PubMed

Using expression arrays for copy number detection: an example from E. coli.

Skvortsov D, Abdueva D, Stitzer ME, Finkel SE, Tavaré S.

BMC Bioinformatics. 2007 Jun 14;8:203.PMID: 17570850 [PubMed - indexed for MEDLINE]Related articlesFree article

Gene-resolution analysis of DNA copy number variation using oligonucleotide expression microarrays.

Auer H, Newsom DL, Nowak NJ, McHugh KM, Singh S, Yu CY, Yang Y, Wenger GD, Gastier-Foster JM, Kornacker K.

BMC Genomics. 2007 Apr 30;8:111.PMID: 17470268 [PubMed - indexed for MEDLINE]Related articlesFree article

Custom design and analysis of high-density oligonucleotide bacterial tiling microarrays.

Thomassen GO, Rowe AD, Lagesen K, Lindvall JM, Rognes T.

PLoS One. 2009 Jun 17;4(6):e5943.PMID: 19536279 [PubMed - indexed for MEDLINE]Related articlesFree article

Accurate detection of aneuploidies in array CGH and gene expression microarray data.

Myers CL, Dunham MJ, Kung SY, Troyanskaya OG.

Bioinformatics. 2004 Dec 12;20(18):3533-43. Epub 2004 Jul 29.PMID: 15284100 [PubMed - indexed for MEDLINE]Related articlesFree article

A probe-density-based analysis method for array CGH data: simulation, normalization and centralization.

Chen HI, Hsu FH, Jiang Y, Tsai MH, Yang PC, Meltzer PS, Chuang EY, Chen Y.

Bioinformatics. 2008 Aug 15;24(16):1749-56. Epub 2008 Jul 4.PMID: 18603568 [PubMed - indexed for MEDLINE]Related articlesFree article

High-resolution mapping of DNA copy alterations in human chromosome 22 using high-density tiling oligonucleotide arrays.

Urban AE, Korbel JO, Selzer R, Richmond T, Hacker A, Popescu GV, Cubells JF, Green R, Emanuel BS, Gerstein MB, Weissman SM, Snyder M.

Proc Natl Acad Sci U S A. 2006 Mar 21;103(12):4534-9. Epub 2006 Mar 14.PMID: 16537408 [PubMed - indexed for MEDLINE]Related articlesFree article

ITALICS: an algorithm for normalization and DNA copy number calling for Affymetrix SNP arrays.

Rigaill G, Hupé P, Almeida A, La Rosa P, Meyniel JP, Decraene C, Barillot E.

Bioinformatics. 2008 Mar 15;24(6):768-74. Epub 2008 Feb 5.PMID: 18252739 [PubMed - indexed for MEDLINE]Related articlesFree article

A segmental maximum a posteriori approach to genome-wide copy number profiling.

Andersson R, Bruder CE, Piotrowski A, Menzel U, Nord H, Sandgren J, Hvidsten TR, Diaz de Ståhl T, Dumanski JP, Komorowski J.

Bioinformatics. 2008 Mar 15;24(6):751-8. Epub 2008 Jan 19.PMID: 18204059 [PubMed - indexed for MEDLINE]Related articlesFree article

Estimation and assessment of raw copy numbers at the single locus level.

Bengtsson H, Irizarry R, Carvalho B, Speed TP.

Bioinformatics. 2008 Mar 15;24(6):759-67. Epub 2008 Jan 19.PMID: 18204055 [PubMed - indexed for MEDLINE]Related articlesFree article

Genome-wide analysis of DNA copy-number changes using cDNA microarrays.

Pollack JR, Perou CM, Alizadeh AA, Eisen MB, Pergamenschikov A, Williams CF, Jeffrey SS, Botstein D, Brown PO.

Nat Genet. 1999 Sep;23(1):41-6.PMID: 10471496 [PubMed - indexed for MEDLINE]Related articles

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. Epub 2009 Mar 13.PMID: 19282978 [PubMed - indexed for MEDLINE]Related articlesFree article

Integrated analysis of copy number alteration and RNA expression profiles of cancer using a high-resolution whole-genome oligonucleotide array.

Jung SH, Shin SH, Yim SH, Choi HS, Lee SH, Chung YJ.

Exp Mol Med. 2009 Jul 31;41(7):462-70.PMID: 19322034 [PubMed - indexed for MEDLINE]Related articlesFree article

Spatial normalization of array-CGH data.

Neuvial P, Hupé P, Brito I, Liva S, Manié E, Brennetot C, Radvanyi F, Aurias A, Barillot E.

BMC Bioinformatics. 2006 May 22;7:264.PMID: 16716215 [PubMed - indexed for MEDLINE]Related articlesFree article

The application of microarray technology to the analysis of the cancer genome.

Cowell JK, Hawthorn L.

Curr Mol Med. 2007 Feb;7(1):103-20. Review.PMID: 17311536 [PubMed - indexed for MEDLINE]Related articles

CARAT: a novel method for allelic detection of DNA copy number changes using high density oligonucleotide arrays.

Huang J, Wei W, Chen J, Zhang J, Liu G, Di X, Mei R, Ishikawa S, Aburatani H, Jones KW, Shapero MH.

BMC Bioinformatics. 2006 Feb 21;7:83.PMID: 16504045 [PubMed - indexed for MEDLINE]Related articlesFree article

Normalization of array-CGH data: influence of copy number imbalances.

Staaf J, Jönsson G, Ringnér M, Vallon-Christersson J.

BMC Genomics. 2007 Oct 22;8:382.PMID: 17953745 [PubMed - indexed for MEDLINE]Related articlesFree article

Sparse representation and Bayesian detection of genome copy number alterations from microarray data.

Pique-Regi R, Monso-Varona J, Ortega A, Seeger RC, Triche TJ, Asgharzadeh S.

Bioinformatics. 2008 Feb 1;24(3):309-18. Epub 2008 Jan 18.PMID: 18203770 [PubMed - indexed for MEDLINE]Related articlesFree article

Stochastic segmentation models for array-based comparative genomic hybridization data analysis.

Lai TL, Xing H, Zhang N.

Biostatistics. 2008 Apr;9(2):290-307. Epub 2007 Sep 12.PMID: 17855472 [PubMed - indexed for MEDLINE]Related articles

SeeGH--a software tool for visualization of whole genome array comparative genomic hybridization data.

Chi B, DeLeeuw RJ, Coe BP, MacAulay C, Lam WL.

BMC Bioinformatics. 2004 Feb 9;5:13.PMID: 15040819 [PubMed - indexed for MEDLINE]Related articlesFree article

Array comparative genomic hybridization copy number profiling: a new tool for translational research in solid malignancies.

Costa JL, Meijer G, Ylstra B, Caldas C.

Semin Radiat Oncol. 2008 Apr;18(2):98-104. Review.PMID: 18314064 [PubMed - indexed for MEDLINE]Related articles