Literature DB >> 18238804

Interoperability with Moby 1.0--it's better than sharing your toothbrush!

Mark D Wilkinson, Martin Senger, Edward Kawas, Richard Bruskiewich, Jerome Gouzy, Celine Noirot, Philippe Bardou, Ambrose Ng, Dirk Haase, Enrique de Andres Saiz, Dennis Wang, Frank Gibbons, Paul M K Gordon, Christoph W Sensen, Jose Manuel Rodriguez Carrasco, José M Fernández, Lixin Shen, Matthew Links, Michael Ng, Nina Opushneva, Pieter B T Neerincx, Jack A M Leunissen, Rebecca Ernst, Simon Twigger, Bjorn Usadel, Benjamin Good, Yan Wong, Lincoln Stein, William Crosby, Johan Karlsson, Romina Royo, Iván Párraga, Sergio Ramírez, Josep Lluis Gelpi, Oswaldo Trelles, David G Pisano, Natalia Jimenez, Arnaud Kerhornou, Roman Rosset, Leire Zamacola, Joaquin Tarraga, Jaime Huerta-Cepas, Jose María Carazo, Joaquin Dopazo, Roderic Guigo, Arcadi Navarro, Modesto Orozco, Alfonso Valencia, M Gonzalo Claros, Antonio J Pérez, Jose Aldana, M Mar Rojano, Raul Fernandez-Santa Cruz, Ismael Navas, Gary Schiltz, Andrew Farmer, Damian Gessler, Heiko Schoof, Andreas Groscurth.   

Abstract

The BioMoby project was initiated in 2001 from within the model organism database community. It aimed to standardize methodologies to facilitate information exchange and access to analytical resources, using a consensus driven approach. Six years later, the BioMoby development community is pleased to announce the release of the 1.0 version of the interoperability framework, registry Application Programming Interface and supporting Perl and Java code-bases. Together, these provide interoperable access to over 1400 bioinformatics resources worldwide through the BioMoby platform, and this number continues to grow. Here we highlight and discuss the features of BioMoby that make it distinct from other Semantic Web Service and interoperability initiatives, and that have been instrumental to its deployment and use by a wide community of bioinformatics service providers. The standard, client software, and supporting code libraries are all freely available at http://www.biomoby.org/.

Mesh:

Year:  2008        PMID: 18238804     DOI: 10.1093/bib/bbn003

Source DB:  PubMed          Journal:  Brief Bioinform        ISSN: 1467-5463            Impact factor:   11.622


  26 in total

1.  Scientific workflow management in proteomics.

Authors:  Jeroen S de Bruin; André M Deelder; Magnus Palmblad
Journal:  Mol Cell Proteomics       Date:  2012-03-12       Impact factor: 5.911

2.  Bringing Web 2.0 to bioinformatics.

Authors:  Zhang Zhang; Kei-Hoi Cheung; Jeffrey P Townsend
Journal:  Brief Bioinform       Date:  2008-10-08       Impact factor: 11.622

Review 3.  Lowering industry firewalls: pre-competitive informatics initiatives in drug discovery.

Authors:  Michael R Barnes; Lee Harland; Steven M Foord; Matthew D Hall; Ian Dix; Scott Thomas; Bryn I Williams-Jones; Cory R Brouwer
Journal:  Nat Rev Drug Discov       Date:  2009-07-17       Impact factor: 84.694

4.  KBWS: an EMBOSS associated package for accessing bioinformatics web services.

Authors:  Kazuki Oshita; Kazuharu Arakawa; Masaru Tomita
Journal:  Source Code Biol Med       Date:  2011-04-29

5.  MOWServ: a web client for integration of bioinformatic resources.

Authors:  Sergio Ramírez; Antonio Muñoz-Mérida; Johan Karlsson; Maximiliano García; Antonio J Pérez-Pulido; M Gonzalo Claros; Oswaldo Trelles
Journal:  Nucleic Acids Res       Date:  2010-06-04       Impact factor: 16.971

6.  A quick guide to large-scale genomic data mining.

Authors:  Curtis Huttenhower; Oliver Hofmann
Journal:  PLoS Comput Biol       Date:  2010-05-27       Impact factor: 4.475

7.  OryGenesDB 2008 update: database interoperability for functional genomics of rice.

Authors:  Gaëtan Droc; Christophe Périn; Sébastien Fromentin; Pierre Larmande
Journal:  Nucleic Acids Res       Date:  2008-11-26       Impact factor: 16.971

8.  OligoRAP - an Oligo Re-Annotation Pipeline to improve annotation and estimate target specificity.

Authors:  Pieter B T Neerincx; Han Rauwerda; Haisheng Nie; Martien A M Groenen; Timo M Breit; Jack A M Leunissen
Journal:  BMC Proc       Date:  2009-07-16

9.  Bio-jETI: a framework for semantics-based service composition.

Authors:  Anna-Lena Lamprecht; Tiziana Margaria; Bernhard Steffen
Journal:  BMC Bioinformatics       Date:  2009-10-01       Impact factor: 3.307

10.  Initial implementation of a comparative data analysis ontology.

Authors:  Francisco Prosdocimi; Brandon Chisham; Enrico Pontelli; Julie D Thompson; Arlin Stoltzfus
Journal:  Evol Bioinform Online       Date:  2009-07-03       Impact factor: 1.625

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