiments
  publication-title: BMC Bioinformatics
– volume: 11
  start-page: R25
  year: 2010
  ident: bib84
  article-title: A scaling normalization method for differential expression analysis of RNA-seq data
  publication-title: Genome Biol.
– volume: 106
  start-page: 17413
  year: 2009
  end-page: 17418
  ident: bib20
  article-title: Resolving the distinct stages in erythroid differentiation based on dynamic changes in membrane protein expression during erythropoiesis
  publication-title: Proc. Natl. Acad. Sci. USA
– volume: 57
  start-page: 304
  year: 2015
  end-page: 316
  ident: bib114
  article-title: Developmental control of polycomb subunit composition by GATA factors mediates a switch to non-canonical functions
  publication-title: Mol. Cell
– volume: 16
  start-page: 284
  year: 2015
  ident: bib6
  article-title: A novel ATAC-seq approach reveals lineage-specific reinforcement of the open chromatin landscape via cooperation between BAF and p63
  publication-title: Genome Biol.
– volume: 119
  start-page: 3724
  year: 2012
  end-page: 3733
  ident: bib27
  article-title: Chromatin occupancy analysis reveals genome-wide GATA factor switching during hematopoiesis
  publication-title: Blood
– volume: 11
  start-page: 413
  year: 2004
  end-page: 428
  ident: bib94
  article-title: Combining phylogenetic and hidden Markov models in biosequence analysis
  publication-title: J. Comput. Biol.
– volume: 14
  start-page: R36
  year: 2013
  ident: bib53
  article-title: TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions
  publication-title: Genome Biol.
– volume: 11
  start-page: e0155378
  year: 2016
  ident: bib99
  article-title: CTCF and CohesinSA-1 Mark Active Promoters and Boundaries of Repressive Chromatin Domains in Primary Human Erythroid Cells
  publication-title: PLoS One
– volume: 105
  start-page: 9
  year: 2008
  end-page: 16
  ident: bib67
  article-title: Locus control region mediated regulation of adult beta-globin gene expression
  publication-title: J. Cell. Biochem.
– volume: 20
  start-page: 1052
  year: 2010
  end-page: 1063
  ident: bib102
  article-title: A global role for KLF1 in erythropoiesis revealed by ChIP-seq in primary erythroid cells
  publication-title: Genome Res.
– volume: 15
  start-page: 1051
  year: 2005
  end-page: 1060
  ident: bib55
  article-title: Evaluation of regulatory potential and conservation scores for detecting cis-regulatory modules in aligned mammalian genome sequences
  publication-title: Genome Res.
– volume: 154
  start-page: 284
  year: 2006
  end-page: 301
  ident: bib91
  article-title: Flying high: a theoretical analysis of the factors limiting exercise performance in birds at altitude
  publication-title: Respir. Physiol. Neurobiol.
– volume: 61
  start-page: 800
  year: 2009
  end-page: 830
  ident: bib105
  article-title: Erythropoiesis: model systems, molecular regulators, and developmental programs
  publication-title: IUBMB Life
– volume: 3
  start-page: e136
  year: 2007
  ident: bib112
  article-title: Identification and characterization of cell type-specific and ubiquitous chromatin regulatory structures in the human genome
  publication-title: PLoS Genet.
– volume: 48
  start-page: 1193
  year: 2016
  end-page: 1203
  ident: bib25
  article-title: Lineage-specific and single-cell chromatin accessibility charts human hematopoiesis and leukemia evolution
  publication-title: Nat. Genet.
– volume: 128
  start-page: 1231
  year: 2007
  end-page: 1245
  ident: bib52
  article-title: Analysis of the vertebrate insulator protein CTCF-binding sites in the human genome
  publication-title: Cell
– volume: 150
  start-page: 1274
  year: 2012
  end-page: 1286
  ident: bib75
  article-title: Circuitry and dynamics of human transcription factor regulatory networks
  publication-title: Cell
– volume: 9
  start-page: R137
  year: 2008
  ident: bib120
  article-title: Model-based analysis of ChIP-Seq (MACS)
  publication-title: Genome Biol.
– volume: 1789
  start-page: 17
  year: 2009
  end-page: 25
  ident: bib48
  article-title: Chromatin loops in gene regulation
  publication-title: Biochim. Biophys. Acta
– volume: 100
  start-page: 3077
  year: 2002
  end-page: 3086
  ident: bib64
  article-title: Locus control regions
  publication-title: Blood
– volume: 124
  start-page: 1699
  year: 2014
  end-page: 1710
  ident: bib97
  article-title: HBS1L-MYB intergenic variants modulate fetal hemoglobin via long-range MYB enhancers
  publication-title: J. Clin. Invest.
– volume: 28
  start-page: 495
  year: 2010
  end-page: 501
  ident: bib73
  article-title: GREAT improves functional interpretation of cis-regulatory regions
  publication-title: Nat. Biotechnol.
– volume: 154
  start-page: 888
  year: 2013
  end-page: 903
  ident: bib100
  article-title: Developmental fate and cellular maturity encoded in human regulatory DNA landscapes
  publication-title: Cell
– volume: 23
  start-page: 777
  year: 2013
  end-page: 788
  ident: bib93
  article-title: Patterns of regulatory activity across diverse human cell types predict tissue identity, transcription factor binding, and long-range interactions
  publication-title: Genome Res.
– volume: 10
  start-page: 1213
  year: 2013
  end-page: 1218
  ident: bib16
  article-title: Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position
  publication-title: Nat. Methods
– volume: 345
  start-page: 943
  year: 2014
  end-page: 949
  ident: bib59
  article-title: Immunogenetics. Chromatin state dynamics during blood formation
  publication-title: Science
– volume: 7
  start-page: 501
  year: 1992
  end-page: 528
  ident: bib37
  article-title: The phylogenetic odyssey of the erythrocyte. III. Fish, the lower vertebrate experience
  publication-title: Histol. Histopathol.
– volume: 459
  start-page: 108
  year: 2009
  end-page: 112
  ident: bib43
  article-title: Histone modifications at human enhancers reflect global cell-type-specific gene expression
  publication-title: Nature
– volume: 481
  start-page: 389
  year: 2012
  end-page: 393
  ident: bib86
  article-title: Differential oestrogen receptor binding is associated with clinical outcome in breast cancer
  publication-title: Nature
– volume: 94
  start-page: 149
  year: 2019
  end-page: 161
  ident: bib11
  article-title: Addressing the diagnostic gaps in pyruvate kinase deficiency: consensus recommendations on the diagnosis of pyruvate kinase deficiency
  publication-title: Am. J. Hematol.
– volume: 5
  start-page: 75
  year: 2014
  ident: bib18
  article-title: Impact of artifact removal on ChIP quality metrics in ChIP-seq and ChIP-exo data
  publication-title: Front. Genet.
– volume: 25
  start-page: 183
  year: 2018
  end-page: 188
  ident: bib80
  article-title: The flux of iron through ferritin in erythrocyte development
  publication-title: Curr. Opin. Hematol.
– volume: 123
  start-page: 3466
  year: 2014
  end-page: 3477
  ident: bib4
  article-title: Global transcriptome analyses of human and murine terminal erythroid differentiation
  publication-title: Blood
– volume: 30
  start-page: 2114
  year: 2014
  end-page: 2120
  ident: bib14
  article-title: Trimmomatic: a flexible trimmer for Illumina sequence data
  publication-title: Bioinformatics
– volume: 118
  start-page: e139
  year: 2011
  end-page: e148
  ident: bib81
  article-title: Genome-wide ChIP-Seq reveals a dramatic shift in the binding of the transcription factor erythroid Kruppel-like factor during erythrocyte differentiation
  publication-title: Blood
– volume: 4
  start-page: 7
  year: 2015
  ident: bib19
  article-title: Second-generation PLINK: rising to the challenge of larger and richer datasets
  publication-title: Gigascience
– volume: 328
  start-page: 1036
  year: 2010
  end-page: 1040
  ident: bib89
  article-title: Five-vertebrate ChIP-seq reveals the evolutionary dynamics of transcription factor binding
  publication-title: Science
– volume: 15
  start-page: 347
  year: 2014
  end-page: 354
  ident: bib5
  article-title: GWAS identifies novel SLE susceptibility genes and explains the association of the HLA region
  publication-title: Genes Immun.
