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Results: 1 to 20 of 95

1.

Design and implementation of microarray gene expression markup language (MAGE-ML).

Spellman PT, Miller M, Stewart J, Troup C, Sarkans U, Chervitz S, Bernhart D, Sherlock G, Ball C, Lepage M, Swiatek M, Marks WL, Goncalves J, Markel S, Iordan D, Shojatalab M, Pizarro A, White J, Hubley R, Deutsch E, Senger M, Aronow BJ, Robinson A, Bassett D, Stoeckert CJ Jr, Brazma A.

Genome Biol. 2002 Aug 23;3(9):RESEARCH0046. Epub 2002 Aug 23.

PMID:
12225585
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

The MGED Ontology: a resource for semantics-based description of microarray experiments.

Whetzel PL, Parkinson H, Causton HC, Fan L, Fostel J, Fragoso G, Game L, Heiskanen M, Morrison N, Rocca-Serra P, Sansone SA, Taylor C, White J, Stoeckert CJ Jr.

Bioinformatics. 2006 Apr 1;22(7):866-73. Epub 2006 Jan 21.

PMID:
16428806
[PubMed - indexed for MEDLINE]
Free Article
3.

EMMA 2--a MAGE-compliant system for the collaborative analysis and integration of microarray data.

Dondrup M, Albaum SP, Griebel T, Henckel K, Jünemann S, Kahlke T, Kleindt CK, Küster H, Linke B, Mertens D, Mittard-Runte V, Neuweger H, Runte KJ, Tauch A, Tille F, Pühler A, Goesmann A.

BMC Bioinformatics. 2009 Feb 6;10:50. doi: 10.1186/1471-2105-10-50.

PMID:
19200358
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

MGED standards: work in progress.

Ball CA, Brazma A.

OMICS. 2006 Summer;10(2):138-44. Review.

PMID:
16901218
[PubMed - indexed for MEDLINE]
5.

Cross-species and cross-platform gene expression studies with the Bioconductor-compliant R package 'annotationTools'.

Kuhn A, Luthi-Carter R, Delorenzi M.

BMC Bioinformatics. 2008 Jan 17;9:26. doi: 10.1186/1471-2105-9-26.

PMID:
18201381
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Importing MAGE-ML format microarray data into BioConductor.

Durinck S, Allemeersch J, Carey VJ, Moreau Y, De Moor B.

Bioinformatics. 2004 Dec 12;20(18):3641-2. Epub 2004 Jul 15.

PMID:
15256416
[PubMed - indexed for MEDLINE]
Free Article
7.

CEBS object model for systems biology data, SysBio-OM.

Xirasagar S, Gustafson S, Merrick BA, Tomer KB, Stasiewicz S, Chan DD, Yost KJ 3rd, Yates JR 3rd, Sumner S, Xiao N, Waters MD.

Bioinformatics. 2004 Sep 1;20(13):2004-15. Epub 2004 Mar 25.

PMID:
15044233
[PubMed - indexed for MEDLINE]
Free Article
8.

An object model and database for functional genomics.

Jones A, Hunt E, Wastling JM, Pizarro A, Stoeckert CJ Jr.

Bioinformatics. 2004 Jul 10;20(10):1583-90. Epub 2004 May 14.

PMID:
15145818
[PubMed - indexed for MEDLINE]
Free Article
9.

An XML message broker framework for exchange and integration of microarray data.

Tjandra D, Wong S, Shen W, Pulliam B, Yu E, Esserman L.

Bioinformatics. 2003 Sep 22;19(14):1844-5.

PMID:
14512357
[PubMed - indexed for MEDLINE]
Free Article
10.

Microarray databases: standards and ontologies.

Stoeckert CJ Jr, Causton HC, Ball CA.

Nat Genet. 2002 Dec;32 Suppl:469-73. Review.

PMID:
12454640
[PubMed - indexed for MEDLINE]
11.

Chemical effects in biological systems (CEBS) object model for toxicology data, SysTox-OM: design and application.

Xirasagar S, Gustafson SF, Huang CC, Pan Q, Fostel J, Boyer P, Merrick BA, Tomer KB, Chan DD, Yost KJ 3rd, Choi D, Xiao N, Stasiewicz S, Bushel P, Waters MD.

Bioinformatics. 2006 Apr 1;22(7):874-82. Epub 2006 Jan 12.

PMID:
16410321
[PubMed - indexed for MEDLINE]
Free Article
12.

A software framework for microarray and gene expression object model (MAGE-OM) array design annotation.

Qureshi M, Ivens A.

BMC Genomics. 2008 Mar 20;9:133. doi: 10.1186/1471-2164-9-133.

PMID:
18366695
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

cluML: A markup language for clustering and cluster validity assessment of microarray data.

Bolshakova N, Cunningham P.

Appl Bioinformatics. 2005;4(3):211-3.

PMID:
16231963
[PubMed - indexed for MEDLINE]
14.

A Fisheye Viewer for microarray-based gene expression data.

Wu M, Thao C, Mu X, Munson EV.

BMC Bioinformatics. 2006 Oct 13;7:452.

PMID:
17038193
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

MicroArray Facility: a laboratory information management system with extended support for Nylon based technologies.

Honoré P, Granjeaud S, Tagett R, Deraco S, Beaudoing E, Rougemont J, Debono S, Hingamp P.

BMC Genomics. 2006 Sep 20;7:240.

PMID:
16987406
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

MIMAS: an innovative tool for network-based high density oligonucleotide microarray data management and annotation.

Hermida L, Schaad O, Demougin P, Descombes P, Primig M.

BMC Bioinformatics. 2006 Apr 5;7:190.

PMID:
16597336
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

SBEAMS-Microarray: database software supporting genomic expression analyses for systems biology.

Marzolf B, Deutsch EW, Moss P, Campbell D, Johnson MH, Galitski T.

BMC Bioinformatics. 2006 Jun 6;7:286.

PMID:
16756676
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

SIMAGE: simulation of DNA-microarray gene expression data.

Albers CJ, Jansen RC, Kok J, Kuipers OP, van Hijum SA.

BMC Bioinformatics. 2006 Apr 13;7:205.

PMID:
16613602
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

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]
20.

TmaDB: a repository for tissue microarray data.

Sharma-Oates A, Quirke P, Westhead DR.

BMC Bioinformatics. 2005 Sep 1;6:218.

PMID:
16137321
[PubMed - indexed for MEDLINE]
Free PMC Article

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