Turn recording back on
Revisiting adverse effects of cross-hybridization in Affymetrix gene expression data: do they matter for correlation analysis?
Klebanov L, Chen L, Yakovlev A.
Biol Direct. 2007 Nov 7;2:28.
PMID: 17988401 [PubMed - in process]
Related Articles Free article in PMC
Cross-species analysis of gene expression in non-model mammals: reproducibility of hybridization on high density oligonucleotide microarrays.
Nieto-Díaz M, Pita-Thomas W, Nieto-Sampedro M.
BMC Genomics. 2007 Apr 3;8:89.
PMID: 17407579 [PubMed - indexed for MEDLINE]
Hybridization interactions between probesets in short oligo microarrays lead to spurious correlations.
Okoniewski MJ, Miller CJ.
BMC Bioinformatics. 2006 Jun 2;7:276.
PMID: 16749918 [PubMed - indexed for MEDLINE]
Redefinition of Affymetrix probe sets by sequence overlap with cDNA microarray probes reduces cross-platform inconsistencies in cancer-associated gene expression measurements.
Carter SL, Eklund AC, Mecham BH, Kohane IS, Szallasi Z.
BMC Bioinformatics. 2005 Apr 25;6:107.
PMID: 15850491 [PubMed - indexed for MEDLINE]
In situ analysis of cross-hybridisation on microarrays and the inference of expression correlation.
Casneuf T, Van de Peer Y, Huber W.
BMC Bioinformatics. 2007 Nov 26;8:461.
PMID: 18039370 [PubMed - indexed for MEDLINE]
The effects of normalization on the correlation structure of microarray data.
Qiu X, Brooks AI, Klebanov L, Yakovlev N.
BMC Bioinformatics. 2005 May 16;6:120.
PMID: 15904488 [PubMed - indexed for MEDLINE]
Effect of RNA quality on transcript intensity levels in microarray analysis of human post-mortem brain tissues.
Popova T, Mennerich D, Weith A, Quast K.
BMC Genomics. 2008 Feb 25;9:91.
PMID: 18298816 [PubMed - indexed for MEDLINE]
Subgroup analyses in randomised controlled trials: quantifying the risks of false-positives and false-negatives.
Brookes ST, Whitley E, Peters TJ, Mulheran PA, Egger M, Davey Smith G.
Health Technol Assess. 2001;5(33):1-56. Review.
PMID: 11701102 [PubMed - indexed for MEDLINE]
Related Articles
Evaluation of the similarity of gene expression data estimated with SAGE and Affymetrix GeneChips.
van Ruissen F, Ruijter JM, Schaaf GJ, Asgharnegad L, Zwijnenburg DA, Kool M, Baas F.
BMC Genomics. 2005 Jun 14;6:91.
PMID: 15955238 [PubMed - indexed for MEDLINE]
Transformation of expression intensities across generations of Affymetrix microarrays using sequence matching and regression modeling.
Bhattacharya S, Mariani TJ.
Nucleic Acids Res. 2005 Oct 13;33(18):e157.
PMID: 16224098 [PubMed - indexed for MEDLINE]
Stochastic models inspired by hybridization theory for short oligonucleotide arrays.
Wu Z, Irizarry RA.
J Comput Biol. 2005 Jul-Aug;12(6):882-93.
PMID: 16108723 [PubMed - indexed for MEDLINE]
A new method for class prediction based on signed-rank algorithms applied to Affymetrix microarray experiments.
Rème T, Hose D, De Vos J, Vassal A, Poulain PO, Pantesco V, Goldschmidt H, Klein B.
BMC Bioinformatics. 2008 Jan 11;9:16.
PMID: 18190711 [PubMed - indexed for MEDLINE]
How high is the level of technical noise in microarray data?
Klebanov L, Yakovlev A.
Biol Direct. 2007 Apr 11;2:9.
PMID: 17428341 [PubMed]
Long versus short oligonucleotide microarrays for the study of gene expression in nonhuman primates.
Walker SJ, Wang Y, Grant KA, Chan F, Hellmann GM.
J Neurosci Methods. 2006 Apr 15;152(1-2):179-89. Epub 2005 Oct 25.
PMID: 16253343 [PubMed - indexed for MEDLINE]
Large scale real-time PCR validation on gene expression measurements from two commercial long-oligonucleotide microarrays.
Wang Y, Barbacioru C, Hyland F, Xiao W, Hunkapiller KL, Blake J, Chan F, Gonzalez C, Zhang L, Samaha RR.
BMC Genomics. 2006 Mar 21;7:59.
PMID: 16551369 [PubMed - indexed for MEDLINE]
Performance evaluation of commercial short-oligonucleotide microarrays and the impact of noise in making cross-platform correlations.
Shippy R, Sendera TJ, Lockner R, Palaniappan C, Kaysser-Kranich T, Watts G, Alsobrook J.
BMC Genomics. 2004 Sep 2;5(1):61.
PMID: 15345031 [PubMed - indexed for MEDLINE]
Kernel-imbedded Gaussian processes for disease classification using microarray gene expression data.
Zhao X, Cheung LW.
BMC Bioinformatics. 2007 Feb 28;8:67.
PMID: 17328811 [PubMed - indexed for MEDLINE]
An improved physico-chemical model of hybridization on high-density oligonucleotide microarrays.
Ono N, Suzuki S, Furusawa C, Agata T, Kashiwagi A, Shimizu H, Yomo T.
Bioinformatics. 2008 May 15;24(10):1278-85. Epub 2008 Mar 31.
PMID: 18378525 [PubMed - indexed for MEDLINE]
Harnessing the power of gene microarrays for the study of brain aging and Alzheimer's disease: statistical reliability and functional correlation.
Blalock EM, Chen KC, Stromberg AJ, Norris CM, Kadish I, Kraner SD, Porter NM, Landfield PW.
Ageing Res Rev. 2005 Nov;4(4):481-512. Epub 2005 Oct 27. Review.
PMID: 16257272 [PubMed - indexed for MEDLINE]
Dissecting tBHQ induced ARE-driven gene expression through long and short oligonucleotide arrays.
Li J, Spletter ML, Johnson JA.
Physiol Genomics. 2005 Mar 21;21(1):43-58. Epub 2004 Dec 21.
PMID: 15613614 [PubMed - indexed for MEDLINE]