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
Enhancers with tissue-specific activity are enriched in intronic regions
- First Published July 21, 2021
Corrigendum
Corrigendum: Functional annotation of human long noncoding RNAs via molecular phenotyping
- First Published September 14, 2020
Resource
A limited set of transcriptional programs define major cell types
- First Published July 29, 2020
Resource
Functional annotation of human long noncoding RNAs via molecular phenotyping
- First Published July 27, 2020
Resource
Dynamics of microRNA expression during mouse prenatal development
- First Published October 23, 2019
Research
High-resolution structural genomics reveals new therapeutic vulnerabilities in glioblastoma
- First Published June 27, 2019
Research
Drosophila regeneration" > Damage-responsive elements in Drosophila regeneration
- First Published November 20, 2018
Research
Evolution of selenophosphate synthetases: emergence and relocation of function through independent duplications and recurrent subfunctionalization
- First Published July 20, 2015
Method
TITAN: inference of copy number architectures in clonal cell populations from tumor whole-genome sequence data
- First Published July 24, 2014
Research
Transcriptome characterization by RNA sequencing identifies a major molecular and clinical subdivision in chronic lymphocytic leukemia
- First Published November 21, 2013
Method
Estimating absolute methylation levels at single-CpG resolution from methylation enrichment and restriction enzyme sequencing methods
- First Published June 26, 2013
Method
Functional DNA methylation differences between tissues, cell types, and across individuals discovered using the M&M algorithm
- First Published June 26, 2013
Resource
GENCODE: The reference human genome annotation for The ENCODE Project
- First Published September 5, 2012
Resource
The GENCODE v7 catalog of human long noncoding RNAs: Analysis of their gene structure, evolution, and expression
- 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
Research
Understanding transcriptional regulation by integrative analysis of transcription factor binding data
- First Published September 5, 2012
Method
Combining RT-PCR-seq and RNA-seq to catalog all genic elements encoded in the human genome
- First Published September 5, 2012
Method
Estimation of alternative splicing variability in human populations
- First Published November 23, 2011
Research
Extensive relationship between antisense transcription and alternative splicing in the human genome
- First Published June 30, 2011
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
Methods
Next-generation tag sequencing for cancer gene expression profiling
- First Published June 18, 2009
Resource
C. elegans" > Massively parallel sequencing of the polyadenylated transcriptome of C. elegans
- First Published January 30, 2009
LETTER
In-depth characterization of the microRNA transcriptome in a leukemia progression model
- 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
Methods
Application of massively parallel sequencing to microRNA profiling and discovery in human embryonic stem cells
- First Published February 19, 2008
LETTER
Caenorhabditis elegans operons" > 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
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
ARTICLE
The DART classification of unannotated transcription within the ENCODE regions: Associating transcription with known and novel loci
- First Published June 13, 2007
LETTER
Pseudogenes in the ENCODE regions: Consensus annotation, analysis of transcription, and evolution
- First Published June 13, 2007
LETTER
Structured RNAs in the ENCODE selected regions of the human genome
- 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
LETTER
Tandem chimerism as a means to increase protein complexity in the human genome
- First Published December 12, 2005
Methods
Simple, robust methods for high-throughput nanoliter-scale DNA sequencing
- First Published September 16, 2005
Chicken Special/Letters
Comparison of splice sites in mammals and chicken
- First Published December 8, 2004
Methods
Systematic Recovery and Analysis of Full-ORF Human cDNA Clones
- First Published October 15, 2004
LETTER
Comparative Analysis of Amino Acid Repeats in Rodents and Humans
- First Published April 1, 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