دورية أكاديمية
Tools and data services registry: a community effort to document bioinformatics resources.
| العنوان: | Tools and data services registry: a community effort to document bioinformatics resources. |
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| المؤلفون: | Ison J; Center for Biological Sequence Analysis Department of Systems Biology, Technical University of Denmark, Denmark jison@cbs.dtu.dk., Rapacki K; Center for Biological Sequence Analysis Department of Systems Biology, Technical University of Denmark, Denmark., Ménager H; Centre d'Informatique pour la Biologie, C3BI, Institut Pasteur, France., Kalaš M; Computational Biology Unit, Department of Informatics, University of Bergen, Norway., Rydza E; Center for Biological Sequence Analysis Department of Systems Biology, Technical University of Denmark, Denmark., Chmura P; Center for Biological Sequence Analysis Department of Systems Biology, Technical University of Denmark, Denmark., Anthon C; Department of Veterinary Clinical and Animal Sciences, Faculty for Health and Medical Sciences, University of Copenhagen, Denmark., Beard N; School of Computer Science, University of Manchester, UK., Berka K; Department of Physical Chemistry, RCPTM, Faculty of Science, Palacky University, Czech Republic., Bolser D; The European Bioinformatics Institute (EMBL-EBI), UK., Booth T; NEBC Wallingford, Centre for Ecology and Hydrology, UK., Bretaudeau A; INRA, UMR Institut de Génétique, Environnement et Protection des Plantes (IGEPP), BioInformatics Platform for Agroecosystems Arthropods (BIPAA), France INRIA, IRISA, GenOuest Core Facility, France., Brezovsky J; Loschmidt Laboratories, Department of Experimental Biology and Research Centre for Toxic Compounds in the Environment RECETOX, Masaryk University, Czech Republic., Casadio R; Bologna Biocomputing Group, University of Bologna, Italy., Cesareni G; Dept. of Biology, University of Rome Tor Vergata, Italy., Coppens F; Department of Plant Systems Biology, VIB, Belgium Department of Plant Biotechnology and Bioinformatics, Ghent University, Belgium., Cornell M; Faculty of Life Sciences, University of Manchester, UK., Cuccuru G; Bioinformatics, CRS4, Italy., Davidsen K; Center for Biological Sequence Analysis Department of Systems Biology, Technical University of Denmark, Denmark., Vedova GD; Dept. of Computer Science, Systems and Communication. Univ. Milano-Bicocca, Italy., Dogan T; UniProt, European Bioinformatics Institute (EMBL-EBI), UK., Doppelt-Azeroual O; Centre d'Informatique pour la Biologie, C3BI, Institut Pasteur, France., Emery L; The European Bioinformatics Institute (EMBL-EBI), UK., Gasteiger E; SIB Swiss Institute of Bioinformatics, Switzerland., Gatter T; Faculty of Technology and Center for Biotechnology, Universität Bielefeld, Germany., Goldberg T; Department of Informatics, Bioinformatics-I12, TUM, Germany., Grosjean M; Institut Français de Bioinformatique (French Institute of Bioinformatics), CNRS, UMS3601, France., Grüning B; Albert-Ludwigs-Universität Freiburg, Fahnenbergplatz, 79085 Freiburg., Helmer-Citterich M; Centre for Molecular Bioinformatics, Dept. of Biology, University of Rome Tor Vergata, Italy., Ienasescu H; Bioinformatics Centre, Department of Biology, University of Copenhagen, Denmark., Ioannidis V; SIB Swiss Institute of Bioinformatics, Switzerland., Jespersen MC; Center for Biological Sequence Analysis Department of Systems Biology, Technical University of Denmark, Denmark., Jimenez R; The European Bioinformatics Institute (EMBL-EBI), UK., Juty N; The European Bioinformatics Institute (EMBL-EBI), UK., Juvan P; Centre for Functional Genomics and Biochips, Faculty of Medicine, University of Ljubljana, Slovenia., Koch M; The European Bioinformatics Institute (EMBL-EBI), UK., Laibe C; The European Bioinformatics Institute (EMBL-EBI), UK., Li