List of works - Lingyun Song

A dynamic H3K27ac signature identifies VEGFA-stimulated endothelial enhancers and requires EP300 activity

scientific article published on April 2013

A genome-wide analysis of open chromatin in human epididymis epithelial cells reveals candidate regulatory elements for genes coordinating epididymal function

scientific article

A genome-wide analysis of open chromatin in human tracheal epithelial cells reveals novel candidate regulatory elements for lung function

scientific article (publication date: May 2012)

Abstract B44: Chromatin structure impacts androgen receptor transcriptional specificity in prostate cancer cell lines

CRISPR-Cas9 epigenome editing enables high-throughput screening for functional regulatory elements in the human genome

scientific article

Cell-type specific and combinatorial usage of diverse transcription factors revealed by genome-wide binding studies in multiple human cells

scientific article

Chromatin accessibility mapping identifies mediators of basal transcription and retinoid-induced repression of OTX2 in medulloblastoma

scientific article

Chromatin accessibility reveals insights into androgen receptor activation and transcriptional specificity

scientific article

DNA methylation and differentiation: HOX genes in muscle cells ⬇️

scientific article published on 02 August 2013

DNase-seq predicts regions of rotational nucleosome stability across diverse human cell types

scientific article published on 8 May 2013

DNase-seq: a high-resolution technique for mapping active gene regulatory elements across the genome from mammalian cells

scientific article

DNaseI hypersensitivity at gene-poor, FSH dystrophy-linked 4q35.2

scientific article

Direct GR Binding Sites Potentiate Clusters of TF Binding across the Human Genome

scientific article

Dynamics of the epigenetic landscape during erythroid differentiation after GATA1 restoration

scientific article

Early de novo DNA methylation and prolonged demethylation in the muscle lineage.

scientific article published on 15 February 2013

Effects of sequence variation on differential allelic transcription factor occupancy and gene expression

scientific article published on 2 February 2012

Epigenomic comparison reveals activation of "seed" enhancers during transition from naive to primed pluripotency

scientific article

Extensive evolutionary changes in regulatory element activity during human origins are associated with altered gene expression and positive selection

scientific article

Genetic variants and cellular stressors associated with exfoliation syndrome modulate promoter activity of a lncRNA within the LOXL1 locus

scientific article

Genome-wide identification of regulatory elements in Sertoli cells

scientific article published on 13 January 2017

Genome-wide specificity of DNA binding, gene regulation, and chromatin remodeling by TALE- and CRISPR/Cas9-based transcriptional activators

scientific article published on 29 May 2015

Genomic analysis reveals distinct mechanisms and functional classes of SOX10-regulated genes in melanocytes

scientific article

Genomic distribution of CHD7 on chromatin tracks H3K4 methylation patterns

scientific article published on 27 February 2009

Global Epigenomic Analysis of Primary Human Pancreatic Islets Provides Insights into Type 2 Diabetes Susceptibility Loci

Global epigenomic analysis of primary human pancreatic islets provides insights into type 2 diabetes susceptibility loci

scientific article

Glucocorticoid receptor recruits to enhancers and drives activation by motif-directed binding

H3K4me3 inversely correlates with DNA methylation at a large class of non-CpG-island-containing start sites ⬇️

scientific article published on May 28, 2012

Heritable individual-specific and allele-specific chromatin signatures in humans

scientific article

High-resolution genome-wide in vivo footprinting of diverse transcription factors in human cells

scientific article

Highly specific epigenome editing by CRISPR-Cas9 repressors for silencing of distal regulatory elements

scientific article

Human cardiac -regulatory elements, their cognate transcription factors, and regulatory DNA sequence variants

article published in 2018

Identification and requirements of enhancers that direct gene expression during zebrafish fin regeneration

scientific article published on 14 July 2020

Incomplete MyoD-induced transdifferentiation is associated with chromatin remodeling deficiencies

scientific article

Interactions of chromatin context, binding site sequence content, and sequence evolution in stress-induced p53 occupancy and transactivation

scientific article

Microbiota regulate intestinal epithelial gene expression by suppressing the transcription factor Hepatocyte nuclear factor 4 alpha

scientific article

Mutational signatures of de-differentiation in functional non-coding regions of melanoma genomes

scientific article

Notch signaling genes: myogenic DNA hypomethylation and 5-hydroxymethylcytosine

scientific article

Open Chromatin Profiling in Adipose Tissue Marks Genomic Regions with Functional Roles in Cardiometabolic Traits

scientific article published on 08 August 2019

Open chromatin defined by DNaseI and FAIRE identifies regulatory elements that shape cell-type identity

scientific article

Open chromatin mapping identifies transcriptional networks regulating human epididymis epithelial function

scientific article

Patterns of regulatory activity across diverse human cell types predict tissue identity, transcription factor binding, and long-range interactions

scientific article published on 12 March 2013

Pre-established Chromatin Interactions Mediate the Genomic Response to Glucocorticoids

scientific article published on 18 July 2018

Regulation of chromatin accessibility and Zic binding at enhancers in the developing cerebellum

scientific article published on 6 April 2015

Site-specific silencing of regulatory elements as a mechanism of X inactivation

scientific article

Stringent comparative sequence analysis reveals SOX10 as a putative inhibitor of glial cell differentiation

scientific article

The accessible chromatin landscape of the human genome

scientific article

Transcriptome and epigenome landscape of human cortical development modeled in organoids

scientific article

List of works by Lingyun Song

A dynamic H3K27ac signature identifies VEGFA-stimulated endothelial enhancers and requires EP300 activity

