Search | Genome Research

Corrigendum: Enhancer–silencer transitions in the human genome

Di Huang
Ivan Ovcharenko

First Published June 24, 2022

Enhancer–silencer transitions in the human genome

Di Huang
Ivan Ovcharenko

First Published February 1, 2022

Identification of human silencers by correlating cross-tissue epigenetic profiles and gene expression

Di Huang
Hanna M. Petrykowska
Brendan F. Miller
Laura Elnitski
Ivan Ovcharenko

First Published March 18, 2019

Yeast genetic interaction screen of human genes associated with amyotrophic lateral sclerosis: identification of MAP2K5 kinase as a potential drug target

Myungjin Jo
Ah Young Chung
Nozomu Yachie
Minchul Seo
Hyejin Jeon
Youngpyo Nam Yeojin Seo Eunmi Kim Quan Zhong
... [+4 authors] ...,
Marc Vidal
Hae Chul Park
Frederick P. Roth
Kyoungho Suk

First Published June 8, 2017

An extended set of yeast-based functional assays accurately identifies human disease mutations

Song Sun
Fan Yang
Guihong Tan
Michael Costanzo
Rose Oughtred
Jodi Hirschman Chandra L. Theesfeld Pritpal Bansal Nidhi Sahni Song Yi Analyn Yu Tanya Tyagi Cathy Tie David E. Hill Marc Vidal
... [+10 authors] ...,
Brenda J. Andrews
Charles Boone
Kara Dolinski
Frederick P. Roth

First Published March 14, 2016

Systematic elucidation and in vivo validation of sequences enriched in hindbrain transcriptional control

Grzegorz M. Burzynski
Xylena Reed
Leila Taher
Zachary E. Stine
Takeshi Matsui
Ivan Ovcharenko
Andrew S. McCallion

First Published July 3, 2012

Genome-wide identification of conserved regulatory function in diverged sequences

Leila Taher
David M. McGaughey
Samantha Maragh
Ivy Aneas
Seneca L. Bessling
Webb Miller
Marcelo A. Nobrega
Andrew S. McCallion
Ivan Ovcharenko

First Published May 31, 2011

Homotypic clusters of transcription factor binding sites are a key component of human promoters and enhancers

Valer Gotea
Axel Visel
John M. Westlund
Marcelo A. Nobrega
Len A. Pennacchio
Ivan Ovcharenko

First Published April 2, 2010

Genome-wide discovery of human heart enhancers

Leelavati Narlikar
Noboru J. Sakabe
Alexander A. Blanski
Fabio E. Arimura
John M. Westlund
Marcelo A. Nobrega
Ivan Ovcharenko

First Published January 14, 2010

C. elegans ORFeome" > Large-scale RACE approach for proactive experimental definition of C. elegans ORFeome

Kourosh Salehi-Ashtiani
Chenwei Lin
Tong Hao
Yun Shen
David Szeto
Xinping Yang Lila Ghamsari HanJoo Lee Changyu Fan Ryan R. Murray Stuart Milstein Nenad Svrzikapa
... [+7 authors] ...,
Michael E. Cusick
Frederick P. Roth
David E. Hill
Marc Vidal

First Published October 2, 2009

Analysis of the human E2 ubiquitin conjugating enzyme protein interaction network

Gabriel Markson
Christina Kiel
Russell Hyde
Stephanie Brown
Panagoula Charalabous
Anja Bremm Jennifer Semple Jonathan Woodsmith Simon Duley Kourosh Salehi-Ashtiani Marc Vidal
... [+6 authors] ...,
David Komander
Luis Serrano
Paul Lehner
Christopher M. Sanderson

First Published June 23, 2009

Shifted Transversal Design smart-pooling for high coverage interactome mapping

Xiaofeng Xin
Jean-François Rual
Tomoko Hirozane-Kishikawa
David E. Hill
Marc Vidal
Charles Boone
Nicolas Thierry-Mieg

First Published May 15, 2009

Saccharomyces cerevisiae predicted ORFeome" > Revisiting the Saccharomyces cerevisiae predicted ORFeome

