J
John Tate
Researcher at European Bioinformatics Institute
Publications - 27
Citations - 38476
John Tate is an academic researcher from European Bioinformatics Institute. The author has contributed to research in topics: Rfam & Ensembl. The author has an hindex of 20, co-authored 26 publications receiving 34113 citations. Previous affiliations of John Tate include Howard Hughes Medical Institute & Wellcome Trust Sanger Institute.
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Journal ArticleDOI
The Pfam protein families database
Marco Punta,Penny Coggill,Ruth Y. Eberhardt,Jaina Mistry,John 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 +15 more
TL;DR: The definition and use of family-specific, manually curated gathering thresholds are explained and some of the features of domains of unknown function (also known as DUFs) are discussed, which constitute a rapidly growing class of families within Pfam.
Journal ArticleDOI
Pfam: the protein families database.
Robert D. Finn,Alex Bateman,Jody Clements,Penelope Coggill,Ruth Y. Eberhardt,Sean R. Eddy,Andreas Heger,Kirstie Hetherington,Liisa Holm,Jaina Mistry,Erik L. L. Sonnhammer,John Tate,Marco Punta +12 more
TL;DR: Pfam as discussed by the authors is a widely used database of protein families, containing 14 831 manually curated entries in the current version, version 27.0, and has been updated several times since 2012.
Journal ArticleDOI
The Pfam protein families database: towards a more sustainable future
Robert D. Finn,Penelope Coggill,Ruth Y. Eberhardt,Ruth Y. Eberhardt,Sean R. Eddy,Sean R. Eddy,Jaina Mistry,Alex L. Mitchell,Simon C. Potter,Marco Punta,Marco Punta,Matloob Qureshi,Amaia Sangrador-Vegas,Gustavo A. Salazar,John Tate,John Tate,Alex Bateman +16 more
TL;DR: Pfam is now primarily based on the UniProtKB reference proteomes, with the counts of matched sequences and species reported on the website restricted to this smaller set, and the facility to view the relationship between families within a clan has been improved by the introduction of a new tool.
Journal ArticleDOI
COSMIC: the Catalogue Of Somatic Mutations In Cancer
John Tate,Sally Bamford,Harry Jubb,Harry Jubb,Zbyslaw Sondka,David Beare,Nidhi Bindal,Harry Boutselakis,Charlotte G. Cole,Celestino Creatore,Elisabeth Dawson,Peter Fish,Bhavana Harsha,Charlie Hathaway,Steve C Jupe,Chai Yin Kok,Kate Noble,Laura Ponting,Christopher C Ramshaw,Claire Rye,Helen E. Speedy,Raymund Stefancsik,Sam Thompson,Shicai Wang,Sari Ward,Peter J. Campbell,Simon A. Forbes +26 more
TL;DR: Improvements to the public website and data-download systems and new functionality in COSMIC-3D allows exploration of mutations within three-dimensional protein structures, their protein structural and functional impacts, and implications for druggability.
Journal ArticleDOI
COSMIC: somatic cancer genetics at high-resolution.
Simon A. Forbes,David Beare,Harry Boutselakis,Sally Bamford,Nidhi Bindal,John Tate,Charlotte G. Cole,Sari Ward,Elisabeth Dawson,Laura Ponting,Raymund Stefancsik,Bhavana Harsha,Chai Yin Kok,Mingming Jia,Harry Jubb,Zbyslaw Sondka,Sam Thompson,Tisham De,Peter J. Campbell +18 more
TL;DR: COSMIC v78 contains wide resistance mutation profiles across 20 drugs, detailing the recurrence of 301 unique resistance alleles across 1934 drug-resistant tumours.