– volume: 121
  start-page: 3246
  year: 2013
  end-page: 3253
  ident: bib46
  article-title: Isolation and functional characterization of human erythroblasts at distinct stages: implications for understanding of normal and disordered erythropoiesis in vivo
  publication-title: Blood
– volume: 27
  start-page: 1571
  year: 2011
  end-page: 1572
  ident: bib57
  article-title: Bismark: a flexible aligner and methylation caller for Bisulfite-Seq applications
  publication-title: Bioinformatics
– volume: 15
  start-page: 1034
  year: 2005
  end-page: 1050
  ident: bib95
  article-title: Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes
  publication-title: Genome Res.
– volume: 10
  start-page: 605
  year: 2009
  end-page: 616
  ident: bib30
  article-title: Insights from genomic profiling of transcription factors
  publication-title: Nat. Rev. Genet.
– volume: 506
  start-page: 511
  year: 2014
  end-page: 515
  ident: bib54
  article-title: Broadly permissive intestinal chromatin underlies lateral inhibition and cell plasticity
  publication-title: Nature
– volume: 3
  start-page: 160109
  year: 2016
  ident: bib56
  article-title: An atlas of transcriptional, chromatin accessibility, and surface marker changes in human mesoderm development
  publication-title: Sci. Data
– volume: 6
  start-page: 468
  year: 2011
  end-page: 481
  ident: bib39
  article-title: Preparation of reduced representation bisulfite sequencing libraries for genome-scale DNA methylation profiling
  publication-title: Nat. Protoc.
– volume: 10
  start-page: 669
  year: 2009
  end-page: 680
  ident: bib79
  article-title: ChIP-seq: advantages and challenges of a maturing technology
  publication-title: Nat. Rev. Genet.
– volume: 49
  start-page: 377
  year: 2017
  end-page: 386
  ident: bib115
  article-title: Landscape of monoallelic DNA accessibility in mouse embryonic stem cells and neural progenitor cells
  publication-title: Nat. Genet.
– volume: 5
  start-page: 513
  year: 1990
  end-page: 525
  ident: bib36
  article-title: The phylogenetic odyssey of the erythrocyte. II. The early or invertebrate prototypes
  publication-title: Histol. Histopathol.
– volume: 500
  start-page: 477
  year: 2013
  end-page: 481
  ident: bib121
  article-title: Charting a dynamic DNA methylation landscape of the human genome
  publication-title: Nature
– volume: 38
  start-page: 576
  year: 2010
  end-page: 589
  ident: bib44
  article-title: Simple combinations of lineage-determining transcription factors prime cis-regulatory elements required for macrophage and B cell identities
  publication-title: Mol. Cell
– volume: 19
  start-page: 2172
  year: 2009
  end-page: 2184
  ident: bib22
  article-title: Erythroid GATA1 function revealed by genome-wide analysis of transcription factor occupancy, histone modifications, and mRNA expression
  publication-title: Genome Res.
– volume: 19
  start-page: 1185
  year: 2012
  end-page: 1192
  ident: bib103
  article-title: Genome-wide nucleosome positioning during embryonic stem cell development
  publication-title: Nat. Struct. Mol. Biol.
– volume: 45
  start-page: D896
  year: 2017
  end-page: D901
  ident: bib72
  article-title: The new NHGRI-EBI Catalog of published genome-wide association studies (GWAS Catalog)
  publication-title: Nucleic Acids Res.
– volume: 218
  start-page: 2818
  year: 2015
  end-page: 2820
  ident: bib90
  article-title: Early insights into the evolution of respiratory and cardiovascular physiology in vertebrates
  publication-title: J. Exp. Biol.
– volume: 461
  start-page: 199
  year: 2009
  end-page: 205
  ident: bib108
  article-title: Genomic views of distant-acting enhancers
  publication-title: Nature
– volume: 26
  start-page: 841
  year: 2010
  end-page: 842
  ident: bib83
  article-title: BEDTools: a flexible suite of utilities for comparing genomic features
  publication-title: Bioinformatics
– volume: 13
  start-page: R87
  year: 2012
  ident: bib3
  article-title: methylKit: a comprehensive R package for the analysis of genome-wide DNA methylation profiles
  publication-title: Genome Biol.
– volume: 1698
  start-page: 1
  year: 2018
  end-page: 10
  ident: bib69
  article-title: An Introduction to Erythropoiesis Approaches
  publication-title: Methods Mol. Biol.
– volume: 21
  start-page: 1757
  year: 2011
  end-page: 1767
  ident: bib96
  article-title: Open chromatin defined by DNaseI and FAIRE identifies regulatory elements that shape cell-type identity
  publication-title: Genome Res.
– volume: 5
  start-page: 4719
  year: 2014
  ident: bib109
  article-title: Nucleosomal occupancy changes locally over key regulatory regions during cell differentiation and reprogramming
  publication-title: Nat. Commun.
– volume: 6
  start-page: 8324
  year: 2015
  ident: bib24
  article-title: Enhancer repertoires are reshaped independently of early priming and heterochromatin dynamics during B cell differentiation
  publication-title: Nat. Commun.
– volume: 107
  start-page: 11
  year: 2009
  end-page: 18
  ident: bib7
  article-title: Genomic location analysis by ChIP-Seq
  publication-title: J. Cell. Biochem.
– volume: 19
  start-page: R204
  year: 2010
  end-page: R209
  ident: bib12
  article-title: Allele-specific and heritable chromatin signatures in humans
  publication-title: Hum. Mol. Genet.
– volume: 124
  start-page: 3636
  year: 2014
  end-page: 3645
  ident: bib65
  article-title: Isolation and transcriptome analyses of human erythroid progenitors: BFU-E and CFU-E
  publication-title: Blood
– volume: 150
  start-page: 725
  year: 2012
  end-page: 737
  ident: bib49
  article-title: Tissue-specific mitotic bookmarking by hematopoietic transcription factor GATA1
  publication-title: Cell
– volume: 288
  start-page: 8433
  year: 2013
  end-page: 8444
  ident: bib101
  article-title: Identification of biologically relevant enhancers in human erythroid cells
  publication-title: J. Biol. Chem.
– volume: 23
  start-page: 796
  year: 2012
  end-page: 811
  ident: bib113
  article-title: Combinatorial assembly of developmental stage-specific enhancers controls gene expression programs during human erythropoiesis
  publication-title: Dev. Cell
– volume: 28
  start-page: 1827
  year: 2014
  end-page: 1839
  ident: bib71
  article-title: Active enhancers are delineated de novo during hematopoiesis, with limited lineage fidelity among specified primary blood cells
  publication-title: Genes Dev.
– volume: 10
  start-page: e1004890
  year: 2014
  ident: bib106
  article-title: Altered chromatin occupancy of master regulators underlies evolutionary divergence in the transcriptional landscape of erythroid differentiation
  publication-title: PLoS Genet.
– volume: 11
  start-page: 22
  year: 2018
  ident: bib45
  article-title: Establishment of regulatory elements during erythro-megakaryopoiesis identifies hematopoietic lineage-commitment points
  publication-title: Epigenetics Chromatin
– volume: 30
  start-page: 923
  year: 2014
  end-page: 930
  ident: bib68
  article-title: featureCounts: an efficient general purpose program for assigning sequence reads to genomic features
  publication-title: Bioinformatics
– volume: 3
  start-page: a011601
  year: 2013
  ident: bib29
  article-title: Erythropoiesis: development and differentiation
  publication-title: Cold Spring Harb. Perspect. Med.
– volume: 32
  start-page: 112
  year: 2018
  end-page: 126
  ident: bib74
  article-title: Three-step transcriptional priming that drives the commitment of multipotent progenitors toward B cells
  publication-title: Genes Dev.
– volume: 30
  start-page: 494
  year: 2011
  end-page: 509
  ident: bib78
  article-title: Differential genomic targeting of the transcription factor TAL1 in alternate haematopoietic lineages
  publication-title: EMBO J.
