 | 2012 |
|---|
| 62 |       | Hanchuan Peng,
Alex Bateman,
Alfonso Valencia,
Jonathan D. Wren:
Bioimage informatics: a new category in Bioinformatics.
Bioinformatics 28(8): 1057 (2012) |
| 61 | | Marco Punta,
Penny C. Coggill,
Ruth Y. Eberhardt,
Jaina Mistry,
John G. Tate,
Chris Boursnell,
Ningze Pang,
Kristoffer Forslund,
Goran Ceric,
Jody Clements,
Andreas Heger,
Liisa Holm,
Erik L. L. Sonnhammer,
Sean R. Eddy,
Alex Bateman,
Robert D. Finn:
The Pfam protein families database.
Nucleic Acids Research 40(Database-Issue): 290-301 (2012) |
| 60 | | Sarah Hunter,
Philip Jones,
Alex Mitchell,
Rolf Apweiler,
Teresa K. Attwood,
Alex Bateman,
Thomas Bernard,
David Binns,
Peer Bork,
Sarah Burge,
Edouard De Castro,
Penny C. Coggill,
Matthew Corbett,
Ujjwal Das,
Louise Daugherty,
Lauranne Duquenne,
Robert D. Finn,
Matthew Fraser,
Julian Gough,
Daniel H. Haft,
Nicolas Hulo,
Daniel Kahn,
Elizabeth Kelly,
Ivica Letunic,
David Lonsdale,
Rodrigo Lopez,
Martin Madera,
John Maslen,
Craig McAnulla,
Jennifer McDowall,
Conor McMenamin,
Huaiyu Mi,
Prudence Mutowo-Muellenet,
Nicola J. Mulder,
Darren A. Natale,
Christine A. Orengo,
Sebastien Pesseat,
Marco Punta,
Antony F. Quinn,
Catherine Rivoire,
Amaia Sangrador-Vegas,
Jeremy D. Selengut,
Christian J. A. Sigrist,
Maxim Scheremetjew,
John G. Tate,
Manjulapramila Thimmajanarthanan,
Paul D. Thomas,
Cathy H. Wu,
Corin Yeats,
Siew-Yit Yong:
InterPro in 2011: new developments in the family and domain prediction database.
Nucleic Acids Research 40(Database-Issue): 306-312 (2012) |
| 59 | | Neil D. Rawlings,
Alan J. Barrett,
Alex Bateman:
MEROPS: the database of proteolytic enzymes, their substrates and inhibitors.
Nucleic Acids Research 40(Database-Issue): 343-350 (2012) |
| 58 | | Robert D. Finn,
Paul P. Gardner,
Alex Bateman:
Making your database available through Wikipedia: the pros and cons.
Nucleic Acids Research 40(Database-Issue): 9-12 (2012) |
| 2011 |
|---|
| 57 | | Lars Juhl Jensen,
Alex Bateman:
The rise and fall of supervised machine learning techniques.
Bioinformatics 27(24): 3331-3332 (2011) |
| 56 | | Paul P. Gardner,
Jennifer Daub,
John G. Tate,
Benjamin L. Moore,
Isabelle H. Osuch,
Sam Griffiths-Jones,
Robert D. Finn,
Eric P. Nawrocki,
Diana L. Kolbe,
Sean R. Eddy,
Alex Bateman:
Rfam: Wikipedia, clans and the "decimal" release.
Nucleic Acids Research 39(Database-Issue): 141-145 (2011) |
| 55 | | Pascale Gaudet,
Amos Bairoch,
Dawn Field,
Susanna-Assunta Sansone,
Chris F. Taylor,
Teresa K. Attwood,
Alex Bateman,
Judith A. Blake,
Carol J. Bult,
J. Michael Cherry,
Rex L. Chisholm,
Guy Cochrane,
Charles E. Cook,
Janan T. Eppig,
Michael Y. Galperin,
Robert Gentleman,
Carole A. Goble,
Takashi Gojobori,
John M. Hancock,
Douglas G. Howe,
Tadashi Imanishi,
Janet Kelso,
David Landsman,
Suzanna E. Lewis,
Ilene Karsch-Mizrachi,
Sandra E. Orchard,
B. F. Francis Ouellette,
Shoba Ranganathan,
Lorna Richardson,
Philippe Rocca-Serra,
Paul N. Schofield,
Damian Smedley,
Christopher Southan,
Tin Wee Tan,
Tatiana A. Tatusova,
Patricia L. Whetzel,
Owen White,
Chisato Yamasaki:
Towards BioDBcore: a community-defined information specification for biological databases.
