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Imputed genotype resource, 51 strains, 7,870,134 SNPs


Strains used in data below:
129S1/SvImJ 129S4/SvJae 129X1/SvJ A/J AKR/J
BALB/cByJ BTBR.T<+>tf/J BUB/BnJ C3H/HeJ C57BL/6J
C57BLKS/J C57BR/cdJ C57L/J CAST/EiJ CBA/J
CE/J CZECHII/EiJ DBA/1J DBA/2J DDK/Pas
FVB/NJ I/LnJ JF1/Ms KK/HLJ LG/J
LP/J MA/MyJ MAI/Pas MOLF/EiJ MSM/Ms
NOD/LtJ NON/LtJ NZB/BlNJ NZW/LacJ O20
PERA/EiJ PL/J PWD/Ph Qsi5 RIIIS/J
SEA/GnJ SEG/Pas SJL/J SM/J SPRET/EiJ
ST/bJ SWR/J WSB/EiJ NZO/HlLtJ PWK/PhJ
C58/J

 

SNP Genotype Data: Upper case letters indicate experimental genotypes; lower case letters indicate imputed genotypes.                  
Chromosome 1 694809 SNPs PBHMM2_SNP_chr1_genoData.zipPBHMM2_SNP_chr1_genoData.csv.gz
Chromosome 2 524667 SNPs PBHMM2_SNP_chr2_genoData.zipPBHMM2_SNP_chr2_genoData.csv.gz
Chromosome 3 509892 SNPs PBHMM2_SNP_chr3_genoData.zipPBHMM2_SNP_chr3_genoData.csv.gz
Chromosome 4 476425 SNPs PBHMM2_SNP_chr4_genoData.zipPBHMM2_SNP_chr4_genoData.csv.gz
Chromosome 5 496888 SNPs PBHMM2_SNP_chr5_genoData.zipPBHMM2_SNP_chr5_genoData.csv.gz
Chromosome 6 509547 SNPs PBHMM2_SNP_chr6_genoData.zipPBHMM2_SNP_chr6_genoData.csv.gz
Chromosome 7 405733 SNPs PBHMM2_SNP_chr7_genoData.zipPBHMM2_SNP_chr7_genoData.csv.gz
Chromosome 8 444910 SNPs PBHMM2_SNP_chr8_genoData.zipPBHMM2_SNP_chr8_genoData.csv.gz
Chromosome 9 361571 SNPs PBHMM2_SNP_chr9_genoData.zipPBHMM2_SNP_chr9_genoData.csv.gz
Chromosome 10 399126 SNPs PBHMM2_SNP_chr10_genoData.zipPBHMM2_SNP_chr10_genoData.csv.gz
Chromosome 11 259028 SNPs PBHMM2_SNP_chr11_genoData.zipPBHMM2_SNP_chr11_genoData.csv.gz
Chromosome 12 396114 SNPs PBHMM2_SNP_chr12_genoData.zipPBHMM2_SNP_chr12_genoData.csv.gz
Chromosome 13 399930 SNPs PBHMM2_SNP_chr13_genoData.zipPBHMM2_SNP_chr13_genoData.csv.gz
Chromosome 14 345783 SNPs PBHMM2_SNP_chr14_genoData.zipPBHMM2_SNP_chr14_genoData.csv.gz
Chromosome 15 337461 SNPs PBHMM2_SNP_chr15_genoData.zipPBHMM2_SNP_chr15_genoData.csv.gz
Chromosome 16 305078 SNPs PBHMM2_SNP_chr16_genoData.zipPBHMM2_SNP_chr16_genoData.csv.gz
Chromosome 17 266421 SNPs PBHMM2_SNP_chr17_genoData.zipPBHMM2_SNP_chr17_genoData.csv.gz
Chromosome 18 291266 SNPs PBHMM2_SNP_chr18_genoData.zipPBHMM2_SNP_chr18_genoData.csv.gz
Chromosome 19 222031 SNPs PBHMM2_SNP_chr19_genoData.zipPBHMM2_SNP_chr19_genoData.csv.gz
Chromosome X 223456 SNPs PBHMM2_SNP_chrX_genoData.zipPBHMM2_SNP_chrX_genoData.csv.gz

