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Publication Venue For
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Profiling the quantitative occupancy of myriad transcription factors across conditions by modeling chromatin accessibility data..
32:1183-1198.
2022
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Implications of the first complete human genome assembly..
32:595-598.
2022
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Positive selection in noncoding genomic regions of vocal learning birds is associated with genes implicated in vocal learning and speech functions in humans..
31:2035-2049.
2021
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Linking the dynamics of chromatin occupancy and transcription with predictive models..
31:1035-1046.
2021
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Competition for DNA binding between paralogous transcription factors determines their genomic occupancy and regulatory functions..
31:1216-1229.
2021
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Correcting signal biases and detecting regulatory elements in STARR-seq data..
31:877-889.
2021
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AP-1 subunits converge promiscuously at enhancers to potentiate transcription..
31:538-550.
2021
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A new emu genome illuminates the evolution of genome configuration and nuclear architecture of avian chromosomes..
31:497-511.
2021
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Characterization of colibactin-associated mutational signature in an Asian oral squamous cell carcinoma and in other mucosal tumor types..
30:803-813.
2020
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Nascent chromatin occupancy profiling reveals locus- and factor-specific chromatin maturation dynamics behind the DNA replication fork..
29:1123-1133.
2019
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A new approach for rare variation collapsing on functional protein domains implicates specific genic regions in ALS..
29:809-818.
2019
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Experimental and pan-cancer genome analyses reveal widespread contribution of acrylamide exposure to carcinogenesis in humans..
29:521-531.
2019
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Leveraging chromatin accessibility for transcriptional regulatory network inference in T Helper 17 Cells..
29:449-463.
2019
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Chromatin conformation and transcriptional activity are permissive regulators of DNA replication initiation in Drosophila..
28:1688-1700.
2018
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Transcriptome evidence reveals enhanced autophagy-lysosomal function in centenarians..
28:1601-1610.
2018
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Human cardiac cis-regulatory elements, their cognate transcription factors, and regulatory DNA sequence variants..
28:1577-1588.
2018
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Glucocorticoid receptor recruits to enhancers and drives activation by motif-directed binding..
28:1272-1284.
2018
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Corrigendum: Detecting differential copy number variation between groups of samples..
28:766.1.
2018
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In-depth characterization of the cisplatin mutational signature in human cell lines and in esophageal and liver tumors..
28:654-665.
2018
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Detecting differential copy number variation between groups of samples..
28:256-265.
2018
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Nanopore sequencing of complex genomic rearrangements in yeast reveals mechanisms of repeat-mediated double-strand break repair..
27:2072-2082.
2017
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Genome-scale mutational signatures of aflatoxin in cells, mice, and human tumors..
27:1475-1486.
2017
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Microbiota regulate intestinal epithelial gene expression by suppressing the transcription factor Hepatocyte nuclear factor 4 alpha..
27:1195-1206.
2017
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Population genomics and the evolution of virulence in the fungal pathogen Cryptococcus neoformans..
27:1207-1219.
2017
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Genomic variation within alpha satellite DNA influences centromere location on human chromosomes with metastable epialleles..
26:1301-1311.
2016
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A new class of temporarily phenotypic enhancers identified by CRISPR/Cas9-mediated genetic screening..
26:397-405.
2016
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Mapping nucleosome positions using DNase-seq..
26:351-364.
2016
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Genomic approaches for understanding the genetics of complex disease..
25:1432-1441.
2015
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Genome-wide specificity of DNA binding, gene regulation, and chromatin remodeling by TALE- and CRISPR/Cas9-based transcriptional activators..
25:1158-1169.
2015
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Massively parallel quantification of the regulatory effects of noncoding genetic variation in a human cohort..
25:1206-1214.
2015
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The 100-genomes strains, an S. cerevisiae resource that illuminates its natural phenotypic and genotypic variation and emergence as an opportunistic pathogen..
25:762-774.
2015
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Whole-epigenome analysis in multiple myeloma reveals DNA hypermethylation of B cell-specific enhancers..
25:478-487.
2015
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Genome accessibility is widely preserved and locally modulated during mitosis..
25:213-225.
