Skip to Main Content

Author Details

Shane Neph
Altius Institute for Biomedical Sciences
2006
24
20
Nathan Sheffield (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
31161210eFORGE v2.0: updated analysis of cell type-specific signal in epigenomic data.Bioinformatics2019
31798605Mapping and Dynamics of Regulatory DNA in Maturing <i>Arabidopsis thaliana</i> Siliques.Front Plant Sci2019
31161210eFORGE v2.0: updated analysis of cell type-specific signal in epigenomic data.Bioinformatics2019
31798605Mapping and Dynamics of Regulatory DNA in Maturing <i>Arabidopsis thaliana</i> Siliques.Front Plant Sci2019
27008020Operating on Genomic Ranges Using BEDOPS.Methods Mol Biol2016
27008020Operating on Genomic Ranges Using BEDOPS.Methods Mol Biol2016
2765946652 Genetic Loci Influencing Myocardial Mass.J Am Coll Cardiol2016
2765946652 Genetic Loci Influencing Myocardial Mass.J Am Coll Cardiol2016
25693563Integrative analysis of 111 reference human epigenomes.Nature2015
25693563Integrative analysis of 111 reference human epigenomes.Nature2015
25220462Mapping and dynamics of regulatory DNA and transcription factor networks in A. thaliana.Cell Rep2014
25409824A comparative encyclopedia of DNA elements in the mouse genome.Nature2014
25409825Conservation of trans-acting circuitry during mammalian regulatory evolution.Nature2014
25220462Mapping and dynamics of regulatory DNA and transcription factor networks in A. thaliana.Cell Rep2014
25409824A comparative encyclopedia of DNA elements in the mouse genome.Nature2014
25409825Conservation of trans-acting circuitry during mammalian regulatory evolution.Nature2014
23793028DNase I-hypersensitive exons colocalize with promoters and distal regulatory elements.Nat Genet2013
23953118Developmental fate and cellular maturity encoded in human regulatory DNA landscapes.Cell2013
23793028DNase I-hypersensitive exons colocalize with promoters and distal regulatory elements.Nat Genet2013
23953118Developmental fate and cellular maturity encoded in human regulatory DNA landscapes.Cell2013
22576172BEDOPS: high-performance genomic feature operations.Bioinformatics2012
22959076Circuitry and dynamics of human transcription factor regulatory networks.Cell2012
22576172BEDOPS: high-performance genomic feature operations.Bioinformatics2012
22955981Personal and population genomics of human regulatory variation.Genome Res2012
22955828Systematic localization of common disease-associated variation in regulatory DNA.Science2012
22955618An expansive human regulatory lexicon encoded in transcription factor footprints.Nature2012
22955617The accessible chromatin landscape of the human genome.Nature2012
23021222Foxp3 exploits a pre-existent enhancer landscape for regulatory T cell lineage specification.Cell2012
23021222Foxp3 exploits a pre-existent enhancer landscape for regulatory T cell lineage specification.Cell2012
22959076Circuitry and dynamics of human transcription factor regulatory networks.Cell2012
22955981Personal and population genomics of human regulatory variation.Genome Res2012
22955828Systematic localization of common disease-associated variation in regulatory DNA.Science2012
22955618An expansive human regulatory lexicon encoded in transcription factor footprints.Nature2012
22955617The accessible chromatin landscape of the human genome.Nature2012
21854988The human mitochondrial transcriptome.Cell2011
21854988The human mitochondrial transcriptome.Cell2011
19305407Global mapping of protein-DNA interactions in vivo by digital genomic footprinting.Nat Methods2009
19305407Global mapping of protein-DNA interactions in vivo by digital genomic footprinting.Nat Methods2009
19055709Assaying the regulatory potential of mammalian conserved non-coding sequences in human cells.Genome Biol2008
19055709Assaying the regulatory potential of mammalian conserved non-coding sequences in human cells.Genome Biol2008
17616982A computational pipeline for high- throughput discovery of cis-regulatory noncoding RNA in prokaryotes.PLoS Comput Biol2007
17621584Identification of 22 candidate structured RNAs in bacteria using the CMfinder comparative genomics pipeline.Nucleic Acids Res2007
17571346Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project.Nature2007
17616982A computational pipeline for high- throughput discovery of cis-regulatory noncoding RNA in prokaryotes.PLoS Comput Biol2007
17571346Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project.Nature2007
17621584Identification of 22 candidate structured RNAs in bacteria using the CMfinder comparative genomics pipeline.Nucleic Acids Res2007
16845027MicroFootPrinter: a tool for phylogenetic footprinting in prokaryotic genomes.Nucleic Acids Res2006
16845027MicroFootPrinter: a tool for phylogenetic footprinting in prokaryotic genomes.Nucleic Acids Res2006
  • 1 - 48 of 48