Qian-Ru Li
Anne-Ruxandra Carvunis
Haiyuan Yu
Jing-Dong J. Han
Quan Zhong
Nicolas Simonis Stanley Tam Tong Hao Niels J. Klitgord Denis Dupuy Danny Mou Ilan Wapinski
... [+7 authors] ...,
Aviv Regev
David E. Hill
Michael E. Cusick
Marc Vidal

First Published May 23, 2008

Comparative analysis of chicken chromosome 28 provides new clues to the evolutionary fragility of gene-rich vertebrate regions

Laurie Gordon
Shan Yang
Mary Tran-Gyamfi
Dan Baggott
Mari Christensen
Aaron Hamilton Richard Crooijmans
... [+2 authors] ...,
Martien Groenen
Susan Lucas
Ivan Ovcharenko
Lisa Stubbs

First Published October 5, 2007

Predicting tissue-specific enhancers in the human genome

Len A. Pennacchio
Gabriela G. Loots
Marcelo A. Nobrega
Ivan Ovcharenko

First Published January 8, 2007

Identification of clustered YY1 binding sites in imprinting control regions

Jeong Do Kim
Angela K. Hinz
Anne Bergmann
Jennifer M. Huang
Ivan Ovcharenko
Lisa Stubbs
Joomyeong Kim

First Published June 7, 2006

C. elegans ORFeome by cloning TWINSCAN predictions" > Closing in on the C. elegans ORFeome by cloning TWINSCAN predictions

Chaochun Wei
Philippe Lamesch
Manimozhiyan Arumugam
Jennifer Rosenberg
Ping Hu
Marc Vidal
Michael R. Brent

First Published April 1, 2005

C. elegans embryo revealed using RNAi of ovary-enriched ORFeome clones" > New genes with roles in the C. elegans embryo revealed using RNAi of ovary-enriched ORFeome clones

Anita G. Fernandez
Kristin C. Gunsalus
Jerry Huang
Ling-Shiang Chuang
Nancy Ying
Hsiao-lan Liang Caroline Tang Aaron J. Schetter Charles Zegar Jean-François Rual
... [+5 authors] ...,
David E. Hill
Valerie Reinke
Marc Vidal
Fabio Piano

First Published February 1, 2005

Mulan: Multiple-sequence local alignment and visualization for studying function and evolution

Ivan Ovcharenko
Gabriela G. Loots
Belinda M. Giardine
Minmei Hou
Jian Ma
Ross C. Hardison
Lisa Stubbs
Webb Miller

First Published December 8, 2004

Evolution and functional classification of vertebrate gene deserts

Ivan Ovcharenko
Gabriela G. Loots
Marcelo A. Nobrega
Ross C. Hardison
Webb Miller
Lisa Stubbs

First Published December 8, 2004

ORFeome Cloning and Systems Biology: Standardized Mass Production of the Parts From the Parts-List

Michael A. Brasch
James L. Hartley
Marc Vidal

First Published October 15, 2004

Academia-Industry Collaboration: An Integral Element for Building “Omic” Resources

David E. Hill
Michael A. Brasch
Anthony A. del Campo
Lynn Doucette-Stamm
James I. Garrels
Judith Glaven
... [+1 authors] ...,
James L. Hartley
James R. Hudson
Troy Moore
Marc Vidal

First Published October 15, 2004

C. elegans ORFeome Version 3.1: Increasing the Coverage of ORFeome Resources With Improved Gene Predictions" > C. elegans ORFeome Version 3.1: Increasing the Coverage of ORFeome Resources With Improved Gene Predictions

Philippe Lamesch
Stuart Milstein
Tong Hao
Jennifer Rosenberg
Ning Li
Reynaldo Sequerra Stephanie Bosak
... [+2 authors] ...,
Lynn Doucette-Stamm
Jean Vandenhaute
David E. Hill
Marc Vidal

First Published October 15, 2004

Caenorhabditis elegans Using a MultiSite Gateway Recombination System" > Feasibility of Genome-Scale Construction of Promoter::Reporter Gene Fusions for Expression in Caenorhabditis elegans Using a MultiSite Gateway Recombination System

Ian A. Hope
Jonathan Stevens
Anna Garner
Josie Hayes
David L. Cheo
Michael A. Brasch
Marc Vidal

