Ujjwal Das
European Bioinformatics Institute
6 Papers
168 Citations
Ujjwal Das is an academic researcher from European Bioinformatics Institute. The author has contributed to research in topics: InterPro & TIGRFAMs. The author has an hindex of 6, co-authored 6 publications.
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Papers
InterPro: the integrative protein signature database
Sarah Hunter,Rolf Apweiler,Teresa K. Attwood,Amos Marc Bairoch,Alex Bateman,David Binns,Peer Bork,Ujjwal Das,Louise C. Daugherty,Lauranne Duquenne,Robert D. Finn,Julian Gough,Daniel H. Haft,Nicolas Hulo,Daniel Kahn,Elizabeth Kelly,Aurélie Laugraud,Ivica Letunic,David M. Lonsdale,Rodrigo Lopez,Martin Madera,John Maslen,Craig McAnulla,Jennifer McDowall,Jaina Mistry,Alex L. Mitchell,Nicola Mulder,Darren A. Natale,Christine A. Orengo,Antony F. Quinn,Jeremy D. Selengut,Christian J. A. Sigrist,Manjula Thimma,Paul Thomas,Franck Valentin,Derek Wilson,Cathy H. Wu,Corin Yeats +37 more
TL;DR: The InterPro database integrates together predictive models or ‘signatures’ representing protein domains, families and functional sites from multiple, diverse source databases: Gene3D, PANTHER, Pfam, PIRSF, PRINTS, ProDom, PROSITE, SMART, SUPERFAMILY and TIGRFAMs.
InterPro, progress and status in 2005
Nicola Mulder,Rolf Apweiler,Teresa K. Attwood,Amos Marc 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 M. Lonsdale,Rodrigo Lopez,Ivica Letunic,Martin Madera,John Maslen,Jennifer McDowall,Alex L. Mitchell,Anastasia N. Nikolskaya,Sandra Orchard,Marco Pagni,Chris P. Ponting,Emmanuel Quevillon,Jeremy D. Selengut,Christian J. A. Sigrist,Ville Silventoinen,David J. Studholme,Robert M. Vaughan,Cathy H. Wu +39 more
TL;DR: InterPro release 8.0 contains 11 007 entries, representing 2573 domains, 8166 families, 201 repeats, 26 active sites, 21 binding sites and 20 post-translational modification sites.
Integr8 and Genome Reviews: integrated views of complete genomes and proteomes.
Paul J. Kersey,Lawrence Bower,Lorna Morris,Alan Horne,Robert Petryszak,Carola Kanz,Alexander Kanapin,Ujjwal Das,Karine Michoud,Isabelle Phan,Alexandre Gattiker,Tamara Kulikova,Nadeem Faruque,Karyn Duggan,Peter McLaren,Britt Reimholz,Laurent Duret,Simon Penel,Ingmar Reuter,Rolf Apweiler +19 more
TL;DR: This analysis focuses on bacterial and archaeal DNA sequences in which annotation has been upgraded through the integration of data from many sources, including the EMBL Nucleotide Sequence Database, the UniProt Knowledgebase, InterPro, CluSTr, GOA and HOGENOM.
The InterPro Database, 2003 brings increased coverage and new features
Nicola Mulder,Rolf Apweiler,Teresa K. Attwood,Amos Marc Bairoch,Daniel Barrell,Alex Bateman,David Binns,Margaret Biswas,Paul Bradley,Peer Bork,Phillip 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 M. Lonsdale,Ville Silventoinen,Sandra Orchard,Marco Pagni,David Peyruc,Chris P. Ponting,Jeremy D. Selengut,Florence Servant,Christian J. A. Sigrist,Robert M. Vaughan,Evgeny M. Zdobnov +36 more
TL;DR: The latest release of InterPro contains 5629 entries describing 4280 families, 1239 domains, 95 repeats and 15 post-translational modifications, an increase of nearly 15% since the inception of Inter pro.
InterPro in 2011: new developments in the family and domain prediction database
Sarah Hunter,Philip Jones,Alex L. Mitchell,Rolf Apweiler,Teresa K. Attwood,Alex Bateman,Thomas E. Bernard,David Binns,Peer Bork,Sarah W. Burge,Edouard de Castro,Penny Coggill,Matthew Corbett,Ujjwal Das,Louise C. Daugherty,Lauranne Duquenne,Robert D. Finn,Matthew Fraser,Julian Gough,Daniel H. Haft,Nicolas Hulo,Daniel Kahn,Elizabeth Kelly,Ivica Letunic,David M. Lonsdale,Rodrigo Lopez,Martin Madera,John Maslen,Craig McAnulla,Jennifer McDowall,Conor McMenamin,Huaiyu Mi,Prudence Mutowo-Muellenet,Nicola 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 Tate,Manjulapramila Thimmajanarthanan,Paul Thomas,Cathy H. Wu,Corin Yeats,Siew Yit Yong +49 more
TL;DR: An overview of new developments in the InterPro database and its associated software since 2009 is given, including updates to database content, curation processes and Web and programmatic interfaces.