Resource
Allele-specific transcription factor binding across human brain regions offers mechanistic insight into eQTLs
- First Published August 16, 2024
Method
cis-regulatory elements" > Probabilistic association of differentially expressed genes with cis-regulatory elements
- First Published April 17, 2024
Research
Characterization of human transcription factor function and patterns of gene regulation in HepG2 cells
- First Published October 18, 2023
Method
Analyzing rare mutations in metagenomes assembled using long and accurate reads
- First Published November 23, 2022
Method
Fast and accurate mapping of long reads to complete genome assemblies with VerityMap
- First Published November 15, 2022
Method
Variations in antibody repertoires correlate with vaccine responses
- First Published March 31, 2022
Research
Genome-wide strand asymmetry in massively parallel reporter activity favors genic strands
- First Published April 20, 2021
Research
V(DD)J recombination is an important and evolutionarily conserved mechanism for generating antibodies with unusually long CDR3s
- First Published September 18, 2020
Research
Dissecting the regulatory activity and sequence content of loci with exceptional numbers of transcription factor associations
- First Published July 2, 2020
Resource
Dynamics of microRNA expression during mouse prenatal development
- First Published October 23, 2019
Method
BiosyntheticSPAdes: reconstructing biosynthetic gene clusters from assembly graphs
- First Published June 3, 2019
Method
Plasmid detection and assembly in genomic and metagenomic data sets
- First Published May 2, 2019
Method
A new approach for rare variation collapsing on functional protein domains implicates specific genic regions in ALS
- First Published April 2, 2019
Method
Detection and analysis of ancient segmental duplications in mammalian genomes
- First Published May 7, 2018
Resource
A genome-wide interactome of DNA-associated proteins in the human liver
- First Published October 11, 2017
Research
Promoter-distal RNA polymerase II binding discriminates active from inactive CCAAT/ enhancer-binding protein beta binding sites
- First Published October 20, 2015
Method
CETCh-seq: CRISPR epitope tagging ChIP-seq of DNA-binding proteins
- First Published September 9, 2015
Method
From single-cell to cell-pool transcriptomes: Stochasticity in gene expression and RNA splicing
- First Published December 3, 2013
Resource
Integrating and mining the chromatin landscape of cell-type specificity using self-organizing maps
- First Published October 29, 2013
Method
Porphyromonas gingivalis recovered from a biofilm in a hospital sink using a high-throughput single-cell genomics platform" > Genome of the pathogen Porphyromonas gingivalis recovered from a biofilm in a hospital sink using a high-throughput single-cell genomics platform
- First Published April 5, 2013
Resource
Dynamic DNA methylation across diverse human cell lines and tissues
- First Published January 16, 2013
Research
Genistein and bisphenol A exposure cause estrogen receptor 1 to bind thousands of sites in a cell type-specific manner
- First Published September 26, 2012
Research
Widespread plasticity in CTCF occupancy linked to DNA methylation
- 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
Resource
ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia
- 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
DNA methylation profiling reveals novel biomarkers and important roles for DNA methyltransferases in prostate cancer
- First Published April 26, 2011
Research
Sequence features that drive human promoter function and tissue specificity
- First Published May 25, 2010
Letter
Evolutionary constraint facilitates interpretation of genetic variation in resequenced human genomes
- First Published January 12, 2010
Article
Genomic determination of the glucocorticoid response reveals unexpected mechanisms of gene regulation
- First Published October 2, 2009
Letter
Signals of recent positive selection in a worldwide sample of human populations
- First Published March 23, 2009
Methods
Distinct DNA methylation patterns characterize differentiated human embryonic stem cells and developing human fetal liver
- First Published March 9, 2009
RESOURCE
De novo fragment assembly with short mate-paired reads: Does the read length matter?
- First Published December 3, 2008
Methods
Comparative proteogenomics: Combining mass spectrometry and comparative genomics to analyze multiple genomes
- First Published April 21, 2008
LETTER
Systematic evaluation of variability in ChIP-chip experiments using predefined DNA targets
- First Published February 7, 2008
Methods
Whole proteome analysis of post-translational modifications: Applications of mass-spectrometry for proteogenomic annotation
- First Published August 9, 2007
ARTICLE
Integrated analysis of experimental data sets reveals many novel promoters in 1% of the human genome
- First Published June 13, 2007
ARTICLE
Prominent use of distal 5′ transcription start sites and discovery of a large number of additional exons in ENCODE regions
- First Published June 13, 2007
LETTER
Transcription factor binding and modified histones in human bidirectional promoters
- First Published June 13, 2007
LETTER
Serum response factor binding sites differ in three human cell types
- First Published January 2, 2007
LETTER
Comparative genomics modeling of the NRSF/REST repressor network: From single conserved sites to genome-wide repertoire
- First Published September 8, 2006