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Items: 1 to 20 of 101

1.

Generalized adjacency and the conservation of gene clusters in genetic networks defined by synthetic lethals.

Yang Z, Sankoff D.

BMC Bioinformatics. 2012 Jun 11;13 Suppl 9:S8. doi: 10.1186/1471-2105-13-S9-S8.

2.

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.

3.

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
4.

Conserved rules govern genetic interaction degree across species.

Koch EN, Costanzo M, Bellay J, Deshpande R, Chatfield-Reed K, Chua G, D'Urso G, Andrews BJ, Boone C, Myers CL.

Genome Biol. 2012 Jul 2;13(7):R57. doi: 10.1186/gb-2012-13-7-r57.

5.

Gene function prediction from synthetic lethality networks via ranking on demand.

Lippert C, Ghahramani Z, Borgwardt KM.

Bioinformatics. 2010 Apr 1;26(7):912-8. doi: 10.1093/bioinformatics/btq053. Epub 2010 Feb 12.

6.

Predicting genetic interactions with random walks on biological networks.

Chipman KC, Singh AK.

BMC Bioinformatics. 2009 Jan 12;10:17. doi: 10.1186/1471-2105-10-17.

7.

TimeDelay-ARACNE: Reverse engineering of gene networks from time-course data by an information theoretic approach.

Zoppoli P, Morganella S, Ceccarelli M.

BMC Bioinformatics. 2010 Mar 25;11:154. doi: 10.1186/1471-2105-11-154.

8.

High-throughput genetic interaction mapping in the fission yeast Schizosaccharomyces pombe.

Roguev A, Wiren M, Weissman JS, Krogan NJ.

Nat Methods. 2007 Oct;4(10):861-6. Epub 2007 Sep 23.

PMID:
17893680
10.

Conservation and evolvability in regulatory networks: the evolution of ribosomal regulation in yeast.

Tanay A, Regev A, Shamir R.

Proc Natl Acad Sci U S A. 2005 May 17;102(20):7203-8. Epub 2005 May 9.

11.

Generalized gene adjacencies, graph bandwidth, and clusters in yeast evolution.

Zhu Q, Adam Z, Choi V, Sankoff D.

IEEE/ACM Trans Comput Biol Bioinform. 2009 Apr-Jun;6(2):213-20. doi: 10.1109/TCBB.2008.121.

PMID:
19407346
12.

Hierarchical modularity and the evolution of genetic interactomes across species.

Ryan CJ, Roguev A, Patrick K, Xu J, Jahari H, Tong Z, Beltrao P, Shales M, Qu H, Collins SR, Kliegman JI, Jiang L, Kuo D, Tosti E, Kim HS, Edelmann W, Keogh MC, Greene D, Tang C, Cunningham P, Shokat KM, Cagney G, Svensson JP, Guthrie C, Espenshade PJ, Ideker T, Krogan NJ.

Mol Cell. 2012 Jun 8;46(5):691-704. doi: 10.1016/j.molcel.2012.05.028.

13.
14.

Comparative genomics of yeast species: new insights into their biology.

Herrero E, de la Torre MA, Valentín E.

Int Microbiol. 2003 Sep;6(3):183-90. Epub 2003 Jul 29. Review.

15.

A multiorganism based method for Bayesian gene network estimation.

Dawy Z, Yaacoub E, Nassar M, Abdallah R, Zeineddine HA.

Biosystems. 2011 Mar;103(3):425-34. doi: 10.1016/j.biosystems.2010.12.004. Epub 2010 Dec 17.

PMID:
21168470
16.

Studies on fungal Pumilio gene family through mining multiple genome-scale data sets.

Matsushima Y, Sugiura R, Kuno T.

Kobe J Med Sci. 2007;53(4):163-9.

18.

Natural parameter values for generalized gene adjacency.

Yang Z, Sankoff D.

J Comput Biol. 2010 Sep;17(9):1113-28. doi: 10.1089/cmb.2010.0099.

PMID:
20874399
19.

Genomic exploration of the hemiascomycetous yeasts: 20. Evolution of gene redundancy compared to Saccharomyces cerevisiae.

Llorente B, Durrens P, Malpertuy A, Aigle M, Artiguenave F, Blandin G, Bolotin-Fukuhara M, Bon E, Brottier P, Casaregola S, Dujon B, de Montigny J, Lépingle A, Neuvéglise C, Ozier-Kalogeropoulos O, Potier S, Saurin W, Tekaia F, Toffano-Nioche C, Wésolowski-Louvel M, Wincker P, Weissenbach J, Souciet J, Gaillardin C.

FEBS Lett. 2000 Dec 22;487(1):122-33.

20.

Genome-wide characterisation of the Gcn5 histone acetyltransferase in budding yeast during stress adaptation reveals evolutionarily conserved and diverged roles.

Xue-Franzén Y, Johnsson A, Brodin D, Henriksson J, Bürglin TR, Wright AP.

BMC Genomics. 2010 Mar 25;11:200. doi: 10.1186/1471-2164-11-200.

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