Research
Rearrangements of viral and human genomes at human papillomavirus integration events and their allele-specific impacts on cancer genome regulation
- First Published December 5, 2024
Research
Gaps and complex structurally variant loci in phased genome assemblies
- First Published May 10, 2023
Research
Diversity, duplication, and genomic organization of homeobox genes in Lepidoptera
- First Published December 8, 2022
Research
Chromatin activation as a unifying principle underlying pathogenic mechanisms in multiple myeloma
- First Published August 20, 2020
Resource
A chromosome-level assembly of the Atlantic herring genome—detection of a supergene and other signals of selection
- First Published October 24, 2019
Research
High-resolution structural genomics reveals new therapeutic vulnerabilities in glioblastoma
- First Published June 27, 2019
Method
Chromosome assembly of large and complex genomes using multiple references
- First Published October 19, 2018
Research
Repeat associated mechanisms of genome evolution and function revealed by the Mus caroli and Mus pahari genomes
- First Published March 21, 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
Method
Identifying cis-mediators for trans-eQTLs across many human tissues using genomic mediation analysis
- First Published October 11, 2017
Method
Co-expression networks reveal the tissue-specific regulation of transcription and splicing
- First Published October 11, 2017
Resource
Evaluation of GRCh38 and de novo haploid genome assemblies demonstrates the enduring quality of the reference assembly
- First Published April 10, 2017
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
Spatial enhancer clustering and regulation of enhancer-proximal genes by cohesin
- First Published February 12, 2015
Research
Decoupling of evolutionary changes in transcription factor binding and gene expression in mammals
- First Published November 13, 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
Method
TITAN: inference of copy number architectures in clonal cell populations from tumor whole-genome sequence data
- First Published July 24, 2014
Research
Cohesin-based chromatin interactions enable regulated gene expression within preexisting architectural compartments
- First Published September 3, 2013
Method
Functional DNA methylation differences between tissues, cell types, and across individuals discovered using the M&M algorithm
- First Published June 26, 2013
Method
Estimating absolute methylation levels at single-CpG resolution from methylation enrichment and restriction enzyme sequencing methods
- First Published June 26, 2013
Research
Extensive compensatory cis-trans regulation in the evolution of mouse gene expression
- First Published August 23, 2012
Research
Cohesin regulates tissue-specific expression by stabilizing highly occupied cis-regulatory modules
- First Published July 10, 2012
Research
Extensive relationship between antisense transcription and alternative splicing in the human genome
- First Published June 30, 2011
Research
Deep annotation of Drosophila melanogaster microRNAs yields insights into their processing, modification, and emergence
- First Published December 22, 2010
Research
Locus co-occupancy, nucleosome positioning, and H3K4me1 regulate the functionality of FOXA2-, HNF4A-, and PDX1-bound loci in islets and liver
- First Published June 15, 2010
Research
The genome sequence of the spontaneously hypertensive rat: Analysis and functional significance
- First Published April 29, 2010
Research
A CTCF-independent role for cohesin in tissue-specific transcription
- First Published March 10, 2010
Methods
Next-generation tag sequencing for cancer gene expression profiling
- First Published June 18, 2009
Letter
Functional diversity for REST (NRSF) is defined by in vivo binding affinity hierarchies at the DNA sequence level
- First Published April 28, 2009
LETTER
In-depth characterization of the microRNA transcriptome in a leukemia progression model
- First Published October 10, 2008
Methods
Genome-wide nucleotide-level mammalian ancestor reconstruction
- First Published October 10, 2008
LETTER
Genome-wide relationship between histone H3 lysine 4 mono- and tri-methylation and transcription factor binding
- First Published September 11, 2008
RESOURCE
An integrated resource for genome-wide identification and analysis of human tissue-specific differentially methylated regions (tDMRs)
- First Published June 24, 2008
Methods
Application of massively parallel sequencing to microRNA profiling and discovery in human embryonic stem cells
- First Published February 19, 2008
LETTER
Systematic evaluation of variability in ChIP-chip experiments using predefined DNA targets
- First Published February 7, 2008
LETTER
Identification and analysis of internal promoters in Caenorhabditis elegans operons
- First Published August 21, 2007
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
Large-scale production of SAGE libraries from microdissected tissues, flow-sorted cells, and cell lines
- First Published November 29, 2006
LETTER
Identification by full-coverage array CGH of human DNA copy number increases relative to chimpanzee and gorilla
- First Published December 19, 2005
Methods
Simple, robust methods for high-throughput nanoliter-scale DNA sequencing
- First Published September 16, 2005
ARTICLE
Analysis of long-lived C. elegans daf-2 mutants using serial analysis of gene expression
- First Published April 18, 2005
Methods
Systematic Recovery and Analysis of Full-ORF Human cDNA Clones
- First Published October 15, 2004
RESOURCE
Development and Application of a Salmonid EST Database and cDNA Microarray: Data Mining and Interspecific Hybridization Characteristics
- First Published February 12, 2004
RESOURCE
Internet Contig Explorer (iCE)—A Tool for Visualizing Clone Fingerprint Maps
- First Published June 1, 2003