Research
Characterizing cytosine methylation of polymorphic transposable element insertions using the human pangenome resources
- First Published May 14, 2026
Research
Lake Malawi cichlid pangenome graph reveals extensive structural variation driven by transposable elements
- First Published April 10, 2025
Method
MCHelper automatically curates transposable element libraries across eukaryotic species
- First Published December 9, 2024
Method
Ultrafast genome-wide inference of pairwise coalescence times
- First Published August 10, 2023
Research
Diversity, duplication, and genomic organization of homeobox genes in Lepidoptera
- First Published December 8, 2022
Method
Profiling the quantitative occupancy of myriad transcription factors across conditions by modeling chromatin accessibility data
- First Published May 24, 2022
Research
Glucocorticoid receptor recruits to enhancers and drives activation by motif-directed binding
- First Published August 10, 2018
Corrigendum
Corrigendum: Characterization of the neural stem cell gene regulatory network identifies OLIG2 as a multifunctional regulator of self-renewal
- First Published December 1, 2017
Resource
Evaluation of GRCh38 and de novo haploid genome assemblies demonstrates the enduring quality of the reference assembly
- First Published April 10, 2017
Research
Microbiota regulate intestinal epithelial gene expression by suppressing the transcription factor Hepatocyte nuclear factor 4 alpha
- First Published April 6, 2017
Method
Using reference-free compressed data structures to analyze sequencing reads from thousands of human genomes
- First Published December 16, 2016
Corrigendum
Corrigendum: Characterization of the neural stem cell gene regulatory network identifies OLIG2 as a multifunctional regulator of self-renewal
- First Published November 1, 2016
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
Genome accessibility is widely preserved and locally modulated during mitosis
- First Published November 4, 2014
Research
Characterization of the neural stem cell gene regulatory network identifies OLIG2 as a multifunctional regulator of self-renewal
- First Published October 7, 2014
Research
Microbiota modulate transcription in the intestinal epithelium without remodeling the accessible chromatin landscape
- First Published June 24, 2014
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
Resource
Dynamic DNA methylation across diverse human cell lines and tissues
- First Published January 16, 2013
Method
Predicting cell-type–specific gene expression from regions of open chromatin
- First Published September 5, 2012
Research
Effects of sequence variation on differential allelic transcription factor occupancy and gene expression
- First Published February 2, 2012
Resource
High-resolution mapping of open chromatin in the rice genome
- First Published November 22, 2011
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
Resource
Assemblathon 1: A competitive assessment of de novo short read assembly methods
- First Published September 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
Revealing the genetic structure of a trait by sequencing a population under selection
- First Published March 21, 2011
Method
High-resolution genome-wide in vivo footprinting of diverse transcription factors in human cells
- First Published November 24, 2010
Resource
SNP detection and genotyping from low-coverage sequencing data on multiple diploid samples
- First Published October 27, 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
RESOURCE
Mapping short DNA sequencing reads and calling variants using mapping quality scores
- First Published August 19, 2008
Methods
Genome-wide mapping of DNase hypersensitive sites using massively parallel signature sequencing (MPSS)
- First Published December 12, 2005
METHODS
GAZE: A Generic Framework for the Integration of Gene-Prediction Data by Dynamic Programming
- First Published September 1, 2002
LETTER
Alfresco—A Workbench for Comparative Genomic Sequence Analysis
- First Published August 1, 2000
METHODS
GeneWise in the Drosophila Annotation Experiment" > Using GeneWise in the Drosophila Annotation Experiment
- First Published April 1, 2000
LETTER
Comparative Analysis of Noncoding Regions of 77 Orthologous Mouse and Human Gene Pairs
- First Published September 1, 1999
