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Validation and extension of an empirical Bayes method for SNP calling on Affymetrix microarrays
Shin Lin, Benilton Carvalho, David J Cutler, Dan E Arking, Aravinda Chakravarti, Rafael A Irizarry
Genome Biol. 2008; 9(4): R63. Published online 2008 April 3. doi: 10.1186/gb-2008-9-4-r63
PMCID:
PMC2643934
Abstract Full Text PDF–547K Supplementary Material
 Is Cited by the Following 10 Articles in this Archive:
Genome-Wide Association Study in Bipolar Patients Stratified by Co-Morbidity
Berit Kerner, Christophe G. Lambert, Bengt O. Muthén
PLoS One. 2011; 6(12): e28477. Published online 2011 December 21. doi: 10.1371/journal.pone.0028477
PMCID:
PMC3244396
Abstract Full Text PDF–441K Supplementary Material
Evaluating the Influence of Quality Control Decisions and Software Algorithms on SNP Calling for the Affymetrix 6.0 SNP Array Platform
Mariza de Andrade, Elizabeth J. Atkinson, William R. Bamlet, Martha E. Matsumoto, Sooraj Maharjan, Susan L. Slager, Celine M. Vachon, Julie M. Cunningham, Sharon L.R. Kardia
Hum Hered. 2011; 71(4): 221–233. Published online 2011 July 2. doi: 10.1159/000328843
PMCID:
PMC3136375
Abstract Full Text PDF–229K Supplementary Material
Comparing genotyping algorithms for Illumina's Infinium whole-genome SNP BeadChips
Matthew E Ritchie, Ruijie Liu, Benilton S Carvalho, The Australia and New Zealand Multiple Sclerosis Genetics Consortium (ANZgene), Rafael A Irizarry
BMC Bioinformatics. 2011; 12: 68. Published online 2011 March 8. doi: 10.1186/1471-2105-12-68
PMCID:
PMC3063825
Abstract Full Text PDF–725K Supplementary Material
Genome-wide analysis of Ollier disease: Is it all in the genes?
Twinkal C Pansuriya, Jan Oosting, Tibor Krenács, Antonie HM Taminiau, Suzan HM Verdegaal, Luca Sangiorgi, Raf Sciot, Pancras CW Hogendoorn, Karoly Szuhai, Judith VMG Bovée
Orphanet J Rare Dis. 2011; 6: 2. Published online 2011 January 14. doi: 10.1186/1750-1172-6-2
PMCID:
PMC3027091
Abstract Full Text PDF–1.5M Supplementary Material
Spatial normalization improves the quality of genotype calling for Affymetrix SNP 6.0 arrays
High Seng Chai, Terry M Therneau, Kent R Bailey, Jean-Pierre A Kocher
BMC Bioinformatics. 2010; 11: 356. Published online 2010 June 29. doi: 10.1186/1471-2105-11-356
PMCID:
PMC2910027
Abstract Full Text PDF–1.2M Supplementary Material
SNVMix: predicting single nucleotide variants from next-generation sequencing of tumors
Rodrigo Goya, Mark G.F. Sun, Ryan D. Morin, Gillian Leung, Gavin Ha, Kimberley C. Wiegand, Janine Senz, Anamaria Crisan, Marco A. Marra, Martin Hirst, David Huntsman, Kevin P. Murphy, Sam Aparicio, Sohrab P. Shah
Bioinformatics. 2010 March 15; 26(6): 730–736. Published online 2010 February 3. doi: 10.1093/bioinformatics/btq040
PMCID:
PMC2832826
Abstract Full Text PDF–436K Supplementary Material
Assessing the utility of whole-genome amplified serum DNA for array-based high throughput genotyping
Kristine L Bucasas, Gagan A Pandya, Sonal Pradhan, Robert D Fleischmann, Scott N Peterson, John W Belmont
BMC Genet. 2009; 10: 85. Published online 2009 December 18. doi: 10.1186/1471-2156-10-85
PMCID:
PMC2803178
Abstract Full Text PDF–393K Supplementary Material
Quantifying uncertainty in genotype calls
Benilton S. Carvalho, Thomas A. Louis, Rafael A. Irizarry
Bioinformatics. 2010 January 15; 26(2): 242–249. Published online 2009 November 11. doi: 10.1093/bioinformatics/btp624
PMCID:
PMC2804295
Abstract Full Text PDF–1.1M Supplementary Material
R/Bioconductor software for Illumina's Infinium whole-genome genotyping BeadChips
Matthew E. Ritchie, Benilton S. Carvalho, Kurt N. Hetrick, Simon Tavaré, Rafael A. Irizarry
Bioinformatics. 2009 October 1; 25(19): 2621–2623. Published online 2009 August 6. doi: 10.1093/bioinformatics/btp470
PMCID:
PMC2752620
Abstract Full Text PDF–216K
Swift: primary data analysis for the Illumina Solexa sequencing platform
Nava Whiteford, Tom Skelly, Christina Curtis, Matt E. Ritchie, Andrea Löhr, Alexander Wait Zaranek, Irina Abnizova, Clive Brown
Bioinformatics. 2009 September 1; 25(17): 2194–2199. Published online 2009 June 23. doi: 10.1093/bioinformatics/btp383
PMCID:
PMC2734321
Abstract Full Text PDF–387K Supplementary Material
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