First Published October 15, 2004

A Gateway-Compatible Yeast One-Hybrid System

Bart Deplancke
Denis Dupuy
Marc Vidal
Albertha J.M. Walhout

First Published October 15, 2004

C. elegans Proteins" > High-Throughput Expression of C. elegans Proteins

Chi-Hao Luan
Shihong Qiu
James B. Finley
Mike Carson
Rita J. Gray
Wenying Huang David Johnson Jun Tsao Jérôme Reboul Philippe Vaglio
... [+5 authors] ...,
David E. Hill
Marc Vidal
Lawrence J. DeLucas
Ming Luo

First Published October 15, 2004

Human ORFeome Version 1.1: A Platform for Reverse Proteomics

Jean-François Rual
Tomoko Hirozane-Kishikawa
Tong Hao
Nicolas Bertin
Siming Li
Amélie Dricot Ning Li Jennifer Rosenberg Philippe Lamesch Pierre-Olivier Vidalain Tracey R. Clingingsmith James L. Hartley Dominic Esposito David Cheo Troy Moore Blake Simmons Reynaldo Sequerra Stephanie Bosak Lynn Doucette-Stamm Christian Le Peuch Jean Vandenhaute
... [+16 authors] ...,
Michael E. Cusick
Joanna S. Albala
David E. Hill
Marc Vidal

First Published October 15, 2004

Caenorhabditis elegans Phenome Mapping With an ORFeome-Based RNAi Library" > Toward Improving Caenorhabditis elegans Phenome Mapping With an ORFeome-Based RNAi Library

Jean-François Rual
Julian Ceron
John Koreth
Tong Hao
Anne-Sophie Nicot
Tomoko Hirozane-Kishikawa Jean Vandenhaute
... [+2 authors] ...,
Stuart H. Orkin
David E. Hill
Sander van den Heuvel
Marc Vidal

First Published October 15, 2004

Caenorhabditis elegans Promoterome" > A First Version of the Caenorhabditis elegans Promoterome

Denis Dupuy
Qian-Ru Li
Bart Deplancke
Mike Boxem
Tong Hao
Philippe Lamesch Reynaldo Sequerra Stephanie Bosak Lynn Doucette-Stamm
... [+4 authors] ...,
Ian A. Hope
David E. Hill
Albertha J.M. Walhout
Marc Vidal

First Published October 15, 2004

Brucella melitensis ORFeome Version 1.1" > Generation of the Brucella melitensis ORFeome Version 1.1

Amélie Dricot
Jean-François Rual
Philippe Lamesch
Nicolas Bertin
Denis Dupuy
Tong Hao Christophe Lambert Régis Hallez Jean-Marc Delroisse Jean Vandenhaute Ignacio Lopez-Goñi Ignacio Moriyon Juan M. Garcia-Lobo Félix J. Sangari Alastair P. MacMillan Sally J. Cutler Adrian M. Whatmore Stephanie Bozak Reynaldo Sequerra Lynn Doucette-Stamm
... [+15 authors] ...,
Marc Vidal
David E. Hill
Jean-Jacques Letesson
Xavier De Bolle

First Published October 15, 2004

eShadow: A Tool for Comparing Closely Related Sequences

Ivan Ovcharenko
Dario Boffelli
Gabriela G. Loots

First Published June 1, 2004

Annotation Transfer Between Genomes: Protein–Protein Interologs and Protein–DNA Regulogs

Haiyuan Yu
Nicholas M. Luscombe
Hao Xin Lu
Xiaowei Zhu
Yu Xia
Jing-Dong J. Han
... [+1 authors] ...,
Nicolas Bertin
Sambath Chung
Marc Vidal
Mark Gerstein

First Published June 1, 2004

zPicture: Dynamic Alignment and Visualization Tool for Analyzing Conservation Profiles

Ivan Ovcharenko
Gabriela G. Loots
Ross C. Hardison
Webb Miller
Lisa Stubbs

First Published March 1, 2004

rVista for Comparative Sequence-Based Discovery of Functional Transcription Factor Binding Sites" > `rVista` for Comparative Sequence-Based Discovery of Functional Transcription Factor Binding Sites

Gabriela G. Loots
Ivan Ovcharenko
Lior Pachter
Inna Dubchak
Edward M. Rubin

First Published April 12, 2002

Identification of Potential Interaction Networks Using Sequence-Based Searches for Conserved Protein-Protein Interactions or “Interologs”