Nucleic Acids Research 39(Database-Issue): 7-10 (2011) |
| 2010 |
|---|
| 54 | | Alex Bateman:
Curators of the world unite: the International Society of Biocuration.
Bioinformatics 26(8): 991 (2010) |
| 53 | | Robert D. Finn,
Jaina Mistry,
John G. Tate,
Penny C. Coggill,
Andreas Heger,
Joanne E. Pollington,
O. Luke Gavin,
Prasad Gunasekaran,
Goran Ceric,
Kristoffer Forslund,
Liisa Holm,
Erik L. L. Sonnhammer,
Sean R. Eddy,
Alex Bateman:
The Pfam protein families database.
Nucleic Acids Research 38(Database-Issue): 211-222 (2010) |
| 52 | | Neil D. Rawlings,
Alan J. Barrett,
Alex Bateman:
MEROPS: the peptidase database.
Nucleic Acids Research 38(Database-Issue): 227-233 (2010) |
| 51 | | Darren W. Logan,
Massimo Sandal,
Paul P. Gardner,
Magnus Manske,
Alex Bateman:
Ten Simple Rules for Editing Wikipedia.
PLoS Computational Biology 6(9): (2010) |
| 2009 |
|---|
| 50 | | Alex Bateman,
Matt Wood:
Cloud computing.
Bioinformatics 25(12): 1475 (2009) |
| 49 | | Alex Bateman,
Robert D. Finn,
Peter J. Sims,
Therese Wiedmer,
Andreas Biegert,
Johannes Söding:
Phospholipid scramblases and Tubby-like proteins belong to a new superfamily of membrane tethered transcription factors.
Bioinformatics 25(2): 159-162 (2009) |
| 48 | | Alex Bateman,
John Quackenbush:
Editorial.
Bioinformatics 25(4): 429 (2009) |
| 47 | | Paul P. Gardner,
Jennifer Daub,
John G. Tate,
Eric P. Nawrocki,
Diana L. Kolbe,
Stinus Lindgreen,
Adam C. Wilkinson,
Robert D. Finn,
Sam Griffiths-Jones,
Sean R. Eddy,
Alex Bateman:
Rfam: updates to the RNA families database.
Nucleic Acids Research 37(Database-Issue): 136-140 (2009) |
| 46 | | Sarah Hunter,
Rolf Apweiler,
Teresa K. Attwood,
Amos Bairoch,
Alex Bateman,
David Binns,
Peer Bork,
Ujjwal Das,
Louise Daugherty,
Lauranne Duquenne,
Robert D. Finn,
Julian Gough,
Daniel H. Haft,
Nicolas Hulo,
Daniel Kahn,
Elizabeth Kelly,
Aurélie Laugraud,
Ivica Letunic,
David Lonsdale,
Rodrigo Lopez,
Martin Madera,
John Maslen,
Craig McAnulla,
Jennifer McDowall,
Jaina Mistry,
Alex Mitchell,
Nicola J. Mulder,
Darren A. Natale,
Christine A. Orengo,
Antony F. Quinn,
Jeremy D. Selengut,
Christian J. A. Sigrist,
Manjula Thimma,
Paul D. Thomas,
Franck Valentin,
Derek Wilson,
Cathy H. Wu,
Corin Yeats:
InterPro: the integrative protein signature database.
Nucleic Acids Research 37(Database-Issue): 211-215 (2009) |
| 45 | | Alex Bateman,
Philip E. Bourne:
Ten Simple Rules for Chairing a Scientific Session.
PLoS Computational Biology 5(9): (2009) |
| 2008 |
|---|
| 44 | | Jonathan D. Wren,
Alex Bateman:
Databases, data tombs and dust in the wind.
Bioinformatics 24(19): 2127-2128 (2008) |
| 43 | | Stephen John Sammut,
Robert D. Finn,
Alex Bateman:
Pfam 10 years on: 10 000 families and still growing.
Briefings in Bioinformatics 9(3): 210-219 (2008) |
| 42 | | Alex Bateman:
Editorial.
Nucleic Acids Research 36(Database-Issue): 1 (2008) |
| 41 | | Robert D. Finn,
John G. Tate,
Jaina Mistry,
Penny C. Coggill,
Stephen John Sammut,
Hans-Rudolf Hotz,
Goran Ceric,
Kristoffer Forslund,
Sean R. Eddy,
Erik L. L. Sonnhammer,
Alex Bateman:
The Pfam protein families database.
Nucleic Acids Research 36(Database-Issue): 281-288 (2008) |
| 2007 |
|---|
| 40 | | Jaina Mistry,
Alex Bateman,
Robert D. Finn:
Predicting active site residue annotations in the Pfam database.
