Richard Durbin

79 papers A* 1A 2B 2C 2Journal 69Unranked 2
YearRankTypeTitle / Venue / Authors
2025 J jnl
WinPCA: a package for windowed principal component analysis.
Bioinform.
L. Moritz Blumer, Jeffrey M. Good, Richard Durbin
2023 J jnl
MitoHiFi: a python pipeline for mitochondrial genome assembly from PacBio high fidelity reads.
BMC Bioinform.
Marcela Uliano-Silva, João Gabriel R. N. Ferreira, Ksenia Krasheninnikova, Mark L. Blaxter, Nova Mieszkowska, Neil Hall, Peter Holland, Richard Durbin, Thomas Richards, Paul J. Kersey, Peter Hollingsworth, Willie Wilson, Alex Twyford, Ester Gaya, Mara Lawniczak, Owen Lewis, Gavin Broad, Fergal Martin, Michelle Hart, Ian Barnes, Giulio Formenti, Linelle Abueg, James W. Torrance, Eugene W. Myers, Shane A. McCarthy
2023 J jnl
YaHS: yet another Hi-C scaffolding tool.
Bioinform.
Chenxi Zhou, Shane A. McCarthy, Richard Durbin
2021 J jnl
Correction to: Efficient iterative Hi-C scaffolder based on N-best neighbors.
BMC Bioinform.
Dengfeng Guan, Shane A. McCarthy, Zemin Ning, Guohua Wang, Yadong Wang, Richard Durbin
2021 J jnl
Efficient iterative Hi-C scaffolder based on N-best neighbors.
BMC Bioinform.
Dengfeng Guan, Shane A. McCarthy, Zemin Ning, Guohua Wang, Yadong Wang, Richard Durbin
2020 J jnl
A haplotype-aware de novo assembly of related individuals using pedigree sequence graph.
Bioinform.
Shilpa Garg, John Aach, Heng Li, Isaac Sebenius, Richard Durbin, George M. Church
2020 J jnl
Haplotype-aware graph indexes.
Bioinform.
Jouni Sirén, Erik Garrison, Adam M. Novak, Benedict Paten, Richard Durbin
2020 J jnl
Identifying and removing haplotypic duplication in primary genome assemblies.
Bioinform.
Dengfeng Guan, Shane A. McCarthy, Jonathan Wood, Kerstin Howe, Yadong Wang, Richard Durbin
2019 J jnl
Crumble: reference free lossy compression of sequence quality values.
Bioinform.
James K. Bonfield, Shane A. McCarthy, Richard Durbin
2019 J jnl
GFAKluge: A C++ library and command line utilities for the Graphical Fragment Assembly formats.
J. Open Source Softw.
Eric T. Dawson, Richard Durbin
2019 J jnl
Viral coinfection analysis using a MinHash toolkit.
BMC Bioinform.
Eric T. Dawson, Sarah Wagner, David Roberson, Meredith Yeager, Joseph Boland, Erik Garrison, Stephen J. Chanock, Mark Schiffman, Tina Raine-Bennett, Thomas Lorey, Phillip E. Castle, Lisa Mirabello, Richard Durbin
2018 J jnl
A graph-based approach to diploid genome assembly.
Bioinform.
Shilpa Garg, Mikko Rautiainen, Adam M. Novak, Erik Garrison, Richard Durbin, Tobias Marschall
2018 C conf
Haplotype-aware graph indexes.
WABI
Jouni Sirén, Erik Garrison, Adam M. Novak, Benedict Paten, Richard Durbin
2018 J jnl
Haplotype-aware graph indexes.
CoRR
Jouni Sirén, Erik Garrison, Adam M. Novak, Benedict Paten, Richard Durbin
2016 J jnl
A genomic history of Aboriginal Australia.
Nat.
Anna-Sapfo Malaspinas, Michael C. Westaway, Craig Muller, Vitor C. Sousa, Oscar Lao, Isabel Alves, Anders Bergström, Georgios Athanasiadis, Jade Yu Cheng, Jacob E. Crawford, Tim H. Heupink, Enrico Macholdt, Stephan Peischl, Simon Rasmussen, Stephan Schiffels, Sankar Subramanian, Joanne L. Wright, Anders Albrechtsen, Chiara Barbieri, Isabelle Dupanloup, Anders Eriksson, Ashot Margaryan, Ida Moltke, Irina Pugach, Thorfinn Sand Korneliussen, Ivan P. Levkivskyi, José Víctor Moreno-Mayar, Shengyu Ni, Fernando Racimo, Martin Sikora, Yali Xue, Farhang A. Aghakhanian, Nicolas Brucato, Søren Brunak, Paula F. Campos, Warren Clark, Sturla Ellingvåg, Gudjugudju Fourmile, Pascale Gerbault, Darren Injie, George Koki, Matthew Leavesley, Betty Logan, Aubrey Lynch, Elizabeth A. Matisoo-Smith, Peter J. McAllister, Alexander J. Mentzer, Mait Metspalu, Andrea B. Migliano, Les Murgha, Maude E. Phipps, William Pomat, Doc Reynolds, Francois-Xavier Ricaut, Peter Siba, Mark G. Thomas, Thomas Wales, Colleen Ma'run Wall, Stephen J. Oppenheimer, Chris Tyler-Smith, Richard Durbin, Joe Dortch, Andrea Manica, Mikkel H. Schierup, Robert A. Foley, Marta Mirazón Lahr, Claire Bowern, Jeffrey D. Wall, Thomas Mailund, Mark Stoneking, Rasmus Nielsen, Manjinder S. Sandhu, Laurent Excoffier, David M. Lambert, Eske Willerslev
2016 J jnl
BCFtools/RoH: a hidden Markov model approach for detecting autozygosity from next-generation sequencing data.
