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Items: 1 to 20 of 233

1.

Novel definition files for human GeneChips based on GeneAnnot.

Ferrari F, Bortoluzzi S, Coppe A, Sirota A, Safran M, Shmoish M, Ferrari S, Lancet D, Danieli GA, Bicciato S.

BMC Bioinformatics. 2007 Nov 15;8:446.

2.

Transcript-level annotation of Affymetrix probesets improves the interpretation of gene expression data.

Yu H, Wang F, Tu K, Xie L, Li YY, Li YX.

BMC Bioinformatics. 2007 Jun 11;8:194.

3.

GeneAnnot: comprehensive two-way linking between oligonucleotide array probesets and GeneCards genes.

Chalifa-Caspi V, Yanai I, Ophir R, Rosen N, Shmoish M, Benjamin-Rodrig H, Shklar M, Stein TI, Shmueli O, Safran M, Lancet D.

Bioinformatics. 2004 Jun 12;20(9):1457-8.

PMID:
14962929
4.

Splicy: a web-based tool for the prediction of possible alternative splicing events from Affymetrix probeset data.

Rambaldi D, Felice B, Praz V, Bucher P, Cittaro D, Guffanti A.

BMC Bioinformatics. 2007 Mar 8;8 Suppl 1:S17.

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.

6.

GATExplorer: genomic and transcriptomic explorer; mapping expression probes to gene loci, transcripts, exons and ncRNAs.

Risueño A, Fontanillo C, Dinger ME, De Las Rivas J.

BMC Bioinformatics. 2010 Apr 29;11:221. doi: 10.1186/1471-2105-11-221.

7.

Calculation of reliable transcript levels of annotated genes on the basis of multiple probe-sets in Affymetrix microarrays.

Jaksik R, Polańska J, Herok R, Rzeszowska-Wolny J.

Acta Biochim Pol. 2009;56(2):271-7.

8.

A verification protocol for the probe sequences of Affymetrix genome arrays reveals high probe accuracy for studies in mouse, human and rat.

Alberts R, Terpstra P, Hardonk M, Bystrykh LV, de Haan G, Breitling R, Nap JP, Jansen RC.

BMC Bioinformatics. 2007 Apr 20;8:132.

9.

NetAffx: Affymetrix probesets and annotations.

Liu G, Loraine AE, Shigeta R, Cline M, Cheng J, Valmeekam V, Sun S, Kulp D, Siani-Rose MA.

Nucleic Acids Res. 2003 Jan 1;31(1):82-6.

10.

Amplification of the Gene Ontology annotation of Affymetrix probe sets.

Muro EM, Perez-Iratxeta C, Andrade-Navarro MA.

BMC Bioinformatics. 2006 Mar 20;7:159.

11.

Open source software for the analysis of microarray data.

Dudoit S, Gentleman RC, Quackenbush J.

Biotechniques. 2003 Mar;Suppl:45-51. Review.

PMID:
12664684
12.

GeneRetriever: software to extract all genes and transcripts in between two genetic markers to assist design of human custom microarrays.

Clément-Ziza M, Brody Y, Munnich A, Lyonnet S, Besmond C.

Biotechniques. 2005 Aug;39(2):180, 182, 184. No abstract available.

13.

Comparisons of annotation predictions for affymetrix GeneChips.

Stalteri M, Harrison A.

Appl Bioinformatics. 2006;5(4):237-48.

PMID:
17140270
14.

BioMart and Bioconductor: a powerful link between biological databases and microarray data analysis.

Durinck S, Moreau Y, Kasprzyk A, Davis S, De Moor B, Brazma A, Huber W.

Bioinformatics. 2005 Aug 15;21(16):3439-40.

PMID:
16082012
15.

IGG: A tool to integrate GeneChips for genetic studies.

Li MX, Jiang L, Ho SL, Song YQ, Sham PC.

Bioinformatics. 2007 Nov 15;23(22):3105-7.

PMID:
17872914
16.

Characterization of mismatch and high-signal intensity probes associated with Affymetrix genechips.

Wang Y, Miao ZH, Pommier Y, Kawasaki ES, Player A.

Bioinformatics. 2007 Aug 15;23(16):2088-95.

PMID:
17553856
17.

Microarray data representation, annotation and storage.

Brazma A, Sarkans U, Robinson A, Vilo J, Vingron M, Hoheisel J, Fellenberg K.

Adv Biochem Eng Biotechnol. 2002;77:113-39.

PMID:
12227734
18.

MPDA: microarray pooled DNA analyzer.

Yang HC, Huang MC, Li LH, Lin CH, Yu AL, Diccianni MB, Wu JY, Chen YT, Fann CS.

BMC Bioinformatics. 2008 Apr 15;9:196. doi: 10.1186/1471-2105-9-196.

19.

A supervised hidden markov model framework for efficiently segmenting tiling array data in transcriptional and chIP-chip experiments: systematically incorporating validated biological knowledge.

Du J, Rozowsky JS, Korbel JO, Zhang ZD, Royce TE, Schultz MH, Snyder M, Gerstein M.

Bioinformatics. 2006 Dec 15;22(24):3016-24.

PMID:
17038339
20.

Database of repetitive elements in complete genomes and data mining using transcription factor binding sites.

Horng JT, Lin FM, Lin JH, Huang HD, Liu BJ.

IEEE Trans Inf Technol Biomed. 2003 Jun;7(2):93-100.

PMID:
12834164

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