PubMed

A study of inter-lab and inter-platform agreement of DNA microarray data.

Wang H, He X, Band M, Wilson C, Liu L.

BMC Genomics. 2005 May 11;6(1):71.PMID: 15888200 [PubMed - indexed for MEDLINE]Related articlesFree article

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]Related articlesFree article

Reproducibility of microarray data: a further analysis of microarray quality control (MAQC) data.

Chen JJ, Hsueh HM, Delongchamp RR, Lin CJ, Tsai CA.

BMC Bioinformatics. 2007 Oct 25;8:412.PMID: 17961233 [PubMed - indexed for MEDLINE]Related articlesFree article

Cross-platform comparison of SYBR Green real-time PCR with TaqMan PCR, microarrays and other gene expression measurement technologies evaluated in the MicroArray Quality Control (MAQC) study.

Arikawa E, Sun Y, Wang J, Zhou Q, Ning B, Dial SL, Guo L, Yang J.

BMC Genomics. 2008 Jul 11;9:328.PMID: 18620571 [PubMed - indexed for MEDLINE]Related articlesFree article

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]Related articlesFree article

Statistical analysis of an RNA titration series evaluates microarray precision and sensitivity on a whole-array basis.

Holloway AJ, Oshlack A, Diyagama DS, Bowtell DD, Smyth GK.

BMC Bioinformatics. 2006 Nov 22;7:511.PMID: 17118209 [PubMed - indexed for MEDLINE]Related articlesFree article

Comparing the use of Affymetrix to spotted oligonucleotide microarrays using two retinal pigment epithelium cell lines.

Rogojina AT, Orr WE, Song BK, Geisert EE Jr.

Mol Vis. 2003 Oct 6;9:482-96.PMID: 14551534 [PubMed - indexed for MEDLINE]Related articlesFree article

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]Related articlesFree article

Are data from different gene expression microarray platforms comparable?

Järvinen AK, Hautaniemi S, Edgren H, Auvinen P, Saarela J, Kallioniemi OP, Monni O.

Genomics. 2004 Jun;83(6):1164-8.PMID: 15177569 [PubMed - indexed for MEDLINE]Related articles

Cross platform microarray analysis for robust identification of differentially expressed genes.

Bosotti R, Locatelli G, Healy S, Scacheri E, Sartori L, Mercurio C, Calogero R, Isacchi A.

BMC Bioinformatics. 2007 Mar 8;8 Suppl 1:S5.PMID: 17430572 [PubMed - indexed for MEDLINE]Related articlesFree article

Current issues for DNA microarrays: platform comparison, double linear amplification, and universal RNA reference.

Park PJ, Cao YA, Lee SY, Kim JW, Chang MS, Hart R, Choi S.

J Biotechnol. 2004 Sep 9;112(3):225-45.PMID: 15313001 [PubMed - indexed for MEDLINE]Related articles

Evaluation of inter-laboratory and cross-platform concordance of DNA microarrays through discriminating genes and classifier transferability.

Mao S, Wang C, Dong G.

J Bioinform Comput Biol. 2009 Feb;7(1):157-73.PMID: 19226665 [PubMed - indexed for MEDLINE]Related articles

Three microarray platforms: an analysis of their concordance in profiling gene expression.

Petersen D, Chandramouli GV, Geoghegan J, Hilburn J, Paarlberg J, Kim CH, Munroe D, Gangi L, Han J, Puri R, Staudt L, Weinstein J, Barrett JC, Green J, Kawasaki ES.

BMC Genomics. 2005 May 5;6(1):63.PMID: 15876355 [PubMed - indexed for MEDLINE]Related articlesFree article

A comparison of cDNA, oligonucleotide, and Affymetrix GeneChip gene expression microarray platforms.

Woo Y, Affourtit J, Daigle S, Viale A, Johnson K, Naggert J, Churchill G.

J Biomol Tech. 2004 Dec;15(4):276-84.PMID: 15585824 [PubMed - indexed for MEDLINE]Related articlesFree article

A comparison of microarray and MPSS technology platforms for expression analysis of Arabidopsis.

Chen J, Agrawal V, Rattray M, West MA, St Clair DA, Michelmore RW, Coughlan SJ, Meyers BC.

BMC Genomics. 2007 Nov 12;8:414.PMID: 17997849 [PubMed - indexed for MEDLINE]Related articlesFree article

The chemiluminescence based Ziplex automated workstation focus array reproduces ovarian cancer Affymetrix GeneChip expression profiles.

Quinn MC, Wilson DJ, Young F, Dempsey AA, Arcand SL, Birch AH, Wojnarowicz PM, Provencher D, Mes-Masson AM, Englert D, Tonin PN.

J Transl Med. 2009 Jul 6;7:55.PMID: 19580657 [PubMed - indexed for MEDLINE]Related articlesFree article

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]Related articlesFree article

Comparison of transcript profiling on Arabidopsis microarray platform technologies.

Pylatuik JD, Fobert PR.

Plant Mol Biol. 2005 Jul;58(5):609-24.PMID: 16158238 [PubMed - indexed for MEDLINE]Related articles

A sequence-oriented comparison of gene expression measurements across different hybridization-based technologies.

Kuo WP, Liu F, Trimarchi J, Punzo C, Lombardi M, Sarang J, Whipple ME, Maysuria M, Serikawa K, Lee SY, McCrann D, Kang J, Shearstone JR, Burke J, Park DJ, Wang X, Rector TL, Ricciardi-Castagnoli P, Perrin S, Choi S, Bumgarner R, Kim JH, Short GF 3rd, Freeman MW, Seed B, Jensen R, Church GM, Hovig E, Cepko CL, Park P, Ohno-Machado L, Jenssen TK.

Nat Biotechnol. 2006 Jul;24(7):832-40. Epub 2006 Jul 2.PMID: 16823376 [PubMed - indexed for MEDLINE]Related articles

Comparison of hybridization-based and sequencing-based gene expression technologies on biological replicates.

Liu F, Jenssen TK, Trimarchi J, Punzo C, Cepko CL, Ohno-Machado L, Hovig E, Kuo WP.

BMC Genomics. 2007 Jun 7;8:153.PMID: 17555589 [PubMed - indexed for MEDLINE]Related articlesFree article