Bioinform.
Vagheesh Narasimhan, Petr Danecek, Aylwyn Scally, Yali Xue, Chris Tyler-Smith, Richard Durbin
2014 J jnl
Efficient haplotype matching and storage using the positional Burrows-Wheeler transform (PBWT).
Bioinform.
Richard Durbin
2012 J jnl
Ensembl 2012.
Nucleic Acids Res.
Paul Flicek, M. Ridwan Amode, Daniel Barrell, Kathryn Beal, Simon Brent, Denise Carvalho-Silva, Peter Clapham, Guy Coates, Susan Fairley, Stephen Fitzgerald, Laurent Gil, Leo Gordon, Maurice Hendrix, Thibaut Hourlier, Nathan Johnson, Andreas Kähäri, Damian Keefe, Stephen Keenan, Rhoda Kinsella, Monika Komorowska, Gautier Koscielny, Eugene Kulesha, Pontus Larsson, Ian Longden, William M. McLaren, Matthieu Muffato, Bert Overduin, Miguel Pignatelli, Bethan Pritchard, Harpreet Singh Riat, Graham R. S. Ritchie, Magali Ruffier, Michael Schuster, Daniel Sobral, Y. Amy Tang, Kieron R. Taylor, Stephen J. Trevanion, Jana Vandrovcova, Simon White, Mark Wilson, Steven P. Wilder, Bronwen L. Aken, Ewan Birney, Fiona Cunningham, Ian Dunham, Richard Durbin, Xosé M. Fernández-Suárez, Jennifer L. Harrow, Javier Herrero, Tim J. P. Hubbard, Anne Parker, Glenn Proctor, Giulietta Spudich, Jan Vogel, Andy Yates, Amonida Zadissa, Stephen M. J. Searle
2012 J jnl
WormBase 2012: more genomes, more data, new website.
Nucleic Acids Res.
Karen Yook, Todd W. Harris, Tamberlyn Bieri, Abigail Cabunoc, Juancarlos Chan, Wen J. Chen, Paul Davis, Norie De La Cruz, Adrian Duong, Ruihua Fang, Uma Ganesan, Christian A. Grove, Kevin L. Howe, Snehalata Kadam, Ranjana Kishore, Raymond Y. N. Lee, Yuling Li, Hans-Michael Müller, Cecilia Nakamura, Bill Nash, Philip Ozersky, Michael Paulini, Daniela Raciti, Arun Rangarajan, Gary Schindelman, Xiaoqi Shi, Erich M. Schwarz, Mary Ann Tuli, Kimberly Van Auken, Daniel Wang, Xiaodong Wang, Gary Williams, Jonathan Hodgkin, Matthew Berriman, Richard Durbin, Paul J. Kersey, John Spieth, Lincoln Stein, Paul W. Sternberg
2011 J jnl
Ensembl 2011.
Nucleic Acids Res.
Paul Flicek, M. Ridwan Amode, Daniel Barrell, Kathryn Beal, Simon Brent, Yuan Chen, Peter Clapham, Guy Coates, Susan Fairley, Stephen Fitzgerald, Leo Gordon, Maurice Hendrix, Thibaut Hourlier, Nathan Johnson, Andreas Kähäri, Damian Keefe, Stephen Keenan, Rhoda Kinsella, Felix Kokocinski, Eugene Kulesha, Pontus Larsson, Ian Longden, William M. McLaren, Bert Overduin, Bethan Pritchard, Harpreet Singh Riat, Daniel Rios, Graham R. S. Ritchie, Magali Ruffier, Michael Schuster, Daniel Sobral, Giulietta Spudich, Y. Amy Tang, Stephen J. Trevanion, Jana Vandrovcova, Albert J. Vilella, Simon White, Steven P. Wilder, Amonida Zadissa, Jorge Zamora, Bronwen L. Aken, Ewan Birney, Fiona Cunningham, Ian Dunham, Richard Durbin, Xosé M. Fernández-Suárez, Javier Herrero, Tim J. P. Hubbard, Anne Parker, Glenn Proctor, Jan Vogel, Stephen M. J. Searle
2011 J jnl
The variant call format and VCFtools.