– volume: 61
  start-page: 1242
  year: 1983
  end-page: 1246
  ident: bib28
  article-title: Fetal hemoglobin production in cultures of primitive and mature human erythroid progenitors: differentiation affects the quantity of fetal hemoglobin produced per fetal-hemoglobin-containing cell
  publication-title: Blood
– volume: 111
  start-page: 6131
  year: 2014
  end-page: 6138
  ident: bib51
  article-title: Defining functional DNA elements in the human genome
  publication-title: Proc. Natl. Acad. Sci. USA
– volume: 47
  start-page: 608
  year: 2012
  end-page: 621
  ident: bib23
  article-title: Cofactor-mediated restriction of GATA-1 chromatin occupancy coordinates lineage-specific gene expression
  publication-title: Mol. Cell
– volume: 288
  start-page: 8805
  year: 2013
  end-page: 8814
  ident: bib119
  article-title: High resolution methylome analysis reveals widespread functional hypomethylation during adult human erythropoiesis
  publication-title: J. Biol. Chem.
– volume: 49
  start-page: 1
  year: 2017
  end-page: 8
  ident: bib15
  article-title: Chromatin priming of genes in development: concepts, mechanisms and consequences
  publication-title: Exp. Hematol.
– volume: 5
  start-page: R80
  year: 2004
  ident: bib35
  article-title: Bioconductor: open software development for computational biology and bioinformatics
  publication-title: Genome Biol.
– volume: 18
  start-page: 647
  year: 2015
  end-page: 656
  ident: bib31
  article-title: Regulation of chromatin accessibility and Zic binding at enhancers in the developing cerebellum
  publication-title: Nat. Neurosci.
– volume: 113
  start-page: 5456
  year: 2009
  end-page: 5465
  ident: bib110
  article-title: The transcriptional program controlled by the stem cell leukemia gene Scl/Tal1 during early embryonic hematopoietic development
  publication-title: Blood
– volume: 120
  start-page: 2945
  year: 2012
  end-page: 2953
  ident: bib9
  article-title: Reawakening fetal hemoglobin: prospects for new therapies for the β-globin disorders
  publication-title: Blood
– volume: 15
  start-page: 550
  year: 2014
  ident: bib70
  article-title: Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
  publication-title: Genome Biol.
– volume: 200
  start-page: 369
  year: 1997
  end-page: 380
  ident: bib76
  article-title: Oxygen and carbon dioxide transport in vertebrate erythrocytes: an evolutionary change in the role of membrane transport
  publication-title: J. Exp. Biol.
– volume: 14
  start-page: 193
  year: 2013
  ident: bib1
  article-title: Dynamic regulation of epigenomic landscapes during hematopoiesis
  publication-title: BMC Genomics
– volume: 42
  start-page: 806
  year: 2010
  end-page: 810
  ident: bib13
  article-title: ChIP-Seq identification of weakly conserved heart enhancers
  publication-title: Nat. Genet.
– volume: 28
  start-page: 1827
  year: 2014
  ident: 10.1016/j.celrep.2019.08.020_bib71
  article-title: Active enhancers are delineated de novo during hematopoiesis, with limited lineage fidelity among specified primary blood cells
  publication-title: Genes Dev.
  doi: 10.1101/gad.240101.114
– volume: 21
  start-page: 1757
  year: 2011
  ident: 10.1016/j.celrep.2019.08.020_bib96
  article-title: Open chromatin defined by DNaseI and FAIRE identifies regulatory elements that shape cell-type identity
  publication-title: Genome Res.
  doi: 10.1101/gr.121541.111
– volume: 20
  start-page: 1052
  year: 2010
  ident: 10.1016/j.celrep.2019.08.020_bib102
  article-title: A global role for KLF1 in erythropoiesis revealed by ChIP-seq in primary erythroid cells
  publication-title: Genome Res.
  doi: 10.1101/gr.106575.110
– volume: 16
  start-page: 284
  year: 2015
  ident: 10.1016/j.celrep.2019.08.020_bib6
  article-title: A novel ATAC-seq approach reveals lineage-specific reinforcement of the open chromatin landscape via cooperation between BAF and p63
  publication-title: Genome Biol.
  doi: 10.1186/s13059-015-0840-9
– volume: 5
  start-page: 4719
  year: 2014
  ident: 10.1016/j.celrep.2019.08.020_bib109
  article-title: Nucleosomal occupancy changes locally over key regulatory regions during cell differentiation and reprogramming
  publication-title: Nat. Commun.
  doi: 10.1038/ncomms5719
– volume: 334
  start-page: 799
  year: 2011
  ident: 10.1016/j.celrep.2019.08.020_bib92
  article-title: Global DNA demethylation during mouse erythropoiesis in vivo
  publication-title: Science
  doi: 10.1126/science.1207306
– volume: 13
  start-page: R87
  year: 2012
  ident: 10.1016/j.celrep.2019.08.020_bib3
  article-title: methylKit: a comprehensive R package for the analysis of genome-wide DNA methylation profiles
  publication-title: Genome Biol.
  doi: 10.1186/gb-2012-13-10-r87
– volume: 36
  start-page: 682
  year: 2009
  ident: 10.1016/j.celrep.2019.08.020_bib118
  article-title: Insights into GATA-1-mediated gene activation versus repression via genome-wide chromatin occupancy analysis
  publication-title: Mol. Cell
  doi: 10.1016/j.molcel.2009.11.002
– volume: 15
  start-page: 1034
  year: 2005
  ident: 10.1016/j.celrep.2019.08.020_bib95
  article-title: Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes
  publication-title: Genome Res.
  doi: 10.1101/gr.3715005
– volume: 119
  start-page: 3724
  year: 2012
  ident: 10.1016/j.celrep.2019.08.020_bib27
  article-title: Chromatin occupancy analysis reveals genome-wide GATA factor switching during hematopoiesis
  publication-title: Blood
  doi: 10.1182/blood-2011-09-380634
– volume: 461
  start-page: 199
  year: 2009
  ident: 10.1016/j.celrep.2019.08.020_bib108
  article-title: Genomic views of distant-acting enhancers
  publication-title: Nature
  doi: 10.1038/nature08451
– volume: 1789
  start-page: 17
  year: 2009
  ident: 10.1016/j.celrep.2019.08.020_bib48
  article-title: Chromatin loops in gene regulation
  publication-title: Biochim. Biophys. Acta
  doi: 10.1016/j.bbagrm.2008.07.002
– volume: 120
  start-page: 2945
  year: 2012
  ident: 10.1016/j.celrep.2019.08.020_bib9
  article-title: Reawakening fetal hemoglobin: prospects for new therapies for the β-globin disorders
  publication-title: Blood
  doi: 10.1182/blood-2012-06-292078
– volume: 49
  start-page: 1
  year: 2017
  ident: 10.1016/j.celrep.2019.08.020_bib15
  article-title: Chromatin priming of genes in development: concepts, mechanisms and consequences
  publication-title: Exp. Hematol.
  doi: 10.1016/j.exphem.2017.01.003
– volume: 218
  start-page: 2818
  year: 2015
  ident: 10.1016/j.celrep.2019.08.020_bib90
  article-title: Early insights into the evolution of respiratory and cardiovascular physiology in vertebrates
  publication-title: J. Exp. Biol.
  doi: 10.1242/jeb.109868
– volume: 3
  start-page: e136
  year: 2007
  ident: 10.1016/j.celrep.2019.08.020_bib112
  article-title: Identification and characterization of cell type-specific and ubiquitous chromatin regulatory structures in the human genome
  publication-title: PLoS Genet.
  doi: 10.1371/journal.pgen.0030136
– volume: 39
  start-page: 311
  year: 2007
  ident: 10.1016/j.celrep.2019.08.020_bib42
  article-title: Distinct and predictive chromatin signatures of transcriptional promoters and enhancers in the human genome
  publication-title: Nat. Genet.
  doi: 10.1038/ng1966
– volume: 28
  start-page: 495
  year: 2010
  ident: 10.1016/j.celrep.2019.08.020_bib73
  article-title: GREAT improves functional interpretation of cis-regulatory regions
  publication-title: Nat. Biotechnol.
