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Motifs, themes and thematic maps of an integrated Saccharomyces cerevisiae interaction network.

Zhang LV, King OD, Wong SL, Goldberg DS, Tong AH, Lesage G, Andrews B, Bussey H, Boone C, Roth FP.

J Biol. 2005;4(2):6. Epub 2005 Jun 1.PMID: 15982408 [PubMed - indexed for MEDLINE]Related articlesFree article

Network motifs in integrated cellular networks of transcription-regulation and protein-protein interaction.

Yeger-Lotem E, Sattath S, Kashtan N, Itzkovitz S, Milo R, Pinter RY, Alon U, Margalit H.

Proc Natl Acad Sci U S A. 2004 Apr 20;101(16):5934-9. Epub 2004 Apr 12.PMID: 15079056 [PubMed - indexed for MEDLINE]Related articlesFree article

An evolutionary and functional assessment of regulatory network motifs.

Mazurie A, Bottani S, Vergassola M.

Genome Biol. 2005;6(4):R35. Epub 2005 Mar 24.PMID: 15833122 [PubMed - indexed for MEDLINE]Related articlesFree article

Untangling the web of functional and physical interactions in yeast.

Herrgård MJ, Palsson BØ.

J Biol. 2005;4(2):5. Epub 2005 Jun 8. Review.PMID: 15982410 [PubMed - indexed for MEDLINE]Related articlesFree article

Structure and evolution of protein interaction networks: a statistical model for link dynamics and gene duplications.

Berg J, Lässig M, Wagner A.

BMC Evol Biol. 2004 Nov 27;4(1):51.PMID: 15566577 [PubMed - indexed for MEDLINE]Related articlesFree article

Generating confidence intervals on biological networks.

Thorne T, Stumpf MP.

BMC Bioinformatics. 2007 Nov 30;8:467.PMID: 18053130 [PubMed - indexed for MEDLINE]Related articlesFree article

Commensurate distances and similar motifs in genetic congruence and protein interaction networks in yeast.

Ye P, Peyser BD, Spencer FA, Bader JS.

BMC Bioinformatics. 2005 Nov 9;6:270.PMID: 16283923 [PubMed - indexed for MEDLINE]Related articlesFree article

Evolutionary conservation and over-representation of functionally enriched network patterns in the yeast regulatory network.

Meshi O, Shlomi T, Ruppin E.

BMC Syst Biol. 2007 Jan 8;1:1.PMID: 17408505 [PubMed - indexed for MEDLINE]Related articlesFree article

Comparative analysis of the transcription-factor gene regulatory networks of E. coli and S. cerevisiae.

Guzmán-Vargas L, Santillán M.

BMC Syst Biol. 2008 Jan 31;2:13.PMID: 18237429 [PubMed - indexed for MEDLINE]Related articlesFree article

Comprehensive analysis of combinatorial regulation using the transcriptional regulatory network of yeast.

Balaji S, Babu MM, Iyer LM, Luscombe NM, Aravind L.

J Mol Biol. 2006 Jun 30;360(1):213-27. Epub 2006 May 3.PMID: 16762362 [PubMed - indexed for MEDLINE]Related articles

Linking high-resolution metabolic flux phenotypes and transcriptional regulation in yeast modulated by the global regulator Gcn4p.

Moxley JF, Jewett MC, Antoniewicz MR, Villas-Boas SG, Alper H, Wheeler RT, Tong L, Hinnebusch AG, Ideker T, Nielsen J, Stephanopoulos G.

Proc Natl Acad Sci U S A. 2009 Apr 21;106(16):6477-82. Epub 2009 Apr 3.PMID: 19346491 [PubMed - indexed for MEDLINE]Related articlesFree article

Organization of physical interactomes as uncovered by network schemas.

Banks E, Nabieva E, Chazelle B, Singh M.

PLoS Comput Biol. 2008 Oct;4(10):e1000203. Epub 2008 Oct 24.PMID: 18949022 [PubMed - indexed for MEDLINE]Related articlesFree article

Network motifs: structure does not determine function.

Ingram PJ, Stumpf MP, Stark J.

BMC Genomics. 2006 May 5;7:108.PMID: 16677373 [PubMed - indexed for MEDLINE]Related articlesFree article

Why do hubs in the yeast protein interaction network tend to be essential: reexamining the connection between the network topology and essentiality.

Zotenko E, Mestre J, O'Leary DP, Przytycka TM.

PLoS Comput Biol. 2008 Aug 1;4(8):e1000140.PMID: 18670624 [PubMed - indexed for MEDLINE]Related articlesFree article

Network motif identification in stochastic networks.

Jiang R, Tu Z, Chen T, Sun F.

Proc Natl Acad Sci U S A. 2006 Jun 20;103(25):9404-9. Epub 2006 Jun 12.PMID: 16769903 [PubMed - indexed for MEDLINE]Related articlesFree article

Network genomics.

Ideker TE.

Ernst Schering Res Found Workshop. 2007;(61):89-115. Review.PMID: 17249498 [PubMed - indexed for MEDLINE]Related articles

Expression dynamics of a cellular metabolic network.

Kharchenko P, Church GM, Vitkup D.

Mol Syst Biol. 2005;1:2005.0016. Epub 2005 Aug 2.PMID: 16729051 [PubMed - indexed for MEDLINE]Related articlesFree article

A relationship between gene expression and protein interactions on the proteome scale: analysis of the bacteriophage T7 and the yeast Saccharomyces cerevisiae.

Grigoriev A.

Nucleic Acids Res. 2001 Sep 1;29(17):3513-9.PMID: 11522820 [PubMed - indexed for MEDLINE]Related articlesFree article

Stochastic analysis of the GAL genetic switch in Saccharomyces cerevisiae: modeling and experiments reveal hierarchy in glucose repression.

Prasad V, Venkatesh KV.

BMC Syst Biol. 2008 Nov 17;2:97.PMID: 19014615 [PubMed - indexed for MEDLINE]Related articlesFree article

Co-expression among constituents of a motif in the protein-protein interaction network.

Bhardwaj N, Lu H.

J Bioinform Comput Biol. 2009 Feb;7(1):1-17.PMID: 19226657 [PubMed - indexed for MEDLINE]Related articlesFree article