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The InterPro protein families database: the classification resource after 15 years

Alex Mitchell 1 Hsin-yu Chang 1 Louise Daugherty 1 Matthew Fraser 1 Sarah Hunter 1 Rodrigo Lopez 1 Craig Mcanulla 1 Conor Mcmenamin 1 Gift Nuka 1 Sebastien Pesseat 1 Amaia Sangrador-Vegas 1 Maxim Scheremetjew 1 Claudia Rato 1 Siew-yit yong 1 Alex Bateman 1 Marco Punta 1 Teresa K Attwood 2 Christian J A Sigrist 3 Nicole Redaschi 4 Catherine Rivoire 3 Ioannis Xenarios 3, 5, 6 Daniel Kahn 7 Dominique Guyot 7, 8 Peer Bork 9 Ivica Letunic 9 Julian Gough 10 Matt Oates 10 Daniel Haft 11 Hongzhan Huang 12 Darren A Natale 12 Cathy H Wu 13, 14 Christine Orengo 15 Ian Sillitoe 15 Huaiyu Mi 16 Paul D Thomas 16 Robert D Finn 1, * 
Abstract : The InterPro database (http://www.ebi.ac.uk/interpro/) is a freely available resource that can be used to classify sequences into protein families and to predict the presence of important domains and sites. Central to the InterPro database are predictive models, known as signatures, from a range of different protein family databases that have different biological focuses and use different methodological approaches to classify protein families and domains. InterPro integrates these signatures, capitalizing on the respective strengths of the individual databases, to produce a powerful protein classification resource. Here, we report on the status of InterPro as it enters its 15th year of operation, and give an overview of new developments with the database and its associated Web interfaces and software. In particular, the new domain architecture search tool is described and the process of mapping of Gene Ontology terms to InterPro is outlined. We also discuss the challenges faced by the resource given the explosive growth in sequence data in recent years. InterPro (version 48.0) contains 36,766 member database signatures integrated into 26,238 InterPro entries, an increase of over 3993 entries (5081 signatures), since 2012.
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Alex Mitchell, Hsin-yu Chang, Louise Daugherty, Matthew Fraser, Sarah Hunter, et al.. The InterPro protein families database: the classification resource after 15 years. Nucleic Acids Research, Oxford University Press, 2015, 43 (D1), pp.D213-D221. ⟨10.1093/nar/gku1243⟩. ⟨hal-01222896⟩

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