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Results: 1 to 20 of 99

1.

Systematic biases in DNA copy number originate from isolation procedures.

van Heesch S, Mokry M, Boskova V, Junker W, Mehon R, Toonen P, de Bruijn E, Shull JD, Aitman TJ, Cuppen E, Guryev V.

Genome Biol. 2013 Apr 24;14(4):R33. doi: 10.1186/gb-2013-14-4-r33.

PMID:
23618369
[PubMed - in process]
Free PMC Article
2.

The use of ultra-dense array CGH analysis for the discovery of micro-copy number alterations and gene fusions in the cancer genome.

Przybytkowski E, Ferrario C, Basik M.

BMC Med Genomics. 2011 Jan 27;4:16. doi: 10.1186/1755-8794-4-16.

PMID:
21272361
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

A stepwise framework for the normalization of array CGH data.

Khojasteh M, Lam WL, Ward RK, MacAulay C.

BMC Bioinformatics. 2005 Nov 18;6:274.

PMID:
16297240
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Detecting copy number variation with mated short reads.

Medvedev P, Fiume M, Dzamba M, Smith T, Brudno M.

Genome Res. 2010 Nov;20(11):1613-22. doi: 10.1101/gr.106344.110. Epub 2010 Aug 30.

PMID:
20805290
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Diagnosis of copy number variation by Illumina next generation sequencing is comparable in performance to oligonucleotide array comparative genomic hybridisation.

Hayes JL, Tzika A, Thygesen H, Berri S, Wood HM, Hewitt S, Pendlebury M, Coates A, Willoughby L, Watson CM, Rabbitts P, Roberts P, Taylor GR.

Genomics. 2013 Sep;102(3):174-81. doi: 10.1016/j.ygeno.2013.04.006. Epub 2013 Apr 15.

PMID:
23598253
[PubMed - indexed for MEDLINE]
6.

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]
7.

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]
Free Article
8.

Combined array-comparative genomic hybridization and single-nucleotide polymorphism-loss of heterozygosity analysis reveals complex genetic alterations in cervical cancer.

Kloth JN, Oosting J, van Wezel T, Szuhai K, Knijnenburg J, Gorter A, Kenter GG, Fleuren GJ, Jordanova ES.

BMC Genomics. 2007 Feb 20;8:53.

PMID:
17311676
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Systematic inference of copy-number genotypes from personal genome sequencing data reveals extensive olfactory receptor gene content diversity.

Waszak SM, Hasin Y, Zichner T, Olender T, Keydar I, Khen M, Stütz AM, Schlattl A, Lancet D, Korbel JO.

PLoS Comput Biol. 2010 Nov 11;6(11):e1000988. doi: 10.1371/journal.pcbi.1000988.

PMID:
21085617
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Genome-wide copy number analysis of single cells.

Baslan T, Kendall J, Rodgers L, Cox H, Riggs M, Stepansky A, Troge J, Ravi K, Esposito D, Lakshmi B, Wigler M, Navin N, Hicks J.

Nat Protoc. 2012 May 3;7(6):1024-41. doi: 10.1038/nprot.2012.039.

PMID:
22555242
[PubMed - indexed for MEDLINE]
11.

High resolution analysis of DNA copy number variation using comparative genomic hybridization to microarrays.

Pinkel D, Segraves R, Sudar D, Clark S, Poole I, Kowbel D, Collins C, Kuo WL, Chen C, Zhai Y, Dairkee SH, Ljung BM, Gray JW, Albertson DG.

Nat Genet. 1998 Oct;20(2):207-11.

PMID:
9771718
[PubMed - indexed for MEDLINE]
12.

Detection of structural DNA variation from next generation sequencing data: a review of informatic approaches.

Abel HJ, Duncavage EJ.

Cancer Genet. 2013 Dec;206(12):432-40. doi: 10.1016/j.cancergen.2013.11.002. Epub 2013 Nov 20. Review.

PMID:
24405614
[PubMed - indexed for MEDLINE]
13.

Patterns of sequencing coverage bias revealed by ultra-deep sequencing of vertebrate mitochondria.

Ekblom R, Smeds L, Ellegren H.

BMC Genomics. 2014 Jun 12;15:467. doi: 10.1186/1471-2164-15-467.

PMID:
24923674
[PubMed - in process]
Free PMC Article
14.

CNV-seq, a new method to detect copy number variation using high-throughput sequencing.

Xie C, Tammi MT.

BMC Bioinformatics. 2009 Mar 6;10:80. doi: 10.1186/1471-2105-10-80.

PMID:
19267900
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Copy number variation detection in whole-genome sequencing data using the Bayesian information criterion.

Xi R, Hadjipanayis AG, Luquette LJ, Kim TM, Lee E, Zhang J, Johnson MD, Muzny DM, Wheeler DA, Gibbs RA, Kucherlapati R, Park PJ.

Proc Natl Acad Sci U S A. 2011 Nov 15;108(46):E1128-36. doi: 10.1073/pnas.1110574108. Epub 2011 Nov 7.

PMID:
22065754
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

A critical assessment of cross-species detection of gene duplicates using comparative genomic hybridization.

Machado HE, Renn SC.

BMC Genomics. 2010 May 13;11:304. doi: 10.1186/1471-2164-11-304.

PMID:
20465839
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

cn.MOPS: mixture of Poissons for discovering copy number variations in next-generation sequencing data with a low false discovery rate.

Klambauer G, Schwarzbauer K, Mayr A, Clevert DA, Mitterecker A, Bodenhofer U, Hochreiter S.

Nucleic Acids Res. 2012 May;40(9):e69. doi: 10.1093/nar/gks003. Epub 2012 Feb 1.

PMID:
22302147
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Detection of clinically relevant exonic copy-number changes by array CGH.

Boone PM, Bacino CA, Shaw CA, Eng PA, Hixson PM, Pursley AN, Kang SH, Yang Y, Wiszniewska J, Nowakowska BA, del Gaudio D, Xia Z, Simpson-Patel G, Immken LL, Gibson JB, Tsai AC, Bowers JA, Reimschisel TE, Schaaf CP, Potocki L, Scaglia F, Gambin T, Sykulski M, Bartnik M, Derwinska K, Wisniowiecka-Kowalnik B, Lalani SR, Probst FJ, Bi W, Beaudet AL, Patel A, Lupski JR, Cheung SW, Stankiewicz P.

Hum Mutat. 2010 Dec;31(12):1326-42. doi: 10.1002/humu.21360. Epub 2010 Nov 2.

PMID:
20848651
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Microarray analysis reveals a major direct role of DNA copy number alteration in the transcriptional program of human breast tumors.

Pollack JR, Sørlie T, Perou CM, Rees CA, Jeffrey SS, Lonning PE, Tibshirani R, Botstein D, Børresen-Dale AL, Brown PO.

Proc Natl Acad Sci U S A. 2002 Oct 1;99(20):12963-8. Epub 2002 Sep 24.

PMID:
12297621
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Genome-wide detection of human copy number variations using high-density DNA oligonucleotide arrays.

Komura D, Shen F, Ishikawa S, Fitch KR, Chen W, Zhang J, Liu G, Ihara S, Nakamura H, Hurles ME, Lee C, Scherer SW, Jones KW, Shapero MH, Huang J, Aburatani H.

Genome Res. 2006 Dec;16(12):1575-84. Epub 2006 Nov 22.

PMID:
17122084
[PubMed - indexed for MEDLINE]
Free PMC Article

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