Genotype Data (Phase II)
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Data name
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Genotype Data (Phase II) | ||||||||||||||
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DOI
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10.18908/lsdba.nbdc00036-005 |
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Description of data contents
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A list of SNP genotypes in D2(Phase II). SNP genotypes in D1 (Phase I, Perlegen 281K SNPs) and those determined using Affymetrix 500K Array for overlapping 74 CHM samples were merged and QC'ed. | ||||||||||||||
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Data file
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File name :
mole_info_DhaploD2.txt.gz
File URL :
File size :
13.7MB
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Simple search URL
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Data acquisition method
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Genotypes were determined using Perlegen 281K arrays and Affymetrix 500K arrays |
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Data analysis method
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The analyses by Perlegen 281K arrays are described in Kukita et al. (2005). The analyses by Affymetrix 500K are described in Higasa et al. (2009). Affymetrix markers were mapped to NCBI Build 35 (Higasa mapping was on Build 36), and merged with Perlegen data. The original Affymetrix data contained a small fraction (< 1%) of SNPs that were genotyped heterozygote. These typings were judged to be errors because the materials were presumed to be homozygotes. Thus, all heterozygous calls (in Affymetrix data) were forced to be no calls. Many of the heterozygous calls were also low S/N calls and frequently irreproducible when tested. |
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Number of data entries
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581,235 entries |
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