Inferring mammalian tissue-specific regulatory conservation by predicting tissue-specific differences in open chromatin

Uliano-Silva M(2013)Integrative annotation of chromatin elements from ENCODE data Nucleic Acids Res 41 827-1834

Chow W(2021)LINE retrotransposons characterize mammalian tissue-specific and evolutionarily dynamic regulatory regions Genome Biol 22 62-868

Fungtammasan A(2015)Integrative analysis of 111 reference human epigenomes Nature 518 317-9030

Gedman GL(2015)Regulatory Principles Governing Tissue Specificity of Developmental Enhancers Cold Spring Harb Symp Quant Biol 80 27-74

Armstrong J(2021)Enhancer grammar in development, evolution, and disease: dependencies and interplay Dev Cell 56 575-1252

Hickey G(2014)Absence of a simple code: How transcription factors read the genome Trends Biochem Sci 39 381-1734

Diekhans M(2010)Five-vertebrate ChIP-seq reveals the evolutionary dynamics of transcription factor binding Science 328 1036-838

Fiddes IT(2012)Gonalves n, Kutter C, Brown GD, Marshall A, Flicek P, Odom DT: Waves of retrotransposon expansion remodel genome organization and CTCF binding in multiple mammalian lineages Cell 148 335-444

Novak AM(2013)Co-binding by YY1 identifies the transcriptionally active, highly conserved set of CTCF-bound regions in primate genomes Genome Biol 14 1-131

Deran A(2020)Comparative transcriptomics of primary cells in vertebrates Genome Res 30 951-D634

Uliano-Silva M(2013)Integrative annotation of chromatin elements from ENCODE data Nucleic Acids Res 41 827-1834

Chow W(2021)LINE retrotransposons characterize mammalian tissue-specific and evolutionarily dynamic regulatory regions Genome Biol 22 62-868

Fungtammasan A(2015)Integrative analysis of 111 reference human epigenomes Nature 518 317-9030

Gedman GL(2015)Regulatory Principles Governing Tissue Specificity of Developmental Enhancers Cold Spring Harb Symp Quant Biol 80 27-74

Armstrong J(2021)Enhancer grammar in development, evolution, and disease: dependencies and interplay Dev Cell 56 575-1252

Hickey G(2014)Absence of a simple code: How transcription factors read the genome Trends Biochem Sci 39 381-1734

Diekhans M(2010)Five-vertebrate ChIP-seq reveals the evolutionary dynamics of transcription factor binding Science 328 1036-838

Fiddes IT(2012)Gonalves n, Kutter C, Brown GD, Marshall A, Flicek P, Odom DT: Waves of retrotransposon expansion remodel genome organization and CTCF binding in multiple mammalian lineages Cell 148 335-444

Novak AM(2013)Co-binding by YY1 identifies the transcriptionally active, highly conserved set of CTCF-bound regions in primate genomes Genome Biol 14 1-131

Deran A(2020)Comparative transcriptomics of primary cells in vertebrates Genome Res 30 951-D634