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Robert D. Finn
Researcher at European Bioinformatics Institute
Publications - 171
Citations - 77151
Robert D. Finn is an academic researcher from European Bioinformatics Institute. The author has contributed to research in topics: Metagenomics & Biology. The author has an hindex of 62, co-authored 153 publications receiving 60674 citations. Previous affiliations of Robert D. Finn include Wellcome Trust & Institute for Systems Biology.
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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
HMMER web server: interactive sequence similarity searching
TL;DR: This work has focused on minimizing search times and the ability to rapidly display tabular results, regardless of the number of matches found, developing graphical summaries of the search results to provide quick, intuitive appraisement of them.
Journal ArticleDOI
The Pfam protein families database in 2019.
Sara El-Gebali,Jaina Mistry,Alex Bateman,Sean R. Eddy,Aurelien Luciani,Simon C. Potter,Matloob Qureshi,Lorna Richardson,Gustavo A. Salazar,Alfredo Smart,Erik L. L. Sonnhammer,Layla Hirsh,Layla Hirsh,Lisanna Paladin,Damiano Piovesan,Silvio C. E. Tosatto,Robert D. Finn +16 more
TL;DR: A significant comparison to the structural classification database that led to the creation of 825 new families based on their set of uncharacterized families (EUFs) was carried out and Pfam entries were connected to the Sequence Ontology (SO) through mapping of the Pfam type definitions to SO terms.