Bioinform.
Petr Danecek, Adam Auton, Gonçalo R. Abecasis, Cornelis A. Albers, Eric Banks, Mark A. DePristo, Robert E. Handsaker, Gerton Lunter, Gabor T. Marth, Stephen T. Sherry, Gilean McVean, Richard Durbin
2010 J jnl
A Bayesian Framework to Account for Complex Non-Genetic Factors in Gene Expression Levels Greatly Increases Power in eQTL Studies.
PLoS Comput. Biol.
Oliver Stegle, Leopold Parts, Richard Durbin, John M. Winn
2010 J jnl
Copy number variant detection in inbred strains from short read sequence data.
Bioinform.
Jared T. Simpson, Rebecca E. McIntyre, David J. Adams, Richard Durbin
2010 J jnl
Efficient construction of an assembly string graph using the FM-index.
Bioinform.
Jared T. Simpson, Richard Durbin
2010 J jnl
Ensembl's 10th year.
Nucleic Acids Res.
Paul Flicek, Bronwen L. Aken, Benoît Ballester, Kathryn Beal, Eugene Bragin, Simon Brent, Yuan Chen, Peter Clapham, Guy Coates, Susan Fairley, Stephen Fitzgerald, Julio Fernandez-Banet, Leo Gordon, Stefan Gräf, Syed Haider, Martin Hammond, Kerstin Howe, Andrew M. Jenkinson, Nathan Johnson, Andreas Kähäri, Damian Keefe, Stephen Keenan, Rhoda Kinsella, Felix Kokocinski, Gautier Koscielny, Eugene Kulesha, Daniel Lawson, Ian Longden, Tim Massingham, William M. McLaren, Karine Megy, Bert Overduin, Bethan Pritchard, Daniel Rios, Magali Ruffier, Michael Schuster, Guy Slater, Damian Smedley, Giulietta Spudich, Y. Amy Tang, Stephen J. Trevanion, Albert J. Vilella, Jan Vogel, Simon White, Steven P. Wilder, Amonida Zadissa, Ewan Birney, Fiona Cunningham, Ian Dunham, Richard Durbin, Xosé M. Fernández-Suárez, Javier Herrero, Tim J. P. Hubbard, Anne Parker, Glenn Proctor, James A. Smith, Stephen M. J. Searle
2010 J jnl
Fast and accurate long-read alignment with Burrows-Wheeler transform.
Bioinform.
Heng Li, Richard Durbin
2010 J jnl
WormBase: a comprehensive resource for nematode research.
Nucleic Acids Res.
Todd W. Harris, Igor Antoshechkin, Tamberlyn Bieri, Darin Blasiar, Juancarlos Chan, Wen J. Chen, Norie De La Cruz, Paul Davis, Margaret J. Duesbury, Ruihua Fang, Jolene Fernandes, Michael Han, Ranjana Kishore, Raymond Y. N. Lee, Hans-Michael Müller, Cecilia Nakamura, Philip Ozersky, Andrei Petcherski, Arun Rangarajan, Anthony Rogers, Gary Schindelman, Erich M. Schwarz, Mary Ann Tuli, Kimberly Van Auken, Daniel Wang, Xiaodong Wang, Gary Williams, Karen Yook, Richard Durbin, Lincoln D. Stein, John Spieth, Paul W. Sternberg
2009 J jnl
Ensembl 2009.
Nucleic Acids Res.
Tim J. P. Hubbard, Bronwen L. Aken, Sarah C. Ayling, Benoît Ballester, Kathryn Beal, Eugene Bragin, Simon Brent, Yuan Chen, Peter Clapham, Laura Clarke, Guy Coates, Susan Fairley, Stephen Fitzgerald, Julio Fernandez-Banet, Leo Gordon, Stefan Gräf, Syed Haider, Martin Hammond, Richard C. G. Holland, Kevin L. Howe, Andrew M. Jenkinson, Nathan Johnson, Andreas Kähäri, Damian Keefe, Stephen Keenan, Rhoda Kinsella, Felix Kokocinski, Eugene Kulesha, Daniel Lawson, Ian Longden, Karine Megy, Patrick Meidl, Bert Overduin, Anne Parker, Bethan Pritchard, Daniel Rios, Michael Schuster, Guy Slater, Damian Smedley, William Spooner, Giulietta Spudich, Stephen J. Trevanion, Albert J. Vilella, Jan Vogel, Simon White, Steven P. Wilder, Arek Zadissa, Ewan Birney, Fiona Cunningham, Val Curwen, Richard Durbin, Xosé M. Fernández-Suárez, Javier Herrero, Arek Kasprzyk, Glenn Proctor, James A. Smith, Stephen M. J. Searle, Paul Flicek
2009 J jnl
Fast and accurate short read alignment with Burrows-Wheeler transform.
Bioinform.
Heng Li, Richard Durbin
2009 J jnl
The Sequence Alignment/Map format and SAMtools.
Bioinform.
