Research
Integrating short-read and long-read single-cell RNA sequencing for comprehensive transcriptome profiling in mouse retina
- First Published March 6, 2025
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
Predicting unrecognized enhancer-mediated genome topology by an ensemble machine learning model
- First Published November 12, 2020
Resource
An integrative view of the regulatory and transcriptional landscapes in mouse hematopoiesis
- First Published March 4, 2020
Resource
The full-length transcriptome of C. elegans using direct RNA sequencing
- First Published February 5, 2020
Resource
Assembly and analysis of 100 full MHC haplotypes from the Danish population
- First Published August 3, 2017
Research
SCRaMbLE generates designed combinatorial stochastic diversity in synthetic chromosomes
- First Published November 13, 2015
Research
Epigenetic modification and inheritance in sexual reversal of fish
- First Published February 2, 2014
Resource
SOAPindel: Efficient identification of indels from short paired reads
- First Published September 12, 2012
Research
The making of a new pathogen: Insights from comparative population genomics of the domesticated wheat pathogen Mycosphaerella graminicola and its wild sister species
- First Published October 12, 2011
Research
Dynamics of the epigenetic landscape during erythroid differentiation after GATA1 restoration
- First Published July 27, 2011
Research
The genome of the leaf-cutting ant Acromyrmex echinatior suggests key adaptations to advanced social life and fungus farming
- First Published June 30, 2011
Research
Deep RNA sequencing at single base-pair resolution reveals high complexity of the rice transcriptome
- First Published March 19, 2010
Resource
De novo assembly of human genomes with massively parallel short read sequencing
- First Published December 17, 2009
Resource
Windshield splatter analysis with the Galaxy metagenomic pipeline
- First Published October 9, 2009
RESOURCE
28-Way vertebrate alignment and conservation track in the UCSC Genome Browser
- First Published November 5, 2007
ARTICLE
Analyses of deep mammalian sequence alignments and constraint predictions for 1% of the human genome
- First Published June 13, 2007
LETTER
Finding cis-regulatory elements using comparative genomics: Some lessons from ENCODE data
- First Published June 13, 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
Experimental validation of predicted mammalian erythroid cis-regulatory modules
- First Published October 12, 2006
RESOURCE
Galaxy: A platform for interactive large-scale genome analysis
- First Published September 16, 2005
LETTER
A microarray analysis of the rice transcriptome and its comparison to Arabidopsis
- First Published September 1, 2005
LETTER
Evaluation of regulatory potential and conservation scores for detecting cis-regulatory modules in aligned mammalian genome sequences
- First Published July 15, 2005
Methods
Regulatory Potential Scores From Genome-Wide Three-Way Alignments of Human, Mouse, and Rat
- First Published April 1, 2004
METHODS
RePS: A Sequence Assembler That Masks Exact Repeats Identified from the Shotgun Data
- First Published May 1, 2002