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rdf:type |
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lifeskim:mentions |
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pubmed:dateCreated |
2005-11-10
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pubmed:abstractText |
High throughput microarray-based single nucleotide polymorphism (SNP) genotyping has revolutionized the way genome-wide linkage scans and association analyses are performed. One of the key features of the array-based GeneChip Mapping 10K Array from Affymetrix is the automated SNP calling algorithm. The Affymetrix algorithm was trained on a database of ethnically diverse DNA samples to create SNP call zones that are used as static models to make genotype calls for experimental data. We describe here the implementation of clustering algorithms on large training datasets resulting in improved SNP call rates on the 10K GeneChip.
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pubmed:grant |
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pubmed:commentsCorrections |
http://linkedlifedata.com/resource/pubmed/commentcorrection/16262895-11237013,
http://linkedlifedata.com/resource/pubmed/commentcorrection/16262895-11563070,
http://linkedlifedata.com/resource/pubmed/commentcorrection/16262895-12960966,
http://linkedlifedata.com/resource/pubmed/commentcorrection/16262895-14668223,
http://linkedlifedata.com/resource/pubmed/commentcorrection/16262895-14993208,
http://linkedlifedata.com/resource/pubmed/commentcorrection/16262895-15057824,
http://linkedlifedata.com/resource/pubmed/commentcorrection/16262895-15495334,
http://linkedlifedata.com/resource/pubmed/commentcorrection/16262895-15561999,
http://linkedlifedata.com/resource/pubmed/commentcorrection/16262895-15716906,
http://linkedlifedata.com/resource/pubmed/commentcorrection/16262895-15782170,
http://linkedlifedata.com/resource/pubmed/commentcorrection/16262895-15833046
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pubmed:language |
eng
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pubmed:journal |
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pubmed:citationSubset |
IM
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pubmed:status |
MEDLINE
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pubmed:issn |
1471-2164
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pubmed:author |
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pubmed:issnType |
Electronic
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pubmed:volume |
6
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pubmed:owner |
NLM
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pubmed:authorsComplete |
Y
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pubmed:pagination |
149
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pubmed:dateRevised |
2010-11-18
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pubmed:meshHeading |
pubmed-meshheading:16262895-Algorithms,
pubmed-meshheading:16262895-Chromosome Mapping,
pubmed-meshheading:16262895-Chromosomes, Human, Pair 19,
pubmed-meshheading:16262895-Cluster Analysis,
pubmed-meshheading:16262895-DNA Mutational Analysis,
pubmed-meshheading:16262895-Gene Expression Profiling,
pubmed-meshheading:16262895-Gene Frequency,
pubmed-meshheading:16262895-Genetic Linkage,
pubmed-meshheading:16262895-Genotype,
pubmed-meshheading:16262895-Humans,
pubmed-meshheading:16262895-Models, Statistical,
pubmed-meshheading:16262895-Oligonucleotide Array Sequence Analysis,
pubmed-meshheading:16262895-Polymerase Chain Reaction,
pubmed-meshheading:16262895-Polymorphism, Single Nucleotide,
pubmed-meshheading:16262895-Reproducibility of Results,
pubmed-meshheading:16262895-Sequence Alignment,
pubmed-meshheading:16262895-Software
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pubmed:year |
2005
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pubmed:articleTitle |
SNiPer: improved SNP genotype calling for Affymetrix 10K GeneChip microarray data.
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pubmed:affiliation |
Neurogenomics Division, The Translational Genomics Research Institute (TGen), Phoenix, Arizona 85004, USA. mhuentelman@tgen.org
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pubmed:publicationType |
Journal Article,
Research Support, U.S. Gov't, P.H.S.,
Research Support, N.I.H., Extramural
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