A genome-wide analysis of open chromatin in human epididymis epithelial cells reveals candidate regulatory elements for genes coordinating epididymal function

A genome-wide analysis of open chromatin in human tracheal epithelial cells reveals novel candidate regulatory elements for lung function

Abstract B44: Chromatin structure impacts androgen receptor transcriptional specificity in prostate cancer cell lines

CRISPR-Cas9 epigenome editing enables high-throughput screening for functional regulatory elements in the human genome

Cell-type specific and combinatorial usage of diverse transcription factors revealed by genome-wide binding studies in multiple human cells

Chromatin accessibility mapping identifies mediators of basal transcription and retinoid-induced repression of OTX2 in medulloblastoma

Chromatin accessibility reveals insights into androgen receptor activation and transcriptional specificity

DNA methylation and differentiation: HOX genes in muscle cells ⬇️

DNase-seq predicts regions of rotational nucleosome stability across diverse human cell types

DNase-seq: a high-resolution technique for mapping active gene regulatory elements across the genome from mammalian cells

DNaseI hypersensitivity at gene-poor, FSH dystrophy-linked 4q35.2

Direct GR Binding Sites Potentiate Clusters of TF Binding across the Human Genome

Dynamics of the epigenetic landscape during erythroid differentiation after GATA1 restoration

Early de novo DNA methylation and prolonged demethylation in the muscle lineage.

Effects of sequence variation on differential allelic transcription factor occupancy and gene expression

Epigenomic comparison reveals activation of "seed" enhancers during transition from naive to primed pluripotency

Extensive evolutionary changes in regulatory element activity during human origins are associated with altered gene expression and positive selection

Genetic variants and cellular stressors associated with exfoliation syndrome modulate promoter activity of a lncRNA within the LOXL1 locus

Genome-wide identification of regulatory elements in Sertoli cells

Genome-wide specificity of DNA binding, gene regulation, and chromatin remodeling by TALE- and CRISPR/Cas9-based transcriptional activators

Genomic analysis reveals distinct mechanisms and functional classes of SOX10-regulated genes in melanocytes

Genomic distribution of CHD7 on chromatin tracks H3K4 methylation patterns

Global Epigenomic Analysis of Primary Human Pancreatic Islets Provides Insights into Type 2 Diabetes Susceptibility Loci

Global epigenomic analysis of primary human pancreatic islets provides insights into type 2 diabetes susceptibility loci

Glucocorticoid receptor recruits to enhancers and drives activation by motif-directed binding

H3K4me3 inversely correlates with DNA methylation at a large class of non-CpG-island-containing start sites ⬇️

Heritable individual-specific and allele-specific chromatin signatures in humans

High-resolution genome-wide in vivo footprinting of diverse transcription factors in human cells

Highly specific epigenome editing by CRISPR-Cas9 repressors for silencing of distal regulatory elements

Human cardiac -regulatory elements, their cognate transcription factors, and regulatory DNA sequence variants

Identification and requirements of enhancers that direct gene expression during zebrafish fin regeneration

Incomplete MyoD-induced transdifferentiation is associated with chromatin remodeling deficiencies

Interactions of chromatin context, binding site sequence content, and sequence evolution in stress-induced p53 occupancy and transactivation

Microbiota regulate intestinal epithelial gene expression by suppressing the transcription factor Hepatocyte nuclear factor 4 alpha

Mutational signatures of de-differentiation in functional non-coding regions of melanoma genomes

Notch signaling genes: myogenic DNA hypomethylation and 5-hydroxymethylcytosine

Open Chromatin Profiling in Adipose Tissue Marks Genomic Regions with Functional Roles in Cardiometabolic Traits

Open chromatin defined by DNaseI and FAIRE identifies regulatory elements that shape cell-type identity

Open chromatin mapping identifies transcriptional networks regulating human epididymis epithelial function

Patterns of regulatory activity across diverse human cell types predict tissue identity, transcription factor binding, and long-range interactions

Pre-established Chromatin Interactions Mediate the Genomic Response to Glucocorticoids

Regulation of chromatin accessibility and Zic binding at enhancers in the developing cerebellum

Site-specific silencing of regulatory elements as a mechanism of X inactivation

Stringent comparative sequence analysis reveals SOX10 as a putative inhibitor of glial cell differentiation

The accessible chromatin landscape of the human genome

Transcriptome and epigenome landscape of human cortical development modeled in organoids