Heng Li, Bob Handsaker, Alec Wysoker, Tim Fennell, Jue Ruan, Nils Homer, Gabor T. Marth, Gonçalo R. Abecasis, Richard Durbin
2008 B conf
Accounting for Non-genetic Factors Improves the Power of eQTL Studies.
RECOMB
Oliver Stegle, Anitha Kannan, Richard Durbin, John M. Winn
2008 J jnl
Ensembl 2008.
Nucleic Acids Res.
Paul Flicek, Bronwen L. Aken, Kathryn Beal, Benoît Ballester, Mario Cáccamo, Yuan Chen, Laura Clarke, Guy Coates, Fiona Cunningham, Tim Cutts, Thomas A. Down, S. C. Dyer, T. Eyre, Stephen Fitzgerald, Julio Fernandez-Banet, Stefan Gräf, Syed Haider, Martin Hammond, Richard C. G. Holland, Kevin L. Howe, Kerstin Howe, Nathan Johnson, Andrew M. Jenkinson, Andreas Kähäri, Damian Keefe, Felix Kokocinski, Eugene Kulesha, Daniel Lawson, Ian Longden, Karine Megy, Patrick Meidl, Bert Overduin, Anne Parker, Bethan Pritchard, Andreas Prlic, S. Rice, Daniel Rios, Michael Schuster, Ian Sealy, Guy Slater, Damian Smedley, Giulietta Spudich, Stephen J. Trevanion, Albert J. Vilella, Jan Vogel, Simon White, M. Wood, Ewan Birney, Tony Cox, Val Curwen, Richard Durbin, Xosé M. Fernández-Suárez, Javier Herrero, Tim J. P. Hubbard, Arek Kasprzyk, Glenn Proctor, James A. Smith, Abel Ureta-Vidal, Stephen M. J. Searle
2008 J jnl
TreeFam: 2008 Update.
Nucleic Acids Res.
Jue Ruan, Heng Li, Zhongzhong Chen, Avril Coghlan, Lachlan James M. Coin, Yiran Guo, Jean-Karim Hériché, Yafeng Hu, Karsten Kristiansen, Ruiqiang Li, Tao Liu, Alan M. Moses, Junjie Qin, Søren Vang, Albert J. Vilella, Abel Ureta-Vidal, Lars Bolund, Jun Wang, Richard Durbin
2008 J jnl
WormBase 2007.
Nucleic Acids Res.
Anthony Rogers, Igor Antoshechkin, Tamberlyn Bieri, Darin Blasiar, Carol Bastiani, Payan Canaran, Juancarlos Chan, Wen J. Chen, Paul Davis, Jolene Fernandes, Tristan J. Fiedler, Michael Han, Todd W. Harris, Ranjana Kishore, Raymond Y. N. Lee, Sheldon J. McKay, Hans-Michael Müller, Cecilia Nakamura, Philip Ozersky, Andrei Petcherski, Gary Schindelman, Erich M. Schwarz, William Spooner, Mary Ann Tuli, Kimberly Van Auken, Daniel Wang, Xiaodong Wang, Gary Williams, Karen Yook, Richard Durbin, Lincoln D. Stein, John Spieth, Paul W. Sternberg
2007 J jnl
Ensembl 2007.
Nucleic Acids Res.
Tim J. P. Hubbard, Bronwen L. Aken, Kathryn Beal, Benoît Ballester, Mario Cáccamo, Yuan Chen, Laura Clarke, Guy Coates, Fiona Cunningham, Tim Cutts, Thomas A. Down, S. C. Dyer, Stephen Fitzgerald, Julio Fernandez-Banet, Stefan Gräf, Syed Haider, Martin Hammond, Javier Herrero, Richard C. G. Holland, Kevin L. Howe, Kerstin Howe, Nathan Johnson, Andreas Kähäri, Damian Keefe, Felix Kokocinski, Eugene Kulesha, Daniel Lawson, Ian Longden, Craig Melsopp, Karine Megy, Patrick Meidl, Bert Overduin, Anne Parker, Andreas Prlic, S. Rice, Daniel Rios, Michael Schuster, Ian Sealy, Jessica Severin, Guy Slater, Damian Smedley, Giulietta Spudich, Stephen J. Trevanion, Albert J. Vilella, Jan Vogel, Simon White, M. Wood, Tony Cox, Val Curwen, Richard Durbin, Xosé M. Fernández-Suárez, Paul Flicek, Arek Kasprzyk, Glenn Proctor, Stephen M. J. Searle, James A. Smith, Abel Ureta-Vidal, Ewan Birney
2007 J jnl
Genomix: a method for combining gene-finders' predictions, which uses evolutionary conservation of sequence and intron-exon structure.
Bioinform.
Avril Coghlan, Richard Durbin
2007 J jnl
WormBase: new content and better access.
Nucleic Acids Res.
