Carvalho B - Search Results

1

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

Bengtsson H, Irizarry R, Carvalho B, Speed TP. Bengtsson H, et al. Among authors: carvalho b. Bioinformatics. 2008 Mar 15;24(6):759-67. doi: 10.1093/bioinformatics/btn016. Epub 2008 Jan 19. Bioinformatics. 2008. PMID: 18204055

2

Quantifying uncertainty in genotype calls.

Carvalho BS, Louis TA, Irizarry RA. Carvalho BS, et al. Bioinformatics. 2010 Jan 15;26(2):242-9. doi: 10.1093/bioinformatics/btp624. Epub 2009 Nov 11. Bioinformatics. 2010. PMID: 19906825 Free PMC article.

3

A framework for oligonucleotide microarray preprocessing.

Carvalho BS, Irizarry RA. Carvalho BS, et al. Bioinformatics. 2010 Oct 1;26(19):2363-7. doi: 10.1093/bioinformatics/btq431. Epub 2010 Aug 5. Bioinformatics. 2010. PMID: 20688976 Free PMC article.

4

Exploration, normalization, and genotype calls of high-density oligonucleotide SNP array data.

Carvalho B, Bengtsson H, Speed TP, Irizarry RA. Carvalho B, et al. Biostatistics. 2007 Apr;8(2):485-99. doi: 10.1093/biostatistics/kxl042. Epub 2006 Dec 22. Biostatistics. 2007. PMID: 17189563

5

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. Scharpf RB, et al. Among authors: carvalho b. Biostatistics. 2011 Jan;12(1):33-50. doi: 10.1093/biostatistics/kxq043. Epub 2010 Jul 12. Biostatistics. 2011. PMID: 20625178 Free PMC article.

6

Performance assessment of copy number microarray platforms using a spike-in experiment.

Halper-Stromberg E, Frelin L, Ruczinski I, Scharpf R, Jie C, Carvalho B, Hao H, Hetrick K, Jedlicka A, Dziedzic A, Doheny K, Scott AF, Baylin S, Pevsner J, Spencer F, Irizarry RA. Halper-Stromberg E, et al. Among authors: carvalho b. Bioinformatics. 2011 Apr 15;27(8):1052-60. doi: 10.1093/bioinformatics/btr106. Bioinformatics. 2011. PMID: 21478196 Free PMC article.

7

R/Bioconductor software for Illumina's Infinium whole-genome genotyping BeadChips.

Ritchie ME, Carvalho BS, Hetrick KN, Tavaré S, Irizarry RA. Ritchie ME, et al. Bioinformatics. 2009 Oct 1;25(19):2621-3. doi: 10.1093/bioinformatics/btp470. Epub 2009 Aug 6. Bioinformatics. 2009. PMID: 19661241 Free PMC article.

8

Validation and extension of an empirical Bayes method for SNP calling on Affymetrix microarrays.

Lin S, Carvalho B, Cutler DJ, Arking DE, Chakravarti A, Irizarry RA. Lin S, et al. Among authors: carvalho b. Genome Biol. 2008 Apr 3;9(4):R63. doi: 10.1186/gb-2008-9-4-r63. Genome Biol. 2008. PMID: 18387188 Free PMC article.

9

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

Wang W, Carvalho B, Miller ND, Pevsner J, Chakravarti A, Irizarry RA. Wang W, et al. Among authors: carvalho b. J Comput Biol. 2008 Sep;15(7):857-66. doi: 10.1089/cmb.2007.0148. J Comput Biol. 2008. PMID: 18707534 Free PMC article.

10

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

Scharpf RB, Irizarry RA, Ritchie ME, Carvalho B, Ruczinski I. Scharpf RB, et al. Among authors: carvalho b. J Stat Softw. 2011 May 1;40(12):1-32. J Stat Softw. 2011. PMID: 22523482 Free PMC article.

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