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Results: 1 to 20 of 102

1.

Proteome-wide evidence for enhanced positive Darwinian selection within intrinsically disordered regions in proteins.

Nilsson J, Grahn M, Wright AP.

Genome Biol. 2011 Jul 19;12(7):R65. doi: 10.1186/gb-2011-12-7-r65.

PMID:
21771306
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

Shifts in the intensity of purifying selection: an analysis of genome-wide polymorphism data from two closely related yeast species.

Elyashiv E, Bullaughey K, Sattath S, Rinott Y, Przeworski M, Sella G.

Genome Res. 2010 Nov;20(11):1558-73. doi: 10.1101/gr.108993.110. Epub 2010 Sep 4.

PMID:
20817943
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

The unfoldomics decade: an update on intrinsically disordered proteins.

Dunker AK, Oldfield CJ, Meng J, Romero P, Yang JY, Chen JW, Vacic V, Obradovic Z, Uversky VN.

BMC Genomics. 2008 Sep 16;9 Suppl 2:S1. doi: 10.1186/1471-2164-9-S2-S1.

PMID:
18831774
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

A small reservoir of disabled ORFs in the yeast genome and its implications for the dynamics of proteome evolution.

Harrison P, Kumar A, Lan N, Echols N, Snyder M, Gerstein M.

J Mol Biol. 2002 Feb 22;316(3):409-19.

PMID:
11866506
[PubMed - indexed for MEDLINE]
5.

Bioinformatics analysis of disordered proteins in prokaryotes.

Pavlović-Lažetić GM, Mitić NS, Kovačević JJ, Obradović Z, Malkov SN, Beljanski MV.

BMC Bioinformatics. 2011 Mar 2;12:66. doi: 10.1186/1471-2105-12-66.

PMID:
21366926
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Functional anthology of intrinsic disorder. 3. Ligands, post-translational modifications, and diseases associated with intrinsically disordered proteins.

Xie H, Vucetic S, Iakoucheva LM, Oldfield CJ, Dunker AK, Obradovic Z, Uversky VN.

J Proteome Res. 2007 May;6(5):1917-32. Epub 2007 Mar 29.

PMID:
17391016
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Evolution of budding yeast prion-determinant sequences across diverse fungi.

Harrison LB, Yu Z, Stajich JE, Dietrich FS, Harrison PM.

J Mol Biol. 2007 Apr 20;368(1):273-82. Epub 2007 Feb 3.

PMID:
17320905
[PubMed - indexed for MEDLINE]
8.

Genome-wide survey of natural selection on functional, structural, and network properties of polymorphic sites in Saccharomyces paradoxus.

Vishnoi A, Sethupathy P, Simola D, Plotkin JB, Hannenhalli S.

Mol Biol Evol. 2011 Sep;28(9):2615-27. doi: 10.1093/molbev/msr085. Epub 2011 Apr 3.

PMID:
21478372
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Detecting positive selection in the budding yeast genome.

Li YD, Liang H, Gu Z, Lin Z, Guan W, Zhou L, Li YQ, Li WH.

J Evol Biol. 2009 Dec;22(12):2430-7. doi: 10.1111/j.1420-9101.2009.01851.x. Epub 2009 Oct 29.

PMID:
19878412
[PubMed - indexed for MEDLINE]
10.

Comparison of protein coding gene contents of the fungal phyla Pezizomycotina and Saccharomycotina.

Arvas M, Kivioja T, Mitchell A, Saloheimo M, Ussery D, Penttila M, Oliver S.

BMC Genomics. 2007 Sep 17;8:325.

PMID:
17868481
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Population genomics of domestic and wild yeasts.

Liti G, Carter DM, Moses AM, Warringer J, Parts L, James SA, Davey RP, Roberts IN, Burt A, Koufopanou V, Tsai IJ, Bergman CM, Bensasson D, O'Kelly MJ, van Oudenaarden A, Barton DB, Bailes E, Nguyen AN, Jones M, Quail MA, Goodhead I, Sims S, Smith F, Blomberg A, Durbin R, Louis EJ.

Nature. 2009 Mar 19;458(7236):337-41. doi: 10.1038/nature07743. Epub 2009 Feb 11.

PMID:
19212322
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Regular patterns for proteome-wide distribution of protein abundance across species.

Zhong F, Yang D, Hao Y, Lin C, Jiang Y, Ying W, Wu S, Zhu Y, Liu S, Yang P, Qian X, He F.

PLoS One. 2012;7(3):e32423. doi: 10.1371/journal.pone.0032423. Epub 2012 Mar 9.

PMID:
22427835
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Interaction between intrinsically disordered proteins frequently occurs in a human protein-protein interaction network.

Shimizu K, Toh H.

J Mol Biol. 2009 Oct 9;392(5):1253-65. doi: 10.1016/j.jmb.2009.07.088. Epub 2009 Aug 3.

PMID:
19660471
[PubMed - indexed for MEDLINE]
14.

Proteome-wide discovery of evolutionary conserved sequences in disordered regions.

Nguyen Ba AN, Yeh BJ, van Dyk D, Davidson AR, Andrews BJ, Weiss EL, Moses AM.

Sci Signal. 2012 Mar 13;5(215):rs1. doi: 10.1126/scisignal.2002515.

PMID:
22416277
[PubMed - indexed for MEDLINE]
Free Article
15.

Proteome survey reveals modularity of the yeast cell machinery.

Gavin AC, Aloy P, Grandi P, Krause R, Boesche M, Marzioch M, Rau C, Jensen LJ, Bastuck S, Dümpelfeld B, Edelmann A, Heurtier MA, Hoffman V, Hoefert C, Klein K, Hudak M, Michon AM, Schelder M, Schirle M, Remor M, Rudi T, Hooper S, Bauer A, Bouwmeester T, Casari G, Drewes G, Neubauer G, Rick JM, Kuster B, Bork P, Russell RB, Superti-Furga G.

Nature. 2006 Mar 30;440(7084):631-6. Epub 2006 Jan 22.

PMID:
16429126
[PubMed - indexed for MEDLINE]
16.

Binary classification of protein molecules into intrinsically disordered and ordered segments.

Fukuchi S, Hosoda K, Homma K, Gojobori T, Nishikawa K.

BMC Struct Biol. 2011 Jun 22;11:29. doi: 10.1186/1472-6807-11-29.

PMID:
21693062
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Differences in the number of intrinsically disordered regions between yeast duplicated proteins, and their relationship with functional divergence.

Montanari F, Shields DC, Khaldi N.

PLoS One. 2011;6(9):e24989. doi: 10.1371/journal.pone.0024989. Epub 2011 Sep 15.

PMID:
21949823
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Coverage of whole proteome by structural genomics observed through protein homology modeling database.

Yura K, Yamaguchi A, Go M.

J Struct Funct Genomics. 2006 Jun;7(2):65-76. Epub 2006 Dec 5.

PMID:
17146617
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Positive selection at the protein network periphery: evaluation in terms of structural constraints and cellular context.

Kim PM, Korbel JO, Gerstein MB.

Proc Natl Acad Sci U S A. 2007 Dec 18;104(51):20274-9. Epub 2007 Dec 12.

PMID:
18077332
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Natural selection on cis and trans regulation in yeasts.

Emerson JJ, Hsieh LC, Sung HM, Wang TY, Huang CJ, Lu HH, Lu MY, Wu SH, Li WH.

Genome Res. 2010 Jun;20(6):826-36. doi: 10.1101/gr.101576.109. Epub 2010 May 5.

PMID:
20445163
[PubMed - indexed for MEDLINE]
Free PMC Article

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