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Results: 1 to 20 of 100

1.

The impact of measurement errors in the identification of regulatory networks.

Fujita A, Patriota AG, Sato JR, Miyano S.

BMC Bioinformatics. 2009 Dec 13;10:412. doi: 10.1186/1471-2105-10-412.

PMID:
20003382
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

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
3.

Regularized estimation of large-scale gene association networks using graphical Gaussian models.

Krämer N, Schäfer J, Boulesteix AL.

BMC Bioinformatics. 2009 Nov 24;10:384. doi: 10.1186/1471-2105-10-384.

PMID:
19930695
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Inferring gene regulatory networks via nonlinear state-space models and exploiting sparsity.

Noor A, Serpedin E, Nounou M, Nounou HN.

IEEE/ACM Trans Comput Biol Bioinform. 2012 Jul-Aug;9(4):1203-11. doi: 10.1109/TCBB.2012.32.

PMID:
22350207
[PubMed - indexed for MEDLINE]
5.

Modeling gene expression regulatory networks with the sparse vector autoregressive model.

Fujita A, Sato JR, Garay-Malpartida HM, Yamaguchi R, Miyano S, Sogayar MC, Ferreira CE.

BMC Syst Biol. 2007 Aug 30;1:39.

PMID:
17761000
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Are scale-free networks robust to measurement errors?

Lin N, Zhao H.

BMC Bioinformatics. 2005 May 16;6:119.

PMID:
15904487
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

svdPPCS: an effective singular value decomposition-based method for conserved and divergent co-expression gene module identification.

Zhang W, Edwards A, Fan W, Zhu D, Zhang K.

BMC Bioinformatics. 2010 Jun 22;11:338. doi: 10.1186/1471-2105-11-338.

PMID:
20565989
[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.

Identifying regulational alterations in gene regulatory networks by state space representation of vector autoregressive models and variational annealing.

Kojima K, Imoto S, Yamaguchi R, Fujita A, Yamauchi M, Gotoh N, Miyano S.

BMC Genomics. 2012;13 Suppl 1:S6. doi: 10.1186/1471-2164-13-S1-S6. Epub 2012 Jan 17.

PMID:
22369122
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

A parallel implementation of the network identification by multiple regression (NIR) algorithm to reverse-engineer regulatory gene networks.

Gregoretti F, Belcastro V, di Bernardo D, Oliva G.

PLoS One. 2010 Apr 21;5(4):e10179. doi: 10.1371/journal.pone.0010179.

PMID:
20422008
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Comparative study of discretization methods of microarray data for inferring transcriptional regulatory networks.

Li Y, Liu L, Bai X, Cai H, Ji W, Guo D, Zhu Y.

BMC Bioinformatics. 2010 Oct 19;11:520. doi: 10.1186/1471-2105-11-520.

PMID:
20955620
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Stochastic dynamic modeling of short gene expression time-series data.

Wang Z, Yang F, Ho DW, Swift S, Tucker A, Liu X.

IEEE Trans Nanobioscience. 2008 Mar;7(1):44-55. doi: 10.1109/TNB.2008.2000149.

PMID:
18334455
[PubMed - indexed for MEDLINE]
13.

Reconstructing directed signed gene regulatory network from microarray data.

Qiu P, Plevritis SK.

IEEE Trans Biomed Eng. 2011 Dec;58(12):3518-21. doi: 10.1109/TBME.2011.2163188. Epub 2011 Jul 29.

PMID:
21803675
[PubMed - indexed for MEDLINE]
14.

Inferring gene regulatory networks from asynchronous microarray data with AIRnet.

Oviatt D, Clement M, Snell Q, Sundberg K, Lai CW, Allen J, Roper R.

BMC Genomics. 2010 Nov 2;11 Suppl 2:S6. doi: 10.1186/1471-2164-11-S2-S6.

PMID:
21047387
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Estimating dynamic models for gene regulation networks.

Cao J, Zhao H.

Bioinformatics. 2008 Jul 15;24(14):1619-24. doi: 10.1093/bioinformatics/btn246. Epub 2008 May 27.

PMID:
18505754
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

A novel gene network inference algorithm using predictive minimum description length approach.

Chaitankar V, Ghosh P, Perkins EJ, Gong P, Deng Y, Zhang C.

BMC Syst Biol. 2010 May 28;4 Suppl 1:S7. doi: 10.1186/1752-0509-4-S1-S7.

PMID:
20522257
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Inferring regulatory networks.

Li H, Xuan J, Wang Y, Zhan M.

Front Biosci. 2008 Jan 1;13:263-75. Review.

PMID:
17981545
[PubMed - indexed for MEDLINE]
18.

Inferring gene regulatory networks using differential evolution with local search heuristics.

Noman N, Iba H.

IEEE/ACM Trans Comput Biol Bioinform. 2007 Oct-Dec;4(4):634-47.

PMID:
17975274
[PubMed - indexed for MEDLINE]
19.

Human gene coexpression landscape: confident network derived from tissue transcriptomic profiles.

Prieto C, Risueño A, Fontanillo C, De las Rivas J.

PLoS One. 2008;3(12):e3911. doi: 10.1371/journal.pone.0003911. Epub 2008 Dec 15.

PMID:
19081792
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

STARNET 2: a web-based tool for accelerating discovery of gene regulatory networks using microarray co-expression data.

Jupiter D, Chen H, VanBuren V.

BMC Bioinformatics. 2009 Oct 14;10:332. doi: 10.1186/1471-2105-10-332.

PMID:
19828039
[PubMed - indexed for MEDLINE]
Free PMC Article

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