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SubViral RNA: a database of the smallest known auto-replicable RNA species

Nucleic Acids Research
Oxford University Press
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gkr1065 290..301 The Pfam protein families database Marco Punta1,*, Penny C. Coggill1, Ruth Y. Eberhardt1, Jaina Mistry1, John Tate1, Chris Boursnell1, Ningze Pang1, Kristoffer Forslund2, Goran Ceric3, Jody Clements3, Andreas Heger4, Liisa Holm5, Erik L. L. Sonnhammer2, Sean R. Eddy3, Alex Bateman1 and Robert D. Finn3 1Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton CB10 1SA, UK, 2Stockholm Bioinformatics Center, Swedish eScience Research Center, Department of Biochemistry and Biophysics, Science for Life Laboratory, Stockholm University, Box 1031, SE-17121 Solna, Sweden, 3HHMI Janelia Farm Research Campus, 19700 Helix Drive, Ashburn, VA 20147, USA, 4Department of Physiology, Anatomy and Genetics, MRC Functional Genomics Unit, University of Oxford, Oxford, OX1 3QX, UK and 5Institute of Biotechnology and Department of Biological and Environmental Sciences, University of Helsinki, PO Box 56 (Viikinkaari 5), 00014 Helsinki, Finland Received October 7, 2011; Revised October 26, 2011; Accepted October 27, 2011 ABSTRACT Pfam is a widely used database of protein families, currently containing more than 13 000 manually curated protein families as of release 26.0. Pfam is available via servers in the UK (http://pfam.sanger, the USA ( and Sweden ( Here, we report on changes that have occurred since our 2010 NAR paper (release 24.0). Over the last 2 years, we have generated 1840 new families and increased coverage of the UniProt Knowledgebase (UniProtKB) to nearly 80%. Notably, we have taken the step of opening up the annotation of our families to the Wikipedia community, by linking Pfam families to relevant Wikipedia pages and encouraging the Pfam and Wikipedia communities to improve and expand those pages. We continue to improve the Pfam website and add new visualiza- tions, such as the ‘sunburst’ representation of taxonomic distribution of families. In this work we additionally address two topics that will be

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