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Computational identification and analysis of protein short linear motifs.
Davey NE, Edwards RJ, Shields DC. Davey NE, et al. Among authors: edwards rj. Front Biosci (Landmark Ed). 2010 Jun 1;15:801-25. doi: 10.2741/3647. Front Biosci (Landmark Ed). 2010. PMID: 20515727 Review.
GASP: Gapped Ancestral Sequence Prediction for proteins.
Edwards RJ, Shields DC. Edwards RJ, et al. BMC Bioinformatics. 2004 Sep 6;5:123. doi: 10.1186/1471-2105-5-123. BMC Bioinformatics. 2004. PMID: 15350199 Free PMC article.
SLiMDisc: short, linear motif discovery, correcting for common evolutionary descent.
Davey NE, Shields DC, Edwards RJ. Davey NE, et al. Among authors: edwards rj. Nucleic Acids Res. 2006 Jul 19;34(12):3546-54. doi: 10.1093/nar/gkl486. Print 2006. Nucleic Acids Res. 2006. PMID: 16855291 Free PMC article.
Absolute net charge and the biological activity of oligopeptides.
Parthasarathi L, Devocelle M, S√łndergaard C, Baran I, O'Dushlaine CT, Davey NE, Edwards RJ, Moran N, Kenny D, Shields DC. Parthasarathi L, et al. Among authors: edwards rj. J Chem Inf Model. 2006 Sep-Oct;46(5):2183-90. doi: 10.1021/ci0600760. J Chem Inf Model. 2006. PMID: 16995748
Evaluation of whether accelerated protein evolution in chordates has occurred before, after, or simultaneously with gene duplication.
Johnston CR, O'Dushlaine C, Fitzpatrick DA, Edwards RJ, Shields DC. Johnston CR, et al. Among authors: edwards rj. Mol Biol Evol. 2007 Jan;24(1):315-23. doi: 10.1093/molbev/msl162. Epub 2006 Oct 25. Mol Biol Evol. 2007. PMID: 17065596
Bioinformatic discovery of novel bioactive peptides.
Edwards RJ, Moran N, Devocelle M, Kiernan A, Meade G, Signac W, Foy M, Park SD, Dunne E, Kenny D, Shields DC. Edwards RJ, et al. Nat Chem Biol. 2007 Feb;3(2):108-12. doi: 10.1038/nchembio854. Epub 2007 Jan 14. Nat Chem Biol. 2007. PMID: 17220901
The SLiMDisc server: short, linear motif discovery in proteins.
Davey NE, Edwards RJ, Shields DC. Davey NE, et al. Among authors: edwards rj. Nucleic Acids Res. 2007 Jul;35(Web Server issue):W455-9. doi: 10.1093/nar/gkm400. Epub 2007 Jun 18. Nucleic Acids Res. 2007. PMID: 17576682 Free PMC article.
CompariMotif: quick and easy comparisons of sequence motifs.
Edwards RJ, Davey NE, Shields DC. Edwards RJ, et al. Bioinformatics. 2008 May 15;24(10):1307-9. doi: 10.1093/bioinformatics/btn105. Epub 2008 Mar 28. Bioinformatics. 2008. PMID: 18375965
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