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Results: 1 to 20 of 146

1.

A multilevel model to address batch effects in copy number estimation using SNP arrays.

Scharpf RB, Ruczinski I, Carvalho B, Doan B, Chakravarti A, Irizarry RA.

Biostatistics. 2011 Jan;12(1):33-50. doi: 10.1093/biostatistics/kxq043. Epub 2010 Jul 12.

PMID:
20625178
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

Estimating genome-wide copy number using allele-specific mixture models.

Wang W, Carvalho B, Miller ND, Pevsner J, Chakravarti A, Irizarry RA.

J Comput Biol. 2008 Sep;15(7):857-66. doi: 10.1089/cmb.2007.0148.

PMID:
18707534
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

Software comparison for evaluating genomic copy number variation for Affymetrix 6.0 SNP array platform.

Eckel-Passow JE, Atkinson EJ, Maharjan S, Kardia SL, de Andrade M.

BMC Bioinformatics. 2011 May 31;12:220. doi: 10.1186/1471-2105-12-220.

PMID:
21627824
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Using the R Package crlmm for Genotyping and Copy Number Estimation.

Scharpf RB, Irizarry RA, Ritchie ME, Carvalho B, Ruczinski I.

J Stat Softw. 2011 May 1;40(12):1-32.

PMID:
22523482
[PubMed]
Free PMC Article
5.

Genetic association studies of copy-number variation: should assignment of copy number states precede testing?

Breheny P, Chalise P, Batzler A, Wang L, Fridley BL.

PLoS One. 2012;7(4):e34262. doi: 10.1371/journal.pone.0034262. Epub 2012 Apr 6.

PMID:
22493684
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Assessing batch effects of genotype calling algorithm BRLMM for the Affymetrix GeneChip Human Mapping 500 K array set using 270 HapMap samples.

Hong H, Su Z, Ge W, Shi L, Perkins R, Fang H, Xu J, Chen JJ, Han T, Kaput J, Fuscoe JC, Tong W.

BMC Bioinformatics. 2008 Aug 12;9 Suppl 9:S17. doi: 10.1186/1471-2105-9-S9-S17.

PMID:
18793462
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Quantifying uncertainty in genotype calls.

Carvalho BS, Louis TA, Irizarry RA.

Bioinformatics. 2010 Jan 15;26(2):242-9. doi: 10.1093/bioinformatics/btp624. Epub 2009 Nov 11.

PMID:
19906825
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Targeted interrogation of copy number variation using SCIMMkit.

Zerr T, Cooper GM, Eichler EE, Nickerson DA.

Bioinformatics. 2010 Jan 1;26(1):120-2. doi: 10.1093/bioinformatics/btp606. Epub 2009 Oct 21.

PMID:
19846438
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Assessment of algorithms for high throughput detection of genomic copy number variation in oligonucleotide microarray data.

Baross A, Delaney AD, Li HI, Nayar T, Flibotte S, Qian H, Chan SY, Asano J, Ally A, Cao M, Birch P, Brown-John M, Fernandes N, Go A, Kennedy G, Langlois S, Eydoux P, Friedman JM, Marra MA.

BMC Bioinformatics. 2007 Oct 2;8:368.

PMID:
17910767
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Joint estimation of copy number variation and reference intensities on multiple DNA arrays using GADA.

Pique-Regi R, Ortega A, Asgharzadeh S.

Bioinformatics. 2009 May 15;25(10):1223-30. doi: 10.1093/bioinformatics/btp119. Epub 2009 Mar 10.

PMID:
19276152
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

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. doi: 10.1093/bioinformatics/btn016. Epub 2008 Jan 19.

PMID:
18204055
[PubMed - indexed for MEDLINE]
Free Article
12.

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. doi: 10.1093/bioinformatics/btn048. Epub 2008 Feb 5.

PMID:
18252739
[PubMed - indexed for MEDLINE]
Free Article
13.

A Hidden Markov Model to estimate population mixture and allelic copy-numbers in cancers using Affymetrix SNP arrays.

Lamy P, Andersen CL, Dyrskjot L, Torring N, Wiuf C.

BMC Bioinformatics. 2007 Nov 9;8:434.

PMID:
17996079
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Novel association strategy with copy number variation for identifying new risk Loci of human diseases.

Chen X, Li X, Wang P, Liu Y, Zhang Z, Zhao G, Xu H, Zhu J, Qin X, Chen S, Hu L, Kong X.

PLoS One. 2010 Aug 20;5(8):e12185. doi: 10.1371/journal.pone.0012185.

PMID:
20808825
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

PlatinumCNV: a Bayesian Gaussian mixture model for genotyping copy number polymorphisms using SNP array signal intensity data.

Kumasaka N, Fujisawa H, Hosono N, Okada Y, Takahashi A, Nakamura Y, Kubo M, Kamatani N.

Genet Epidemiol. 2011 Dec;35(8):831-44. doi: 10.1002/gepi.20633.

PMID:
22125222
[PubMed - indexed for MEDLINE]
16.

On the analysis of copy-number variations in genome-wide association studies: a translation of the family-based association test.

Ionita-Laza I, Perry GH, Raby BA, Klanderman B, Lee C, Laird NM, Weiss ST, Lange C.

Genet Epidemiol. 2008 Apr;32(3):273-84. doi: 10.1002/gepi.20302.

PMID:
18228561
[PubMed - indexed for MEDLINE]
17.

Hidden Markov models for the assessment of chromosomal alterations using high-throughput SNP arrays.

Scharpf RB, Parmigiani G, Pevsner J, Ruczinski I.

Ann Appl Stat. 2008 Jun 1;2(2):687-713.

PMID:
19609370
[PubMed]
Free PMC Article
18.

A multi-array multi-SNP genotyping algorithm for Affymetrix SNP microarrays.

Xiao Y, Segal MR, Yang YH, Yeh RF.

Bioinformatics. 2007 Jun 15;23(12):1459-67. Epub 2007 Apr 25.

PMID:
17459966
[PubMed - indexed for MEDLINE]
Free Article
19.

New technologies provide insights into genetic basis of psychiatric disorders and explain their co-morbidity.

Rudan I.

Psychiatr Danub. 2010 Jun;22(2):190-2. Review.

PMID:
20562745
[PubMed - indexed for MEDLINE]
Free Article
20.

Toward accurate high-throughput SNP genotyping in the presence of inherited copy number variation.

Macconaill LE, Aldred MA, Lu X, Laframboise T.

BMC Genomics. 2007 Jul 3;8:211.

PMID:
17608949
[PubMed - indexed for MEDLINE]
Free PMC Article

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