  doi: 10.1038/nbt.1630
– volume: 85
  start-page: 915
  year: 2010
  ident: 10.1016/j.celrep.2019.08.020_bib87
  article-title: Mutational spectrum in congenital dyserythropoietic anemia type II: identification of 19 novel variants in SEC23B gene
  publication-title: Am. J. Hematol.
  doi: 10.1002/ajh.21866
– volume: 19
  start-page: R204
  issue: R2
  year: 2010
  ident: 10.1016/j.celrep.2019.08.020_bib12
  article-title: Allele-specific and heritable chromatin signatures in humans
  publication-title: Hum. Mol. Genet.
  doi: 10.1093/hmg/ddq404
– volume: 29
  start-page: 5399
  year: 2009
  ident: 10.1016/j.celrep.2019.08.020_bib98
  article-title: Chromatin architecture and transcription factor binding regulate expression of erythrocyte membrane protein genes
  publication-title: Mol. Cell. Biol.
  doi: 10.1128/MCB.00777-09
– volume: 3
  start-page: 160109
  year: 2016
  ident: 10.1016/j.celrep.2019.08.020_bib56
  article-title: An atlas of transcriptional, chromatin accessibility, and surface marker changes in human mesoderm development
  publication-title: Sci. Data
  doi: 10.1038/sdata.2016.109
– volume: 150
  start-page: 725
  year: 2012
  ident: 10.1016/j.celrep.2019.08.020_bib49
  article-title: Tissue-specific mitotic bookmarking by hematopoietic transcription factor GATA1
  publication-title: Cell
  doi: 10.1016/j.cell.2012.06.038
– volume: 118
  start-page: e139
  year: 2011
  ident: 10.1016/j.celrep.2019.08.020_bib81
  article-title: Genome-wide ChIP-Seq reveals a dramatic shift in the binding of the transcription factor erythroid Kruppel-like factor during erythrocyte differentiation
  publication-title: Blood
  doi: 10.1182/blood-2011-05-355107
– volume: 31
  start-page: 2382
  year: 2015
  ident: 10.1016/j.celrep.2019.08.020_bib117
  article-title: ChIPseeker: an R/Bioconductor package for ChIP peak annotation, comparison and visualization
  publication-title: Bioinformatics
  doi: 10.1093/bioinformatics/btv145
– volume: 11
  start-page: 413
  year: 2004
  ident: 10.1016/j.celrep.2019.08.020_bib94
  article-title: Combining phylogenetic and hidden Markov models in biosequence analysis
  publication-title: J. Comput. Biol.
  doi: 10.1089/1066527041410472
– volume: 1
  start-page: 51
  year: 2015
  ident: 10.1016/j.celrep.2019.08.020_bib82
  article-title: Individuality and variation of personal regulomes in primary human T cells
  publication-title: Cell Syst.
  doi: 10.1016/j.cels.2015.06.003
– volume: 57
  start-page: 304
  year: 2015
  ident: 10.1016/j.celrep.2019.08.020_bib114
  article-title: Developmental control of polycomb subunit composition by GATA factors mediates a switch to non-canonical functions
  publication-title: Mol. Cell
  doi: 10.1016/j.molcel.2014.12.009
– volume: 1698
  start-page: 1
  year: 2018
  ident: 10.1016/j.celrep.2019.08.020_bib69
  article-title: An Introduction to Erythropoiesis Approaches
  publication-title: Methods Mol. Biol.
  doi: 10.1007/978-1-4939-7428-3_1
– volume: 10
  start-page: 669
  year: 2009
  ident: 10.1016/j.celrep.2019.08.020_bib79
  article-title: ChIP-seq: advantages and challenges of a maturing technology
  publication-title: Nat. Rev. Genet.
  doi: 10.1038/nrg2641
– volume: 288
  start-page: 8805
  year: 2013
  ident: 10.1016/j.celrep.2019.08.020_bib119
  article-title: High resolution methylome analysis reveals widespread functional hypomethylation during adult human erythropoiesis
  publication-title: J. Biol. Chem.
  doi: 10.1074/jbc.M112.423756
– volume: 105
  start-page: 9
  year: 2008
  ident: 10.1016/j.celrep.2019.08.020_bib67
  article-title: Locus control region mediated regulation of adult beta-globin gene expression
  publication-title: J. Cell. Biochem.
  doi: 10.1002/jcb.21820
– volume: 95
  start-page: 708
  year: 2010
  ident: 10.1016/j.celrep.2019.08.020_bib47
  article-title: Molecular analysis of 42 patients with congenital dyserythropoietic anemia type II: new mutations in the SEC23B gene and a search for a genotype-phenotype relationship
  publication-title: Haematologica
  doi: 10.3324/haematol.2009.014985
– start-page: e52246
  issue: 96
  year: 2015
  ident: 10.1016/j.celrep.2019.08.020_bib33
  article-title: Enhanced reduced representation bisulfite sequencing for assessment of DNA methylation at base pair resolution
  publication-title: J. Vis. Exp.
– volume: 342
  start-page: 253
  year: 2013
  ident: 10.1016/j.celrep.2019.08.020_bib10
  article-title: An erythroid enhancer of BCL11A subject to genetic variation determines fetal hemoglobin level
  publication-title: Science
  doi: 10.1126/science.1242088
– volume: 42
  start-page: 806
  year: 2010
  ident: 10.1016/j.celrep.2019.08.020_bib13
  article-title: ChIP-Seq identification of weakly conserved heart enhancers
  publication-title: Nat. Genet.
  doi: 10.1038/ng.650
– volume: 12
  start-page: 147
  year: 1997
  ident: 10.1016/j.celrep.2019.08.020_bib38
  article-title: The phylogenetic odyssey of the erythrocyte. IV. The amphibians
  publication-title: Histol. Histopathol.
– volume: 14
  start-page: 193
  year: 2013
  ident: 10.1016/j.celrep.2019.08.020_bib1
  article-title: Dynamic regulation of epigenomic landscapes during hematopoiesis
  publication-title: BMC Genomics
  doi: 10.1186/1471-2164-14-193
– volume: 200
  start-page: 369
  year: 1997
  ident: 10.1016/j.celrep.2019.08.020_bib76
  article-title: Oxygen and carbon dioxide transport in vertebrate erythrocytes: an evolutionary change in the role of membrane transport
  publication-title: J. Exp. Biol.
  doi: 10.1242/jeb.200.2.369
– volume: 25
  start-page: 183
  year: 2018
  ident: 10.1016/j.celrep.2019.08.020_bib80
  article-title: The flux of iron through ferritin in erythrocyte development
  publication-title: Curr. Opin. Hematol.
  doi: 10.1097/MOH.0000000000000417
– volume: 154
  start-page: 888
  year: 2013
  ident: 10.1016/j.celrep.2019.08.020_bib100
  article-title: Developmental fate and cellular maturity encoded in human regulatory DNA landscapes
  publication-title: Cell
  doi: 10.1016/j.cell.2013.07.020
– volume: 128
  start-page: 1231
  year: 2007
  ident: 10.1016/j.celrep.2019.08.020_bib52
  article-title: Analysis of the vertebrate insulator protein CTCF-binding sites in the human genome
  publication-title: Cell
  doi: 10.1016/j.cell.2006.12.048
– volume: 48
  start-page: 1193
  year: 2016
  ident: 10.1016/j.celrep.2019.08.020_bib25
  article-title: Lineage-specific and single-cell chromatin accessibility charts human hematopoiesis and leukemia evolution
  publication-title: Nat. Genet.
  doi: 10.1038/ng.3646
– volume: 459
  start-page: 108
  year: 2009
  ident: 10.1016/j.celrep.2019.08.020_bib43
  article-title: Histone modifications at human enhancers reflect global cell-type-specific gene expression
  publication-title: Nature
  doi: 10.1038/nature07829
– volume: 26
  start-page: 841
  year: 2010
  ident: 10.1016/j.celrep.2019.08.020_bib83
  article-title: BEDTools: a flexible suite of utilities for comparing genomic features
  publication-title: Bioinformatics
  doi: 10.1093/bioinformatics/btq033
– volume: 107
  start-page: 11
  year: 2009
  ident: 10.1016/j.celrep.2019.08.020_bib7
  article-title: Genomic location analysis by ChIP-Seq
  publication-title: J. Cell. Biochem.