 

SNP Genotype Confidence Scores : For every genotype, imputed and experimental, a confidence score is computed as the posterior probability under the trained HMM.      
Chromosome 1 694809 SNPs PBHMM2_SNP_chr1_genoConfScore.zip PBHMM2_SNP_chr1_genoConfScore.csv.gz
Chromosome 2 524667 SNPs PBHMM2_SNP_chr2_genoConfScore.zip PBHMM2_SNP_chr2_genoConfScore.csv.gz
Chromosome 3 509892 SNPs PBHMM2_SNP_chr3_genoConfScore.zip PBHMM2_SNP_chr3_genoConfScore.csv.gz
Chromosome 4 476425 SNPs PBHMM2_SNP_chr4_genoConfScore.zip PBHMM2_SNP_chr4_genoConfScore.csv.gz
Chromosome 5 496888 SNPs PBHMM2_SNP_chr5_genoConfScore.zip PBHMM2_SNP_chr5_genoConfScore.csv.gz
Chromosome 6 509545 SNPs PBHMM2_SNP_chr6_genoConfScore.zip PBHMM2_SNP_chr6_genoConfScore.csv.gz
Chromosome 7 405733 SNPs PBHMM2_SNP_chr7_genoConfScore.zip PBHMM2_SNP_chr7_genoConfScore.csv.gz
Chromosome 8 444910 SNPs PBHMM2_SNP_chr8_genoConfScore.zip PBHMM2_SNP_chr8_genoConfScore.csv.gz
Chromosome 9 361570 SNPs PBHMM2_SNP_chr9_genoConfScore.zip PBHMM2_SNP_chr9_genoConfScore.csv.gz
Chromosome 10 399126 SNPs PBHMM2_SNP_chr10_genoConfScore.zip PBHMM2_SNP_chr10_genoConfScore.csv.gz
Chromosome 11 259028 SNPs PBHMM2_SNP_chr11_genoConfScore.zip PBHMM2_SNP_chr11_genoConfScore.csv.gz
Chromosome 12 396114 SNPs PBHMM2_SNP_chr12_genoConfScore.zip PBHMM2_SNP_chr12_genoConfScore.csv.gz
Chromosome 13 399930 SNPs PBHMM2_SNP_chr13_genoConfScore.zip PBHMM2_SNP_chr13_genoConfScore.csv.gz
Chromosome 14 345783 SNPs PBHMM2_SNP_chr14_genoConfScore.zip PBHMM2_SNP_chr14_genoConfScore.csv.gz
Chromosome 15 337461 SNPs PBHMM2_SNP_chr15_genoConfScore.zip PBHMM2_SNP_chr15_genoConfScore.csv.gz
Chromosome 16 305078 SNPs PBHMM2_SNP_chr16_genoConfScore.zip PBHMM2_SNP_chr16_genoConfScore.csv.gz
Chromosome 17 266421 SNPs PBHMM2_SNP_chr17_genoConfScore.zip PBHMM2_SNP_chr17_genoConfScore.csv.gz
Chromosome 18 291266 SNPs PBHMM2_SNP_chr18_genoConfScore.zip PBHMM2_SNP_chr18_genoConfScore.csv.gz
Chromosome 19 222031 SNPs PBHMM2_SNP_chr19_genoConfScore.zip PBHMM2_SNP_chr19_genoConfScore.csv.gz
Chromosome X 223456 SNPs PBHMM2_SNP_chrX_genoConfScore.zip PBHMM2_SNP_chrX_genoConfScore.csv.gz

 

Data Version History: Release 1, Version PBHMM2, Freeze Date 09/30/2007, NCBI Build 36.


Details see Szatkiewicz et. al. "An imputed genotype resource for the laboratory mouse" (submitted).


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