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Results: 1 to 20 of 89

Similar articles for PubMed (Select 19528086)

1.

PROMISE: a tool to identify genomic features with a specific biologically interesting pattern of associations with multiple endpoint variables.

Pounds S, Cheng C, Cao X, Crews KR, Plunkett W, Gandhi V, Rubnitz J, Ribeiro RC, Downing JR, Lamba J.

Bioinformatics. 2009 Aug 15;25(16):2013-9. doi: 10.1093/bioinformatics/btp357. Epub 2009 Jun 15.

2.

Integrated analysis of pharmacologic, clinical and SNP microarray data using Projection Onto the Most Interesting Statistical Evidence with Adaptive Permutation Testing.

Pounds S, Cao X, Cheng C, Yang JJ, Campana D, Pui CH, Evans WE, Relling MV.

Int J Data Min Bioinform. 2011;5(2):143-57. doi: 10.1504/IJDMB.2011.039174.

3.

A genomic random interval model for statistical analysis of genomic lesion data.

Pounds S, Cheng C, Li S, Liu Z, Zhang J, Mullighan C.

Bioinformatics. 2013 Sep 1;29(17):2088-95. doi: 10.1093/bioinformatics/btt372. Epub 2013 Jul 10.

4.

A global test for groups of genes: testing association with a clinical outcome.

Goeman JJ, van de Geer SA, de Kort F, van Houwelingen HC.

Bioinformatics. 2004 Jan 1;20(1):93-9.

5.

Testing significance relative to a fold-change threshold is a TREAT.

McCarthy DJ, Smyth GK.

Bioinformatics. 2009 Mar 15;25(6):765-71. doi: 10.1093/bioinformatics/btp053. Epub 2009 Jan 28.

6.

Robust estimation of the false discovery rate.

Pounds S, Cheng C.

Bioinformatics. 2006 Aug 15;22(16):1979-87. Epub 2006 Jun 15.

7.

A procedure to statistically evaluate agreement of differential expression for cross-species genomics.

Pounds S, Gao CL, Johnson RA, Wright KD, Poppleton H, Finkelstein D, Leary SE, Gilbertson RJ.

Bioinformatics. 2011 Aug 1;27(15):2098-103. doi: 10.1093/bioinformatics/btr362. Epub 2011 Jun 22.

8.
9.

Empirical bayesian selection of hypothesis testing procedures for analysis of sequence count expression data.

Pounds SB, Gao CL, Zhang H.

Stat Appl Genet Mol Biol. 2012 Oct 19;11(5). pii: /j/sagmb.2012.11.issue-5/1544-6115.1773/1544-6115.1773.xml. doi: 10.1515/1544-6115.1773.

PMID:
23104841
11.

CoGAPS: an R/C++ package to identify patterns and biological process activity in transcriptomic data.

Fertig EJ, Ding J, Favorov AV, Parmigiani G, Ochs MF.

Bioinformatics. 2010 Nov 1;26(21):2792-3. doi: 10.1093/bioinformatics/btq503. Epub 2010 Sep 1.

12.

DFP: a Bioconductor package for fuzzy profile identification and gene reduction of microarray data.

Glez-Peña D, Alvarez R, Díaz F, Fdez-Riverola F.

BMC Bioinformatics. 2009 Jan 29;10:37. doi: 10.1186/1471-2105-10-37.

13.

Sample size determination for the false discovery rate.

Pounds S, Cheng C.

Bioinformatics. 2005 Dec 1;21(23):4263-71. Epub 2005 Oct 4. Erratum in: Bioinformatics. 2009 Mar 1;25(5):698-9.

14.
15.

Importing ArrayExpress datasets into R/Bioconductor.

Kauffmann A, Rayner TF, Parkinson H, Kapushesky M, Lukk M, Brazma A, Huber W.

Bioinformatics. 2009 Aug 15;25(16):2092-4. doi: 10.1093/bioinformatics/btp354. Epub 2009 Jun 8.

16.

CART variance stabilization and regularization for high-throughput genomic data.

Papana A, Ishwaran H.

Bioinformatics. 2006 Sep 15;22(18):2254-61. Epub 2006 Jul 14.

17.

Matching of array CGH and gene expression microarray features for the purpose of integrative genomic analyses.

van Wieringen WN, Unger K, Leday GG, Krijgsman O, de Menezes RX, Ylstra B, van de Wiel MA.

BMC Bioinformatics. 2012 May 4;13:80. doi: 10.1186/1471-2105-13-80.

18.

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data.

Robinson MD, McCarthy DJ, Smyth GK.

Bioinformatics. 2010 Jan 1;26(1):139-40. doi: 10.1093/bioinformatics/btp616. Epub 2009 Nov 11.

19.

OrderedList--a bioconductor package for detecting similarity in ordered gene lists.

Lottaz C, Yang X, Scheid S, Spang R.

Bioinformatics. 2006 Sep 15;22(18):2315-6. Epub 2006 Jul 14.

20.

Statistical significance of variables driving systematic variation in high-dimensional data.

Chung NC, Storey JD.

Bioinformatics. 2015 Feb 15;31(4):545-54. doi: 10.1093/bioinformatics/btu674. Epub 2014 Oct 21.

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