  doi: 10.1002/jcb.22077
– volume: 118
  start-page: 6258
  year: 2011
  ident: 10.1016/j.celrep.2019.08.020_bib41
  article-title: From stem cell to red cell: regulation of erythropoiesis at multiple levels by multiple proteins, RNAs, and chromatin modifications
  publication-title: Blood
  doi: 10.1182/blood-2011-07-356006
– volume: 6
  start-page: 468
  year: 2011
  ident: 10.1016/j.celrep.2019.08.020_bib39
  article-title: Preparation of reduced representation bisulfite sequencing libraries for genome-scale DNA methylation profiling
  publication-title: Nat. Protoc.
  doi: 10.1038/nprot.2010.190
– volume: 11
  start-page: 22
  year: 2018
  ident: 10.1016/j.celrep.2019.08.020_bib45
  article-title: Establishment of regulatory elements during erythro-megakaryopoiesis identifies hematopoietic lineage-commitment points
  publication-title: Epigenetics Chromatin
  doi: 10.1186/s13072-018-0195-z
– volume: 30
  start-page: 2114
  year: 2014
  ident: 10.1016/j.celrep.2019.08.020_bib14
  article-title: Trimmomatic: a flexible trimmer for Illumina sequence data
  publication-title: Bioinformatics
  doi: 10.1093/bioinformatics/btu170
– volume: 14
  start-page: R36
  year: 2013
  ident: 10.1016/j.celrep.2019.08.020_bib53
  article-title: TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions
  publication-title: Genome Biol.
  doi: 10.1186/gb-2013-14-4-r36
– volume: 482
  start-page: 390
  year: 2012
  ident: 10.1016/j.celrep.2019.08.020_bib26
  article-title: DNase I sensitivity QTLs are a major determinant of human expression variation
  publication-title: Nature
  doi: 10.1038/nature10808
– volume: 7
  start-page: 501
  year: 1992
  ident: 10.1016/j.celrep.2019.08.020_bib37
  article-title: The phylogenetic odyssey of the erythrocyte. III. Fish, the lower vertebrate experience
  publication-title: Histol. Histopathol.
– volume: 27
  start-page: 1571
  year: 2011
  ident: 10.1016/j.celrep.2019.08.020_bib57
  article-title: Bismark: a flexible aligner and methylation caller for Bisulfite-Seq applications
  publication-title: Bioinformatics
  doi: 10.1093/bioinformatics/btr167
– volume: 124
  start-page: 3636
  year: 2014
  ident: 10.1016/j.celrep.2019.08.020_bib65
  article-title: Isolation and transcriptome analyses of human erythroid progenitors: BFU-E and CFU-E
  publication-title: Blood
  doi: 10.1182/blood-2014-07-588806
– volume: 26
  start-page: 589
  year: 2010
  ident: 10.1016/j.celrep.2019.08.020_bib63
  article-title: Fast and accurate long-read alignment with Burrows-Wheeler transform
  publication-title: Bioinformatics
  doi: 10.1093/bioinformatics/btp698
– volume: 106
  start-page: 17413
  year: 2009
  ident: 10.1016/j.celrep.2019.08.020_bib20
  article-title: Resolving the distinct stages in erythroid differentiation based on dynamic changes in membrane protein expression during erythropoiesis
  publication-title: Proc. Natl. Acad. Sci. USA
  doi: 10.1073/pnas.0909296106
– volume: 10
  start-page: 605
  year: 2009
  ident: 10.1016/j.celrep.2019.08.020_bib30
  article-title: Insights from genomic profiling of transcription factors
  publication-title: Nat. Rev. Genet.
  doi: 10.1038/nrg2636
– volume: 345
  start-page: 943
  year: 2014
  ident: 10.1016/j.celrep.2019.08.020_bib59
  article-title: Immunogenetics. Chromatin state dynamics during blood formation
  publication-title: Science
  doi: 10.1126/science.1256271
– volume: 49
  start-page: 377
  year: 2017
  ident: 10.1016/j.celrep.2019.08.020_bib115
  article-title: Landscape of monoallelic DNA accessibility in mouse embryonic stem cells and neural progenitor cells
  publication-title: Nat. Genet.
  doi: 10.1038/ng.3769
– volume: 5
  start-page: 75
  year: 2014
  ident: 10.1016/j.celrep.2019.08.020_bib18
  article-title: Impact of artifact removal on ChIP quality metrics in ChIP-seq and ChIP-exo data
  publication-title: Front. Genet.
  doi: 10.3389/fgene.2014.00075
– volume: 14
  start-page: 211
  year: 1972
  ident: 10.1016/j.celrep.2019.08.020_bib61
  article-title: Gas exchange in gill, skin, and lung breathing
  publication-title: Respir. Physiol.
  doi: 10.1016/0034-5687(72)90029-1
– volume: 155
  start-page: 1521
  year: 2013
  ident: 10.1016/j.celrep.2019.08.020_bib77
  article-title: Rapid and pervasive changes in genome-wide enhancer usage during mammalian development
  publication-title: Cell
  doi: 10.1016/j.cell.2013.11.033
– volume: 16
  start-page: 1470
  year: 2016
  ident: 10.1016/j.celrep.2019.08.020_bib34
  article-title: Comprehensive Proteomic Analysis of Human Erythropoiesis
  publication-title: Cell Rep.
  doi: 10.1016/j.celrep.2016.06.085
– volume: 481
  start-page: 389
  year: 2012
  ident: 10.1016/j.celrep.2019.08.020_bib86
  article-title: Differential oestrogen receptor binding is associated with clinical outcome in breast cancer
  publication-title: Nature
  doi: 10.1038/nature10730
– volume: 15
  start-page: 347
  year: 2014
  ident: 10.1016/j.celrep.2019.08.020_bib5
  article-title: GWAS identifies novel SLE susceptibility genes and explains the association of the HLA region
  publication-title: Genes Immun.
  doi: 10.1038/gene.2014.23
– volume: 16
  start-page: 224
  year: 2015
  ident: 10.1016/j.celrep.2019.08.020_bib40
  article-title: QoRTs: a comprehensive toolset for quality control and data processing of RNA-Seq experiments
  publication-title: BMC Bioinformatics
  doi: 10.1186/s12859-015-0670-5
– volume: 365
  start-page: 807
  year: 2011
  ident: 10.1016/j.celrep.2019.08.020_bib88
  article-title: A functional element necessary for fetal hemoglobin silencing
  publication-title: N. Engl. J. Med.
  doi: 10.1056/NEJMoa1103070
– volume: 61
  start-page: 1242
  year: 1983
  ident: 10.1016/j.celrep.2019.08.020_bib28
  article-title: Fetal hemoglobin production in cultures of primitive and mature human erythroid progenitors: differentiation affects the quantity of fetal hemoglobin produced per fetal-hemoglobin-containing cell
  publication-title: Blood
  doi: 10.1182/blood.V61.6.1242.bloodjournal6161242
– volume: 23
  start-page: 555
  year: 2013
  ident: 10.1016/j.celrep.2019.08.020_bib107
  article-title: Dynamic DNA methylation across diverse human cell lines and tissues
  publication-title: Genome Res.
  doi: 10.1101/gr.147942.112
– volume: 10
  start-page: e1004890
  year: 2014
  ident: 10.1016/j.celrep.2019.08.020_bib106
  article-title: Altered chromatin occupancy of master regulators underlies evolutionary divergence in the transcriptional landscape of erythroid differentiation
  publication-title: PLoS Genet.
