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Results: 1 to 20 of 82

1.

Feature-level exploration of a published Affymetrix GeneChip control dataset.

Irizarry RA, Cope LM, Wu Z.

Genome Biol. 2006;7(8):404.

PMID:
16953902
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

A reanalysis of a published Affymetrix GeneChip control dataset.

Dabney AR, Storey JD.

Genome Biol. 2006;7(3):401. Epub 2006 Mar 22.

PMID:
16563185
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

Preferred analysis methods for Affymetrix GeneChips revealed by a wholly defined control dataset.

Choe SE, Boutros M, Michelson AM, Church GM, Halfon MS.

Genome Biol. 2005;6(2):R16. Epub 2005 Jan 28.

PMID:
15693945
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Contrast normalization of oligonucleotide arrays.

Astrand M.

J Comput Biol. 2003;10(1):95-102.

PMID:
12676053
[PubMed - indexed for MEDLINE]
5.

Methods for evaluating gene expression from Affymetrix microarray datasets.

Jiang N, Leach LJ, Hu X, Potokina E, Jia T, Druka A, Waugh R, Kearsey MJ, Luo ZW.

BMC Bioinformatics. 2008 Jun 17;9:284. doi: 10.1186/1471-2105-9-284.

PMID:
18559105
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

An overview of image-processing methods for Affymetrix GeneChips.

Arteaga-Salas JM, Zuzan H, Langdon WB, Upton GJ, Harrison AP.

Brief Bioinform. 2008 Jan;9(1):25-33. Epub 2007 Dec 5. Review.

PMID:
18057073
[PubMed - indexed for MEDLINE]
Free Article
7.

Probes containing runs of guanines provide insights into the biophysics and bioinformatics of Affymetrix GeneChips.

Langdon WB, Upton GJ, Harrison AP.

Brief Bioinform. 2009 May;10(3):259-77. doi: 10.1093/bib/bbp018. Epub 2009 Apr 8.

PMID:
19359259
[PubMed - indexed for MEDLINE]
Free Article
8.

Microarray labeling extension values: laboratory signatures for Affymetrix GeneChips.

Lee YS, Chen CH, Tsai CN, Tsai CL, Chao A, Wang TH.

Nucleic Acids Res. 2009 May;37(8):e61. doi: 10.1093/nar/gkp168. Epub 2009 Mar 18.

PMID:
19295132
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

A sequence-based identification of the genes detected by probesets on the Affymetrix U133 plus 2.0 array.

Harbig J, Sprinkle R, Enkemann SA.

Nucleic Acids Res. 2005 Feb 18;33(3):e31.

PMID:
15722477
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Preferred analysis methods for Affymetrix GeneChips. II. An expanded, balanced, wholly-defined spike-in dataset.

Zhu Q, Miecznikowski JC, Halfon MS.

BMC Bioinformatics. 2010 May 27;11:285. doi: 10.1186/1471-2105-11-285.

PMID:
20507584
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Expression Profiling Using Affymetrix GeneChip Microarrays.

Auer H, Newsom DL, Kornacker K.

Methods Mol Biol. 2009;509:35-46. doi: 10.1007/978-1-59745-372-1_3. Review.

PMID:
19212713
[PubMed - indexed for MEDLINE]
12.

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.

PMID:
18005434
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Genomic analysis of early murine mammary gland development using novel probe-level algorithms.

Master SR, Stoddard AJ, Bailey LC, Pan TC, Dugan KD, Chodosh LA.

Genome Biol. 2005;6(2):R20. Epub 2005 Feb 1.

PMID:
15693949
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Gene expression and isoform variation analysis using Affymetrix Exon Arrays.

Bemmo A, Benovoy D, Kwan T, Gaffney DJ, Jensen RV, Majewski J.

BMC Genomics. 2008 Nov 7;9:529. doi: 10.1186/1471-2164-9-529. Erratum in: BMC Genomics. 2009 Mar 23;10. doi: 10.1186/1471-2164-10-121.

PMID:
18990248
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Better genechip microarray layouts by combining probe placement and embedding.

de Carvalho SA Jr, Rahmann S.

J Bioinform Comput Biol. 2008 Jun;6(3):623-41.

PMID:
18574866
[PubMed - indexed for MEDLINE]
16.

Comparison of target labeling methods for use with Affymetrix GeneChips.

Lonergan W, Whistler T, Vernon SD.

BMC Biotechnol. 2007 May 18;7:24.

PMID:
17511875
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

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.

PMID:
17559689
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Pre-filtering improves reliability of Affymetrix GeneChips results when used to analyze gene expression in complex tissues.

Greco D, Leo D, di Porzio U, Perrone Capano C, Auvinen P.

Mol Cell Probes. 2008 Apr;22(2):115-21. Epub 2007 Nov 28.

PMID:
18162367
[PubMed - indexed for MEDLINE]
19.

Using surveys of Affymetrix GeneChips to study antisense expression.

Sanchez-Graillet O, Stalteri MA, Rowsell J, Upton GJ, Harrison AP.

J Integr Bioinform. 2010 Feb 19;7(2). doi: 10.2390/biecoll-jib-2010-114.

PMID:
20167985
[PubMed - indexed for MEDLINE]
20.

Robust detection and genotyping of single feature polymorphisms from gene expression data.

Wang M, Hu X, Li G, Leach LJ, Potokina E, Druka A, Waugh R, Kearsey MJ, Luo Z.

PLoS Comput Biol. 2009 Mar;5(3):e1000317. doi: 10.1371/journal.pcbi.1000317. Epub 2009 Mar 13.

PMID:
19282978
[PubMed - indexed for MEDLINE]
Free PMC Article

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