Lisa R. Matthews
Philippe Vaglio
Jérôme Reboul
Hui Ge
Brian P. Davis
James Garrels
Sylvie Vincent
Marc Vidal

First Published December 1, 2001

A Genetic Strategy to Eliminate Self-Activator Baits Prior to High-Throughput Yeast Two-Hybrid Screens

Albertha J.M. Walhout
Marc Vidal

First Published November 1, 1999

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Your search for returned 36 results

Corrigendum: Enhancer–silencer transitions in the human genome

Enhancer–silencer transitions in the human genome

Identification of human silencers by correlating cross-tissue epigenetic profiles and gene expression

Yeast genetic interaction screen of human genes associated with amyotrophic lateral sclerosis: identification of MAP2K5 kinase as a potential drug target

An extended set of yeast-based functional assays accurately identifies human disease mutations

Systematic elucidation and in vivo validation of sequences enriched in hindbrain transcriptional control

Genome-wide identification of conserved regulatory function in diverged sequences

Homotypic clusters of transcription factor binding sites are a key component of human promoters and enhancers

Genome-wide discovery of human heart enhancers

C. elegans ORFeome" > Large-scale RACE approach for proactive experimental definition of C. elegans ORFeome

Analysis of the human E2 ubiquitin conjugating enzyme protein interaction network

Shifted Transversal Design smart-pooling for high coverage interactome mapping

Saccharomyces cerevisiae predicted ORFeome" > Revisiting the Saccharomyces cerevisiae predicted ORFeome

Comparative analysis of chicken chromosome 28 provides new clues to the evolutionary fragility of gene-rich vertebrate regions

Predicting tissue-specific enhancers in the human genome

Identification of clustered YY1 binding sites in imprinting control regions

C. elegans ORFeome by cloning TWINSCAN predictions" > Closing in on the C. elegans ORFeome by cloning TWINSCAN predictions

C. elegans embryo revealed using RNAi of ovary-enriched ORFeome clones" > New genes with roles in the C. elegans embryo revealed using RNAi of ovary-enriched ORFeome clones

Mulan: Multiple-sequence local alignment and visualization for studying function and evolution

Evolution and functional classification of vertebrate gene deserts

ORFeome Cloning and Systems Biology: Standardized Mass Production of the Parts From the Parts-List

Academia-Industry Collaboration: An Integral Element for Building “Omic” Resources

C. elegans ORFeome Version 3.1: Increasing the Coverage of ORFeome Resources With Improved Gene Predictions" > C. elegans ORFeome Version 3.1: Increasing the Coverage of ORFeome Resources With Improved Gene Predictions

Caenorhabditis elegans Using a MultiSite Gateway Recombination System" > Feasibility of Genome-Scale Construction of Promoter::Reporter Gene Fusions for Expression in Caenorhabditis elegans Using a MultiSite Gateway Recombination System

A Gateway-Compatible Yeast One-Hybrid System

C. elegans Proteins" > High-Throughput Expression of C. elegans Proteins

Human ORFeome Version 1.1: A Platform for Reverse Proteomics

Caenorhabditis elegans Phenome Mapping With an ORFeome-Based RNAi Library" > Toward Improving Caenorhabditis elegans Phenome Mapping With an ORFeome-Based RNAi Library

Caenorhabditis elegans Promoterome" > A First Version of the Caenorhabditis elegans Promoterome

Brucella melitensis ORFeome Version 1.1" > Generation of the Brucella melitensis ORFeome Version 1.1

eShadow: A Tool for Comparing Closely Related Sequences

Annotation Transfer Between Genomes: Protein–Protein Interologs and Protein–DNA Regulogs

zPicture: Dynamic Alignment and Visualization Tool for Analyzing Conservation Profiles

rVista for Comparative Sequence-Based Discovery of Functional Transcription Factor Binding Sites" > `rVista` for Comparative Sequence-Based Discovery of Functional Transcription Factor Binding Sites

Identification of Potential Interaction Networks Using Sequence-Based Searches for Conserved Protein-Protein Interactions or “Interologs”

A Genetic Strategy to Eliminate Self-Activator Baits Prior to High-Throughput Yeast Two-Hybrid Screens

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Your search for returned 36 results