BMC Bioinformatics 8: (2007) |
| 39 | | Benjamin Schuster-Böckler,
Alex Bateman:
Reuse of structural domain-domain interactions in protein networks.
BMC Bioinformatics 8: (2007) |
| 38 | | Alfonso Valencia,
Alex Bateman:
Editorial.
Bioinformatics 23(2): 133 (2007) |
| 37 | | Alex Bateman,
Robert D. Finn:
SCOOP: a simple method for identification of novel protein superfamily relationships.
Bioinformatics 23(7): 809-814 (2007) |
| 36 | | Alex Bateman:
Editorial.
Nucleic Acids Research 35(Database-Issue): 1-2 (2007) |
| 35 | | Nicola J. Mulder,
Rolf Apweiler,
Teresa K. Attwood,
Amos Bairoch,
Alex Bateman,
David Binns,
Peer Bork,
Virginie Buillard,
Lorenzo Cerutti,
Richard R. Copley,
Emmanuel Courcelle,
Ujjwal Das,
Louise Daugherty,
Mark Dibley,
Robert D. Finn,
Wolfgang Fleischmann,
Julian Gough,
Daniel H. Haft,
Nicolas Hulo,
Sarah Hunter,
Daniel Kahn,
Alexander Kanapin,
Anish Kejariwal,
Alberto Labarga,
Petra S. Langendijk-Genevaux,
David Lonsdale,
Rodrigo Lopez,
Ivica Letunic,
Martin Madera,
John Maslen,
Craig McAnulla,
Jennifer McDowall,
Jaina Mistry,
Alex Mitchell,
Anastasia N. Nikolskaya,
Sandra E. Orchard,
Christine A. Orengo,
Robert Petryszak,
Jeremy D. Selengut,
Christian J. A. Sigrist,
Paul D. Thomas,
Franck Valentin,
Derek Wilson,
Cathy H. Wu,
Corin Yeats:
New developments in the InterPro database.
Nucleic Acids Research 35(Database-Issue): 224-228 (2007) |
| 2006 |
|---|
| 34 | | Alex Bateman:
Bioinformatics - The new home for protein sequence motifs.
Bioinformatics 22(1): 2 (2006) |
| 33 | | Alfonso Valencia,
Alex Bateman:
Software patents in Bioinformatics.
Bioinformatics 22(12): 1415 (2006) |
| 32 | | Alex Bateman,
Alfonso Valencia:
Structural genomics meets computational biology.
Bioinformatics 22(19): 2319 (2006) |
| 31 | | Alex Bateman:
EDITORIAL.
Nucleic Acids Research 34(Database-Issue): 1 (2006) |
| 30 | | Sam Griffiths-Jones,
Russell J. Grocock,
Stijn van Dongen,
Alex Bateman,
Anton J. Enright:
miRBase: microRNA sequences, targets and gene nomenclature.
Nucleic Acids Research 34(Database-Issue): 140-144 (2006) |
| 29 | | 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:
Pfam: clans, web tools and services.
Nucleic Acids Research 34(Database-Issue): 247-251 (2006) |
| 2005 |
|---|
| 28 | | Alfonso Valencia,
Alex Bateman:
Increasing the Impact of Bioinformatics.
Bioinformatics 21(1): 1-1 (2005) |
| 27 | | Benjamin Schuster-Böckler,
Alex Bateman:
Visualizing profile-profile alignment: pairwise HMM logos.
Bioinformatics 21(12): 2912-2913 (2005) |
| 26 | | Alex Bateman,
Alfonso Valencia:
An update from the Bioinformatics Editors.
Bioinformatics 21(24): 4319 (2005) |
| 25 | | Robert D. Finn,
Mhairi Marshall,
Alex Bateman:
iPfam: visualization of protein?Cprotein interactions in PDB at domain and amino acid resolutions.
Bioinformatics 21(3): 410-412 (2005) |
| 24 | | Alex Bateman,
Matthew T. G. Holden,
Corin Yeats:
The G5 domain: a potential N-acetylglucosamine recognition domain involved in biofilm formation.
Bioinformatics 21(8): 1301-1303 (2005) |
| 23 | | Alex Bateman:
Editorial.
Nucleic Acids Research 33(Database-Issue): 1 (2005) |
| 22 | | Sam Griffiths-Jones,
Simon Moxon,
Mhairi Marshall,
Ajay Khanna,
Sean R. Eddy,
Alex Bateman:
Rfam: annotating non-coding RNAs in complete genomes.
