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Results: 1 to 20 of 53

1.

MAPPFinder: using Gene Ontology and GenMAPP to create a global gene-expression profile from microarray data.

Doniger SW, Salomonis N, Dahlquist KD, Vranizan K, Lawlor SC, Conklin BR.

Genome Biol. 2003;4(1):R7. Epub 2003 Jan 6.

PMID:
12540299
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

Using GenMAPP and MAPPFinder to view microarray data on biological pathways and identify global trends in the data.

Dahlquist KD.

Curr Protoc Bioinformatics. 2004 May;Chapter 7:Unit 7.5. doi: 10.1002/0471250953.bi0705s05.

PMID:
18428731
[PubMed - indexed for MEDLINE]
3.

GObar: a gene ontology based analysis and visualization tool for gene sets.

Lee JS, Katari G, Sachidanandam R.

BMC Bioinformatics. 2005 Jul 25;6:189.

PMID:
16042800
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

GenePaint.org: an atlas of gene expression patterns in the mouse embryo.

Visel A, Thaller C, Eichele G.

Nucleic Acids Res. 2004 Jan 1;32(Database issue):D552-6.

PMID:
14681479
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

SEGS: search for enriched gene sets in microarray data.

Trajkovski I, Lavrac N, Tolar J.

J Biomed Inform. 2008 Aug;41(4):588-601. doi: 10.1016/j.jbi.2007.12.001. Epub 2007 Dec 15.

PMID:
18234563
[PubMed - indexed for MEDLINE]
Free Article
6.

GO-Mapper: functional analysis of gene expression data using the expression level as a score to evaluate Gene Ontology terms.

Smid M, Dorssers LC.

Bioinformatics. 2004 Nov 1;20(16):2618-25. Epub 2004 May 6.

PMID:
15130934
[PubMed - indexed for MEDLINE]
Free Article
7.

ADGO: analysis of differentially expressed gene sets using composite GO annotation.

Nam D, Kim SB, Kim SK, Yang S, Kim SY, Chu IS.

Bioinformatics. 2006 Sep 15;22(18):2249-53. Epub 2006 Jul 12.

PMID:
16837524
[PubMed - indexed for MEDLINE]
Free Article
8.

Ontologizing gene-expression microarray data: characterizing clusters with Gene Ontology.

Robinson PN, Wollstein A, Böhme U, Beattie B.

Bioinformatics. 2004 Apr 12;20(6):979-81. Epub 2004 Feb 5.

PMID:
14764576
[PubMed - indexed for MEDLINE]
Free Article
9.

High-Throughput GoMiner, an 'industrial-strength' integrative gene ontology tool for interpretation of multiple-microarray experiments, with application to studies of Common Variable Immune Deficiency (CVID).

Zeeberg BR, Qin H, Narasimhan S, Sunshine M, Cao H, Kane DW, Reimers M, Stephens RM, Bryant D, Burt SK, Elnekave E, Hari DM, Wynn TA, Cunningham-Rundles C, Stewart DM, Nelson D, Weinstein JN.

BMC Bioinformatics. 2005 Jul 5;6:168.

PMID:
15998470
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

GOurmet: a tool for quantitative comparison and visualization of gene expression profiles based on gene ontology (GO) distributions.

Doherty JM, Carmichael LK, Mills JC.

BMC Bioinformatics. 2006 Mar 17;7:151.

PMID:
16545118
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

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
12.

GoSurfer: a graphical interactive tool for comparative analysis of large gene sets in Gene Ontology space.

Zhong S, Storch KF, Lipan O, Kao MC, Weitz CJ, Wong WH.

Appl Bioinformatics. 2004;3(4):261-4.

PMID:
15702958
[PubMed - indexed for MEDLINE]
13.

M@IA: a modular open-source application for microarray workflow and integrative datamining.

Le Béchec A, Zindy P, Sierocinski T, Petritis D, Bihouée A, Le Meur N, Léger J, Théret N.

In Silico Biol. 2008;8(1):63-9.

PMID:
18430991
[PubMed - indexed for MEDLINE]
14.

RACE: Remote Analysis Computation for gene Expression data.

Psarros M, Heber S, Sick M, Thoppae G, Harshman K, Sick B.

Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W638-43.

PMID:
15980552
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

STEM: a tool for the analysis of short time series gene expression data.

Ernst J, Bar-Joseph Z.

BMC Bioinformatics. 2006 Apr 5;7:191.

PMID:
16597342
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Schistosoma mansoni: DNA microarray gene expression profiling during the miracidium-to-mother sporocyst transformation.

Vermeire JJ, Taft AS, Hoffmann KF, Fitzpatrick JM, Yoshino TP.

Mol Biochem Parasitol. 2006 May;147(1):39-47. Epub 2006 Feb 2.

PMID:
16483678
[PubMed - indexed for MEDLINE]
17.

ChipInfo: Software for extracting gene annotation and gene ontology information for microarray analysis.

Zhong S, Li C, Wong WH.

Nucleic Acids Res. 2003 Jul 1;31(13):3483-6.

PMID:
12824349
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

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
19.

Gene expression signatures identify novel regulatory pathways during murine lung development: implications for lung tumorigenesis.

Bonner AE, Lemon WJ, You M.

J Med Genet. 2003 Jun;40(6):408-17.

PMID:
12807961
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Gene Class expression: analysis tool of Gene Ontology terms with gene expression data.

Pereira GS, Brandão RM, Giuliatti S, Zago MA, Silva WA Jr.

Genet Mol Res. 2006 Mar 31;5(1):108-14.

PMID:
16755502
[PubMed - indexed for MEDLINE]
Free Article

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