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Author Nixon, Douglas F.
Bendall, Matthew L.
Iñiguez, Luis P.
de Mulder Rougvie, Miguel
Crandall, Keith A.
Jones, Richard B.
Reyes-Terán, Gustavo
Ormsby, Christopher E.
Stearrett, Nathaniel
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crossref_primary_10_1073_pnas_1908504116
crossref_primary_10_1186_s13059_022_02804_w
crossref_primary_10_3389_fimmu_2021_661437
crossref_primary_10_3389_fimmu_2020_593891
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Cites_doi 10.1038/nrg3117
10.1073/pnas.1814589115
10.1093/bioinformatics/btp692
10.1093/bioinformatics/btv422
10.1186/s13059-014-0550-8
10.1186/s13059-016-0881-8
10.1186/s12864-015-1308-8
10.1186/1471-2164-15-583
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Copyright Copyright National Academy of Sciences Oct 22, 2019
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Author contributions: L.P.I., M.d.M.R., N.S., R.B.J., C.E.O., G.R.-T., K.A.C., D.F.N., and M.L.B. designed research; L.P.I. and M.L.B. performed research; L.P.I., M.d.M.R., and M.L.B. analyzed data; and L.P.I., M.d.M.R., K.A.C., D.F.N., and M.L.B. wrote the paper.
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References 31594852 - Proc Natl Acad Sci U S A. 2019 Oct 22;116(43):21352-21353
30455304 - Proc Natl Acad Sci U S A. 2018 Dec 11;115(50):12565-12572
Bendall M. L. (e_1_3_4_2_2) 2018
Conesa A. (e_1_3_4_3_2) 2016; 17
Treangen T. J. (e_1_3_4_4_2) 2011; 13
Tokuyama M. (e_1_3_4_1_2) 2018; 115
Zhao S. (e_1_3_4_8_2) 2015; 16
Li B. (e_1_3_4_5_2) 2010; 26
Criscione S. W. (e_1_3_4_6_2) 2014; 15
Jin Y. (e_1_3_4_7_2) 2015; 31
Love M. I. (e_1_3_4_9_2) 2014; 15
References_xml – volume: 13
  start-page: 36
  year: 2011
  ident: e_1_3_4_4_2
  article-title: Repetitive DNA and next-generation sequencing: Computational challenges and solutions
  publication-title: Nat. Rev. Genet.
  doi: 10.1038/nrg3117
  contributor:
    fullname: Treangen T. J.
– volume: 115
  start-page: 12565
  year: 2018
  ident: e_1_3_4_1_2
  article-title: ERVmap analysis reveals genome-wide transcription of human endogenous retroviruses
  publication-title: Proc. Natl. Acad. Sci. U.S.A.
  doi: 10.1073/pnas.1814589115
  contributor:
    fullname: Tokuyama M.
– volume: 26
  start-page: 493
  year: 2010
  ident: e_1_3_4_5_2
  article-title: RNA-Seq gene expression estimation with read mapping uncertainty
  publication-title: Bioinformatics
  doi: 10.1093/bioinformatics/btp692
  contributor:
    fullname: Li B.
– volume: 31
  start-page: 3593
  year: 2015
  ident: e_1_3_4_7_2
  article-title: TEtranscripts: A package for including transposable elements in differential expression analysis of RNA-seq datasets
  publication-title: Bioinformatics
  doi: 10.1093/bioinformatics/btv422
  contributor:
    fullname: Jin Y.
– volume: 15
  start-page: 550
  year: 2014
  ident: e_1_3_4_9_2
  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
  contributor:
    fullname: Love M. I.
– volume: 17
  start-page: 13
  year: 2016
  ident: e_1_3_4_3_2
  article-title: A survey of best practices for RNA-seq data analysis
  publication-title: Genome Biol.
  doi: 10.1186/s13059-016-0881-8
  contributor:
    fullname: Conesa A.
– volume: 16
  start-page: 97
  year: 2015
  ident: e_1_3_4_8_2
  article-title: A comprehensive evaluation of ensembl, RefSeq, and UCSC annotations in the context of RNA-seq read mapping and gene quantification
  publication-title: BMC Genomics
  doi: 10.1186/s12864-015-1308-8
  contributor:
    fullname: Zhao S.
– start-page: 398172
  year: 2018
  ident: e_1_3_4_2_2
  article-title: Telescope: Characterization of the retrotranscriptome by accurate estimation of transposable element expression
  publication-title: bioRxiv
  contributor:
    fullname: Bendall M. L.
– volume: 15
  start-page: 583
  year: 2014
  ident: e_1_3_4_6_2
  article-title: Transcriptional landscape of repetitive elements in normal and cancer human cells
  publication-title: BMC Genomics
  doi: 10.1186/1471-2164-15-583
  contributor:
    fullname: Criscione S. W.
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SubjectTerms Biological Sciences
Chronic conditions
Endogenous Retroviruses
Gene Expression Profiling
Humans
LETTERS
Lupus Erythematosus, Systemic - genetics
Systemic lupus erythematosus
Transcriptome
Title Transcriptomic analysis of human endogenous retroviruses in systemic lupus erythematosus
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