Persistence and availability of web services in computational biology

PLoS ONE

Volumn 6, Issue 9, 2011, Pages

  Schultheiss, Sebastian J ^a,b   Münch, Marc Christian ^b   Andreeva, Gergana D ^b   Rätsch, Gunnar ^a  

^a FRIEDRICH MIESCHER LABORATORY OF THE MAX PLANCK SOCIETY   (Germany)

^b UNIVERSITY OF TÜBINGEN   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

ACCESS TO INFORMATION; APPLICATION SERVICE PROVIDER; BIOINFORMATICS; BIOLOGY; CITATION ANALYSIS; CONTROLLED STUDY; HUMAN COMPUTER INTERACTION; INFORMATION SERVICE; INTERNET; NUCLEIC ACID ANALYSIS; PROCESS DEVELOPMENT; PUBLISHING; REVIEW; SCORING SYSTEM; WEB BROWSER; ARTICLE; HUMAN; INFORMATION RETRIEVAL; METHODOLOGY; PUBLICATION; REPRODUCIBILITY; STANDARD;

COMPUTATIONAL BIOLOGY; HUMANS; INFORMATION STORAGE AND RETRIEVAL; INTERNET; PERIODICALS AS TOPIC; REPRODUCIBILITY OF RESULTS;

EID: 80053060321     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0024914     Document Type: Review

References (27)

1. Roberts RJ, (2003) Editorial. Nucl Acids Res 31: 3289 doi:10.1093/nar/gkg631.
2. Benson G, (2010) Submitting to the web server issue. Available: http://www.oxfordjournals.org/our_journals/nar/for_authors/submission_webserver.html. Accessed 2011 Aug 29.
3. Veretnik S, Fink JL, Bourne PE, (2008) Computational biology resources lack persistence and usability. PLoS Comput Biol 4: e1000136 doi:10.1371/journal.pcbi.1000136.
4. Brazas MD, Yim DS, Yamada JT, Ouellette BF, (2011) The 2011 bioinformatics links directory update: more resources, tools and databases and features to empower the bioinformatics community. Nucleic Acids Res 39: 3-7 doi:10.1093/nar/gkr514.
5. Brazas MD, Yim DS, Yamada JT, Ouellette BF, (2011) Bioinformatics Links Directory. Available: http://bioinformatics.ca/links_directory. Accessed 2011 Aug 29.
6. Sietmann R, (2009) Open science: Rip. Mix. Publish. Magazin für Computer Technik 26: 154-161.
7. Thornton J, (2009) Data curation in biology - past, present and future. Nature Precedings 3225: 1 doi:10.1038/npre.2009.3225.1.
8. Thornton J, BioSapiens Network (2009) Annotations for all by all- the biosapiens network. Genome Biol 10: 401-401 doi:10.1186/gb-2009-10-2-401.
9. McWilliam H, Valentin F, Goujon M, Li W, Narayanasamy M, et al. (2009) Web services at the european bioinformatics institute-2009. Nucleic Acids Res 37: 6-10 doi:10.1093/nar/gkp302.
10. McGinnis S, Madden TL, (2004) Blast: at the core of a powerful and diverse set of sequence analysis tools. Nucleic Acids Res 32: 20-25 doi:10.1093/nar/gkh435.
11. Sayers EW, Barrett T, Benson DA, Bolton E, Bryant SH, et al. (2010) Database resources of the national center for biotechnology information. Nucleic Acids Res 38: 5-16 doi:10.1093/nar/gkp967.
12. Tao T, (2010) Analysis tool portfolio - how to get in? Personal Communication, NCBI Help Desk Email HD-3446. Computational Biology Web Service Availability 11.
13. Schultheiss SJ, (2011) Ten simple rules for providing a scientific web resource. PLoS Comput Biol 7 doi:10.1371/journal.pcbi.1001126.
14. Palcy S, de Daruvar A, (2009) Elixir bioinformatics user survey. Report WB2, Centre Bioinformatique de Bordeaux, Bordeaux, France.
15. Bhagat J, Tanoh F, Nzuobontane E, Laurent T, Orlowski J, et al. (2010) BioCatalogue: a universal catalogue of web services for the life sciences. Nucl Acids Res 38: W689-694 doi:10.1093/nar/gkq394.
16. Hull D, Wolstencroft K, Stevens R, Goble C, Pocock MR, et al. (2006) Taverna: a tool for building and running workows of services. Nucleic Acids Res 34: 729-732 doi:10.1093/nar/gkl320.
17. Goecks J, Nekrutenko A, Taylor J, The Galaxy Team (2010) Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences. Genome Biol 11 doi:10.1186/gb-2010-11-8-r86.
18. Geeknet, Inc (2010) Sourceforge.net: Open source software development web site. Accessed 14 October 2010. URL http://sourceforge.net/.
19. Bioinformatics Organization (2010) Collaborative development environment. Available: http://www.bioinformatics.org/wiki/Hosting. Accessed 2011 May 9.
20. Roberts RJ, (2004) Editorial. Nucl Acids Res 32: W1 doi:10.1093/nar/gkh487.
21. Roberts RJ, (2005) Editorial. Nucl Acids Res 33: W1 doi:10.1093/nar/gki592.
22. Roberts RJ, (2006) Editorial. Nucl Acids Res 34: W1 doi:10.1093/nar/gkl385.
23. Benson G, (2007) Editorial. Nucl Acids Res 35: W1 doi:10.1093/nar/gkm484.
24. Benson G, (2008) Editorial. Nucl Acids Res 36: W1 doi:10.1093/nar/gkn381.
25. Benson G, (2009) Editorial: Nucleic acids research annual web server issue in 2009. Nucl Acids Res 37: W1-2 doi:10.1093/nar/gkp505.
26. Garrett D, (2010) Flagfox. Available: http://flagfox.net/. Accessed 2011 Aug 29.
27. Tufte ER, (2006) Beautiful Evidence Cheshire, CT, USA Graphics Press.