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Results: 1 to 20 of 160

1.

Inferring robust gene networks from expression data by a sensitivity-based incremental evolution method.

Hsiao YT, Lee WP.

BMC Bioinformatics. 2012 May 8;13 Suppl 7:S8. doi: 10.1186/1471-2105-13-S7-S8.

PMID:
22595005
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

Inferring gene regulatory networks from gene expression data by path consistency algorithm based on conditional mutual information.

Zhang X, Zhao XM, He K, Lu L, Cao Y, Liu J, Hao JK, Liu ZP, Chen L.

Bioinformatics. 2012 Jan 1;28(1):98-104. doi: 10.1093/bioinformatics/btr626. Epub 2011 Nov 15.

PMID:
22088843
[PubMed - indexed for MEDLINE]
Free Article
3.

Unraveling gene regulatory networks from time-resolved gene expression data - a measures comparison study.

Hempel S, Koseska A, Nikoloski Z, Kurths J.

BMC Bioinformatics. 2011 Jul 19;12:292. doi: 10.1186/1471-2105-12-292.

PMID:
21771321
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Inferring gene regulatory networks by singular value decomposition and gravitation field algorithm.

Zheng M, Wu JN, Huang YX, Liu GX, Zhou Y, Zhou CG.

PLoS One. 2012;7(12):e51141. doi: 10.1371/journal.pone.0051141. Epub 2012 Dec 4.

PMID:
23226565
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

An S-System Parameter Estimation Method (SPEM) for biological networks.

Yang X, Dent JE, Nardini C.

J Comput Biol. 2012 Feb;19(2):175-87. doi: 10.1089/cmb.2011.0269.

PMID:
22300319
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Incorporating time-delays in S-System model for reverse engineering genetic networks.

Chowdhury AR, Chetty M, Vinh NX.

BMC Bioinformatics. 2013 Jun 18;14:196. doi: 10.1186/1471-2105-14-196.

PMID:
23777625
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

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
8.

An integer optimization algorithm for robust identification of non-linear gene regulatory networks.

Chemmangattuvalappil N, Task K, Banerjee I.

BMC Syst Biol. 2012 Sep 2;6:119.

PMID:
22937832
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Reconstructing genome-wide regulatory network of E. coli using transcriptome data and predicted transcription factor activities.

Fu Y, Jarboe LR, Dickerson JA.

BMC Bioinformatics. 2011 Jun 13;12:233. doi: 10.1186/1471-2105-12-233.

PMID:
21668997
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

A swarm intelligence framework for reconstructing gene networks: searching for biologically plausible architectures.

Kentzoglanakis K, Poole M.

IEEE/ACM Trans Comput Biol Bioinform. 2012;9(2):358-71. doi: 10.1109/TCBB.2011.87. Epub 2011 Apr 29.

PMID:
21576756
[PubMed - indexed for MEDLINE]
11.

Identification of biochemical networks by S-tree based genetic programming.

Cho DY, Cho KH, Zhang BT.

Bioinformatics. 2006 Jul 1;22(13):1631-40. Epub 2006 Apr 3.

PMID:
16585066
[PubMed - indexed for MEDLINE]
Free Article
12.

Reverse engineering gene regulatory network from microarray data using linear time-variant model.

Kabir M, Noman N, Iba H.

BMC Bioinformatics. 2010 Jan 18;11 Suppl 1:S56. doi: 10.1186/1471-2105-11-S1-S56.

PMID:
20122231
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Network evaluation from the consistency of the graph structure with the measured data.

Saito S, Aburatani S, Horimoto K.

BMC Syst Biol. 2008 Oct 1;2:84. doi: 10.1186/1752-0509-2-84.

PMID:
18828895
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

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.

PMID:
20338053
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Gene expression complex networks: synthesis, identification, and analysis.

Lopes FM, Cesar RM, Costa Lda F.

J Comput Biol. 2011 Oct;18(10):1353-67. doi: 10.1089/cmb.2010.0118. Epub 2011 May 6.

PMID:
21548810
[PubMed - indexed for MEDLINE]
16.

An algebra-based method for inferring gene regulatory networks.

Vera-Licona P, Jarrah A, Garcia-Puente LD, McGee J, Laubenbacher R.

BMC Syst Biol. 2014 Mar 26;8:37. doi: 10.1186/1752-0509-8-37.

PMID:
24669835
[PubMed - in process]
Free PMC Article
17.

A declarative constraint-based method for analyzing discrete genetic regulatory networks.

Corblin F, Tripodi S, Fanchon E, Ropers D, Trilling L.

Biosystems. 2009 Nov;98(2):91-104. doi: 10.1016/j.biosystems.2009.07.007. Epub 2009 Aug 5.

PMID:
19664681
[PubMed - indexed for MEDLINE]
18.

Inferring network interactions using recurrent neural networks and swarm intelligence.

Ressom HW, Zhang Y, Xuan J, Wang Y, Clarke R.

Conf Proc IEEE Eng Med Biol Soc. 2006;1:4241-4.

PMID:
17946231
[PubMed - indexed for MEDLINE]
19.

Inferring Drosophila gap gene regulatory network: a parameter sensitivity and perturbation analysis.

Fomekong-Nanfack Y, Postma M, Kaandorp JA.

BMC Syst Biol. 2009 Sep 21;3:94. doi: 10.1186/1752-0509-3-94.

PMID:
19769791
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Stochastic Boolean networks: an efficient approach to modeling gene regulatory networks.

Liang J, Han J.

BMC Syst Biol. 2012 Aug 28;6:113. doi: 10.1186/1752-0509-6-113.

PMID:
22929591
[PubMed - indexed for MEDLINE]
Free PMC Article

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