Research
Integrating short-read and long-read single-cell RNA sequencing for comprehensive transcriptome profiling in mouse retina
- First Published March 6, 2025
Method
A deconvolution framework that uses single-cell sequencing plus a small benchmark data set for accurate analysis of cell type ratios in complex tissue samples
- First Published November 25, 2024
Resource
Interspecies regulatory landscapes and elements revealed by novel joint systematic integration of human and mouse blood cell epigenomes
- First Published July 1, 2024
Method
Domain-adaptive neural networks improve cross-species prediction of transcription factor binding
- First Published January 18, 2022
Resource
An integrative view of the regulatory and transcriptional landscapes in mouse hematopoiesis
- First Published March 4, 2020
Method
HiCRep: assessing the reproducibility of Hi-C data using a stratum-adjusted correlation coefficient
- First Published August 30, 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
Method
Integrative subcellular proteomic analysis allows accurate prediction of human disease-causing genes
- First Published February 24, 2016
Research
Genome accessibility is widely preserved and locally modulated during mitosis
- First Published November 4, 2014
Research
Divergent functions of hematopoietic transcription factors in lineage priming and differentiation during erythro-megakaryopoiesis
- First Published October 15, 2014
Research
Dynamic shifts in occupancy by TAL1 are guided by GATA factors and drive large-scale reprogramming of gene expression during hematopoiesis
- First Published October 15, 2014
Method
Drosophila melanogaster" > Large-scale identification of chemically induced mutations in Drosophila melanogaster
- First Published September 25, 2014
Resource
Integrating and mining the chromatin landscape of cell-type specificity using self-organizing maps
- First Published October 29, 2013
Research
Dynamics of the epigenetic landscape during erythroid differentiation after GATA1 restoration
- First Published July 27, 2011
Research
Nucleosome fragility reveals novel functional states of chromatin and poises genes for activation
- First Published March 1, 2011
Resource
Drosophila melanogaster transcriptome by paired-end RNA sequencing" > The Drosophila melanogaster transcriptome by paired-end RNA sequencing
- First Published December 22, 2010
Article
Erythroid GATA1 function revealed by genome-wide analysis of transcription factor occupancy, histone modifications, and mRNA expression
- First Published November 3, 2009
LETTER
Transcriptional enhancement by GATA1-occupied DNA segments is strongly associated with evolutionary constraint on the binding site motif
- First Published September 25, 2008
RESOURCE
28-Way vertebrate alignment and conservation track in the UCSC Genome Browser
- First Published November 5, 2007
RESOURCE
A framework for collaborative analysis of ENCODE data: Making large-scale analyses biologist-friendly
- First Published June 13, 2007
Methods
ESPERR: Learning strong and weak signals in genomic sequence alignments to identify functional elements
- First Published October 19, 2006
LETTER
cis-regulatory modules" > Experimental validation of predicted mammalian erythroid cis-regulatory modules
- First Published October 12, 2006
ARTICLE
Drosophila retinal determination protein Eyeless" > Genome-wide identification of direct targets of the Drosophila retinal determination protein Eyeless
- First Published March 13, 2006
RESOURCE
Galaxy: A platform for interactive large-scale genome analysis
- First Published September 16, 2005
Chicken Special/Resources
Mulan: Multiple-sequence local alignment and visualization for studying function and evolution
- First Published December 8, 2004
Chicken Special/Letters
Evolution and functional classification of vertebrate gene deserts
- First Published December 8, 2004
Methods
Dynamic Building of a BAC Clone Tiling Path for the Rat Genome Sequencing Project
- 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
RESOURCE
zPicture: Dynamic Alignment and Visualization Tool for Analyzing Conservation Profiles
- First Published March 1, 2004
RESOURCE
GALA, a Database for Genomic Sequence Alignments and Annotations
- First Published April 1, 2003
REVIEW
Cross-Species Sequence Comparisons: A Review of Methods and Available Resources
- First Published January 1, 2003
ARTICLE
Covariation in Frequencies of Substitution, Deletion, Transposition, and Recombination During Eutherian Evolution
- First Published January 1, 2003
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
PERSPECTIVE
Long Human–Mouse Sequence Alignments Reveal Novel Regulatory Elements: A Reason to Sequence the Mouse Genome
- First Published October 1, 1997