  doi: 10.1371/journal.pgen.1004890
– volume: 113
  start-page: 5456
  year: 2009
  ident: 10.1016/j.celrep.2019.08.020_bib110
  article-title: The transcriptional program controlled by the stem cell leukemia gene Scl/Tal1 during early embryonic hematopoietic development
  publication-title: Blood
  doi: 10.1182/blood-2009-01-200048
– volume: 489
  start-page: 75
  year: 2012
  ident: 10.1016/j.celrep.2019.08.020_bib104
  article-title: The accessible chromatin landscape of the human genome
  publication-title: Nature
  doi: 10.1038/nature11232
– volume: 500
  start-page: 477
  year: 2013
  ident: 10.1016/j.celrep.2019.08.020_bib121
  article-title: Charting a dynamic DNA methylation landscape of the human genome
  publication-title: Nature
  doi: 10.1038/nature12433
– volume: 100
  start-page: 3077
  year: 2002
  ident: 10.1016/j.celrep.2019.08.020_bib64
  article-title: Locus control regions
  publication-title: Blood
  doi: 10.1182/blood-2002-04-1104
– volume: 23
  start-page: 796
  year: 2012
  ident: 10.1016/j.celrep.2019.08.020_bib113
  article-title: Combinatorial assembly of developmental stage-specific enhancers controls gene expression programs during human erythropoiesis
  publication-title: Dev. Cell
  doi: 10.1016/j.devcel.2012.09.003
– volume: 11
  start-page: R14
  year: 2010
  ident: 10.1016/j.celrep.2019.08.020_bib116
  article-title: Gene ontology analysis for RNA-seq: accounting for selection bias
  publication-title: Genome Biol.
  doi: 10.1186/gb-2010-11-2-r14
– volume: 20
  start-page: 1064
  year: 2010
  ident: 10.1016/j.celrep.2019.08.020_bib50
  article-title: Genome-wide identification of TAL1’s functional targets: insights into its mechanisms of action in primary erythroid cells
  publication-title: Genome Res.
  doi: 10.1101/gr.104935.110
– volume: 30
  start-page: 494
  year: 2011
  ident: 10.1016/j.celrep.2019.08.020_bib78
  article-title: Differential genomic targeting of the transcription factor TAL1 in alternate haematopoietic lineages
  publication-title: EMBO J.
  doi: 10.1038/emboj.2010.342
– volume: 61
  start-page: 800
  year: 2009
  ident: 10.1016/j.celrep.2019.08.020_bib105
  article-title: Erythropoiesis: model systems, molecular regulators, and developmental programs
  publication-title: IUBMB Life
  doi: 10.1002/iub.226
– volume: 6
  start-page: 8324
  year: 2015
  ident: 10.1016/j.celrep.2019.08.020_bib24
  article-title: Enhancer repertoires are reshaped independently of early priming and heterochromatin dynamics during B cell differentiation
  publication-title: Nat. Commun.
  doi: 10.1038/ncomms9324
– volume: 9
  start-page: e1003118
  year: 2013
  ident: 10.1016/j.celrep.2019.08.020_bib60
  article-title: Software for computing and annotating genomic ranges
  publication-title: PLoS Comput. Biol.
  doi: 10.1371/journal.pcbi.1003118
– volume: 328
  start-page: 1036
  year: 2010
  ident: 10.1016/j.celrep.2019.08.020_bib89
  article-title: Five-vertebrate ChIP-seq reveals the evolutionary dynamics of transcription factor binding
  publication-title: Science
  doi: 10.1126/science.1186176
– volume: 123
  start-page: 3466
  year: 2014
  ident: 10.1016/j.celrep.2019.08.020_bib4
  article-title: Global transcriptome analyses of human and murine terminal erythroid differentiation
  publication-title: Blood
  doi: 10.1182/blood-2014-01-548305
– volume: 23
  start-page: 777
  year: 2013
  ident: 10.1016/j.celrep.2019.08.020_bib93
  article-title: Patterns of regulatory activity across diverse human cell types predict tissue identity, transcription factor binding, and long-range interactions
  publication-title: Genome Res.
  doi: 10.1101/gr.152140.112
– volume: 48
  start-page: 206
  year: 2016
  ident: 10.1016/j.celrep.2019.08.020_bib58
  article-title: Fine-mapping cellular QTLs with RASQUAL and ATAC-seq
  publication-title: Nat. Genet.
  doi: 10.1038/ng.3467
– volume: 26
  start-page: 139
  year: 2010
  ident: 10.1016/j.celrep.2019.08.020_bib85
  article-title: edgeR: a Bioconductor package for differential expression analysis of digital gene expression data
  publication-title: Bioinformatics
  doi: 10.1093/bioinformatics/btp616
– volume: 9
  start-page: R137
  year: 2008
  ident: 10.1016/j.celrep.2019.08.020_bib120
  article-title: Model-based analysis of ChIP-Seq (MACS)
  publication-title: Genome Biol.
  doi: 10.1186/gb-2008-9-9-r137
– volume: 11
  start-page: e0155378
  year: 2016
  ident: 10.1016/j.celrep.2019.08.020_bib99
  article-title: CTCF and CohesinSA-1 Mark Active Promoters and Boundaries of Repressive Chromatin Domains in Primary Human Erythroid Cells
  publication-title: PLoS One
  doi: 10.1371/journal.pone.0155378
– volume: 94
  start-page: 149
  year: 2019
  ident: 10.1016/j.celrep.2019.08.020_bib11
  article-title: Addressing the diagnostic gaps in pyruvate kinase deficiency: consensus recommendations on the diagnosis of pyruvate kinase deficiency
  publication-title: Am. J. Hematol.
  doi: 10.1002/ajh.25325
– volume: 30
  start-page: 923
  year: 2014
  ident: 10.1016/j.celrep.2019.08.020_bib68
  article-title: featureCounts: an efficient general purpose program for assigning sequence reads to genomic features
  publication-title: Bioinformatics
  doi: 10.1093/bioinformatics/btt656
– volume: 18
  start-page: 1896
  year: 2008
  ident: 10.1016/j.celrep.2019.08.020_bib21
  article-title: Transcriptional enhancement by GATA1-occupied DNA segments is strongly associated with evolutionary constraint on the binding site motif
  publication-title: Genome Res.
  doi: 10.1101/gr.083089.108
– volume: 47
  start-page: 608
  year: 2012
  ident: 10.1016/j.celrep.2019.08.020_bib23
  article-title: Cofactor-mediated restriction of GATA-1 chromatin occupancy coordinates lineage-specific gene expression
  publication-title: Mol. Cell
  doi: 10.1016/j.molcel.2012.05.051
– volume: 288
  start-page: 8433
  year: 2013
  ident: 10.1016/j.celrep.2019.08.020_bib101
  article-title: Identification of biologically relevant enhancers in human erythroid cells
  publication-title: J. Biol. Chem.
  doi: 10.1074/jbc.M112.413260
– volume: 124
  start-page: 1699
  year: 2014
  ident: 10.1016/j.celrep.2019.08.020_bib97
  article-title: HBS1L-MYB intergenic variants modulate fetal hemoglobin via long-range MYB enhancers
  publication-title: J. Clin. Invest.
  doi: 10.1172/JCI71520
– volume: 38
  start-page: 576
  year: 2010
  ident: 10.1016/j.celrep.2019.08.020_bib44
  article-title: Simple combinations of lineage-determining transcription factors prime cis-regulatory elements required for macrophage and B cell identities
  publication-title: Mol. Cell
  doi: 10.1016/j.molcel.2010.05.004
– volume: 19
  start-page: 1185
  year: 2012
  ident: 10.1016/j.celrep.2019.08.020_bib103
  article-title: Genome-wide nucleosome positioning during embryonic stem cell development
  publication-title: Nat. Struct. Mol. Biol.
  doi: 10.1038/nsmb.2419
– volume: 2
  start-page: 1833
  year: 2018
  ident: 10.1016/j.celrep.2019.08.020_bib8
  article-title: Mechanisms of establishment and functional significance of DNA demethylation during erythroid differentiation
  publication-title: Blood Adv.