Recommended Authors

Yunjiang Qiu
Ludwig Institute for Cancer Research, University of California
Career Start Year 2015
Number of shared co-authors 8
Ilya E Vorontsov
Vavilov Institute of General Genetics, Russian Academy of Sciences
Career Start Year 2013
Number of shared co-authors 7
Yupeng He
Salk Institute for Biological Studies
Career Start Year 2012
Number of shared co-authors 22
Anthony Mathelier
University of Oslo
Career Start Year 2010
Number of shared co-authors 7
Michael J Guertin
Center for Cell Analysis and Modeling, University of Connecticut
Career Start Year 2010
Number of shared co-authors 1
Ivan V Kulakovskiy
Vavilov Institute of General Genetics, Russian Academy of Sciences
Career Start Year 2009
Number of shared co-authors 8
Oriol Fornes
BC Children's Hospital Research Institute, University of British Columbia
Career Start Year 2008
Number of shared co-authors 4
Chongzhi Zang
Center for Public Health Genomics, University of Virginia
Career Start Year 2008
Number of shared co-authors 6
Robin Andersson
University of Copenhagen
Career Start Year 2007
Number of shared co-authors 7
Geir Kjetil Sandve
University of Oslo
Career Start Year 2006
Number of shared co-authors 3
Songjoon Baek
Center for Cancer Research, National Cancer Institute
Career Start Year 2006
Number of shared co-authors 7
Altuna Akalin
Berlin Institute for Medical Systems Biology
Career Start Year 2006
Number of shared co-authors 10
Jun S Song
University of Illinois at Urbana-Champaign
Career Start Year 2005
Number of shared co-authors 22
David J Arenillas
BC Children's Hospital Research Institute, University of British Columbia
Career Start Year 2005
Number of shared co-authors 6
Michael M Hoffman
University of Toronto
Career Start Year 2004
Number of shared co-authors 24
Shyam Prabhakar
Genome Institute of Singapore (GIS)
Career Start Year 2004
Number of shared co-authors 9
John A Capra
Bakar Computational Health Sciences Institute, University of California san francisco
Career Start Year 2003
Number of shared co-authors 4
Zhaohui S Qin
Emory University
Career Start Year 2002
Number of shared co-authors 28
Michael J Buck
Jacobs School of Medicine and Biomedical Sciences, University at Buffalo
Career Start Year 2002
Number of shared co-authors 1
Ho-Ryun Chung
Institute of Medical Bioinformatics and Biostatistics, Philipps University of Marburg
Career Start Year 2002
Number of shared co-authors 4
Tarjei S Mikkelsen
Harvard University, USA Broad Institute, USA Harvard Stem Cell Institute
Career Start Year 2001
Number of shared co-authors 42
Amos Tanay
Weizmann Institute of Science
Career Start Year 2001
Number of shared co-authors 8
Michael D Wilson
SickKids Research Institute
Career Start Year 2000
Number of shared co-authors 3
Kai Tan
University of Pennsylvania
Career Start Year 1999
Number of shared co-authors 8
Uwe Ohler
Humboldt University
Career Start Year 1999
Number of shared co-authors 12
Duncan T Odom
Cancer Research UK Cambridge Institute, University of Cambridge
Career Start Year 1999
Number of shared co-authors 26
William J Greenleaf
Stanford University
Career Start Year 1998
Number of shared co-authors 11
Laura Elnitski
National Human Genome Research Institute
Career Start Year 1997
Number of shared co-authors 69
Colin A Semple
Institute of Genetics and Cancer, University of Edinburgh
Career Start Year 1997
Number of shared co-authors 13
Jay Shendure
University of Washington
Career Start Year 1996
Number of shared co-authors 42

Collaborators

John A Stamatoyannopoulos
Altius Institute for Biomedical Sciences
Co-authored papers 21
Richard Sandstrom
Altius Institute for Biomedical Sciences
Co-authored papers 15
Robert E Thurman
University of Washington
Co-authored papers 13
Alex P Reynolds
Altius Institute for Biomedical Sciences
Co-authored papers 13
Peter J Sabo
University of Washington
Co-authored papers 12
Eric Haugen
Altius Institute for Biomedical Sciences
Co-authored papers 10
Audra K Johnson
Altius Institute for Biomedical Sciences
Co-authored papers 8
Andrew B Stergachis
University of Washington School of Medicine
Co-authored papers 8
Richard Humbert
University of Washington
Co-authored papers 8
Kristen Lee
Altius Institute for Biomedical Sciences
Co-authored papers 7
Fidencio Neri
Altius Institute for Biomedical Sciences
Co-authored papers 7
Morgan Diegel
Altius Institute for Biomedical Sciences
Co-authored papers 7
Jeff Vierstra
Altius Institute for Biomedical Sciences
Co-authored papers 7
Theresa K Canfield
University of Washington
Co-authored papers 6
R S Hansen
University of Washington
Co-authored papers 6
Rajinder Kaul
Altius Institute for Biomedical Sciences
Co-authored papers 6
Matthew T Maurano
Institute for Systems Genetics, NYU School of Medicine
Co-authored papers 6
Molly Weaver
University of Kentucky
Co-authored papers 6
Eric Rynes
Altius Institute for Biomedical Sciences
Co-authored papers 5
Michael S Kuehn
Co-authored papers 5
Benjamin Vernot
Max Planck Institute for Evolutionary Anthropology
Co-authored papers 5
Erika Giste
University of Washington
Co-authored papers 5
Daniel Bates
Altius Institute for Biomedical Sciences
Co-authored papers 5
Douglas Dunn
Altius Institute for Biomedical Sciences
Co-authored papers 4
Joshua M Akey
Princeton University
Co-authored papers 4
Anthony Shafer
University of Washington
Co-authored papers 4
Hao Wang
Altius Institute for Biomedical Sciences
Co-authored papers 4
Tanya Kutyavin
Altius Institute for Biomedical Sciences
Co-authored papers 4
Shinny Vong
University of Washington
Co-authored papers 4
Shamil R Sunyaev
Harvard Medical School
Co-authored papers 4
Release 1.2