Published in PLoS One on June 02, 2011
Annotation of functional variation in personal genomes using RegulomeDB. Genome Res (2012) 11.47
A histone acetylation switch regulates H2A.Z deposition by the SWR-C remodeling enzyme. Science (2013) 2.67
ChIPBase: a database for decoding the transcriptional regulation of long non-coding RNA and microRNA genes from ChIP-Seq data. Nucleic Acids Res (2012) 2.11
Large-scale quality analysis of published ChIP-seq data. G3 (Bethesda) (2014) 1.23
Histone deacetylase inhibitors globally enhance h3/h4 tail acetylation without affecting h3 lysine 56 acetylation. Sci Rep (2012) 1.11
Adiponectin regulates expression of hepatic genes critical for glucose and lipid metabolism. Proc Natl Acad Sci U S A (2012) 1.10
Early life exposure to endocrine-disrupting chemicals causes lifelong molecular reprogramming of the hypothalamus and premature reproductive aging. Mol Endocrinol (2011) 1.06
The prenucleosome, a stable conformational isomer of the nucleosome. Genes Dev (2015) 0.94
CRY1 circadian gene variant interacts with carbohydrate intake for insulin resistance in two independent populations: Mediterranean and North American. Chronobiol Int (2014) 0.88
Histone core phosphorylation regulates DNA accessibility. J Biol Chem (2015) 0.86
Acetate functions as an epigenetic metabolite to promote lipid synthesis under hypoxia. Nat Commun (2016) 0.86
DYRK1A phoshorylates histone H3 to differentially regulate the binding of HP1 isoforms and antagonize HP1-mediated transcriptional repression. EMBO Rep (2014) 0.83
Histone-modifying enzymes, histone modifications and histone chaperones in nucleosome assembly: Lessons learned from Rtt109 histone acetyltransferases. Crit Rev Biochem Mol Biol (2014) 0.80
Adipogenic transcriptome profiling using high throughput technologies. J Genomics (2013) 0.79
Linker histone H1 and H3K56 acetylation are antagonistic regulators of nucleosome dynamics. Nat Commun (2015) 0.79
Association of levels of fasting glucose and insulin with rare variants at the chromosome 11p11.2-MADD locus: Cohorts for Heart and Aging Research in Genomic Epidemiology (CHARGE) Consortium Targeted Sequencing Study. Circ Cardiovasc Genet (2014) 0.79
CEBPA exerts a specific and biologically important proapoptotic role in pancreatic β cells through its downstream network targets. Mol Biol Cell (2014) 0.78
Getting down to the core of histone modifications. Chromosoma (2014) 0.77
Mutations that prevent or mimic persistent post-translational modifications of the histone H3 globular domain cause lethality and growth defects in Drosophila. Epigenetics Chromatin (2016) 0.76
The Commercial Antibodies Widely Used to Measure H3 K56 Acetylation Are Non-Specific in Human and Drosophila Cells. PLoS One (2016) 0.75
A Multistate Toggle Switch Defines Fungal Cell Fates and Is Regulated by Synergistic Genetic Cues. PLoS Genet (2016) 0.75
Prenucleosomes and Active Chromatin. Cold Spring Harb Symp Quant Biol (2016) 0.75
Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles. Proc Natl Acad Sci U S A (2005) 167.46
Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. Nat Protoc (2009) 137.99
Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists. Nucleic Acids Res (2008) 54.83
Connecting microRNA genes to the core transcriptional regulatory circuitry of embryonic stem cells. Cell (2008) 16.38
Adipocytokines: mediators linking adipose tissue, inflammation and immunity. Nat Rev Immunol (2006) 10.05
Adipocytes as regulators of energy balance and glucose homeostasis. Nature (2006) 9.52
Tissue-specific transcriptional regulation has diverged significantly between human and mouse. Nat Genet (2007) 6.92
Genome-wide profiling of PPARgamma:RXR and RNA polymerase II occupancy reveals temporal activation of distinct metabolic pathways and changes in RXR dimer composition during adipogenesis. Genes Dev (2008) 4.93
CBP/p300-mediated acetylation of histone H3 on lysine 56. Nature (2009) 4.83
PPARgamma and C/EBP factors orchestrate adipocyte biology via adjacent binding on a genome-wide scale. Genes Dev (2008) 4.83
