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Results: 1 to 20 of 121

1.

A Local Poisson Graphical Model for inferring networks from sequencing data.

Allen GI, Liu Z.

IEEE Trans Nanobioscience. 2013 Sep;12(3):189-98. doi: 10.1109/TNB.2013.2263838. Epub 2013 Aug 15.

PMID:
23955777
[PubMed - indexed for MEDLINE]
2.

A hierarchical poisson log-normal model for network inference from RNA sequencing data.

Gallopin M, Rau A, Jaffrézic F.

PLoS One. 2013 Oct 17;8(10):e77503. doi: 10.1371/journal.pone.0077503. eCollection 2013.

PMID:
24147011
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

Inferring gene networks from discrete expression data.

Zhang L, Mallick BK.

Biostatistics. 2013 Sep;14(4):708-22. doi: 10.1093/biostatistics/kxt021. Epub 2013 Jul 18.

PMID:
23873894
[PubMed - indexed for MEDLINE]
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.

Weighted lasso in graphical Gaussian modeling for large gene network estimation based on microarray data.

Shimamura T, Imoto S, Yamaguchi R, Miyano S.

Genome Inform. 2007;19:142-53.

PMID:
18546512
[PubMed - indexed for MEDLINE]
6.

Inferring large-scale gene regulatory networks using a low-order constraint-based algorithm.

Wang M, Augusto Benedito V, Xuechun Zhao P, Udvardi M.

Mol Biosyst. 2010 Jun;6(6):988-98. doi: 10.1039/b917571g. Epub 2010 Feb 19.

PMID:
20485743
[PubMed - indexed for MEDLINE]
7.

Gaussian graphical model for identifying significantly responsive regulatory networks from time course high-throughput data.

Liu ZP, Zhang W, Horimoto K, Chen L.

IET Syst Biol. 2013 Oct;7(5):143-52. doi: 10.1049/iet-syb.2012.0062.

PMID:
24067414
[PubMed - indexed for MEDLINE]
8.

A scale-free structure prior for graphical models with applications in functional genomics.

Sheridan P, Kamimura T, Shimodaira H.

PLoS One. 2010 Nov 5;5(11):e13580. doi: 10.1371/journal.pone.0013580.

PMID:
21079769
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Gene regulatory networks from multifactorial perturbations using Graphical Lasso: application to the DREAM4 challenge.

Menéndez P, Kourmpetis YA, ter Braak CJ, van Eeuwijk FA.

PLoS One. 2010 Dec 20;5(12):e14147. doi: 10.1371/journal.pone.0014147.

PMID:
21188141
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

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
11.

Poisson factor models with applications to non-normalized microRNA profiling.

Lee S, Chugh PE, Shen H, Eberle R, Dittmer DP.

Bioinformatics. 2013 May 1;29(9):1105-11. doi: 10.1093/bioinformatics/btt091. Epub 2013 Feb 21.

PMID:
23428639
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

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]
13.

Ultra-high throughput sequencing-based small RNA discovery and discrete statistical biomarker analysis in a collection of cervical tumours and matched controls.

Witten D, Tibshirani R, Gu SG, Fire A, Lui WO.

BMC Biol. 2010 May 11;8:58. doi: 10.1186/1741-7007-8-58.

PMID:
20459774
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

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]
15.

Deducing corticotropin-releasing hormone receptor type 1 signaling networks from gene expression data by usage of genetic algorithms and graphical Gaussian models.

Trümbach D, Graf C, Pütz B, Kühne C, Panhuysen M, Weber P, Holsboer F, Wurst W, Welzl G, Deussing JM.

BMC Syst Biol. 2010 Nov 19;4:159. doi: 10.1186/1752-0509-4-159.

PMID:
21092110
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

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
17.

Joint estimation of causal effects from observational and intervention gene expression data.

Rau A, Jaffrézic F, Nuel G.

BMC Syst Biol. 2013 Oct 31;7:111. doi: 10.1186/1752-0509-7-111.

PMID:
24172639
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

An empirical Bayes approach to inferring large-scale gene association networks.

Schäfer J, Strimmer K.

Bioinformatics. 2005 Mar;21(6):754-64. Epub 2004 Oct 12.

PMID:
15479708
[PubMed - indexed for MEDLINE]
Free Article
19.

Inferring coregulation of transcription factors and microRNAs in breast cancer.

Wu JH, Sun YJ, Hsieh PH, Shieh GS.

Gene. 2013 Apr 10;518(1):139-44. doi: 10.1016/j.gene.2012.11.056. Epub 2012 Dec 14.

PMID:
23246694
[PubMed - indexed for MEDLINE]
20.

Statistical identification of gene association by CID in application of constructing ER regulatory network.

Liu LY, Chen CY, Chen MJ, Tsai MS, Lee CH, Phang TL, Chang LY, Kuo WH, Hwa HL, Lien HC, Jung SM, Lin YS, Chang KJ, Hsieh FJ.

BMC Bioinformatics. 2009 Mar 17;10:85. doi: 10.1186/1471-2105-10-85.

PMID:
19292896
[PubMed - indexed for MEDLINE]
Free PMC Article

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