Resource
Precision environmental health monitoring by longitudinal exposome and multi-omics profiling
- First Published June 6, 2022
Method
Microfluidic isoform sequencing shows widespread splicing coordination in the human transcriptome
- First Published December 1, 2017
Method
Read clouds uncover variation in complex regions of the human genome
- First Published August 18, 2015
Method
Parente2: a fast and accurate method for detecting identity by descent
- First Published October 1, 2014
Resource
Annotation of functional variation in personal genomes using RegulomeDB
- 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
Method
Ubiquitous heterogeneity and asymmetry of the chromatin environment at regulatory elements
- First Published September 5, 2012
Research
A highly integrated and complex PPARGC1A transcription factor binding network in HepG2 cells
- First Published September 5, 2012
Research
Understanding transcriptional regulation by integrative analysis of transcription factor binding data
- First Published September 5, 2012
Resource
ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia
- First Published September 5, 2012
Method
Linking disease associations with regulatory information in the human genome
- First Published September 5, 2012
Research
Deep sequencing of subcellular RNA fractions shows splicing to be predominantly co-transcriptional in the human genome but inefficient for lncRNAs
- First Published September 5, 2012
Resource
CNVnator: An approach to discover, genotype, and characterize typical and atypical CNVs from family and population genome sequencing
- First Published February 7, 2011
Research
C. elegans" > Diverse transcription factor binding features revealed by genome-wide ChIP-seq in C. elegans
- First Published December 22, 2010
Method
C. elegans by integrating conservation, secondary structure, and high-throughput sequencing and array data" > Prediction and characterization of noncoding RNAs in C. elegans by integrating conservation, secondary structure, and high-throughput sequencing and array data
- First Published December 22, 2010
Resource
Candida albicans using RNA-seq" > Comprehensive annotation of the transcriptome of the human fungal pathogen Candida albicans using RNA-seq
- First Published September 1, 2010
Letter
Evolutionary constraint facilitates interpretation of genetic variation in resequenced human genomes
- First Published January 12, 2010
Methods
MSB: A mean-shift-based approach for the analysis of structural variation in the genome
- First Published November 26, 2008
LETTER
Genome-wide relationship between histone H3 lysine 4 mono- and tri-methylation and transcription factor binding
- First Published September 11, 2008
LETTER
A genomic analysis of RNA polymerase II modification and chromatin architecture related to 3′ end RNA polyadenylation
- First Published May 16, 2008
RECOMB Special/Methods
Effect of genetic divergence in identifying ancestral origin using HAPAA
- First Published March 18, 2008
LETTER
Systematic evaluation of variability in ChIP-chip experiments using predefined DNA targets
- First Published February 7, 2008
LETTER
Statistical analysis of the genomic distribution and correlation of regulatory elements in the ENCODE regions
- First Published June 13, 2007
LETTER
Structured RNAs in the ENCODE selected regions of the human genome
- First Published June 13, 2007
Methods
Mapping of transcription factor binding regions in mammalian cells by ChIP: Comparison of array- and sequencing-based technologies
- First Published June 13, 2007
Methods
Mapping the chromosomal targets of STAT1 by Sequence Tag Analysis of Genomic Enrichment (STAGE)
- First Published June 13, 2007
ARTICLE
The DART classification of unannotated transcription within the ENCODE regions: Associating transcription with known and novel loci
- First Published June 13, 2007
ARTICLE
Integrated analysis of experimental data sets reveals many novel promoters in 1% of the human genome
- First Published June 13, 2007
ARTICLE
Analyses of deep mammalian sequence alignments and constraint predictions for 1% of the human genome
- First Published June 13, 2007
PERSPECTIVE
What is a gene, post-ENCODE? History and updated definition
- First Published June 13, 2007
Methods
Assessing the performance of different high-density tiling microarray strategies for mapping transcribed regions of the human genome
- First Published November 21, 2006
ARTICLE
Distribution and intensity of constraint in mammalian genomic sequence
- First Published June 17, 2005
RESOURCE
Large-Scale Mutagenesis of the Yeast Genome Using a Tn7-Derived Multipurpose Transposon
- First Published October 1, 2004
Methods
Automated Whole-Genome Multiple Alignment of Rat, Mouse, and Human
- First Published April 1, 2004
LETTER
Characterization of Evolutionary Rates and Constraints in Three Mammalian Genomes
- First Published April 1, 2004
Methods
Eukaryotic Regulatory Element Conservation Analysis and Identification Using Comparative Genomics
- First Published March 1, 2004
Methods
Identification of Promoter Regions in the Human Genome by Using a Retroviral Plasmid Library-Based Functional Reporter Gene Assay
- First Published June 12, 2003
LETTER
Quantitative Estimates of Sequence Divergence for Comparative Analyses of Mammalian Genomes
- First Published May 1, 2003
METHODS
LAGAN and Multi-LAGAN: Efficient Tools for Large-Scale Multiple Alignment of Genomic DNA
- First Published March 12, 2003
LETTER
Human and Mouse Gene Structure: Comparative Analysis and Application to Exon Prediction
- First Published July 1, 2000
RESEARCH
Sequencing a Genome by Walking with Clone-End Sequences: A Mathematical Analysis
- First Published December 1, 1999