Tamberlyn Bieri, Darin Blasiar, Philip Ozersky, Igor Antoshechkin, Carol Bastiani, Payan Canaran, Juancarlos Chan, Nansheng Chen, Wen J. Chen, Paul Davis, Tristan J. Fiedler, Lisa R. Girard, Michael Han, Todd W. Harris, Ranjana Kishore, Raymond Y. N. Lee, Sheldon J. McKay, Hans-Michael Müller, Cecilia Nakamura, Andrei Petcherski, Arun Rangarajan, Anthony Rogers, Gary Schindelman, Erich M. Schwarz, William Spooner, Mary Ann Tuli, Kimberly Van Auken, Daniel Wang, Xiaodong Wang, Gary Williams, Richard Durbin, Lincoln D. Stein, Paul W. Sternberg, John Spieth
2006 J jnl
Ensembl 2006.
Nucleic Acids Res.
Ewan Birney, T. Daniel Andrews, Mario Cáccamo, Yuan Chen, Laura Clarke, Guy Coates, Tony Cox, Fiona Cunningham, Val Curwen, Tim Cutts, Thomas A. Down, Richard Durbin, Xosé M. Fernández-Suárez, Paul Flicek, Stefan Gräf, Martin Hammond, Javier Herrero, Kevin L. Howe, Vivek Iyer, Kerstin Jekosch, Andreas Kähäri, Arek Kasprzyk, Damian Keefe, Felix Kokocinski, Eugene Kulesha, D. London, Ian Longden, Craig Melsopp, Patrick Meidl, Bert Overduin, Anne Parker, Glenn Proctor, Andreas Prlic, Mark Rae, Daniel Rios, Seth Redmond, Michael Schuster, Ian Sealy, Stephen M. J. Searle, Jessica Severin, Guy Slater, Damian Smedley, James A. Smith, Arne Stabenau, Jim Stalker, Stephen J. Trevanion, Abel Ureta-Vidal, Jan Vogel, Simon White, Cara Woodwark, Tim J. P. Hubbard
2006 J jnl
Pfam: clans, web tools and services.
Nucleic Acids Res.
Robert D. Finn, Jaina Mistry, Benjamin Schuster-Böckler, Sam Griffiths-Jones, Volker Hollich, Timo Lassmann, Simon Moxon, Mhairi Marshall, Ajay Khanna, Richard Durbin, Sean R. Eddy, Erik L. L. Sonnhammer, Alex Bateman
2006 J jnl
TreeFam: a curated database of phylogenetic trees of animal gene families.
Nucleic Acids Res.
Heng Li, Avril Coghlan, Jue Ruan, Lachlan James M. Coin, Jean-Karim Hériché, Lara Osmotherly, Ruiqiang Li, Tao Liu, Zhang Zhang, Lars Bolund, Gane Ka-Shu Wong, Wei-Mou Zheng, Paramvir S. Dehal, Jun Wang, Richard Durbin
2006 J jnl
WormBase: better software, richer content.
Nucleic Acids Res.
Erich M. Schwarz, Igor Antoshechkin, Carol Bastiani, Tamberlyn Bieri, Darin Blasiar, Payan Canaran, Juancarlos Chan, Nansheng Chen, Wen J. Chen, Paul Davis, Tristan J. Fiedler, Lisa R. Girard, Todd W. Harris, Eimear Kenny, Ranjana Kishore, Daniel Lawson, Raymond Y. N. Lee, Hans-Michael Müller, Cecilia Nakamura, Philip Ozersky, Andrei Petcherski, Anthony Rogers, William Spooner, Mary Ann Tuli, Kimberly Van Auken, Daniel Wang, Richard Durbin, John Spieth, Lincoln D. Stein, Paul W. Sternberg
2005 J jnl
Ensembl 2005.
Nucleic Acids Res.
Tim J. P. Hubbard, D. Andrews, Mario Cáccamo, Graham Cameron, Yuan Chen, Michele E. Clamp, Laura Clarke, Guy Coates, Tony Cox, Fiona Cunningham, Val Curwen, Tim Cutts, Thomas A. Down, Richard Durbin, Xosé M. Fernández-Suárez, James G. R. Gilbert, Martin Hammond, Javier Herrero, H. Hotz, Kevin L. Howe, Vivek Iyer, Kerstin Jekosch, Andreas Kähäri, Arek Kasprzyk, Damian Keefe, Stephen Keenan, Felix Kokocinski, D. London, Ian Longden, Graham P. McVicker, Craig Melsopp, Patrick Meidl, Simon C. Potter, Glenn Proctor, Mark Rae, Daniel Rios, Michael Schuster, Stephen M. J. Searle, Jessica Severin, Guy Slater, Damian Smedley, James A. Smith, William Spooner, Arne Stabenau, Jim Stalker, Roy Storey, Stephen J. Trevanion, Abel Ureta-Vidal, Jan Vogel, Simon White, Cara Woodwark, Ewan Birney
2005 J jnl
InterPro, progress and status in 2005.
Nucleic Acids Res.
