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Method

Recovering gene regulatory networks in single-cell multi-omics data with PRISM-GRN

  • Wenhao Zhang
  • Lan Cao
  • Xiaoxuan Gu
  • Yongyu Long
  • Ying Wang
  • First Published October 9, 2025
Research

Comparative RNA sequencing reveals substantial genetic variation in endangered primates

  • George H. Perry
  • Páll Melsted
  • John C. Marioni
  • Ying Wang
  • Russell Bainer
  • Joseph K. Pickrell Katelyn Michelini Sarah Zehr
  • ... [+3 authors] ...,
  • Anne D. Yoder
  • Matthew Stephens
  • Jonathan K. Pritchard
  • Yoav Gilad
  • First Published December 29, 2011
Resource

Caenorhabditis elegans" > Genome-wide analysis of alternative splicing in Caenorhabditis elegans

  • Arun K. Ramani
  • John A. Calarco
  • Qun Pan
  • Sepand Mavandadi
  • Ying Wang
  • Andrew C. Nelson Leo J. Lee
  • ... [+2 authors] ...,
  • Quaid Morris
  • Benjamin J. Blencowe
  • Mei Zhen
  • Andrew G. Fraser
  • First Published December 22, 2010
Letter

Functional diversity for REST (NRSF) is defined by in vivo binding affinity hierarchies at the DNA sequence level

  • Alexander W. Bruce
  • Andrés J. López-Contreras
  • Paul Flicek
  • Thomas A. Down
  • Pawandeep Dhami
  • Shane C. Dillon Christoph M. Koch
  • ... [+2 authors] ...,
  • Cordelia F. Langford
  • Ian Dunham
  • Robert M. Andrews
  • David Vetrie
  • First Published April 28, 2009
LETTER

Systematic evaluation of variability in ChIP-chip experiments using predefined DNA targets

  • David S. Johnson
  • Wei Li
  • D. Benjamin Gordon
  • Arindam Bhattacharjee
  • Bo Curry
  • Jayati Ghosh Leonardo Brizuela Jason S. Carroll Myles Brown Paul Flicek Christoph M. Koch Ian Dunham Mark Bieda Xiaoqin Xu Peggy J. Farnham Philipp Kapranov David A. Nix Thomas R. Gingeras Xinmin Zhang Heather Holster Nan Jiang Roland D. Green Jun S. Song Scott A. McCuine Elizabeth Anton Loan Nguyen Nathan D. Trinklein Zhen Ye Keith Ching David Hawkins Bing Ren Peter C. Scacheri Joel Rozowsky Alexander Karpikov Ghia Euskirchen Sherman Weissman Mark Gerstein Michael Snyder Annie Yang Zarmik Moqtaderi Heather Hirsch Hennady P. Shulha Yutao Fu Zhiping Weng
  • ... [+39 authors] ...,
  • Kevin Struhl
  • Richard M. Myers
  • Jason D. Lieb
  • X. Shirley Liu
  • First Published February 7, 2008
ARTICLE

Butyrate mediates decrease of histone acetylation centered on transcription start sites and down-regulation of associated genes

  • Alvaro Rada-Iglesias
  • Stefan Enroth
  • Adam Ameur
  • Christoph M. Koch
  • Gayle K. Clelland
  • Patricia Respuela-Alonso Sarah Wilcox Oliver M. Dovey Peter D. Ellis
  • ... [+4 authors] ...,
  • Cordelia F. Langford
  • Ian Dunham
  • Jan Komorowski
  • Claes Wadelius
  • First Published June 13, 2007
ARTICLE

The landscape of histone modifications across 1% of the human genome in five human cell lines

  • Christoph M. Koch
  • Robert M. Andrews
  • Paul Flicek
  • Shane C. Dillon
  • Ulaş Karaöz
  • Gayle K. Clelland Sarah Wilcox David M. Beare Joanna C. Fowler Phillippe Couttet Keith D. James Gregory C. Lefebvre Alexander W. Bruce Oliver M. Dovey Peter D. Ellis Pawandeep Dhami Cordelia F. Langford Zhiping Weng
  • ... [+13 authors] ...,
  • Ewan Birney
  • Nigel P. Carter
  • David Vetrie
  • Ian Dunham
  • First Published June 13, 2007
ARTICLE

Frankia sp. strains reflect host range and host plant biogeography" > Genome characteristics of facultatively symbiotic Frankia sp. strains reflect host range and host plant biogeography

  • Philippe Normand
  • Pascal Lapierre
  • Louis S. Tisa
  • Johann Peter Gogarten
  • Nicole Alloisio
  • Emilie Bagnarol Carla A. Bassi Alison M. Berry Derek M. Bickhart Nathalie Choisne Arnaud Couloux Benoit Cournoyer Stephane Cruveiller Vincent Daubin Nadia Demange Maria Pilar Francino Eugene Goltsman Ying Huang Olga R. Kopp Laurent Labarre Alla Lapidus Celine Lavire Joelle Marechal Michele Martinez Juliana E. Mastronunzio Beth C. Mullin James Niemann Pierre Pujic Tania Rawnsley Zoe Rouy Chantal Schenowitz Anita Sellstedt Fernando Tavares Jeffrey P. Tomkins David Vallenet Claudio Valverde
  • ... [+31 authors] ...,
  • Luis G. Wall
  • Ying Wang
  • Claudine Medigue
  • David R. Benson
  • First Published December 6, 2006
Methods

Identifying gene regulatory elements by genomic microarray mapping of DNaseI hypersensitive sites

  • George A. Follows
  • Pawan Dhami
  • Berthold Göttgens
  • Alexander W. Bruce
  • Peter J. Campbell
  • Shane C. Dillon Aileen M. Smith Christoph Koch Ian J. Donaldson Mike A. Scott
  • ... [+5 authors] ...,
  • Ian Dunham
  • Mary E. Janes
  • David Vetrie
  • Anthony R. Green
  • First Published September 8, 2006
LETTER

The portability of tagSNPs across populations: A worldwide survey

  • Anna González-Neira
  • Xiayi Ke
  • Oscar Lao
  • Francesc Calafell
  • Arcadi Navarro
  • David Comas Howard Cann Suzannah Bumpstead Jilur Ghori Sarah Hunt
  • ... [+5 authors] ...,
  • Panos Deloukas
  • Ian Dunham
  • Lon R. Cardon
  • Jaume Bertranpetit
  • First Published February 8, 2006
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