Research
Epigenetic characterization of pseudogenes across human tissues
- First Published April 15, 2026
Resource
A map of enhancer regions in primary human neural progenitor cells using capture STARR-seq
- First Published July 11, 2025
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
V(DD)J recombination is an important and evolutionarily conserved mechanism for generating antibodies with unusually long CDR3s
- First Published September 18, 2020
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
Detection and analysis of ancient segmental duplications in mammalian genomes
- First Published May 7, 2018
Research
Mus caroli and Mus pahari genomes" > Repeat associated mechanisms of genome evolution and function revealed by the Mus caroli and Mus pahari genomes
- First Published March 21, 2018
Research
One thousand somatic SNVs per skin fibroblast cell set baseline of mosaic mutational load with patterns that suggest proliferative origin
- First Published February 24, 2017
Research
Analysis of variable retroduplications in human populations suggests coupling of retrotransposition to cell division
- First Published September 11, 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
Research
The origin, evolution, and functional impact of short insertion–deletion variants identified in 179 human genomes
- First Published March 11, 2013
Resource
GENCODE: The reference human genome annotation for The ENCODE Project
- First Published September 5, 2012
Resource
ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia
- First Published September 5, 2012
Research
Understanding transcriptional regulation by integrative analysis of transcription factor binding data
- 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
RESOURCE
De novo fragment assembly with short mate-paired reads: Does the read length matter?
- First Published December 3, 2008
Methods
MSB: A mean-shift-based approach for the analysis of structural variation in the genome
- First Published November 26, 2008
LETTER
A genomic analysis of RNA polymerase II modification and chromatin architecture related to 3′ end RNA polyadenylation
- First Published May 16, 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
Forum
The convergence of cytogenetics and rearrangement-based models for ancestral genome reconstruction
- First Published March 1, 2006
LETTER
Assessing the limits of genomic data integration for predicting protein networks
- First Published July 5, 2005
LETTER
Multi-species microarrays reveal the effect of sequence divergence on gene expression profiles
- First Published May 2, 2005
Chicken Special/Letters
Comparative architectures of mammalian and chicken genomes reveal highly variable rates of genomic rearrangements across different lineages
- First Published December 8, 2004
LETTER
Alu repeat elements reveals complex evolutionary history" > Whole-genome analysis of Alu repeat elements reveals complex evolutionary history
- First Published November 1, 2004
Methods
Annotation Transfer Between Genomes: Protein–Protein Interologs and Protein–DNA Regulogs
- First Published June 1, 2004
ARTICLE
Reconstructing the Genomic Architecture of Ancestral Mammals: Lessons From Human, Mouse, and Rat Genomes
- First Published April 1, 2004
LETTER
Millions of Years of Evolution Preserved: A Comprehensive Catalog of the Processed Pseudogenes in the Human Genome
- First Published December 1, 2003
METHODS
Spectral Biclustering of Microarray Data: Coclustering Genes and Conditions
- First Published April 1, 2003
LETTER
Systematic Learning of Gene Functional Classes From DNA Array Expression Data by Using Multilayer Perceptrons
- First Published November 1, 2002
ARTICLE
Identification and Analysis of Over 2000 Ribosomal Protein Pseudogenes in the Human Genome
- First Published October 1, 2002
LETTER
Molecular Fossils in the Human Genome: Identification and Analysis of the Pseudogenes in Chromosomes 21 and 22
- First Published February 1, 2002
LETTER
Relating Whole-Genome Expression Data with Protein-Protein Interactions
- First Published January 1, 2002
LETTER
Genome-Scale Evolution: Reconstructing Gene Orders in the Ancestral Species
- First Published January 1, 2002
LETTER
Annotation Transfer for Genomics: Measuring Functional Divergence in Multi-Domain Proteins
- First Published October 1, 2001
INSIGHT/OUTLOOK
Interrelating Different Types of Genomic Data, from Proteome to Secretome: 'Oming in on Function
- First Published September 1, 2001