Nicola J. Mulder, Rolf Apweiler, Teresa K. Attwood, Amos Bairoch, Alex Bateman, David Binns, Paul Bradley, Peer Bork, Phillip Bucher, Lorenzo Cerutti, Richard R. Copley, Emmanuel Courcelle, Ujjwal Das, Richard Durbin, Wolfgang Fleischmann, Julian Gough, Daniel H. Haft, Nicola Harte, Nicolas Hulo, Daniel Kahn, Alexander Kanapin, Maria Krestyaninova, David Lonsdale, Rodrigo Lopez, Ivica Letunic, Martin Madera, John Maslen, Jennifer McDowall, Alex L. Mitchell, Anastasia N. Nikolskaya, Sandra E. Orchard, Marco Pagni, Chris P. Ponting, Emmanuel Quevillon, Jeremy D. Selengut, Christian J. A. Sigrist, Ville Silventoinen, David J. Studholme, Robert Vaughan, Cathy H. Wu
2005 J jnl
WormBase: a comprehensive data resource for
Nucleic Acids Res.
Nansheng Chen, Todd W. Harris, Igor Antoshechkin, Carol Bastiani, Tamberlyn Bieri, Darin Blasiar, Keith Bradnam, Payan Canaran, Juancarlos Chan, Chao-Kung Chen, Wen J. Chen, Fiona Cunningham, Paul Davis, Eimear Kenny, Ranjana Kishore, Daniel Lawson, Raymond Y. N. Lee, Hans-Michael Müller, Cecilia Nakamura, Shraddha Pai, Philip Ozersky, Andrei Petcherski, Anthony Rogers, Aniko Sabo, Erich M. Schwarz, Kimberly Van Auken, Qinghua Wang, Richard Durbin, John Spieth, Paul W. Sternberg, Lincoln D. Stein
2004 J jnl
Enhanced protein domain discovery using taxonomy.
BMC Bioinform.
Lachlan James M. Coin, Alex Bateman, Richard Durbin
2004 J jnl
Ensembl 2004.
Nucleic Acids Res.
Ewan Birney, T. Daniel Andrews, Paul Bevan, Mario Cáccamo, Graham Cameron, Yuan Chen, Laura Clarke, Guy Coates, Tony Cox, James A. Cuff, Val Curwen, Tim Cutts, Thomas A. Down, Richard Durbin, Eduardo Eyras, Xosé M. Fernández-Suárez, Paul J. Gane, B. Gibbins, James G. R. Gilbert, Martin Hammond, H. Hotz, Vivek Iyer, Andreas Kähäri, Kerstin Jekosch, Arek Kasprzyk, Damian Keefe, Stephen Keenan, Heikki Lehväslaiho, Graham P. McVicker, Craig Melsopp, Patrick Meidl, Emmanuel Mongin, Roger Pettett, Simon C. Potter, Glenn Proctor, Mark Rae, Stephen M. J. Searle, Guy Slater, Damian Smedley, James A. Smith, William Spooner, Arne Stabenau, Jim Stalker, Roy Storey, Abel Ureta-Vidal, Cara Woodwark, Michele E. Clamp, Tim J. P. Hubbard
2004 — conf
Improved techniques for the identification of pseudogenes.
ISMB/ECCB (Supplement of Bioinformatics)
Lachlan James M. Coin, Richard Durbin
2004 J jnl
The Pfam protein families database.
Nucleic Acids Res.
Alex Bateman, Lachlan James M. Coin, Richard Durbin, Robert D. Finn, Volker Hollich, Sam Griffiths-Jones, Ajay Khanna, Mhairi Marshall, Simon Moxon, Erik L. L. Sonnhammer, David J. Studholme, Corin Yeats, Sean R. Eddy
2004 J jnl
WormBase: a multi-species resource for nematode biology and genomics.
Nucleic Acids Res.
Todd W. Harris, Nansheng Chen, Fiona Cunningham, Marcela K. Tello-Ruiz, Igor Antoshechkin, Carol Bastiani, Tamberlyn Bieri, Darin Blasiar, Keith Bradnam, Juancarlos Chan, Chao-Kung Chen, Wen J. Chen, Paul Davis, Eimear Kenny, Ranjana Kishore, Daniel Lawson, Raymond Y. N. Lee, Hans-Michael Müller, Cecilia Nakamura, Philip Ozersky, Andrei Petcherski, Anthony Rogers, Aniko Sabo, Erich M. Schwarz, Kimberly Van Auken, Qinghua Wang, Richard Durbin, John Spieth, Paul W. Sternberg, Lincoln D. Stein
2003 J jnl
A Table-Driven, Full-Sensitivity Similarity Search Algorithm.
J. Comput. Biol.
Gene Myers, Richard Durbin
2003 J jnl
Ensembl 2002: accommodating comparative genomics.
Nucleic Acids Res.
