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EMBOSS: the European Molecular Biology Open Software Suite.
Rice P, Longden I, Bleasby A. Rice P, et al. Trends Genet. 2000 Jun;16(6):276-7. doi: 10.1016/s0168-9525(00)02024-2. Trends Genet. 2000. PMID: 10827456 No abstract available.
EDAM: an ontology of bioinformatics operations, types of data and identifiers, topics and formats.
Ison J, Kalas M, Jonassen I, Bolser D, Uludag M, McWilliam H, Malone J, Lopez R, Pettifer S, Rice P. Ison J, et al. Among authors: rice p. Bioinformatics. 2013 May 15;29(10):1325-32. doi: 10.1093/bioinformatics/btt113. Epub 2013 Mar 11. Bioinformatics. 2013. PMID: 23479348 Free PMC article.
BioMart Central Portal--unified access to biological data.
Haider S, Ballester B, Smedley D, Zhang J, Rice P, Kasprzyk A. Haider S, et al. Among authors: rice p. Nucleic Acids Res. 2009 Jul;37(Web Server issue):W23-7. doi: 10.1093/nar/gkp265. Epub 2009 May 6. Nucleic Acids Res. 2009. PMID: 19420058 Free PMC article.
Artemis: sequence visualization and annotation.
Rutherford K, Parkhill J, Crook J, Horsnell T, Rice P, Rajandream MA, Barrell B. Rutherford K, et al. Among authors: rice p. Bioinformatics. 2000 Oct;16(10):944-5. doi: 10.1093/bioinformatics/16.10.944. Bioinformatics. 2000. PMID: 11120685
SOAP-based services provided by the European Bioinformatics Institute.
Pillai S, Silventoinen V, Kallio K, Senger M, Sobhany S, Tate J, Velankar S, Golovin A, Henrick K, Rice P, Stoehr P, Lopez R. Pillai S, et al. Among authors: rice p. Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W25-8. doi: 10.1093/nar/gki491. Nucleic Acids Res. 2005. PMID: 15980463 Free PMC article.
Tools and data services registry: a community effort to document bioinformatics resources.
Ison J, Rapacki K, Ménager H, Kalaš M, Rydza E, Chmura P, Anthon C, Beard N, Berka K, Bolser D, Booth T, Bretaudeau A, Brezovsky J, Casadio R, Cesareni G, Coppens F, Cornell M, Cuccuru G, Davidsen K, Vedova GD, Dogan T, Doppelt-Azeroual O, Emery L, Gasteiger E, Gatter T, Goldberg T, Grosjean M, Grüning B, Helmer-Citterich M, Ienasescu H, Ioannidis V, Jespersen MC, Jimenez R, Juty N, Juvan P, Koch M, Laibe C, Li JW, Licata L, Mareuil F, Mičetić I, Friborg RM, Moretti S, Morris C, Möller S, Nenadic A, Peterson H, Profiti G, Rice P, Romano P, Roncaglia P, Saidi R, Schafferhans A, Schwämmle V, Smith C, Sperotto MM, Stockinger H, Vařeková RS, Tosatto SC, de la Torre V, Uva P, Via A, Yachdav G, Zambelli F, Vriend G, Rost B, Parkinson H, Løngreen P, Brunak S. Ison J, et al. Among authors: rice p. Nucleic Acids Res. 2016 Jan 4;44(D1):D38-47. doi: 10.1093/nar/gkv1116. Epub 2015 Nov 3. Nucleic Acids Res. 2016. PMID: 26538599 Free PMC article.
The nucleotide sequence of Saccharomyces cerevisiae chromosome IX.
Churcher C, Bowman S, Badcock K, Bankier A, Brown D, Chillingworth T, Connor R, Devlin K, Gentles S, Hamlin N, Harris D, Horsnell T, Hunt S, Jagels K, Jones M, Lye G, Moule S, Odell C, Pearson D, Rajandream M, Rice P, Rowley N, Skelton J, Smith V, Barrell B, et al. Churcher C, et al. Among authors: rice p. Nature. 1997 May 29;387(6632 Suppl):84-7. Nature. 1997. PMID: 9169870
The nucleotide sequence of Saccharomyces cerevisiae chromosome XIII.
Bowman S, Churcher C, Badcock K, Brown D, Chillingworth T, Connor R, Dedman K, Devlin K, Gentles S, Hamlin N, Hunt S, Jagels K, Lye G, Moule S, Odell C, Pearson D, Rajandream M, Rice P, Skelton J, Walsh S, Whitehead S, Barrell B. Bowman S, et al. Among authors: rice p. Nature. 1997 May 29;387(6632 Suppl):90-3. Nature. 1997. PMID: 9169872
The EMBRACE web service collection.
Pettifer S, Ison J, Kalas M, Thorne D, McDermott P, Jonassen I, Liaquat A, Fernández JM, Rodriguez JM; INB-Partners, Pisano DG, Blanchet C, Uludag M, Rice P, Bartaseviciute E, Rapacki K, Hekkelman M, Sand O, Stockinger H, Clegg AB, Bongcam-Rudloff E, Salzemann J, Breton V, Attwood TK, Cameron G, Vriend G. Pettifer S, et al. Among authors: rice p. Nucleic Acids Res. 2010 Jul;38(Web Server issue):W683-8. doi: 10.1093/nar/gkq297. Epub 2010 May 12. Nucleic Acids Res. 2010. PMID: 20462862 Free PMC article.
The Sanger FASTQ file format for sequences with quality scores, and the Solexa/Illumina FASTQ variants.
Cock PJ, Fields CJ, Goto N, Heuer ML, Rice PM. Cock PJ, et al. Nucleic Acids Res. 2010 Apr;38(6):1767-71. doi: 10.1093/nar/gkp1137. Epub 2009 Dec 16. Nucleic Acids Res. 2010. PMID: 20015970 Free PMC article. Review.
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