  doi: 10.1182/bloodadvances.2018015651
– volume: 36
  start-page: 667
  year: 2009
  ident: 10.1016/j.celrep.2019.08.020_bib32
  article-title: Discovering hematopoietic mechanisms through genome-wide analysis of GATA factor chromatin occupancy
  publication-title: Mol. Cell
  doi: 10.1016/j.molcel.2009.11.001
– volume: 109
  start-page: 21.29.1
  year: 2015
  ident: 10.1016/j.celrep.2019.08.020_bib17
  article-title: ATAC-seq: A Method for Assaying Chromatin Accessibility Genome-Wide
  publication-title: Curr. Protoc. Mol. Biol.
  doi: 10.1002/0471142727.mb2129s109
– volume: 4
  start-page: 7
  year: 2015
  ident: 10.1016/j.celrep.2019.08.020_bib19
  article-title: Second-generation PLINK: rising to the challenge of larger and richer datasets
  publication-title: Gigascience
  doi: 10.1186/s13742-015-0047-8
– volume: 154
  start-page: 284
  year: 2006
  ident: 10.1016/j.celrep.2019.08.020_bib91
  article-title: Flying high: a theoretical analysis of the factors limiting exercise performance in birds at altitude
  publication-title: Respir. Physiol. Neurobiol.
  doi: 10.1016/j.resp.2006.02.012
– volume: 118
  start-page: e128
  year: 2011
  ident: 10.1016/j.celrep.2019.08.020_bib111
  article-title: Gene induction and repression during terminal erythropoiesis are mediated by distinct epigenetic changes
  publication-title: Blood
  doi: 10.1182/blood-2011-03-341404
– volume: 8
  start-page: e1002781
  year: 2012
  ident: 10.1016/j.celrep.2019.08.020_bib2
  article-title: Base-pair resolution DNA methylation sequencing reveals profoundly divergent epigenetic landscapes in acute myeloid leukemia
  publication-title: PLoS Genet.
  doi: 10.1371/journal.pgen.1002781
– volume: 5
  start-page: 513
  year: 1990
  ident: 10.1016/j.celrep.2019.08.020_bib36
  article-title: The phylogenetic odyssey of the erythrocyte. II. The early or invertebrate prototypes
  publication-title: Histol. Histopathol.
– volume: 5
  start-page: R80
  year: 2004
  ident: 10.1016/j.celrep.2019.08.020_bib35
  article-title: Bioconductor: open software development for computational biology and bioinformatics
  publication-title: Genome Biol.
  doi: 10.1186/gb-2004-5-10-r80
– volume: 506
  start-page: 511
  year: 2014
  ident: 10.1016/j.celrep.2019.08.020_bib54
  article-title: Broadly permissive intestinal chromatin underlies lateral inhibition and cell plasticity
  publication-title: Nature
  doi: 10.1038/nature12903
– volume: 10
  start-page: 1213
  year: 2013
  ident: 10.1016/j.celrep.2019.08.020_bib16
  article-title: Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position
  publication-title: Nat. Methods
  doi: 10.1038/nmeth.2688
– volume: 15
  start-page: 1051
  year: 2005
  ident: 10.1016/j.celrep.2019.08.020_bib55
  article-title: Evaluation of regulatory potential and conservation scores for detecting cis-regulatory modules in aligned mammalian genome sequences
  publication-title: Genome Res.
  doi: 10.1101/gr.3642605
– volume: 121
  start-page: 3246
  year: 2013
  ident: 10.1016/j.celrep.2019.08.020_bib46
  article-title: Isolation and functional characterization of human erythroblasts at distinct stages: implications for understanding of normal and disordered erythropoiesis in vivo
  publication-title: Blood
  doi: 10.1182/blood-2013-01-476390
– volume: 111
  start-page: 6131
  year: 2014
  ident: 10.1016/j.celrep.2019.08.020_bib51
  article-title: Defining functional DNA elements in the human genome
  publication-title: Proc. Natl. Acad. Sci. USA
  doi: 10.1073/pnas.1318948111
– volume: 11
  start-page: R25
  year: 2010
  ident: 10.1016/j.celrep.2019.08.020_bib84
  article-title: A scaling normalization method for differential expression analysis of RNA-seq data
  publication-title: Genome Biol.
  doi: 10.1186/gb-2010-11-3-r25
– volume: 18
  start-page: 647
  year: 2015
  ident: 10.1016/j.celrep.2019.08.020_bib31
  article-title: Regulation of chromatin accessibility and Zic binding at enhancers in the developing cerebellum
  publication-title: Nat. Neurosci.
  doi: 10.1038/nn.3995
– volume: 45
  start-page: D896
  issue: D1
  year: 2017
  ident: 10.1016/j.celrep.2019.08.020_bib72
  article-title: The new NHGRI-EBI Catalog of published genome-wide association studies (GWAS Catalog)
  publication-title: Nucleic Acids Res.
  doi: 10.1093/nar/gkw1133
– volume: 3
  start-page: a011601
  year: 2013
  ident: 10.1016/j.celrep.2019.08.020_bib29
  article-title: Erythropoiesis: development and differentiation
  publication-title: Cold Spring Harb. Perspect. Med.
  doi: 10.1101/cshperspect.a011601
– volume: 32
  start-page: 112
  year: 2018
  ident: 10.1016/j.celrep.2019.08.020_bib74
  article-title: Three-step transcriptional priming that drives the commitment of multipotent progenitors toward B cells
  publication-title: Genes Dev.
  doi: 10.1101/gad.309575.117
– volume: 15
  start-page: 550
  year: 2014
  ident: 10.1016/j.celrep.2019.08.020_bib70
  article-title: Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
  publication-title: Genome Biol.
  doi: 10.1186/s13059-014-0550-8
– volume: 150
  start-page: 1274
  year: 2012
  ident: 10.1016/j.celrep.2019.08.020_bib75
  article-title: Circuitry and dynamics of human transcription factor regulatory networks
  publication-title: Cell
  doi: 10.1016/j.cell.2012.04.040
– volume: 20
  start-page: 45
  year: 2019
  ident: 10.1016/j.celrep.2019.08.020_bib66
  article-title: Identification of transcription factor binding sites using ATAC-seq
  publication-title: Genome Biol.
  doi: 10.1186/s13059-019-1642-2
– volume: 7
  start-page: 1
  year: 2015
  ident: 10.1016/j.celrep.2019.08.020_bib62
  article-title: Comparison of DNA methylation profiles in human fetal and adult red blood cell progenitors
  publication-title: Genome Med.
  doi: 10.1186/s13073-014-0122-2
– volume: 19
  start-page: 2172
  year: 2009
  ident: 10.1016/j.celrep.2019.08.020_bib22
  article-title: Erythroid GATA1 function revealed by genome-wide analysis of transcription factor occupancy, histone modifications, and mRNA expression
  publication-title: Genome Res.
  doi: 10.1101/gr.098921.109
SSID ssj0000601194
Score 2.4513214
Snippet Mammalian erythropoiesis yields a highly specialized cell type, the mature erythrocyte, evolved to meet the organismal needs of increased oxygen-carrying...
