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Items: 1 to 20 of 48

1.

Discovery of candidate KEN-box motifs using cell cycle keyword enrichment combined with native disorder prediction and motif conservation.

Michael S, Travé G, Ramu C, Chica C, Gibson TJ.

Bioinformatics. 2008 Feb 15;24(4):453-7. doi: 10.1093/bioinformatics/btm624. Epub 2008 Jan 9.

PMID:
18184688
2.

A structure filter for the Eukaryotic Linear Motif Resource.

Via A, Gould CM, Gemünd C, Gibson TJ, Helmer-Citterich M.

BMC Bioinformatics. 2009 Oct 24;10:351. doi: 10.1186/1471-2105-10-351.

3.

ELM: the status of the 2010 eukaryotic linear motif resource.

Gould CM, Diella F, Via A, Puntervoll P, Gemünd C, Chabanis-Davidson S, Michael S, Sayadi A, Bryne JC, Chica C, Seiler M, Davey NE, Haslam N, Weatheritt RJ, Budd A, Hughes T, Pas J, Rychlewski L, Travé G, Aasland R, Helmer-Citterich M, Linding R, Gibson TJ.

Nucleic Acids Res. 2010 Jan;38(Database issue):D167-80. doi: 10.1093/nar/gkp1016. Epub 2009 Nov 17.

4.

GPS-ARM: computational analysis of the APC/C recognition motif by predicting D-boxes and KEN-boxes.

Liu Z, Yuan F, Ren J, Cao J, Zhou Y, Yang Q, Xue Y.

PLoS One. 2012;7(3):e34370. doi: 10.1371/journal.pone.0034370. Epub 2012 Mar 29.

5.

KEPE--a motif frequently superimposed on sumoylation sites in metazoan chromatin proteins and transcription factors.

Diella F, Chabanis S, Luck K, Chica C, Ramu C, Nerlov C, Gibson TJ.

Bioinformatics. 2009 Jan 1;25(1):1-5. doi: 10.1093/bioinformatics/btn594. Epub 2008 Nov 24.

6.

ELM server: A new resource for investigating short functional sites in modular eukaryotic proteins.

Puntervoll P, Linding R, Gemünd C, Chabanis-Davidson S, Mattingsdal M, Cameron S, Martin DM, Ausiello G, Brannetti B, Costantini A, Ferrè F, Maselli V, Via A, Cesareni G, Diella F, Superti-Furga G, Wyrwicz L, Ramu C, McGuigan C, Gudavalli R, Letunic I, Bork P, Rychlewski L, Küster B, Helmer-Citterich M, Hunter WN, Aasland R, Gibson TJ.

Nucleic Acids Res. 2003 Jul 1;31(13):3625-30.

7.

Regulatory motif finding by logic regression.

Keles S, van der Laan MJ, Vulpe C.

Bioinformatics. 2004 Nov 1;20(16):2799-811. Epub 2004 May 27.

PMID:
15166027
8.

Mutational analysis of conserved sequence motifs in the budding yeast Cdc6 protein.

Schepers A, Diffley JF.

J Mol Biol. 2001 May 11;308(4):597-608.

PMID:
11350163
9.

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
10.

A combined in vitro/bioinformatic investigation of redox regulatory mechanisms governing cell cycle progression.

Conour JE, Graham WV, Gaskins HR.

Physiol Genomics. 2004 Jul 8;18(2):196-205.

PMID:
15138307
11.

ELM--the database of eukaryotic linear motifs.

Dinkel H, Michael S, Weatheritt RJ, Davey NE, Van Roey K, Altenberg B, Toedt G, Uyar B, Seiler M, Budd A, Jödicke L, Dammert MA, Schroeter C, Hammer M, Schmidt T, Jehl P, McGuigan C, Dymecka M, Chica C, Luck K, Via A, Chatr-Aryamontri A, Haslam N, Grebnev G, Edwards RJ, Steinmetz MO, Meiselbach H, Diella F, Gibson TJ.

Nucleic Acids Res. 2012 Jan;40(Database issue):D242-51. doi: 10.1093/nar/gkr1064. Epub 2011 Nov 21.

12.

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.

13.
14.

Studies on substrate recognition by the budding yeast separase.

Sullivan M, Hornig NC, Porstmann T, Uhlmann F.

J Biol Chem. 2004 Jan 9;279(2):1191-6. Epub 2003 Oct 29.

15.

Identification and purification of a soluble region of BubR1: a critical component of the mitotic checkpoint complex.

Yoon J, Kang Y, Kim K, Park J, Kim Y.

Protein Expr Purif. 2005 Nov;44(1):1-9.

PMID:
15946858
16.

Bipartite binding of a kinase activator activates Cdc7-related kinase essential for S phase.

Ogino K, Takeda T, Matsui E, Iiyama H, Taniyama C, Arai K, Masai H.

J Biol Chem. 2001 Aug 17;276(33):31376-87. Epub 2001 Jun 11.

17.

The Universal Protein Resource (UniProt).

Bairoch A, Apweiler R, Wu CH, Barker WC, Boeckmann B, Ferro S, Gasteiger E, Huang H, Lopez R, Magrane M, Martin MJ, Natale DA, O'Donovan C, Redaschi N, Yeh LS.

Nucleic Acids Res. 2005 Jan 1;33(Database issue):D154-9.

18.

A computational strategy for the prediction of functional linear peptide motifs in proteins.

Dinkel H, Sticht H.

Bioinformatics. 2007 Dec 15;23(24):3297-303. Epub 2007 Oct 31.

PMID:
17977881
19.

Evidence for the concerted evolution between short linear protein motifs and their flanking regions.

Chica C, Diella F, Gibson TJ.

PLoS One. 2009 Jul 8;4(7):e6052. doi: 10.1371/journal.pone.0006052.

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