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Items: 1 to 20 of 64

1.

A quantitative literature-curated gold standard for kinase-substrate pairs.

Sharifpoor S, Nguyen Ba AN, Youn JY, van Dyk D, Friesen H, Douglas AC, Kurat CF, Chong YT, Founk K, Moses AM, Andrews BJ.

Genome Biol. 2011;12(4):R39. doi: 10.1186/gb-2011-12-4-r39. Epub 2011 Apr 14. Erratum in: Genome Biol. 2012;13(5):417. Young, Ji-Young [corrected to Youn, Ji-Young].

2.

Phosphoproteomic analysis reveals interconnected system-wide responses to perturbations of kinases and phosphatases in yeast.

Bodenmiller B, Wanka S, Kraft C, Urban J, Campbell D, Pedrioli PG, Gerrits B, Picotti P, Lam H, Vitek O, Brusniak MY, Roschitzki B, Zhang C, Shokat KM, Schlapbach R, Colman-Lerner A, Nolan GP, Nesvizhskii AI, Peter M, Loewith R, von Mering C, Aebersold R.

Sci Signal. 2010 Dec 21;3(153):rs4. doi: 10.1126/scisignal.2001182.

3.

Functional overlap and regulatory links shape genetic interactions between signaling pathways.

van Wageningen S, Kemmeren P, Lijnzaad P, Margaritis T, Benschop JJ, de Castro IJ, van Leenen D, Groot Koerkamp MJ, Ko CW, Miles AJ, Brabers N, Brok MO, Lenstra TL, Fiedler D, Fokkens L, Aldecoa R, Apweiler E, Taliadouros V, Sameith K, van de Pasch LA, van Hooff SR, Bakker LV, Krogan NJ, Snel B, Holstege FC.

Cell. 2010 Dec 10;143(6):991-1004. doi: 10.1016/j.cell.2010.11.021.

4.

Quantitative analysis of fitness and genetic interactions in yeast on a genome scale.

Baryshnikova A, Costanzo M, Kim Y, Ding H, Koh J, Toufighi K, Youn JY, Ou J, San Luis BJ, Bandyopadhyay S, Hibbs M, Hess D, Gingras AC, Bader GD, Troyanskaya OG, Brown GW, Andrews B, Boone C, Myers CL.

Nat Methods. 2010 Dec;7(12):1017-24. doi: 10.1038/nmeth.1534. Epub 2010 Nov 14.

5.

Synthetic genetic array (SGA) analysis in Saccharomyces cerevisiae and Schizosaccharomyces pombe.

Baryshnikova A, Costanzo M, Dixon S, Vizeacoumar FJ, Myers CL, Andrews B, Boone C.

Methods Enzymol. 2010;470:145-79. doi: 10.1016/S0076-6879(10)70007-0. Epub 2010 Mar 1.

PMID:
20946810
6.

A global protein kinase and phosphatase interaction network in yeast.

Breitkreutz A, Choi H, Sharom JR, Boucher L, Neduva V, Larsen B, Lin ZY, Breitkreutz BJ, Stark C, Liu G, Ahn J, Dewar-Darch D, Reguly T, Tang X, Almeida R, Qin ZS, Pawson T, Gingras AC, Nesvizhskii AI, Tyers M.

Science. 2010 May 21;328(5981):1043-6. doi: 10.1126/science.1176495.

7.

PhosphoGRID: a database of experimentally verified in vivo protein phosphorylation sites from the budding yeast Saccharomyces cerevisiae.

Stark C, Su TC, Breitkreutz A, Lourenco P, Dahabieh M, Breitkreutz BJ, Tyers M, Sadowski I.

Database (Oxford). 2010;2010:bap026. doi: 10.1093/database/bap026. Epub 2010 Jan 28.

8.

Deciphering protein kinase specificity through large-scale analysis of yeast phosphorylation site motifs.

Mok J, Kim PM, Lam HY, Piccirillo S, Zhou X, Jeschke GR, Sheridan DL, Parker SA, Desai V, Jwa M, Cameroni E, Niu H, Good M, Remenyi A, Ma JL, Sheu YJ, Sassi HE, Sopko R, Chan CS, De Virgilio C, Hollingsworth NM, Lim WA, Stern DF, Stillman B, Andrews BJ, Gerstein MB, Snyder M, Turk BE.

Sci Signal. 2010 Feb 16;3(109):ra12. doi: 10.1126/scisignal.2000482.

9.

The genetic landscape of a cell.

Costanzo M, Baryshnikova A, Bellay J, Kim Y, Spear ED, Sevier CS, Ding H, Koh JL, Toufighi K, Mostafavi S, Prinz J, St Onge RP, VanderSluis B, Makhnevych T, Vizeacoumar FJ, Alizadeh S, Bahr S, Brost RL, Chen Y, Cokol M, Deshpande R, Li Z, Lin ZY, Liang W, Marback M, Paw J, San Luis BJ, Shuteriqi E, Tong AH, van Dyk N, Wallace IM, Whitney JA, Weirauch MT, Zhong G, Zhu H, Houry WA, Brudno M, Ragibizadeh S, Papp B, Pál C, Roth FP, Giaever G, Nislow C, Troyanskaya OG, Bussey H, Bader GD, Gingras AC, Morris QD, Kim PM, Kaiser CA, Myers CL, Andrews BJ, Boone C.

