Research
Characterizing cytosine methylation of polymorphic transposable element insertions using the human pangenome resources
- First Published May 14, 2026
Research
Gaps and complex structurally variant loci in phased genome assemblies
- First Published May 10, 2023
Method
A complete pedigree-based graph workflow for rare candidate variant analysis
- First Published April 28, 2022
Research
A hidden layer of structural variation in transposable elements reveals potential genetic modifiers in human disease-risk loci
- First Published March 24, 2022
Research
Positive selection in noncoding genomic regions of vocal learning birds is associated with genes implicated in vocal learning and speech functions in humans
- First Published October 19, 2021
Method
Comparative Annotation Toolkit (CAT)—simultaneous clade and personal genome annotation
- First Published June 8, 2018
Research
Great ape Y Chromosome and mitochondrial DNA phylogenies reflect subspecies structure and patterns of mating and dispersal
- First Published February 16, 2016
Method
Chromosome-scale shotgun assembly using an in vitro method for long-range linkage
- First Published February 4, 2016
Resource
Alignathon: a competitive assessment of whole-genome alignment methods
- First Published October 1, 2014
Resource
GENCODE: The reference human genome annotation for The ENCODE Project
- First Published September 5, 2012
Resource
A comprehensive molecular cytogenetic analysis of chromosome rearrangements in gibbons
- First Published August 14, 2012
Resource
Assemblathon 1: A competitive assessment of de novo short read assembly methods
- First Published September 16, 2011
Research
Copy number variation analysis in the great apes reveals species-specific patterns of structural variation
- First Published August 8, 2011
Research
Gene amplification as double minutes or homogeneously staining regions in solid tumors: Origin and structure
- First Published July 14, 2010
Resource
The consensus coding sequence (CCDS) project: Identifying a common protein-coding gene set for the human and mouse genomes
- First Published June 4, 2009
Letter
Evolutionary descent of a human chromosome 6 neocentromere: A jump back to 17 million years ago
- First Published May 1, 2009
LETTER
Sequencing human–gibbon breakpoints of synteny reveals mosaic new insertions at rearrangement sites
- First Published November 24, 2008
Methods
Targeted discovery of novel human exons by comparative genomics
- First Published November 7, 2007
RESOURCE
28-Way vertebrate alignment and conservation track in the UCSC Genome Browser
- First Published November 5, 2007
LETTER
Biased clustered substitutions in the human genome: The footprints of male-driven biased gene conversion
- First Published September 4, 2007
ARTICLE
Analyses of deep mammalian sequence alignments and constraint predictions for 1% of the human genome
- First Published June 13, 2007
PERSPECTIVE
Ancestral genomes reconstruction: An integrated, multi-disciplinary approach is needed
- First Published October 19, 2006
LETTER
A genome-wide survey of structural variation between human and chimpanzee
- First Published September 16, 2005
ARTICLE
Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes
- First Published July 15, 2005
LETTER
Punctuated duplication seeding events during the evolution of human chromosome 2p11
- First Published June 17, 2005
RESOURCE
Exploring relationships and mining data with the UCSC Gene Sorter
- First Published May 2, 2005
LETTER
Reconstructing large regions of an ancestral mammalian genome in silico
- First Published December 1, 2004
LETTER
Analysis of Human mRNAs With the Reference Genome Sequence Reveals Potential Errors, Polymorphisms, and RNA Editing
- First Published October 15, 2004
LETTER
Insertion of Telomeric Repeats at Intrachromosomal Break Sites During Primate Evolution
- First Published August 12, 2004
ARTICLE
Analysis of Segmental Duplications and Genome Assembly in the Mouse
- First Published May 3, 2004
RESOURCE
Aligning Multiple Genomic Sequences With the Threaded Blockset Aligner
- First Published April 1, 2004
ARTICLE
Patterns of Insertions and Their Covariation With Substitutions in the Rat, Mouse, and Human Genomes
- First Published April 1, 2004
ARTICLE
Comparative Recombination Rates in the Rat, Mouse, and Human Genomes
- First Published April 1, 2004
ARTICLE
Identification and Characterization of Multi-Species Conserved Sequences
- First Published December 1, 2003
LETTER
Complex Events in the Evolution of the Human Pseudoautosomal Region 2 (PAR2)
- First Published January 14, 2003
ARTICLE
Covariation in Frequencies of Substitution, Deletion, Transposition, and Recombination During Eutherian Evolution
- First Published January 1, 2003
LETTER
Neocentromeres in 15q24-26 Map to Duplicons Which Flanked an Ancestral Centromere in 15q25
- First Published January 1, 2003
LETTER
Human Paralogs of KIAA0187 Were Created through Independent Pericentromeric-Directed and Chromosome-Specific Duplication Mechanisms
- First Published January 1, 2002
METHODS
Assembly of the Working Draft of the Human Genome with GigAssembler
- First Published August 16, 2001