SourceID doaj
pubmedcentral
proquest
pubmed
crossref
elsevier
SourceType Open Website
Open Access Repository
Aggregation Database
Index Database
Enrichment Source
Publisher
StartPage 2996
SubjectTerms anemia
chromatin
epigenomic
erythrocyte
erythropoiesis
methylation
trait
SummonAdditionalLinks – databaseName: DOAJ Directory of Open Access Journals
  dbid: DOA
  link: http://utb.summon.serialssolutions.com/2.0.0/link/0/eLvHCXMwrV1NT-MwELUQEhIXtMvXFhYUJK4RiT_jvbFQhBDiRCVuVpjYois2VKUc-PfM2EnVwqEXrm1Sd8Zjz5v45Q1jp4IXAFDJvGkqLFCs1LmFYHMvJPehaZSuI0H2Tl-P5M2Delho9UWcsCQPnBx3VlvgtfFosAwSN08c8xG8rL0GDph_aPfFnLdQTKU9mLTM6EiZc-JscWn69-YiuQv889STXGVpo4IntfteyEtRvn8pPX2Fn59ZlAtp6eoH2-rwZHae7PjJ1ny7zTZSh8n3HfbnPBtFidZsOIl6rP_HkN3S671EfMoufSDaexYf5WfD6XvqmoDV8_h1l42uhvcX13nXLiEHxe0sD8GUtsZ8C1wKxDFgYkEH0lRaGgVVWSvRYE7GJakCaKFDAM9tgRAE05QWe2y9fWn9L5aVqmoQOlD38UbqgF6vucdZC6EIIMowYKJ3loNOS5xaWjy7njT2zyUXO3Kxo06XvBiwfH7XJGlprLj-L83D_FpSwo4fYHy4Lj7cqvgYMNPPoutARQIL-FPjFcOf9JPucM3RQUrd-pe3V8exSlVGWl0N2H4KgvmfFIiwrVEGx10KjyUrlr9px09R11tXWmC1ffAdZh-yTTKFmC1l8Zutz6Zv_gjh0-zxOK6UD2kIGDk
  priority: 102
  providerName: Directory of Open Access Journals
– databaseName: Scholars Portal Journals: Open Access
  dbid: M48
  link: http://utb.summon.serialssolutions.com/2.0.0/link/0/eLvHCXMwnV3da9RAEF9KS8EXsfXrtJUIvkaS_cwKIm29UqT65EHfltxkV6-cuZq7gvffO7NJro1VCj4m2Ww2MzuZ32Rnf8PYG8EzAChkWlUFBihW6tRCsKkXkvtQVUqXMUH2iz6byE8X6mKL9TVbOwEu_xraUT2pSTN_--vn-gMa_PubXC3w88YT-2RuIyEnxyB-B32TIVP93AH-9ttMHGe01Mw55XJxafr9dP_oaOCvIq3_wG3dhaV_Zlfeclenj9jDDmcmR-3E2GNbvt5nu23lyfVj9u4omUTq1mR8FXlaf8wgOadtv5QQlXz0gdLhk_iLPxk367aaAkbVs-UTNjkdfz05S7syCikobldpCCa3Jfph4FIgvgETAz2QptDSKCjyUokKfTWaqgqghQ4BPLcZQhN0X1o8Zdv1ovbPWZKrokJIQVXJK6kDt9OSe9RmCFkAkYcRE72wHHQc41TqYu76ZLJL14rYkYgdVcDk2Yilm7uuWo6Ne9ofkx42bYkhO55YNN9cZ3CutMBL49FQZJDodHGuTsHL0mvggLhlxEyvRdeBjRZEYFezex7_ule6Q1ukBZay9ovrpeMYvSojrS5G7Fk7CTaDFIi8rVEGnzuYHoO3GF6pZ98j37cutMAo_MV_j_gle0BHlOaSZwdse9Vc-0PEUqvpq2gevwHrqhu0
  priority: 102
  providerName: Scholars Portal
Title A Unique Epigenomic Landscape Defines Human Erythropoiesis
URI https://dx.doi.org/10.1016/j.celrep.2019.08.020
https://www.ncbi.nlm.nih.gov/pubmed/31509757
https://www.proquest.com/docview/2289574968
https://pubmed.ncbi.nlm.nih.gov/PMC6863094
https://doaj.org/article/a9c2a7eead4f4429becbce4ae6c2c224
Volume 28
hasFullText 1
inHoldings 1
isFullTextHit
isPrint
link http://utb.summon.serialssolutions.com/2.0.0/link/0/eLvHCXMwnV3da9swEBelMNjL2PeydcWFvZrY-lbf2i6llHYvWyBvwjlLm0frhDR96H-_O9kO9fZQ2Esgthwpp5Pud_Ld7xj7IngBAFbmdW3RQXFS5w6iy4OQPMS6VrpKAbLf9MVcXi7UYo-dDbkwFFbZ7_3dnp526_7KtJfmdN000-8cfRe0TgYhCIIEQQm_QtqUxLc43Z2zEN9ImeohUvucHhgy6FKYF4SbTSDiytIlLk8q_P3IQiUi_5Gh-heI_h1P-chAnb9kL3pkmZ10g3_F9kL7mj3rak0-vGHHJ9k8kbVms3ViZr1tILuiRF8Kgcq-hkgB8Fk61M9mm4eufgL60c3dWzY_n_04u8j7wgk5KO62eYwolAotL3ApENGASa4dSGO1NApsWSlRo3XGxakiaKFjhMBdgWAEDZYW79h-u2rDB5aVytYIIqgOeS115G5Z8YDzF2MRQZRxwsQgLA89qzgVt7jxQ_jYb9-J2JOIPdW85MWE5bun1h2rxhPtT2kedm2JEztdWG1--l4pfOWAVybg0pBRoplF7VxCkFXQwAGRyoSZYRb9SMXwp5onuj8aJt3j6qNXKlUbVvd3nqO_qox02k7Y-04JdoMUiLWdUQb7HanH6F-M77TNr8Twra0W6Hd__O8Rf2LP6RsFtpTFAdvfbu7DZ0RP2-VhOnU4TIsEP6-l_QPgXhj5
linkProvider Elsevier
linkToHtml http://utb.summon.serialssolutions.com/2.0.0/link/0/eLvHCXMwnV1Lb9QwELZKEaIXxJvlGSSu0SZ-xtzastUWll7oSnuzshMbgkp2td0e-u874ySrBg6VuCZx4ozHnm-S8fcx9knwDAAKmVZVgQmKlTq1EGzqheQ-VJXSZSyQPdPTufy6UIs9dtzvhaGyym7tb9f0uFp3R8adNcfruh7_4Ji7YHQyCEEQJIjiHruPaMCQfsPp4mj3oYUIR_IoiEgNUmrRb6GLdV7gLzaemCtzG8k8Sfn7VoiKTP6DSPUvEv27oPJWhDp5zB510DI5bHv_hO355il70IpNXj9jnw-TeWRrTSbrSM36p4ZkRjt9qQYq-eIDVcAn8at-MtlctwIKmEjXl8_Z_GRyfjxNO-WEFBS32zQEtEqJoRe4FAhpwMTcDqQptDQKirxUosLwjLNTBdBChwCe2wzRCEYsLV6w_WbV-FcsyVVRIYogIfJK6sDtsuQeBzCELIDIw4iJ3lgOOlpxUre4cH392G_XmtiRiR2JXvJsxNJdq3VLq3HH9Uc0DrtriRQ7HlhtfrrOK1xpgZfG49yQQWKcRfdcgpel18ABocqImX4U3cDH8Fb1HY__2A-6w-lH_1TKxq-uLh3HhFUZaXUxYi9bJ9h1UiDYtkYZfO7APQZvMTzT1L8ixbcutMDE-_V_9_gDezg9_z5zs9Ozb2_YAZ2hKpc8e8v2t5sr_w6h1Hb5Pk6VG8QqGkk
openUrl ctx_ver=Z39.88-2004&ctx_enc=info%3Aofi%2Fenc%3AUTF-8&rfr_id=info%3Asid%2Fsummon.serialssolutions.com&rft_val_fmt=info%3Aofi%2Ffmt%3Akev%3Amtx%3Ajournal&rft.genre=article&rft.atitle=A+Unique+Epigenomic+Landscape+Defines+Human+Erythropoiesis&rft.jtitle=Cell+reports+%28Cambridge%29&rft.au=Schulz%2C+Vincent+P.&rft.au=Yan%2C+Hongxia&rft.au=Lezon-Geyda%2C+Kimberly&rft.au=An%2C+Xiuli&rft.date=2019-09-10&rft.pub=Elsevier+Inc&rft.issn=2211-1247&rft.eissn=2211-1247&rft.volume=28&rft.issue=11&rft.spage=2996&rft.epage=3009.e7&rft_id=info:doi/10.1016%2Fj.celrep.2019.08.020&rft.externalDocID=S2211124719310538
thumbnail_l http://covers-cdn.summon.serialssolutions.com/index.aspx?isbn=/lc.gif&issn=2211-1247&client=summon
thumbnail_m http://covers-cdn.summon.serialssolutions.com/index.aspx?isbn=/mc.gif&issn=2211-1247&client=summon
thumbnail_s http://covers-cdn.summon.serialssolutions.com/index.aspx?isbn=/sc.gif&issn=2211-1247&client=summon