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Items: 1 to 20 of 97

1.

Prediction of protease substrates using sequence and structure features.

Barkan DT, Hostetter DR, Mahrus S, Pieper U, Wells JA, Craik CS, Sali A.

Bioinformatics. 2010 Jul 15;26(14):1714-22. doi: 10.1093/bioinformatics/btq267.

2.

Cascleave 2.0, a new approach for predicting caspase and granzyme cleavage targets.

Wang M, Zhao XM, Tan H, Akutsu T, Whisstock JC, Song J.

Bioinformatics. 2014 Jan 1;30(1):71-80. doi: 10.1093/bioinformatics/btt603.

PMID:
24149049
3.

PROSPER: an integrated feature-based tool for predicting protease substrate cleavage sites.

Song J, Tan H, Perry AJ, Akutsu T, Webb GI, Whisstock JC, Pike RN.

PLoS One. 2012;7(11):e50300. doi: 10.1371/journal.pone.0050300.

4.

CASVM: web server for SVM-based prediction of caspase substrates cleavage sites.

Wee LJ, Tan TW, Ranganathan S.

Bioinformatics. 2007 Dec 1;23(23):3241-3.

PMID:
17599937
5.

GraBCas: a bioinformatics tool for score-based prediction of Caspase- and Granzyme B-cleavage sites in protein sequences.

Backes C, Kuentzer J, Lenhof HP, Comtesse N, Meese E.

Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W208-13.

6.

SVM-based prediction of caspase substrate cleavage sites.

Wee LJ, Tan TW, Ranganathan S.

BMC Bioinformatics. 2006 Dec 18;7 Suppl 5:S14.

7.

Protease substrate site predictors derived from machine learning on multilevel substrate phage display data.

Chen CT, Yang EW, Hsu HJ, Sun YK, Hsu WL, Yang AS.

Bioinformatics. 2008 Dec 1;24(23):2691-7. doi: 10.1093/bioinformatics/btn538.

PMID:
18974075
8.

SVM-Fold: a tool for discriminative multi-class protein fold and superfamily recognition.

Melvin I, Ie E, Kuang R, Weston J, Stafford WN, Leslie C.

BMC Bioinformatics. 2007 May 22;8 Suppl 4:S2.

9.

Bioinformatic approaches for predicting substrates of proteases.

Song J, Tan H, Boyd SE, Shen H, Mahmood K, Webb GI, Akutsu T, Whisstock JC, Pike RN.

J Bioinform Comput Biol. 2011 Feb;9(1):149-78. Review.

PMID:
21328711
10.

N-terminal N-myristoylation of proteins: prediction of substrate proteins from amino acid sequence.

Maurer-Stroh S, Eisenhaber B, Eisenhaber F.

J Mol Biol. 2002 Apr 5;317(4):541-57.

PMID:
11955008
11.

Prediction of nuclear proteins using nuclear translocation signals proposed by probabilistic latent semantic indexing.

Su EC, Chang JM, Cheng CW, Sung TY, Hsu WL.

BMC Bioinformatics. 2012;13 Suppl 17:S13. doi: 10.1186/1471-2105-13-S17-S13.

12.

DescFold: a web server for protein fold recognition.

Yan RX, Si JN, Wang C, Zhang Z.

BMC Bioinformatics. 2009 Dec 14;10:416. doi: 10.1186/1471-2105-10-416.

13.

A sequence and structure based method to predict putative substrates, functions and regulatory networks of endo proteases.

Venkatraman P, Balakrishnan S, Rao S, Hooda Y, Pol S.

PLoS One. 2009 May 27;4(5):e5700. doi: 10.1371/journal.pone.0005700.

14.

Hansa: an automated method for discriminating disease and neutral human nsSNPs.

Acharya V, Nagarajaram HA.

Hum Mutat. 2012 Feb;33(2):332-7. doi: 10.1002/humu.21642.

PMID:
22045683
15.

Developing a powerful in silico tool for the discovery of novel caspase-3 substrates: a preliminary screening of the human proteome.

Ayyash M, Tamimi H, Ashhab Y.

BMC Bioinformatics. 2012 Jan 23;13:14. doi: 10.1186/1471-2105-13-14.

16.

ProtIdent: a web server for identifying proteases and their types by fusing functional domain and sequential evolution information.

Chou KC, Shen HB.

Biochem Biophys Res Commun. 2008 Nov 14;376(2):321-5. doi: 10.1016/j.bbrc.2008.08.125.

PMID:
18774775
17.

In silico prediction of the granzyme B degradome.

Wee LJ, Er EP, Ng LF, Tong JC.

BMC Genomics. 2011 Nov 30;12 Suppl 3:S11.

18.

A multi-factor model for caspase degradome prediction.

Wee LJ, Tong JC, Tan TW, Ranganathan S.

BMC Genomics. 2009 Dec 3;10 Suppl 3:S6. doi: 10.1186/1471-2164-10-S3-S6.

19.

A lead discovery strategy driven by a comprehensive analysis of proteases in the peptide substrate space.

Sukuru SC, Nigsch F, Quancard J, Renatus M, Chopra R, Brooijmans N, Mikhailov D, Deng Z, Cornett A, Jenkins JL, Hommel U, Davies JW, Glick M.

Protein Sci. 2010 Nov;19(11):2096-109. doi: 10.1002/pro.490.

20.

CaSPredictor: a new computer-based tool for caspase substrate prediction.

Garay-Malpartida HM, Occhiucci JM, Alves J, Belizário JE.

Bioinformatics. 2005 Jun;21 Suppl 1:i169-76.

PMID:
15961454

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