JW; Faculty of Medicine, The Chinese University of Hong Kong, China Hong Kong Bioinformatics Centre, School of Life Sciences,The Chinese University of Hong Kong, China., Licata L; Dept. of Biology, University of Rome Tor Vergata, Italy., Mareuil F; Centre d'Informatique pour la Biologie, C3BI, Institut Pasteur, France., Mičetić I; Department of Biomedical Sciences, University of Padua, Italy., Friborg RM; Bioinformatics Research Centre (BiRC), Denmark., Moretti S; SIB Swiss Institute of Bioinformatics, Switzerland Department of Ecology and Evolution, Biophore, Evolutionary Bioinformatics group, University of Lausanne, Switzerland., Morris C; STFC, Daresbury Laboratory, UK., Möller S; Department of Dermatology, University of Lübeck, Germany Institute for Biostatistics and Informatics in Medicine and Ageing Research, Rostock University Medical Center, Germany., Nenadic A; School of Computer Science, University of Manchester, UK., Peterson H; Institute of Computer Science, University of Tartu, Estonia., Profiti G; Bologna Biocomputing Group, University of Bologna, Italy., Rice P; Department of Computing, William Penney Laboratory, Imperial College London, UK., Romano P; IRCCS AOU San Martino IST, Italy., Roncaglia P; The European Bioinformatics Institute (EMBL-EBI), UK., Saidi R; UniProt, European Bioinformatics Institute (EMBL-EBI), UK., Schafferhans A; Department of Informatics, Bioinformatics-I12, TUM, Germany., Schwämmle V; Protein Research Group, Department for Biochemistry and Molecular Biology, University of Southern Denmark, Denmark., Smith C; Instruct, WTCHG, UK., Sperotto MM; Center for Biological Sequence Analysis Department of Systems Biology, Technical University of Denmark, Denmark., Stockinger H; SIB Swiss Institute of Bioinformatics, Switzerland., Vařeková RS; Central European Institute of Technology (CEITEC), Czech Republic., Tosatto SC; Department of Biomedical Sciences, University of Padua, Italy., de la Torre V; National Bioinformatics Institute Unit (INB), Fundacion Centro Nacional de Investigaciones Oncologicas, Spain., Uva P; Bioinformatics, CRS4, Italy., Via A; Dept. of Physics, Sapienza University, Italy., Yachdav G; Department of Informatics, Bioinformatics-I12, TUM, Germany., Zambelli F; Institute of Biomembranes and Bioenergetics, National Research Council (CNR), and Dept. of Biosciences, University of Milano, Italy., Vriend G; Radboud University Medical Centre, CMBI, Netherlands., Rost B; Department of Informatics, Bioinformatics-I12, TUM, Germany., Parkinson H; The European Bioinformatics Institute (EMBL-EBI), UK., Løngreen P; Center for Biological Sequence Analysis Department of Systems Biology, Technical University of Denmark, Denmark., Brunak S; Center for Biological Sequence Analysis Department of Systems Biology, Technical University of Denmark, Denmark Novo Nordisk Foundation Center for Protein Research, Faculty of Health and Medical Sciences, University of Copenhagen, Denmark. |
| المصدر: | Nucleic acids research [Nucleic Acids Res] 2016 Jan 04; Vol. 44 (D1), pp. D38-47. Date of Electronic Publication: 2015 Nov 03. |
| نوع المنشور: | Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't |
| اللغة: | English |
| بيانات الدورية: | Publisher: Oxford University Press Country of Publication: England NLM ID: 0411011 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1362-4962 (Electronic) Linking ISSN: 03051048 NLM ISO Abbreviation: Nucleic Acids Res Subsets: MEDLINE |
| أسماء مطبوعة: | Publication: 1992- : Oxford : Oxford University Press Original Publication: London, Information Retrieval ltd. |
| مواضيع طبية MeSH: | Computational Biology* , Registries*, Data Curation ; Software |
