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Items: 1 to 20 of 87

1.

SLiM on Diet: finding short linear motifs on domain interaction interfaces in Protein Data Bank.

Hugo W, Song F, Aung Z, Ng SK, Sung WK.

Bioinformatics. 2010 Apr 15;26(8):1036-42. doi: 10.1093/bioinformatics/btq065. Epub 2010 Feb 18.

PMID:
20167627
2.

D-SLIMMER: domain-SLiM interaction motifs miner for sequence based protein-protein interaction data.

Hugo W, Ng SK, Sung WK.

J Proteome Res. 2011 Dec 2;10(12):5285-95. doi: 10.1021/pr200312e. Epub 2011 Nov 1.

PMID:
22004555
3.

Discovering interacting domains and motifs in protein-protein interactions.

Hugo W, Sung WK, Ng SK.

Methods Mol Biol. 2013;939:9-20. doi: 10.1007/978-1-62703-107-3_2.

PMID:
23192537
4.

Computational prediction of short linear motifs from protein sequences.

Edwards RJ, Palopoli N.

Methods Mol Biol. 2015;1268:89-141. doi: 10.1007/978-1-4939-2285-7_6. Review.

PMID:
25555723
5.

A correlated motif approach for finding short linear motifs from protein interaction networks.

Tan SH, Hugo W, Sung WK, Ng SK.

BMC Bioinformatics. 2006 Nov 16;7:502.

6.

Masking residues using context-specific evolutionary conservation significantly improves short linear motif discovery.

Davey NE, Shields DC, Edwards RJ.

Bioinformatics. 2009 Feb 15;25(4):443-50. doi: 10.1093/bioinformatics/btn664. Epub 2009 Jan 9.

PMID:
19136552
7.

The identification of short linear motif-mediated interfaces within the human interactome.

Weatheritt RJ, Luck K, Petsalaki E, Davey NE, Gibson TJ.

Bioinformatics. 2012 Apr 1;28(7):976-82. doi: 10.1093/bioinformatics/bts072. Epub 2012 Feb 10.

8.
9.

Interactome-wide prediction of short, disordered protein interaction motifs in humans.

Edwards RJ, Davey NE, O'Brien K, Shields DC.

Mol Biosyst. 2012 Jan;8(1):282-95. doi: 10.1039/c1mb05212h. Epub 2011 Aug 30.

PMID:
21879107
10.

Attributes of short linear motifs.

Davey NE, Van Roey K, Weatheritt RJ, Toedt G, Uyar B, Altenberg B, Budd A, Diella F, Dinkel H, Gibson TJ.

Mol Biosyst. 2012 Jan;8(1):268-81. doi: 10.1039/c1mb05231d. Epub 2011 Sep 12.

PMID:
21909575
11.

iELM--a web server to explore short linear motif-mediated interactions.

Weatheritt RJ, Jehl P, Dinkel H, Gibson TJ.

Nucleic Acids Res. 2012 Jul;40(Web Server issue):W364-9. doi: 10.1093/nar/gks444. Epub 2012 May 25.

12.

The SLiMDisc server: short, linear motif discovery in proteins.

Davey NE, Edwards RJ, Shields DC.

Nucleic Acids Res. 2007 Jul;35(Web Server issue):W455-9. Epub 2007 Jun 18.

13.

Prediction of short linear protein binding regions.

Mooney C, Pollastri G, Shields DC, Haslam NJ.

J Mol Biol. 2012 Jan 6;415(1):193-204. doi: 10.1016/j.jmb.2011.10.025. Epub 2011 Oct 21.

PMID:
22079048
14.

Bioinformatics Approaches for Predicting Disordered Protein Motifs.

Bhowmick P, Guharoy M, Tompa P.

Adv Exp Med Biol. 2015;870:291-318. doi: 10.1007/978-3-319-20164-1_9. Review.

PMID:
26387106
15.

PIBASE: a comprehensive database of structurally defined protein interfaces.

Davis FP, Sali A.

Bioinformatics. 2005 May 1;21(9):1901-7. Epub 2005 Jan 18.

PMID:
15657096
16.

The switches.ELM resource: a compendium of conditional regulatory interaction interfaces.

Van Roey K, Dinkel H, Weatheritt RJ, Gibson TJ, Davey NE.

Sci Signal. 2013 Apr 2;6(269):rs7. doi: 10.1126/scisignal.2003345.

PMID:
23550212
17.

SLiM-Enrich: computational assessment of protein-protein interaction data as a source of domain-motif interactions.

Idrees S, Pérez-Bercoff Å, Edwards RJ.

PeerJ. 2018 Oct 31;6:e5858. doi: 10.7717/peerj.5858. eCollection 2018. Erratum in: PeerJ. 2018 Nov 21;6:.

18.

SLiMDisc: short, linear motif discovery, correcting for common evolutionary descent.

Davey NE, Shields DC, Edwards RJ.

Nucleic Acids Res. 2006 Jul 19;34(12):3546-54. Print 2006.

19.

A comparative study of short linear motif compositions of the influenza A virus ribonucleoproteins.

Yang CW.

PLoS One. 2012;7(6):e38637. doi: 10.1371/journal.pone.0038637. Epub 2012 Jun 8.

20.

Discovering motif pairs at interaction sites from protein sequences on a proteome-wide scale.

Li H, Li J, Wong L.

Bioinformatics. 2006 Apr 15;22(8):989-96. Epub 2006 Jan 29.

PMID:
16446278

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