Resource
An integrative TAD catalog in lymphoblastoid cell lines discloses the functional impact of deletions and insertions in human genomes
- First Published December 5, 2024
Method
Assessing and mitigating privacy risks of sparse, noisy genotypes by local alignment to haplotype databases
- First Published December 14, 2023
Research
Bos taurus reveals pervasiveness of X–Y arms races in mammalian lineages" > Sequence analysis in Bos taurus reveals pervasiveness of X–Y arms races in mammalian lineages
- First Published November 18, 2020
Research
Dynamic RNA–protein interactions underlie the zebrafish maternal-to-zygotic transition
- First Published April 5, 2017
Research
Macaca mulatta) based on whole-genome sequences" > The population genomics of rhesus macaques (Macaca mulatta) based on whole-genome sequences
- First Published October 17, 2016
Research
Pangolin genomes and the evolution of mammalian scales and immunity
- First Published August 10, 2016
Research
Postmortem genetic screening for the identification, verification, and reporting of genetic variants contributing to the sudden death of the young
- First Published July 19, 2016
Insight/Outlook
The ethics of conducting molecular autopsies in cases of sudden death in the young
- First Published July 13, 2016
Research
Exonuclease mutations in DNA polymerase epsilon reveal replication strand specific mutation patterns and human origins of replication
- First Published September 16, 2014
Resource
D. melanogaster modENCODE transcriptome annotation" > Comparative validation of the D. melanogaster modENCODE transcriptome annotation
- First Published July 1, 2014
Method
An integrative variant analysis pipeline for accurate genotype/haplotype inference in population NGS data
- First Published January 7, 2013
Research
Chromatin state signatures associated with tissue-specific gene expression and enhancer activity in the embryonic limb
- First Published March 15, 2012
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
Research
Discovery of non-ETS gene fusions in human prostate cancer using next-generation RNA sequencing
- First Published October 29, 2010
Method
Analysis of membrane proteins in metagenomics: Networks of correlated environmental features and protein families
- First Published April 29, 2010
Resource
A SNP discovery method to assess variant allele probability from next-generation resequencing data
- First Published December 17, 2009
LETTER
A sequence-level map of chromosomal breakpoints in the MCF-7 breast cancer cell line yields insights into the evolution of a cancer genome
- First Published December 3, 2008
RESOURCE
28-Way vertebrate alignment and conservation track in the UCSC Genome Browser
- First Published November 5, 2007
ARTICLE
Integrated analysis of experimental data sets reveals many novel promoters in 1% of the human genome
- 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
Analyses of deep mammalian sequence alignments and constraint predictions for 1% of the human genome
- First Published June 13, 2007
LETTER
Statistical analysis of the genomic distribution and correlation of regulatory elements in the ENCODE regions
- 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
Mapping of transcription factor binding regions in mammalian cells by ChIP: Comparison of array- and sequencing-based technologies
- 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
COMMENTARY
Community annotation: Procedures, protocols, and supporting tools
- First Published October 25, 2006
LETTER
Phylogenomic analysis reveals bees and wasps (Hymenoptera) at the base of the radiation of Holometabolous insects
- First Published October 25, 2006
ARTICLE
Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes
- First Published July 15, 2005
Methods
Highly multiplexed molecular inversion probe genotyping: Over 10,000 targeted SNPs genotyped in a single tube assay
- First Published February 1, 2005
RESOURCE
Large-Scale Mutagenesis of the Yeast Genome Using a Tn7-Derived Multipurpose Transposon
- First Published October 1, 2004
LETTER
Genomic Analysis of the Nuclear Receptor Family: New Insights Into Structure, Regulation, and Evolution From the Rat Genome
- First Published April 1, 2004
Methods
Identification of Rat Genes by TWINSCAN Gene Prediction, RT–PCR, and Direct Sequencing
- First Published April 1, 2004
Methods
Dynamic Building of a BAC Clone Tiling Path for the Rat Genome Sequencing Project
- First Published April 1, 2004
LETTER
Comparing Vertebrate Whole-Genome Shotgun Reads to the Human Genome
- First Published November 1, 2001
PERSPECTIVE
A Clone-Array Pooled Shotgun Strategy for Sequencing Large Genomes
- First Published October 1, 2001
GENOME METHODS
Analysis of the Quality and Utility of Random Shotgun Sequencing at Low Redundancies
- First Published October 1, 1998
RESEARCH
Comparative Sequence Analysis of a Gene-Rich Cluster at Human Chromosome 12p13 and its Syntenic Region in Mouse Chromosome 6
- First Published January 1, 1998
RESEARCH
Large-Scale Comparative Sequence Analysis of the Human and Murine Bruton’s Tyrosine Kinase Loci Reveals Conserved Regulatory Domains
- First Published April 1, 1997