2015
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Characterization of the neural stem cell gene regulatory network identifies OLIG2 as a multifunctional regulator of self-renewal..
25:41-56.
2015
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Heterogeneous polymerase fidelity and mismatch repair bias genome variation and composition..
24:1751-1764.
2014
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Microbiota modulate transcription in the intestinal epithelium without remodeling the accessible chromatin landscape..
24:1504-1516.
2014
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A cloud-compatible bioinformatics pipeline for ultrarapid pathogen identification from next-generation sequencing of clinical samples..
24:1180-1192.
2014
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DNA replication and transcription programs respond to the same chromatin cues..
24:1102-1114.
2014
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Inferring gene expression from ribosomal promoter sequences, a crowdsourcing approach..
23:1928-1937.
2013
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Integrated detection of natural antisense transcripts using strand-specific RNA sequencing data..
23:1730-1739.
2013
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DNase-seq predicts regions of rotational nucleosome stability across diverse human cell types..
23:1118-1129.
2013
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A dynamic H3K27ac signature identifies VEGFA-stimulated endothelial enhancers and requires EP300 activity..
23:917-927.
2013
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Patterns of regulatory activity across diverse human cell types predict tissue identity, transcription factor binding, and long-range interactions..
23:777-788.
2013
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Dynamic DNA methylation across diverse human cell lines and tissues..
23:555-567.
2013
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A heterozygous IDH1R132H/WT mutation induces genome-wide alterations in DNA methylation..
22:2339-2355.
2012
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Genistein and bisphenol A exposure cause estrogen receptor 1 to bind thousands of sites in a cell type-specific manner..
22:2153-2162.
2012
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Observation of dually decoded regions of the human genome using ribosome profiling data..
22:2219-2229.
2012
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Spreading of X chromosome inactivation via a hierarchy of defined Polycomb stations..
22:1864-1876.
2012
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ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia..
22:1813-1831.
2012
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Predicting cell-type-specific gene expression from regions of open chromatin..
22:1711-1722.
2012
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Effects of sequence variation on differential allelic transcription factor occupancy and gene expression..
22:860-869.
2012
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Integrating genetic and gene expression evidence into genome-wide association analysis of gene sets..
22:386-397.
2012
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Cell-type specific and combinatorial usage of diverse transcription factors revealed by genome-wide binding studies in multiple human cells..
22:9-24.
2012
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Developmental control of gene copy number by repression of replication initiation and fork progression..
22:64-75.
2012
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High-resolution experimental and computational profiling of tissue-specific known and novel miRNAs in Arabidopsis..
22:163-176.
2012
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High-resolution mapping of open chromatin in the rice genome..
22:151-162.
2012
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Dynamics of the epigenetic landscape during erythroid differentiation after GATA1 restoration..
21:1659-1671.
2011
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Open chromatin defined by DNaseI and FAIRE identifies regulatory elements that shape cell-type identity..
21:1757-1767.
2011
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Comprehensive long-span paired-end-tag mapping reveals characteristic patterns of structural variations in epithelial cancer genomes..
21:665-675.
2011
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High-resolution genome-wide in vivo footprinting of diverse transcription factors in human cells..
21:456-464.
2011
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Chromatin signatures of the Drosophila replication program..
21:164-174.
2011
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Developmental control of the DNA replication and transcription programs..
21:175-181.
2011
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Epigenetic suppression of the TGF-beta pathway revealed by transcriptome profiling in ovarian cancer..
21:74-82.
2011
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Estrogen-mediated epigenetic repression of large chromosomal regions through DNA looping..
20:733-744.
2010
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Ethical challenges in genotype-driven research recruitment..
20:705-709.
2010
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Drosophila ORC localizes to open chromatin and marks sites of cohesin complex loading..
20:201-211.
2010
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Genome structure of a Saccharomyces cerevisiae strain widely used in bioethanol production..
19:2258-2270.
2009
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Genomic determination of the glucocorticoid response reveals unexpected mechanisms of gene regulation..
19:2163-2171.
2009
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Distinguishing direct versus indirect transcription factor-DNA interactions..
19:2090-2100.
2009