Michele E. Clamp, T. Daniel Andrews, Daniel Barker, Paul Bevan, Graham Cameron, Yuan Chen, Laura Clarke, Tony Cox, James A. Cuff, Val Curwen, Thomas A. Down, Richard Durbin, Eduardo Eyras, James G. R. Gilbert, Martin Hammond, Tim J. P. Hubbard, Arek Kasprzyk, Damian Keefe, Heikki Lehväslaiho, Vivek Iyer, Craig Melsopp, Emmanuel Mongin, Roger Pettett, Simon C. Potter, Alistair G. Rust, Esther Schmidt, Stephen M. J. Searle, Guy Slater, James A. Smith, William Spooner, Arne Stabenau, Jim Stalker, Elia Stupka, Abel Ureta-Vidal, Imre Vastrik, Ewan Birney
2003 J jnl
The InterPro Database, 2003 brings increased coverage and new features.
Nucleic Acids Res.
Nicola J. Mulder, Rolf Apweiler, Terri K. Attwood, Amos Bairoch, Daniel Barrell, Alex Bateman, David Binns, Margaret Biswas, Paul Bradley, Peer Bork, Philipp Bucher, Richard R. Copley, Emmanuel Courcelle, Ujjwal Das, Richard Durbin, Laurent Falquet, Wolfgang Fleischmann, Sam Griffiths-Jones, Daniel H. Haft, Nicola Harte, Nicolas Hulo, Daniel Kahn, Alexander Kanapin, Maria Krestyaninova, Rodrigo Lopez, Ivica Letunic, David Lonsdale, Ville Silventoinen, Sandra E. Orchard, Marco Pagni, David Peyruc, Chris P. Ponting, Jeremy D. Selengut, Florence Servant, Christian J. A. Sigrist, Robert Vaughan, Evgeni M. Zdobnov
2003 J jnl
WormBase: a cross-species database for comparative genomics.
Nucleic Acids Res.
Todd W. Harris, Raymond Y. N. Lee, Erich M. Schwarz, Keith Bradnam, Daniel Lawson, Wen J. Chen, Darin Blasiar, Eimear Kenny, Fiona Cunningham, Ranjana Kishore, Juancarlos Chan, Hans-Michael Müller, Andrei Petcherski, Gudmundur A. Thorisson, Allen Day, Tamberlyn Bieri, Anthony Rogers, Chao-Kung Chen, John Spieth, Paul W. Sternberg, Richard Durbin, Lincoln D. Stein
2002 J jnl
Comparative ab initio prediction of gene structures using pair HMMs.
Bioinform.
Irmtraud M. Meyer, Richard Durbin
2002 J jnl
InterPro: An Integrated Documentation Resource for Protein Families, Domains and Functional Sites
Briefings Bioinform.
Nicola J. Mulder, Rolf Apweiler, Terri K. Attwood, Amos Bairoch, Alex Bateman, David Binns, Margaret Biswas, Paul Bradley, Peer Bork, Philipp Bucher, Richard R. Copley, Emmanuel Courcelle, Richard Durbin, Laurent Falquet, Wolfgang Fleischmann, Jérôme Gouzy, Sam Griffiths-Jones, Daniel H. Haft, Henning Hermjakob, Nicolas Hulo, Daniel Kahn, Alexander Kanapin, Maria Krestyaninova, Rodrigo Lopez, Ivica Letunic, Sue Orchard, Marco Pagni, David Peyruc, Chris P. Ponting, Florence Servant, Christian J. A. Sigrist
2002 C conf
Invited Lecture - Accelerating Smith-Waterman Searches.
WABI
Gene Myers, Richard Durbin
2002 J jnl
QuickTree: building huge Neighbour-Joining trees of protein sequences.
Bioinform.
Kevin L. Howe, Alex Bateman, Richard Durbin
2002 J jnl
The Ensembl genome database project.
Nucleic Acids Res.
Tim J. P. Hubbard, Daniel Barker, Ewan Birney, Graham Cameron, Yuan Chen, Laura Clarke, Tony Cox, James A. Cuff, Val Curwen, Thomas A. Down, Richard Durbin, Eduardo Eyras, James G. R. Gilbert, Martin Hammond, Lukasz Huminiecki, Arek Kasprzyk, Heikki Lehväslaiho, Philip Lijnzaad, Craig Melsopp, Emmanuel Mongin, Roger Pettett, Matthew R. Pocock, Simon C. Potter, Alistair G. Rust, Esther Schmidt, Stephen M. J. Searle, Guy Slater, James A. Smith, William Spooner, Arne Stabenau, Jim Stalker, Elia Stupka, Abel Ureta-Vidal, Imre Vastrik, Michele E. Clamp
2002 J jnl
The Pfam Protein Families Database.
Nucleic Acids Res.
Alex Bateman, Ewan Birney, Lorenzo Cerutti, Richard Durbin, Laurence Ettwiller, Sean R. Eddy, Sam Griffiths-Jones, Kevin L. Howe, Mhairi Marshall, Erik L. L. Sonnhammer
2001 A* conf
Interpreting the Human Genome Sequence, Using Stochastic Grammars.
