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Results: 1 to 20 of 97

1.

Global analysis of phase locking in gene expression during cell cycle: the potential in network modeling.

Gao S, Hartman JL 4th, Carter JL, Hessner MJ, Wang X.

BMC Syst Biol. 2010 Dec 3;4:167. doi: 10.1186/1752-0509-4-167.

PMID:
21129191
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

Reconstruction of gene regulatory modules in cancer cell cycle by multi-source data integration.

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

PLoS One. 2010 Apr 21;5(4):e10268. doi: 10.1371/journal.pone.0010268.

PMID:
20422009
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

Computational reconstruction of transcriptional regulatory modules of the yeast cell cycle.

Wu WS, Li WH, Chen BS.

BMC Bioinformatics. 2006 Sep 29;7:421.

PMID:
17010188
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

A duplication growth model of gene expression networks.

Bhan A, Galas DJ, Dewey TG.

Bioinformatics. 2002 Nov;18(11):1486-93.

PMID:
12424120
[PubMed - indexed for MEDLINE]
Free Article
5.

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
[PubMed - indexed for MEDLINE]
6.

Identification of highly synchronized subnetworks from gene expression data.

Gao S, Wang X.

BMC Bioinformatics. 2013;14 Suppl 9:S5. doi: 10.1186/1471-2105-14-S9-S5. Epub 2013 Jun 28.

PMID:
23901792
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

The extended TILAR approach: a novel tool for dynamic modeling of the transcription factor network regulating the adaption to in vitro cultivation of murine hepatocytes.

Vlaic S, Schmidt-Heck W, Matz-Soja M, Marbach E, Linde J, Meyer-Baese A, Zellmer S, Guthke R, Gebhardt R.

BMC Syst Biol. 2012 Nov 29;6:147. doi: 10.1186/1752-0509-6-147.

PMID:
23190768
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Integrating multiple types of data to predict novel cell cycle-related genes.

Wang L, Hou L, Qian M, Li F, Deng M.

BMC Syst Biol. 2011 Jun 20;5 Suppl 1:S9. doi: 10.1186/1752-0509-5-S1-S9.

PMID:
21689484
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Inference of sparse combinatorial-control networks from gene-expression data: a message passing approach.

Bailly-Bechet M, Braunstein A, Pagnani A, Weigt M, Zecchina R.

BMC Bioinformatics. 2010 Jun 29;11:355. doi: 10.1186/1471-2105-11-355.

PMID:
20587029
[PubMed - indexed for MEDLINE]
Free PMC Article
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.

PMID:
18426580
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Reverse engineering module networks by PSO-RNN hybrid modeling.

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

BMC Genomics. 2009 Jul 7;10 Suppl 1:S15. doi: 10.1186/1471-2164-10-S1-S15.

PMID:
19594874
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Dissecting the fission yeast regulatory network reveals phase-specific control elements of its cell cycle.

Bushel PR, Heard NA, Gutman R, Liu L, Peddada SD, Pyne S.

BMC Syst Biol. 2009 Sep 16;3:93. doi: 10.1186/1752-0509-3-93.

PMID:
19758441
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

A copula method for modeling directional dependence of genes.

Kim JM, Jung YS, Sungur EA, Han KH, Park C, Sohn I.

BMC Bioinformatics. 2008 May 1;9:225. doi: 10.1186/1471-2105-9-225.

PMID:
18447957
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

A new multiple regression approach for the construction of genetic regulatory networks.

Zhang SQ, Ching WK, Tsing NK, Leung HY, Guo D.

Artif Intell Med. 2010 Feb-Mar;48(2-3):153-60. doi: 10.1016/j.artmed.2009.11.001. Epub 2009 Dec 5.

PMID:
19963359
[PubMed - indexed for MEDLINE]
15.

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
[PubMed - indexed for MEDLINE]
Free Article
16.

A phase synchronization clustering algorithm for identifying interesting groups of genes from cell cycle expression data.

Kim CS, Bae CS, Tcha HJ.

BMC Bioinformatics. 2008 Jan 28;9:56. doi: 10.1186/1471-2105-9-56.

PMID:
18221564
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

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
[PubMed - indexed for MEDLINE]
Free Article
18.

Dynamic modeling of cis-regulatory circuits and gene expression prediction via cross-gene identification.

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

BMC Bioinformatics. 2005 Oct 18;6:258.

PMID:
16232312
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

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.

PMID:
17194216
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Identifying regulatory targets of cell cycle transcription factors using gene expression and ChIP-chip data.

Wu WS, Li WH, Chen BS.

BMC Bioinformatics. 2007 Jun 8;8:188.

PMID:
17559637
[PubMed - indexed for MEDLINE]
Free PMC Article

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