Stress-inducible regulation of heat shock factor 1 by the deacetylase SIRT1. Science (2009) 4.80
Comparative epigenomic analysis of murine and human adipogenesis. Cell (2010) 4.08
Metformin and insulin suppress hepatic gluconeogenesis through phosphorylation of CREB binding protein. Cell (2009) 2.69
A hypothesis-based approach for identifying the binding specificity of regulatory proteins from chromatin immunoprecipitation data. Bioinformatics (2005) 2.52
Histone h3 lysine 56 acetylation is linked to the core transcriptional network in human embryonic stem cells. Mol Cell (2009) 2.27
Ontology annotation: mapping genomic regions to biological function. Curr Opin Chem Biol (2007) 2.21
Peroxisome proliferator-activated receptor gamma in diabetes and metabolism. Trends Pharmacol Sci (2004) 1.97
SIRT1 and insulin resistance. Nat Rev Endocrinol (2009) 1.96
Differential H3K4 methylation identifies developmentally poised hematopoietic genes. Dev Cell (2008) 1.89
Human mesenchymal stem cells as an in vitro model for human adipogenesis. Obes Res (2003) 1.68
A quantitative model of transcriptional regulation reveals the influence of binding location on expression. PLoS Comput Biol (2010) 1.66
Neural sirtuin 6 (Sirt6) ablation attenuates somatic growth and causes obesity. Proc Natl Acad Sci U S A (2010) 1.49
C/EBPalpha regulates human adiponectin gene transcription through an intronic enhancer. Diabetes (2005) 1.48
Increased insulin sensitivity despite lipodystrophy in Crebbp heterozygous mice. Nat Genet (2002) 1.44
De-novo identification of PPARgamma/RXR binding sites and direct targets during adipogenesis. PLoS One (2009) 1.39
Metformin suppresses hepatic gluconeogenesis through induction of SIRT1 and GCN5. J Endocrinol (2010) 1.28
Regulation of angiogenesis by histone chaperone HIRA-mediated incorporation of lysine 56-acetylated histone H3.3 at chromatin domains of endothelial genes. J Biol Chem (2010) 1.09
Cell cycle genes are the evolutionarily conserved targets of the E2F4 transcription factor. PLoS One (2007) 1.07
Transcription factor C/EBPalpha: novel sites of expression and cloning of the human gene. Biol Chem (1997) 1.01
Arylamine N-acetyltransferase 1 gene regulation by androgens requires a conserved heat shock element for heat shock factor-1. Carcinogenesis (2010) 0.91
Developmental profile of homeobox gene expression during 3T3-L1 adipogenesis. Biochem Biophys Res Commun (1997) 0.87
Transcriptional regulatory networks in Saccharomyces cerevisiae. Science (2002) 43.52
Transcriptional regulatory code of a eukaryotic genome. Nature (2004) 27.21
Control of pancreas and liver gene expression by HNF transcription factors. Science (2004) 12.05
An improved map of conserved regulatory sites for Saccharomyces cerevisiae. BMC Bioinformatics (2006) 11.13
Tissue-specific transcriptional regulation has diverged significantly between human and mouse. Nat Genet (2007) 6.92
Computational discovery of gene modules and regulatory networks. Nat Biotechnol (2003) 6.55
Foxp3 occupancy and regulation of key target genes during T-cell stimulation. Nature (2007) 5.81
High-resolution computational models of genome binding events. Nat Biotechnol (2006) 3.74
Prevention of organ allograft rejection by a specific Janus kinase 3 inhibitor. Science (2003) 3.19
Core transcriptional regulatory circuitry in human hepatocytes. Mol Syst Biol (2006) 3.15
Bridging high-throughput genetic and transcriptional data reveals cellular responses to alpha-synuclein toxicity. Nat Genet (2009) 3.06
Insights into GATA-1-mediated gene activation versus repression via genome-wide chromatin occupancy analysis. Mol Cell (2009) 3.05
HSF1 drives a transcriptional program distinct from heat shock to support highly malignant human cancers. Cell (2012) 2.94
Practical strategies for discovering regulatory DNA sequence motifs. PLoS Comput Biol (2006) 2.53
A hypothesis-based approach for identifying the binding specificity of regulatory proteins from chromatin immunoprecipitation data. Bioinformatics (2005) 2.52
