Method
Profiling the quantitative occupancy of myriad transcription factors across conditions by modeling chromatin accessibility data
- First Published May 24, 2022
Method
Human cardiac cis-regulatory elements, their cognate transcription factors, and regulatory DNA sequence variants
- First Published August 23, 2018
Research
Glucocorticoid receptor recruits to enhancers and drives activation by motif-directed binding
- First Published August 10, 2018
Research
Microbiota regulate intestinal epithelial gene expression by suppressing the transcription factor Hepatocyte nuclear factor 4 alpha
- First Published April 6, 2017
Research
Genome-wide specificity of DNA binding, gene regulation, and chromatin remodeling by TALE- and CRISPR/Cas9-based transcriptional activators
- First Published May 29, 2015
Research
DNase-seq predicts regions of rotational nucleosome stability across diverse human cell types
- First Published May 8, 2013
Research
A dynamic H3K27ac signature identifies VEGFA-stimulated endothelial enhancers and requires EP300 activity
- First Published April 1, 2013
Research
Patterns of regulatory activity across diverse human cell types predict tissue identity, transcription factor binding, and long-range interactions
- First Published March 12, 2013
Research
Understanding transcriptional regulation by integrative analysis of transcription factor binding data
- First Published September 5, 2012
Resource
Sequence features and chromatin structure around the genomic regions bound by 119 human transcription factors
- First Published September 5, 2012
Research
Effects of sequence variation on differential allelic transcription factor occupancy and gene expression
- First Published February 2, 2012
Research
Cell-type specific and combinatorial usage of diverse transcription factors revealed by genome-wide binding studies in multiple human cells
- First Published November 16, 2011
Research
Dynamics of the epigenetic landscape during erythroid differentiation after GATA1 restoration
- First Published July 27, 2011
Resource
Open chromatin defined by DNaseI and FAIRE identifies regulatory elements that shape cell-type identity
- First Published July 12, 2011
Method
Efficient storage of high throughput DNA sequencing data using reference-based compression
- First Published January 18, 2011
Method
High-resolution genome-wide in vivo footprinting of diverse transcription factors in human cells
- First Published November 24, 2010
Research
The genome sequence of the spontaneously hypertensive rat: Analysis and functional significance
- First Published April 29, 2010
Methods
A new strategy for genome assembly using short sequence reads and reduced representation libraries
- First Published February 1, 2010
Resource
The consensus coding sequence (CCDS) project: Identifying a common protein-coding gene set for the human and mouse genomes
- First Published June 4, 2009
Letter
Genomic distribution of CHD7 on chromatin tracks H3K4 methylation patterns
- First Published February 27, 2009
RESOURCE
EnsemblCompara GeneTrees: Complete, duplication-aware phylogenetic trees in vertebrates
- First Published November 24, 2008
Methods
Enredo and Pecan: Genome-wide mammalian consistency-based multiple alignment with paralogs
- First Published October 10, 2008
Methods
Genome-wide nucleotide-level mammalian ancestor reconstruction
- First Published October 10, 2008
Methods
Confounding between recombination and selection, and the Ped/Pop method for detecting selection
- First Published July 10, 2008
RESOURCE
An integrated resource for genome-wide identification and analysis of human tissue-specific differentially methylated regions (tDMRs)
- First Published June 24, 2008
RESOURCE
Velvet: Algorithms for de novo short read assembly using de Bruijn graphs
- First Published March 18, 2008
ARTICLE
Analyses of deep mammalian sequence alignments and constraint predictions for 1% of the human genome
- First Published June 13, 2007
ARTICLE
The landscape of histone modifications across 1% of the human genome in five human cell lines
- First Published June 13, 2007
Methods
Identification of novel peptide hormones in the human proteome by hidden Markov model screening
- First Published February 6, 2007
Chicken Special/Resources
Transcriptome analysis for the chicken based on 19,626 finished cDNA sequences and 485,337 expressed sequence tags
- First Published December 8, 2004
RESOURCE
EnsMart: A Generic System for Fast and Flexible Access to Biological Data
- First Published January 5, 2004
METHODS
Discovering Novel cis-Regulatory Motifs Using Functional Networks
- First Published May 1, 2003
LETTER
Comparative Analysis of Noncoding Regions of 77 Orthologous Mouse and Human Gene Pairs
- First Published September 1, 1999