Nucleic Acids Research 33(Database-Issue): 121-124 (2005) |
| 21 | | 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 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:
InterPro, progress and status in 2005.
Nucleic Acids Research 33(Database-Issue): 201-205 (2005) |
| 2004 |
|---|
| 20 | | Shane C. Dillon,
Alex Bateman:
The Hotdog fold: wrapping up a superfamily of thioesterases and dehydratases.
BMC Bioinformatics 5: 109 (2004) |
| 19 | | Lachlan James M. Coin,
Alex Bateman,
Richard Durbin:
Enhanced protein domain discovery using taxonomy.
BMC Bioinformatics 5: 56 (2004) |
| 18 | | Alex Bateman,
Alfonso Valencia:
New Leadership for Bioinformatics.
Bioinformatics 20(12): 1821 (2004) |
| 17 | | 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:
The Pfam protein families database.
Nucleic Acids Research 32(Database-Issue): 138-141 (2004) |
| 2003 |
|---|
| 16 | | David J. Studholme,
Neil D. Rawlings,
Alan J. Barrett,
Alex Bateman:
A comparison of Pfam and MEROPS: Two databases, one comprehensive, and one specialised.
BMC Bioinformatics 4: 17 (2003) |
| 15 | | Alex Bateman,
Valerie A. Kickhoefer:
The TROVE module: A common element in Telomerase, Ro and Vault ribonucleoproteins.
BMC Bioinformatics 4: 49 (2003) |
| 14 | | 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:
The InterPro Database, 2003 brings increased coverage and new features.
Nucleic Acids Research 31(1): 315-318 (2003) |
| 13 | | Sam Griffiths-Jones,
Alex Bateman,
Mhairi Marshall,
Ajay Khanna,
Sean R. Eddy:
Rfam: an RNA family database.
Nucleic Acids Research 31(1): 439-441 (2003) |
| 2002 |
|---|
| 12 | | Alex Bateman:
The SGS3 protein involved in PTGS finds a family.
BMC Bioinformatics 3: 21 (2002) |
| 11 | | Kevin L. Howe,
Alex Bateman,
Richard Durbin:
QuickTree: building huge Neighbour-Joining trees of protein sequences.
Bioinformatics 18(11): 1546-1547 (2002) |
| 10 | | Sam Griffiths-Jones,
Alex Bateman:
The use of structure information to increase alignment accuracy does not aid homologue detection with profile HMMs.
Bioinformatics 18(9): 1243-1249 (2002) |
| 9 | | 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:
InterPro: An Integrated Documentation Resource for Protein Families, Domains and Functional Sites
Briefings in Bioinformatics 3(3): 225-235 (2002) |
| 8 | | Alex Bateman,
Daniel H. Haft:
HMM-based databases in InterPro.
Briefings in Bioinformatics 3(3): 236-245 (2002) |
| 7 | | 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:
The Pfam Protein Families Database.
Nucleic Acids Research 30(1): 276-280 (2002) |
| 2001 |
|---|
| 6 | | Paul I. W. de Bakker,
Alex Bateman,
David F. Burke,
Ricardo Núñez Miguel,
Kenji Mizuguchi,
J. Shi,
Hiroki Shirai,
Tom L. Blundell:
HOMSTRAD: adding sequence information to structure-based alignments of homologous protein families.
Bioinformatics 17(8): 748-749 (2001) |
| 5 | | 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:
The InterPro database, an integrated documentation resource for protein families, domains and functional sites.
Nucleic Acids Research 29(1): 37-40 (2001) |
| 2000 |
|---|
| 4 | | 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:
InterPro-an integrated documentation resource for protein families, domains and functional sites.
Bioinformatics 16(12): 1145-1150 (2000) |
| 3 | | Alex Bateman,
Ewan Birney,
Richard Durbin,
Sean R. Eddy,
Kevin L. Howe,
Erik L. L. Sonnhammer:
The Pfam Protein Families Database.
Nucleic Acids Research 28(1): 263-266 (2000) |
| 1999 |
|---|
| 2 | | Alex Bateman,
Ewan Birney,
Richard Durbin,
Sean R. Eddy,
Robert D. Finn,
Erik L. L. Sonnhammer:
Pfam 3.1: 1313 multiple alignments and profile HMMs match the majority of proteins.
Nucleic Acids Research 27(1): 260-262 (1999) |
| 1998 |
|---|
| 1 | | Erik L. L. Sonnhammer,
Sean R. Eddy,
Ewan Birney,
Alex Bateman,
Richard Durbin:
Pfam: multiple sequence alignments and HMM-profiles of protein domains.
Nucleic Acids Research 26(1): 320-322 (1998) |
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