Compounds from an unbiased chemical screen reverse both ER-to-Golgi trafficking defects and mitochondrial dysfunction in Parkinson's disease models. Dis Model Mech (2009) 2.16
Integrating proteomic, transcriptional, and interactome data reveals hidden components of signaling and regulatory networks. Sci Signal (2009) 2.04
Direct recruitment of polycomb repressive complex 1 to chromatin by core binding transcription factors. Mol Cell (2012) 1.71
A quantitative model of transcriptional regulation reveals the influence of binding location on expression. PLoS Comput Biol (2010) 1.66
TAMO: a flexible, object-oriented framework for analyzing transcriptional regulation using DNA-sequence motifs. Bioinformatics (2005) 1.63
Unbiased, genome-wide in vivo mapping of transcriptional regulatory elements reveals sex differences in chromatin structure associated with sex-specific liver gene expression. Mol Cell Biol (2010) 1.45
Proline-rich tyrosine kinase 2 regulates osteoprogenitor cells and bone formation, and offers an anabolic treatment approach for osteoporosis. Proc Natl Acad Sci U S A (2007) 1.38
SOX2 co-occupies distal enhancer elements with distinct POU factors in ESCs and NPCs to specify cell state. PLoS Genet (2013) 1.32
Extensive changes in DNA methylation are associated with expression of mutant huntingtin. Proc Natl Acad Sci U S A (2013) 1.28
ResponseNet: revealing signaling and regulatory networks linking genetic and transcriptomic screening data. Nucleic Acids Res (2011) 1.28
Large-scale discovery of ERK2 substrates identifies ERK-mediated transcriptional regulation by ETV3. Sci Signal (2011) 1.27
Genomic characterization of Wilms' tumor suppressor 1 targets in nephron progenitor cells during kidney development. Development (2010) 1.21
SteinerNet: a web server for integrating 'omic' data to discover hidden components of response pathways. Nucleic Acids Res (2012) 1.11
Simultaneous reconstruction of multiple signaling pathways via the prize-collecting steiner forest problem. J Comput Biol (2013) 1.10
WebMOTIFS: automated discovery, filtering and scoring of DNA sequence motifs using multiple programs and Bayesian approaches. Nucleic Acids Res (2007) 1.07
Linking proteomic and transcriptional data through the interactome and epigenome reveals a map of oncogene-induced signaling. PLoS Comput Biol (2013) 1.06
The small molecule, genistein, increases hepcidin expression in human hepatocytes. Hepatology (2013) 1.00
SAMNet: a network-based approach to integrate multi-dimensional high throughput datasets. Integr Biol (Camb) (2012) 0.98
Targeting H3K4 trimethylation in Huntington disease. Proc Natl Acad Sci U S A (2013) 0.98
Poly-glutamine expanded huntingtin dramatically alters the genome wide binding of HSF1. J Huntingtons Dis (2012) 0.91
Analysis of in vitro insulin-resistance models and their physiological relevance to in vivo diet-induced adipose insulin resistance. Cell Rep (2013) 0.85
Bmi1 promotes erythroid development through regulating ribosome biogenesis. Stem Cells (2015) 0.84
Sequence analysis of chromatin immunoprecipitation data for transcription factors. Methods Mol Biol (2010) 0.81
Integrated network analyses for functional genomic studies in cancer. Semin Cancer Biol (2013) 0.80
Sharing information to reconstruct patient-specific pathways in heterogeneous diseases. Pac Symp Biocomput (2014) 0.79
Swimming upstream: identifying proteomic signals that drive transcriptional changes using the interactome and multiple "-omics" datasets. Methods Cell Biol (2012) 0.79
PF-03475952: a potent and neutralizing fully human anti-CD44 antibody for therapeutic applications in inflammatory diseases. Adv Ther (2010) 0.77
Pathway-based network modeling finds hidden genes in shRNA screen for regulators of acute lymphoblastic leukemia. Integr Biol (Camb) (2016) 0.75
Development of a robust GABA(B) calcium signaling cell line using beta-lactamase technology and sorting. Cytometry A (2008) 0.75