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Items: 1 to 20 of 406

1.

Genome-wide system analysis reveals stable yet flexible network dynamics in yeast.

Gustafsson M, Hörnquist M, Björkegren J, Tegnér J.

IET Syst Biol. 2009 Jul;3(4):219-28. doi: 10.1049/iet-syb.2008.0112.

PMID:
19640161
2.

The properties of hub proteins in a yeast-aggregated cell cycle network and its phase sub-networks.

Wu X, Guo J, Zhang DY, Lin K.

Proteomics. 2009 Oct;9(20):4812-24. doi: 10.1002/pmic.200900053.

PMID:
19743420
3.

Computer evaluation of network dynamics models with application to cell cycle control in budding yeast.

Allen NA, Chen KC, Shaffer CA, Tyson JJ, Watson LT.

Syst Biol (Stevenage). 2006 Jan;153(1):13-21.

PMID:
16983831
4.

Few crucial links assure checkpoint efficiency in the yeast cell-cycle network.

Stoll G, Rougemont J, Naef F.

Bioinformatics. 2006 Oct 15;22(20):2539-46. Epub 2006 Aug 7.

PMID:
16895923
5.

Genomic analysis of regulatory network dynamics reveals large topological changes.

Luscombe NM, Babu MM, Yu H, Snyder M, Teichmann SA, Gerstein M.

Nature. 2004 Sep 16;431(7006):308-12.

6.

Integrated analysis of multiple data sources reveals modular structure of biological networks.

Lu H, Shi B, Wu G, Zhang Y, Zhu X, Zhang Z, Liu C, Zhao Y, Wu T, Wang J, Chen R.

Biochem Biophys Res Commun. 2006 Jun 23;345(1):302-9. Epub 2006 Apr 27.

PMID:
16690033
7.

Quantitative characterization of the transcriptional regulatory network in the yeast cell cycle.

Chen HC, Lee HC, Lin TY, Li WH, Chen BS.

Bioinformatics. 2004 Aug 12;20(12):1914-27. Epub 2004 Mar 25.

PMID:
15044243
8.

Detecting biological associations between genes based on the theory of phase synchronization.

Kim CS, Riikonen P, Salakoski T.

Biosystems. 2008 May;92(2):99-113. doi: 10.1016/j.biosystems.2007.12.006. Epub 2008 Jan 11.

PMID:
18289772
9.

Statistical inference of transcriptional module-based gene networks from time course gene expression profiles by using state space models.

Hirose O, Yoshida R, Imoto S, Yamaguchi R, Higuchi T, Charnock-Jones DS, Print C, Miyano S.

Bioinformatics. 2008 Apr 1;24(7):932-42. doi: 10.1093/bioinformatics/btm639. Epub 2008 Feb 21.

PMID:
18292116
10.

Network motif-based identification of transcription factor-target gene relationships by integrating multi-source biological data.

Zhang Y, Xuan J, de los Reyes BG, Clarke R, Ressom HW.

BMC Bioinformatics. 2008 Apr 21;9:203. doi: 10.1186/1471-2105-9-203.

11.

Mathematical modeling of complex regulatory networks.

Stelling J, Gilles ED.

IEEE Trans Nanobioscience. 2004 Sep;3(3):172-9.

PMID:
15473069
12.

Building and analysing genome-wide gene disruption networks.

Rung J, Schlitt T, Brazma A, Freivalds K, Vilo J.

Bioinformatics. 2002;18 Suppl 2:S202-10.

PMID:
12386004
13.
14.

Connectivity in the yeast cell cycle transcription network: inferences from neural networks.

Hart CE, Mjolsness E, Wold BJ.

PLoS Comput Biol. 2006 Dec 22;2(12):e169. Epub 2006 Oct 30.

15.

Modelling the network of cell cycle transcription factors in the yeast Saccharomyces cerevisiae.

Cokus S, Rose S, Haynor D, Grønbech-Jensen N, Pellegrini M.

BMC Bioinformatics. 2006 Aug 16;7:381.

16.

Inferring network interactions within a cell.

Carter GW.

Brief Bioinform. 2005 Dec;6(4):380-9. Review.

PMID:
16420736
17.

Stability of functions in Boolean models of gene regulatory networks.

Rämö P, Kesseli J, Yli-Harja O.

Chaos. 2005 Sep;15(3):34101.

PMID:
16252995
18.

Function constrains network architecture and dynamics: a case study on the yeast cell cycle Boolean network.

Lau KY, Ganguli S, Tang C.

Phys Rev E Stat Nonlin Soft Matter Phys. 2007 May;75(5 Pt 1):051907. Epub 2007 May 9.

PMID:
17677098
19.

Modular organization of protein interaction networks.

Luo F, Yang Y, Chen CF, Chang R, Zhou J, Scheuermann RH.

Bioinformatics. 2007 Jan 15;23(2):207-14. Epub 2006 Nov 8. Erratum in: Bioinformatics. 2007 Apr 1;23(7):916.

PMID:
17092991
20.

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

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