Science. 2010 Jan 22;327(5964):425-31. doi: 10.1126/science.1180823.

10.

Dual regulation by pairs of cyclin-dependent protein kinases and histone deacetylases controls G1 transcription in budding yeast.

Huang D, Kaluarachchi S, van Dyk D, Friesen H, Sopko R, Ye W, Bastajian N, Moffat J, Sassi H, Costanzo M, Andrews BJ.

PLoS Biol. 2009 Sep;7(9):e1000188. doi: 10.1371/journal.pbio.1000188. Epub 2009 Sep 8.

11.

High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.

Gnad F, de Godoy LM, Cox J, Neuhauser N, Ren S, Olsen JV, Mann M.

Proteomics. 2009 Oct;9(20):4642-52. doi: 10.1002/pmic.200900144.

PMID:
19795423
12.

Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.

Holt LJ, Tuch BB, Villén J, Johnson AD, Gygi SP, Morgan DO.

Science. 2009 Sep 25;325(5948):1682-6. doi: 10.1126/science.1172867.

13.

Systematic mapping of genetic interaction networks.

Dixon SJ, Costanzo M, Baryshnikova A, Andrews B, Boone C.

Annu Rev Genet. 2009;43:601-25. doi: 10.1146/annurev.genet.39.073003.114751. Review.

PMID:
19712041
14.

Solution structure of S. cerevisiae PDCD5-like protein and its promoting role in H(2)O(2)-induced apoptosis in yeast.

Hong J, Zhang J, Liu Z, Qin S, Wu J, Shi Y.

Biochemistry. 2009 Jul 28;48(29):6824-34. doi: 10.1021/bi900488n.

PMID:
19469552
15.

Comprehensive and quantitative analysis of yeast deletion mutants defective in apical and isotropic bud growth.

Watanabe M, Watanabe D, Nogami S, Morishita S, Ohya Y.

Curr Genet. 2009 Aug;55(4):365-80. doi: 10.1007/s00294-009-0251-0. Epub 2009 May 24.

PMID:
19466415
16.

Regulation of cell polarity through phosphorylation of Bni4 by Pho85 G1 cyclin-dependent kinases in Saccharomyces cerevisiae.

Zou J, Friesen H, Larson J, Huang D, Cox M, Tatchell K, Andrews B.

Mol Biol Cell. 2009 Jul;20(14):3239-50. doi: 10.1091/mbc.E08-12-1255. Epub 2009 May 20.

17.

Functional organization of the S. cerevisiae phosphorylation network.

Fiedler D, Braberg H, Mehta M, Chechik G, Cagney G, Mukherjee P, Silva AC, Shales M, Collins SR, van Wageningen S, Kemmeren P, Holstege FC, Weissman JS, Keogh MC, Koller D, Shokat KM, Krogan NJ.

Cell. 2009 Mar 6;136(5):952-63. doi: 10.1016/j.cell.2008.12.039.

18.

Recruitment of a chromatin remodelling complex by the Hog1 MAP kinase to stress genes.

Mas G, de Nadal E, Dechant R, Rodríguez de la Concepción ML, Logie C, Jimeno-González S, Chávez S, Ammerer G, Posas F.

EMBO J. 2009 Feb 18;28(4):326-36. doi: 10.1038/emboj.2008.299. Epub 2009 Jan 15. Erratum in: EMBO J. 2009 Apr 22;28(8):1191.

19.

Significant conservation of synthetic lethal genetic interaction networks between distantly related eukaryotes.

Dixon SJ, Fedyshyn Y, Koh JL, Prasad TS, Chahwan C, Chua G, Toufighi K, Baryshnikova A, Hayles J, Hoe KL, Kim DU, Park HO, Myers CL, Pandey A, Durocher D, Andrews BJ, Boone C.

Proc Natl Acad Sci U S A. 2008 Oct 28;105(43):16653-8. doi: 10.1073/pnas.0806261105. Epub 2008 Oct 17.

20.

High-quality binary protein interaction map of the yeast interactome network.

Yu H, Braun P, Yildirim MA, Lemmens I, Venkatesan K, Sahalie J, Hirozane-Kishikawa T, Gebreab F, Li N, Simonis N, Hao T, Rual JF, Dricot A, Vazquez A, Murray RR, Simon C, Tardivo L, Tam S, Svrzikapa N, Fan C, de Smet AS, Motyl A, Hudson ME, Park J, Xin X, Cusick ME, Moore T, Boone C, Snyder M, Roth FP, Barabási AL, Tavernier J, Hill DE, Vidal M.

Science. 2008 Oct 3;322(5898):104-10. doi: 10.1126/science.1158684. Epub 2008 Aug 21.

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