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Submitted SNP(ss) Details: ss105441729           
Submitter
HandleSNP500CANCER
Submitter SNP IDGPX4-20
RefSNP(rs#)rs8178970
Submitted Batch IDSNP500CANCER_07_03_08_F
Submitted DateSep 05, 2008
Publication CitedN.D.
First entry to dbSNPSep 5 2008 12:00:00:000AM
Assay
SpeciesHomo sapiens
Molecular
Type
Genomic
MethodEPOCH
Ascertainment Samplesize202
PopulationN.D.
Allele
Observed AlleleT/C
Ancestral AlleleN.D.
Allele OriginN/A
SNP ClassSNV
CpG CodeN.D.
Validation
Validation StatusbyFreq
HWE Goodness of Fitnot applicable
Variation
Frequency Submissionpopulation count: 10
Genotype Summarypopulation count: 10
Genotype SubmissionN.D.
HaplotypeN.D.

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|ss105441729|allelePos=301|len=601|taxid=9606|alleles='T/C'|mol=Genomic
 ACCGGACCAG AAGTACAAGG GGGCGTGTGC GTTTAAGGAG GAGGAGCGTT CAGGTCTTCA
 GGGCCGCAGG GCCTCGGTGT CCCCGCCACY GACCCGCTCC CGATCCCTTC CTGCCTCAGG
 GTCCCGGGCT CAGCCTCCCG TCCACGCTCC CTGCTCAGCT TCCTTTGCCT TGCAGTGCGC
 GTCCCGGGAC GACTGGCGCT GTGCGCGCTC CATGCACGAG TTTTCCGCCA AGGACATCGA
 CGGGCACATG GTTAACCTGG ACAAGTACCG GTGGGCGCTC GCCTGGGGTG GGGCGCGGGG
 Y
 CGGGSSCTGG GAGGGGGCCG TGTTCTTCTG CGCTGACGCC GCCGATCCTC GYAGGGGCTT
 CGTGTGCATC GTCACCAACG TGGCCTCCCA GTGAGGCAAG ACCGAAGTAA ACTACACTCA
 GCTCGTCGAC CTGCACGYCC GATACGCTGA GTGTGGTTTG CGGATCCTGG CCTTCCCGTG
 TAACCAGTTC GGGAAGCAGG TGGGCTGCTG CGTYCCCGGG GCCCGCARAG GCGGGTGGGT
 GGGGGTCGGG GTGGGCTCCA GCCTGGAGAG GGCCTGGGAG TGTGCAGGGG GCCCGGACTG

  Submitted Frequency for ss105441729 back to top

Population ID
 -Class
Sample
(2n)
Major
Allele
Freq.
Minor
Allele
Freq.
Estimated
Heterozygosity
+/-std.err.
Genotype
Freq.
Submitted
Hetero-
zygosity
Submission
Batch
Submitter
PAC1
MULTI-NATIONAL
48T/T=1.00000000
SNP500CANCER_07_03_08_DSNP500CANCER
P1
MULTI-NATIONAL
204T/T=0.97058803
C/C=0.00980400
C/T=0.00980400
N/N=0.00980400
SNP500CANCER_07_03_08_DSNP500CANCER
AFR1
MULTI-NATIONAL
48T/T=0.91666698
C/C=0.04166700
C/T=0.04166700
SNP500CANCER_07_03_08_DSNP500CANCER
HISP1
MULTI-NATIONAL
46T/T=1.00000000
SNP500CANCER_07_03_08_DSNP500CANCER
CAUC3
MULTI-NATIONAL
132T/T=1.00000000
SNP500CANCER_07_03_08_DSNP500CANCER
AFR3
MULTI-NATIONAL
152T/T=0.81578898
C/T=0.14473701
N/N=0.02631600
C/C=0.01315800
SNP500CANCER_07_03_08_DSNP500CANCER
PAC3
MULTI-NATIONAL
178T/T=0.97752798
N/N=0.02247200
SNP500CANCER_07_03_08_DSNP500CANCER
CAUC1
MULTI-NATIONAL
62T/T=0.96774203
N/N=0.03225800
SNP500CANCER_07_03_08_DSNP500CANCER
P3
MULTI-NATIONAL
560T/T=0.94285703
C/T=0.03928600
N/N=0.01428600
C/C=0.00357100
SNP500CANCER_07_03_08_DSNP500CANCER
HISP3
MULTI-NATIONAL
98T/T=1.00000000
SNP500CANCER_07_03_08_DSNP500CANCER


  dbSNP summary of Genotypes for ss105441729 back to top

Population ID
 -Class
Total
Sample
(2N)
Founder
(2N)
Major
Allele
Freq.
Minor
Allele
Freq.
Genotype
Freq.
HWE Goodness of FitData
Source
P1
MULTI-NATIONAL
202202T=0.98514849
C=0.01485149T/T=0.98019803
C/C=0.00990099
C/T=0.00990099
Pr(chiSq=44.215,df=1)
=0.001
Genotype
Freq.
AFR1
MULTI-NATIONAL
4848T=0.93750000
C=0.06250000T/T=0.91666669
C/C=0.04166667
C/T=0.04166667
Pr(chiSq=9.967,df=1)
=0.003
Genotype
Freq.
P3
MULTI-NATIONAL
552552T=0.97644925
C=0.02355072T/T=0.95652175
C/T=0.03985507
C/C=0.00362319
Pr(chiSq=4.914,df=1)
=0.050
Genotype
Freq.
AFR3
MULTI-NATIONAL
148148T=0.91216218
C=0.08783784T/T=0.83783782
C/T=0.14864865
C/C=0.01351351
Pr(chiSq=0.388,df=1)
=0.584
Genotype
Freq.

  Submitted individual genotype for ss105441729 back to top
There is no individual genotype data for ss105441729.

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