Literature DB >> 18945806

The RNA WikiProject: community annotation of RNA families.

Jennifer Daub, Paul P Gardner, John Tate, Daniel Ramsköld, Magnus Manske, William G Scott, Zasha Weinberg, Sam Griffiths-Jones, Alex Bateman.   

Abstract

The online encyclopedia Wikipedia has become one of the most important online references in the world and has a substantial and growing scientific content. A search of Google with many RNA-related keywords identifies a Wikipedia article as the top hit. We believe that the RNA community has an important and timely opportunity to maximize the content and quality of RNA information in Wikipedia. To this end, we have formed the RNA WikiProject (http://en.wikipedia.org/wiki/Wikipedia:WikiProject_RNA) as part of the larger Molecular and Cellular Biology WikiProject. We have created over 600 new Wikipedia articles describing families of noncoding RNAs based on the Rfam database, and invite the community to update, edit, and correct these articles. The Rfam database now redistributes this Wikipedia content as the primary textual annotation of its RNA families. Users can, therefore, for the first time, directly edit the content of one of the major RNA databases. We believe that this Wikipedia/Rfam link acts as a functioning model for incorporating community annotation into molecular biology databases.

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Year:  2008        PMID: 18945806      PMCID: PMC2590952          DOI: 10.1261/rna.1200508

Source DB:  PubMed          Journal:  RNA        ISSN: 1355-8382            Impact factor:   4.942


  6 in total

1.  Rfam: an RNA family database.

Authors:  Sam Griffiths-Jones; Alex Bateman; Mhairi Marshall; Ajay Khanna; Sean R Eddy
Journal:  Nucleic Acids Res       Date:  2003-01-01       Impact factor: 16.971

2.  Internet encyclopaedias go head to head.

Authors:  Jim Giles
Journal:  Nature       Date:  2005-12-15       Impact factor: 49.962

3.  Proteopedia - a scientific 'wiki' bridging the rift between three-dimensional structure and function of biomacromolecules.

Authors:  Eran Hodis; Jaime Prilusky; Eric Martz; Israel Silman; John Moult; Joel L Sussman
Journal:  Genome Biol       Date:  2008-08-03       Impact factor: 13.583

4.  Rfam: annotating non-coding RNAs in complete genomes.

Authors:  Sam Griffiths-Jones; Simon Moxon; Mhairi Marshall; Ajay Khanna; Sean R Eddy; Alex Bateman
Journal:  Nucleic Acids Res       Date:  2005-01-01       Impact factor: 16.971

5.  A gene wiki for community annotation of gene function.

Authors:  Jon W Huss; Camilo Orozco; James Goodale; Chunlei Wu; Serge Batalov; Tim J Vickers; Faramarz Valafar; Andrew I Su
Journal:  PLoS Biol       Date:  2008-07-08       Impact factor: 8.029

6.  Calling on a million minds for community annotation in WikiProteins.

Authors:  Barend Mons; Michael Ashburner; Christine Chichester; Erik van Mulligen; Marc Weeber; Johan den Dunnen; Gert-Jan van Ommen; Mark Musen; Matthew Cockerill; Henning Hermjakob; Albert Mons; Abel Packer; Roberto Pacheco; Suzanna Lewis; Alfred Berkeley; William Melton; Nickolas Barris; Jimmy Wales; Gerard Meijssen; Erik Moeller; Peter Jan Roes; Katy Borner; Amos Bairoch
Journal:  Genome Biol       Date:  2008-05-28       Impact factor: 13.583

  6 in total
  32 in total

1.  ProbKnot: fast prediction of RNA secondary structure including pseudoknots.

Authors:  Stanislav Bellaousov; David H Mathews
Journal:  RNA       Date:  2010-08-10       Impact factor: 4.942

Review 2.  Origin and evolution of the ribosome.

Authors:  George E Fox
Journal:  Cold Spring Harb Perspect Biol       Date:  2010-06-09       Impact factor: 10.005

3.  Seeking health information online: does Wikipedia matter?

Authors:  Michaël R Laurent; Tim J Vickers
Journal:  J Am Med Inform Assoc       Date:  2009-04-23       Impact factor: 4.497

4.  Thermodynamic characterization of the Saccharomyces cerevisiae telomerase RNA pseudoknot domain in vitro.

Authors:  Fei Liu; Yoora Kim; Charmion Cruickshank; Carla A Theimer
Journal:  RNA       Date:  2012-03-26       Impact factor: 4.942

5.  Minimal Hammerhead Ribozymes with Uncompromised Catalytic Activity.

Authors:  Sara M O'Rourke; William Estell; William G Scott
Journal:  J Mol Biol       Date:  2015-05-14       Impact factor: 5.469

6.  The Gene Wiki: community intelligence applied to human gene annotation.

Authors:  Jon W Huss; Pierre Lindenbaum; Michael Martone; Donabel Roberts; Angel Pizarro; Faramarz Valafar; John B Hogenesch; Andrew I Su
Journal:  Nucleic Acids Res       Date:  2009-09-15       Impact factor: 16.971

7.  PDBWiki: added value through community annotation of the Protein Data Bank.

Authors:  Henning Stehr; Jose M Duarte; Michael Lappe; Jong Bhak; Dan M Bolser
Journal:  Database (Oxford)       Date:  2010-07-06       Impact factor: 3.451

8.  Ten simple rules for editing Wikipedia.

Authors:  Darren W Logan; Massimo Sandal; Paul P Gardner; Magnus Manske; Alex Bateman
Journal:  PLoS Comput Biol       Date:  2010-09-30       Impact factor: 4.475

9.  Enhancing navigation in biomedical databases by community voting and database-driven text classification.

Authors:  Timo Duchrow; Timur Shtatland; Daniel Guettler; Misha Pivovarov; Stefan Kramer; Ralph Weissleder
Journal:  BMC Bioinformatics       Date:  2009-10-03       Impact factor: 3.169

10.  Community annotation in biology.

Authors:  Raja Mazumder; Darren A Natale; Jessica Anne Ecalnir Julio; Lai-Su Yeh; Cathy H Wu
Journal:  Biol Direct       Date:  2010-02-18       Impact factor: 4.540

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