| مستخلص: | Life sciences are yielding huge data sets that underpin scientific discoveries fundamental to improvement in human health, agriculture and the environment. In support of these discoveries, a plethora of databases and tools are deployed, in technically complex and diverse implementations, across a spectrum of scientific disciplines. The corpus of documentation of these resources is fragmented across the Web, with much redundancy, and has lacked a common standard of information. The outcome is that scientists must often struggle to find, understand, compare and use the best resources for the task at hand.Here we present a community-driven curation effort, supported by ELIXIR-the European infrastructure for biological information-that aspires to a comprehensive and consistent registry of information about bioinformatics resources. The sustainable upkeep of this Tools and Data Services Registry is assured by a curation effort driven by and tailored to local needs, and shared amongst a network of engaged partners.As of November 2015, the registry includes 1785 resources, with depositions from 126 individual registrations including 52 institutional providers and 74 individuals. With community support, the registry can become a standard for dissemination of information about bioinformatics resources: we welcome everyone to join us in this common endeavour. The registry is freely available at https://bio.tools. (© The Author(s) 2015. Published by Oxford University Press on behalf of Nucleic Acids Research.) |
| References: | Database (Oxford). 2011 Nov 13;2011:bar049. (PMID: 22083790) Bioinformatics. 2012 Apr 1;28(7):1035-7. (PMID: 22332238) Nucleic Acids Res. 2014 Jan;42(Database issue):D191-8. (PMID: 24253303) Bioinformatics. 2010 Oct 15;26(20):2617-9. (PMID: 20739307) Nat Biotechnol. 2006 Jul;24(7):801-3. (PMID: 16841067) PLoS Comput Biol. 2015 Jan 29;11(1):e1003905. (PMID: 25633715) BMC Bioinformatics. 2010 Dec 21;11 Suppl 12:S5. (PMID: 21210984) Genome Biol. 2004;5(10):R80. (PMID: 15461798) PLoS Comput Biol. 2015 Feb 05;11(2):e1003972. (PMID: 25654371) Nucleic Acids Res. 2015 Jul 1;43(W1):W589-98. (PMID: 25897122) Nucleic Acids Res. 2012 Jul;40(Web Server issue):W3-W12. (PMID: 22700703) PLoS Comput Biol. 2010 Sep 30;6(9):. (PMID: 20941386) Bioinformatics. 2012 Oct 15;28(20):2693-5. (PMID: 22877863) Bioinformatics. 2013 Apr 15;29(8):1103-4. (PMID: 23435069) Bioinformatics. 2009 Jun 1;25(11):1422-3. (PMID: 19304878) Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W3-24. (PMID: 15980476) Nucleic Acids Res. 2000 Jan 1;28(1):1-7. (PMID: 10592167) Nucleic Acids Res. 2014 Jan;42(Database issue):D358-63. (PMID: 24234451) Nucleic Acids Res. 1999 Jan 1;27(1):1-9. (PMID: 9847130) Bioinformatics. 2009 Aug 15;25(16):2090-1. (PMID: 19460889) Bioinformatics. 2013 May 15;29(10):1325-32. (PMID: 23479348) Bioinformatics. 2012 May 1;28(9):1272-3. (PMID: 22419780) Genome Res. 2002 Oct;12(10):1611-8. (PMID: 12368254) Nucleic Acids Res. 2015 Jan;43(Database issue):D1-5. (PMID: 25593347) Nucleic Acids Res. 2010 Jul;38(Web Server issue):W689-94. (PMID: 20484378) Nucleic Acids Res. 2010 Jul;38(Web Server issue):W683-8. (PMID: 20462862) Elife. 2015 Jul 08;4:. (PMID: 26153621) F1000Res. 2014 Feb 13;3:55. (PMID: 25075290) F1000Res. 2014 Feb 19;3:62. (PMID: 24715981) Nucleic Acids Res. 2012 Jan;40(Database issue):D1313-7. (PMID: 22086956) PLoS Comput Biol. 2011 Oct;7(10):e1002216. (PMID: 22046109) BMC Bioinformatics. 2014;15 Suppl 14:S7. (PMID: 25472764) |
| معلومات مُعتمدة: | U41 HG002273 United States HG NHGRI NIH HHS; 5U41HG002273-14 United States HG NHGRI NIH HHS |
| تواريخ الأحداث: | Date Created: 20151106 Date Completed: 20160615 Latest Revision: 20220316 |
| رمز التحديث: | 20240628 |
| مُعرف محوري في PubMed: | PMC4702812 |
| DOI: | 10.1093/nar/gkv1116 |
| PMID: | 26538599 |
| قاعدة البيانات: | MEDLINE |
Full Text Finder | تدمد: | 1362-4962 |
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| DOI: | 10.1093/nar/gkv1116 |