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Results: 1 to 20 of 61

1.

Mining for coexpression across hundreds of datasets using novel rank aggregation and visualization methods.

Adler P, Kolde R, Kull M, Tkachenko A, Peterson H, Reimand J, Vilo J.

Genome Biol. 2009;10(12):R139. doi: 10.1186/gb-2009-10-12-r139. Epub 2009 Dec 4.

PMID:
19961599
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

MILANO--custom annotation of microarray results using automatic literature searches.

Rubinstein R, Simon I.

BMC Bioinformatics. 2005 Jan 20;6:12.

PMID:
15661078
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

PubMatrix: a tool for multiplex literature mining.

Becker KG, Hosack DA, Dennis G Jr, Lempicki RA, Bright TJ, Cheadle C, Engel J.

BMC Bioinformatics. 2003 Dec 10;4:61.

PMID:
14667255
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

DRAGON View: information visualization for annotated microarray data.

Bouton CM, Pevsner J.

Bioinformatics. 2002 Feb;18(2):323-4.

PMID:
11847082
[PubMed - indexed for MEDLINE]
Free Article
5.

A visual data mining tool that facilitates reconstruction of transcription regulatory networks.

Jupiter DC, VanBuren V.

PLoS One. 2008 Mar 5;3(3):e1717. doi: 10.1371/journal.pone.0001717.

PMID:
18320038
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Seeking unique and common biological themes in multiple gene lists or datasets: pathway pattern extraction pipeline for pathway-level comparative analysis.

Yi M, Mudunuri U, Che A, Stephens RM.

BMC Bioinformatics. 2009 Jun 29;10:200. doi: 10.1186/1471-2105-10-200.

PMID:
19563622
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

ISACGH: a web-based environment for the analysis of Array CGH and gene expression which includes functional profiling.

Conde L, Montaner D, Burguet-Castell J, Tárraga J, Medina I, Al-Shahrour F, Dopazo J.

Nucleic Acids Res. 2007 Jul;35(Web Server issue):W81-5. Epub 2007 Apr 27.

PMID:
17468499
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

GEM-TREND: a web tool for gene expression data mining toward relevant network discovery.

Feng C, Araki M, Kunimoto R, Tamon A, Makiguchi H, Niijima S, Tsujimoto G, Okuno Y.

BMC Genomics. 2009 Sep 3;10:411. doi: 10.1186/1471-2164-10-411.

PMID:
19728865
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

WGCNA: an R package for weighted correlation network analysis.

Langfelder P, Horvath S.

BMC Bioinformatics. 2008 Dec 29;9:559. doi: 10.1186/1471-2105-9-559.

PMID:
19114008
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

DGEM--a microarray gene expression database for primary human disease tissues.

Xia Y, Campen A, Rigsby D, Guo Y, Feng X, Su EW, Palakal M, Li S.

Mol Diagn Ther. 2007;11(3):145-9.

PMID:
17570735
[PubMed - indexed for MEDLINE]
11.

Two-pass imputation algorithm for missing value estimation in gene expression time series.

Tsiporkova E, Boeva V.

J Bioinform Comput Biol. 2007 Oct;5(5):1005-22.

PMID:
17933008
[PubMed - indexed for MEDLINE]
12.

Gene Aging Nexus: a web database and data mining platform for microarray data on aging.

Pan F, Chiu CH, Pulapura S, Mehan MR, Nunez-Iglesias J, Zhang K, Kamath K, Waterman MS, Finch CE, Zhou XJ.

Nucleic Acids Res. 2007 Jan;35(Database issue):D756-9. Epub 2006 Nov 7.

PMID:
17090592
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Comparison and evaluation of methods for generating differentially expressed gene lists from microarray data.

Jeffery IB, Higgins DG, Culhane AC.

BMC Bioinformatics. 2006 Jul 26;7:359.

PMID:
16872483
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

g:Profiler--a web-based toolset for functional profiling of gene lists from large-scale experiments.

Reimand J, Kull M, Peterson H, Hansen J, Vilo J.

Nucleic Acids Res. 2007 Jul;35(Web Server issue):W193-200. Epub 2007 May 3.

PMID:
17478515
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

GeneShelf: a web-based visual interface for large gene expression time-series data repositories.

Kim B, Lee B, Knoblach S, Hoffman E, Seo J.

IEEE Trans Vis Comput Graph. 2009 Nov-Dec;15(6):905-12. doi: 10.1109/TVCG.2009.146.

PMID:
19834153
[PubMed - indexed for MEDLINE]
16.

Probing differentially expressed genes against a microarray database for in silico suppressor/enhancer and inhibitor/activator screens.

Reina-Pinto JJ, Voisin D, Teodor R, Yephremov A.

Plant J. 2010 Jan;61(1):166-75. doi: 10.1111/j.1365-313X.2009.04043.x. Epub 2009 Oct 7.

PMID:
19811619
[PubMed - indexed for MEDLINE]
17.

ExonMiner: Web service for analysis of GeneChip Exon array data.

Numata K, Yoshida R, Nagasaki M, Saito A, Imoto S, Miyano S.

BMC Bioinformatics. 2008 Nov 26;9:494. doi: 10.1186/1471-2105-9-494.

PMID:
19036125
[PubMed - indexed for MEDLINE]
Free PMC Article
18.
19.

The bioinformatics resource for oral pathogens.

Chen T, Abbey K, Deng WJ, Cheng MC.

Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W734-40.

PMID:
15980574
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

EDGE(3): a web-based solution for management and analysis of Agilent two color microarray experiments.

Vollrath AL, Smith AA, Craven M, Bradfield CA.

BMC Bioinformatics. 2009 Sep 4;10:280. doi: 10.1186/1471-2105-10-280.

PMID:
19732451
[PubMed - indexed for MEDLINE]
Free PMC Article

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