ACL
Richard Durbin
2001 J jnl
The InterPro database, an integrated documentation resource for protein families, domains and functional sites.
Nucleic Acids Res.
Rolf Apweiler, Terri K. Attwood, Amos Bairoch, Alex Bateman, Ewan Birney, Margaret Biswas, Philipp Bucher, Lorenzo Cerutti, Florence Corpet, Michael D. R. Croning, Richard Durbin, Laurent Falquet, Wolfgang Fleischmann, Jérôme Gouzy, Henning Hermjakob, Nicolas Hulo, Inge Jonassen, Daniel Kahn, Alexander Kanapin, Youla Karavidopoulou, Rodrigo Lopez, Beate Marx, Nicola J. Mulder, Thomas M. Oinn, Marco Pagni, Florence Servant, Christian J. A. Sigrist, Evgeni M. Zdobnov
2001 J jnl
WormBase: network access to the genome and biology of Caenorhabditis elegans.
Nucleic Acids Res.
Lincoln Stein, Paul W. Sternberg, Richard Durbin, Jean Thierry-Mieg, John Spieth
2000 J jnl
InterPro-an integrated documentation resource for protein families, domains and functional sites.
Bioinform.
Rolf Apweiler, Terri K. Attwood, Amos Bairoch, Alex Bateman, Ewan Birney, Margaret Biswas, Philipp Bucher, Lorenzo Cerutti, Florence Corpet, Michael D. R. Croning, Richard Durbin, Laurent Falquet, Wolfgang Fleischmann, Jérôme Gouzy, Henning Hermjakob, Nicolas Hulo, Inge Jonassen, Daniel Kahn, Alexander Kanapin, Youla Karavidopoulou, Rodrigo Lopez, Beate Marx, Nicola J. Mulder, Thomas M. Oinn, Marco Pagni, Florence Servant, Christian J. A. Sigrist, Evgeni M. Zdobnov
2000 J jnl
The Pfam Protein Families Database.
Nucleic Acids Res.
Alex Bateman, Ewan Birney, Richard Durbin, Sean R. Eddy, Kevin L. Howe, Erik L. L. Sonnhammer
1999 J jnl
Pfam 3.1: 1313 multiple alignments and profile HMMs match the majority of proteins.
Nucleic Acids Res.
Alex Bateman, Ewan Birney, Richard Durbin, Sean R. Eddy, Robert D. Finn, Erik L. L. Sonnhammer
1998 — book
Biological Sequence Analysis: Probabilistic Models of Proteins and Nucleic Acids
Richard Durbin, Sean R. Eddy, Anders Krogh, Graeme J. Mitchison
1998 J jnl
Dynamic Programming Alignment Accuracy.
J. Comput. Biol.
Ian Holmes, Richard Durbin
1998 B conf
Dynamic programming alignment accuracy.
RECOMB
Ian Holmes, Richard Durbin
1998 J jnl
Pfam: multiple sequence alignments and HMM-profiles of protein domains.
Nucleic Acids Res.
Erik L. L. Sonnhammer, Sean R. Eddy, Ewan Birney, Alex Bateman, Richard Durbin
1997 A conf
Dynamite: A Flexible Code Generating Language for Dynamic Programming Methods Used in Sequence Comparison.
ISMB
Ewan Birney, Richard Durbin
1995 J jnl
Maximum Discrimination Hidden Markov Models of Sequence Consensus.
J. Comput. Biol.
Sean R. Eddy, Graeme J. Mitchison, Richard Durbin
1995 J jnl
Method for Calculation of Probability of Matching a Bounded Regular Expression in a Random Data String.
J. Comput. Biol.
Roger F. Sewell, Richard Durbin
1994 J jnl
A workbench for large-scale sequence homology analysis.
Comput. Appl. Biosci.
Erik L. L. Sonnhammer, Richard Durbin
1994 A conf
An Expert System for Processing Sequence Homology Data.
ISMB
Erik L. L. Sonnhammer, Richard Durbin
1989 J jnl
An Analysis of the Elastic Net Approach to the Traveling Salesman Problem.
Neural Comput.
Richard Durbin, Richard Szeliski, Alan L. Yuille
1989 J jnl
Image analysis of restriction enzyme fingerprint autoradiograms.
Comput. Appl. Biosci.
John Sulston, Frank Mallett, Richard Durbin, Terry Horsnell
1989 — conf
Product Units with Trainable Exponents and Multi-Layer Networks.
NATO Neurocomputing
Richard Durbin, David E. Rumelhart
1989 J jnl
Product Units: A Computationally Powerful and Biologically Plausible Extension to Backpropagation Networks.
Neural Comput.
Richard Durbin, David E. Rumelhart
1988 J jnl
Software for genome mapping by fingerprinting techniques.
Comput. Appl. Biosci.
John Sulston, Frank Mallett, Rodger Staden, Richard Durbin, Terry Horsnell, Alan Coulson