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Items: 1 to 20 of 103

1.

Tracing dynamic biological processes during phase transition.

Zeng T, Chen L.

BMC Syst Biol. 2012;6 Suppl 1:S12. doi: 10.1186/1752-0509-6-S1-S12. Epub 2012 Jul 16. Erratum in: BMC Syst Biol. 2012 Jul 16;6 Suppl 1:S23.

2.

Identifying responsive modules by mathematical programming: an application to budding yeast cell cycle.

Wen Z, Liu ZP, Yan Y, Piao G, Liu Z, Wu J, Chen L.

PLoS One. 2012;7(7):e41854. doi: 10.1371/journal.pone.0041854. Epub 2012 Jul 25.

3.

Robustness and adaptation reveal plausible cell cycle controlling subnetwork in Saccharomyces cerevisiae.

Huang JY, Huang CW, Kao KC, Lai PY.

Gene. 2013 Apr 10;518(1):35-41. doi: 10.1016/j.gene.2012.11.088. Epub 2012 Dec 27.

PMID:
23274654
4.

A checkpoints capturing timing-robust Boolean model of the budding yeast cell cycle regulatory network.

Hong C, Lee M, Kim D, Kim D, Cho KH, Shin I.

BMC Syst Biol. 2012 Sep 28;6:129. doi: 10.1186/1752-0509-6-129.

5.

Pathway network inference from gene expression data.

Ponzoni I, Nueda M, Tarazona S, Götz S, Montaner D, Dussaut J, Dopazo J, Conesa A.

BMC Syst Biol. 2014;8 Suppl 2:S7. doi: 10.1186/1752-0509-8-S2-S7. Epub 2014 Mar 13.

6.

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.

7.

Quantitative inference of dynamic regulatory pathways via microarray data.

Chang WC, Li CW, Chen BS.

BMC Bioinformatics. 2005 Mar 7;6:44.

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.

A novel method to identify cooperative functional modules: study of module coordination in the Saccharomyces cerevisiae cell cycle.

Hsu JT, Peng CH, Hsieh WP, Lan CY, Tang CY.

BMC Bioinformatics. 2011 Jul 12;12:281. doi: 10.1186/1471-2105-12-281.

10.

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.

11.

Time-dependent structural transformation analysis to high-level Petri net model with active state transition diagram.

Li C, Nagasaki M, Saito A, Miyano S.

BMC Syst Biol. 2010 Apr 1;4:39. doi: 10.1186/1752-0509-4-39.

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.

13.

Cell growth and cell cycle in Saccharomyces cerevisiae: basic regulatory design and protein-protein interaction network.

Alberghina L, Mavelli G, Drovandi G, Palumbo P, Pessina S, Tripodi F, Coccetti P, Vanoni M.

Biotechnol Adv. 2012 Jan-Feb;30(1):52-72. doi: 10.1016/j.biotechadv.2011.07.010. Epub 2011 Jul 22. Review.

PMID:
21821114
14.

Hierarchical coordination of periodic genes in the cell cycle of Saccharomyces cerevisiae.

Emmert-Streib F, Dehmer M.

BMC Syst Biol. 2009 Jul 20;3:76. doi: 10.1186/1752-0509-3-76.

15.

Branching process deconvolution algorithm reveals a detailed cell-cycle transcription program.

Guo X, Bernard A, Orlando DA, Haase SB, Hartemink AJ.

Proc Natl Acad Sci U S A. 2013 Mar 5;110(10):E968-77. doi: 10.1073/pnas.1120991110. Epub 2013 Feb 6.

16.
17.

Dynamics of the cell-cycle network under genome-rewiring perturbations.

Katzir Y, Elhanati Y, Averbukh I, Braun E.

Phys Biol. 2013 Dec;10(6):066001. doi: 10.1088/1478-3975/10/6/066001. Epub 2013 Oct 28.

PMID:
24162518
18.

Dynamic biclustering of microarray data by multi-objective immune optimization.

Liu J, Li Z, Hu X, Chen Y, Park EK.

BMC Genomics. 2011;12 Suppl 2:S11. doi: 10.1186/1471-2164-12-S2-S11. Epub 2011 Jul 27.

19.

Inferring a transcriptional regulatory network of the cytokinesis-related genes by network component analysis.

Chen SF, Juang YL, Chou WK, Lai JM, Huang CY, Kao CY, Wang FS.

BMC Syst Biol. 2009 Nov 27;3:110. doi: 10.1186/1752-0509-3-110.

20.

A method to identify differential expression profiles of time-course gene data with Fourier transformation.

Kim J, Ogden RT, Kim H.

BMC Bioinformatics. 2013 Oct 18;14:310. doi: 10.1186/1471-2105-14-310.

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