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Submitted SNP(ss) Details: ss105439103           
Submitter
HandleSNP500CANCER
Submitter SNP IDGSTM2-04
RefSNP(rs#)rs592792
Submitted Batch IDSNP500CANCER_07_03_08_D
Submitted DateSep 05, 2008
Publication CitedN.D.
First entry to dbSNPSep 5 2008 12:00:00:000AM
Assay
SpeciesHomo sapiens
Molecular
Type		Genomic
MethodTAQMAM
Ascertainment Samplesize554
PopulationN.D.
Allele
Observed AlleleC/T
Ancestral AlleleN.D.
Allele OriginN/A
SNP ClassSNV
CpG CodeN.D.
Validation
Validation StatusbyFreq
HWE Goodness of Fitnot applicable
Variation
Frequency Submissionpopulation count: 14
Genotype Summarypopulation count: 14
Genotype SubmissionN.D.
HaplotypeN.D.

  Fasta sequence   (Legend) back to top
>gnl|dbSNP|ss105439103|allelePos=301|len=602|taxid=9606|alleles='C/T'|mol=Genomic
 TCTCTGACTG CATCTCCTCT CCCCASCTTA GAGGTGTTAA GATCAGGAGT CTTCTGCCCA
 ATTCCTCTCA CTCTTGGCTG TCTACACAGC CCTTGCATGA TGTTCTGTGT CCCAGCTCAT
 TTATTAGTGT GACAGTATTT CTATCTCAGG SCTGCCATGA GCAGGCCCTG GTCTCCTCTY
 TGCCCTTGCA TATGGGAAGG GGATGCTGGG GAGCCTGGTG GCCCAACTGA GCTTCCCCGG
 TTTCCCATCT ATCCAGCTGC CCTACTTGAT TGATGGGACT CACAAGATCA CCCAGAGCAA
 Y
 GCCATCCTGC GGTACATTGC CCGCAAGCAC AACCTGTGTG AGTAGATTTG GTTGCAAGAT
 GCGGGGAGGG ACCGTGGCCT CCTCCTCGGC TTGGCTGGGC TGTGAGGCTG AGAGTGAATC
 TGCTTTACGA GGGTAGGCGG GGAATCAGAA AAGGAGCAGA TTCGCGAAGA CATTTTGGAG
 AACCAGTTTA TGGACAGCCG TATGCAGCTG GCCAAACTCT GCTATGACCC AGAWTTTGTA
 AGTNCCCCCC MCCCCACTCC CAGTCTCCCC TTCCCTACTC CCAGTCTCCC CTTTCCCTGC
 A

  Submitted Frequency for ss105439103 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
AFR3
- MULTI-NATIONAL 		152C/C=0.69736803
C/T=0.27631599
N/N=0.01315800
T/T=0.01315800
SNP500CANCER_07_03_08_BSNP500CANCER
P2
- MULTI-NATIONAL 		420C/C=0.83333302
C/T=0.12857100
T/T=0.03809500
SNP500CANCER_07_03_08_BSNP500CANCER
CAUC3
- MULTI-NATIONAL 		132C/C=0.66666698
C/T=0.27272701
N/N=0.03030300
T/T=0.03030300
SNP500CANCER_07_03_08_BSNP500CANCER
P1
- MULTI-NATIONAL 		204C/C=0.82352901
C/T=0.14705899
T/T=0.01960800
N/N=0.00980400
SNP500CANCER_07_03_08_BSNP500CANCER
P3
- MULTI-NATIONAL 		560C/C=0.81428599
C/T=0.16428600
N/N=0.01071400
T/T=0.01071400
SNP500CANCER_07_03_08_BSNP500CANCER
CAUC2
- MULTI-NATIONAL 		120C/C=0.71666700
C/T=0.16666700
T/T=0.11666700
SNP500CANCER_07_03_08_BSNP500CANCER
HISP3
- MULTI-NATIONAL 		98C/C=1.00000000
SNP500CANCER_07_03_08_BSNP500CANCER
CAUC1
- MULTI-NATIONAL 		62C/C=0.80645198
C/T=0.16129000
N/N=0.03225800
SNP500CANCER_07_03_08_BSNP500CANCER
HISP1
- MULTI-NATIONAL 		46C/C=0.86956501
C/T=0.13043500
SNP500CANCER_07_03_08_BSNP500CANCER
ASI2
- EAST ASIA 		180C/C=1.00000000
SNP500CANCER_07_03_08_BSNP500CANCER
PAC1
- MULTI-NATIONAL 		48C/C=1.00000000
SNP500CANCER_07_03_08_BSNP500CANCER
AFR1
- MULTI-NATIONAL 		48C/C=0.62500000
C/T=0.29166701
T/T=0.08333300
SNP500CANCER_07_03_08_BSNP500CANCER
PAC3
- MULTI-NATIONAL 		178C/C=0.92134798
C/T=0.07865200
SNP500CANCER_07_03_08_BSNP500CANCER
AFR2
- WEST AFRICA 		120C/C=0.69999999
C/T=0.28333300
T/T=0.01666700
SNP500CANCER_07_03_08_BSNP500CANCER


  dbSNP summary of Genotypes for ss105439103 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 		202202C=0.90594059
T=0.09405941C/C=0.83168316
C/T=0.14851485
T/T=0.01980198
Pr(chiSq=1.669,df=1)
=0.200		Genotype
Freq.
CAUC1
- MULTI-NATIONAL 		6060C=0.91666669
T=0.08333334C/C=0.83333331
C/T=0.16666667
Pr(chiSq=0.040,df=1)
=1.000		Genotype
Freq.
AFR1
- MULTI-NATIONAL 		4848C=0.77083331
T=0.22916667C/C=0.62500000
C/T=0.29166666
T/T=0.08333334
Pr(chiSq=0.730,df=1)
=0.403		Genotype
Freq.
HISP1
- MULTI-NATIONAL 		4646C=0.93478262
T=0.06521739C/C=0.86956519
C/T=0.13043478
Pr(chiSq=0.014,df=1)
=1.000		Genotype
Freq.
P2
- MULTI-NATIONAL 		420420C=0.89761907
T=0.10238095C/C=0.83333331
C/T=0.12857144
T/T=0.03809524
Pr(chiSq=18.960,df=1)
=0.001		Genotype
Freq.
CAUC2
- MULTI-NATIONAL 		120120C=0.80000001
T=0.20000000C/C=0.71666664
C/T=0.16666667
T/T=0.11666667
Pr(chiSq=13.776,df=1)
=0.001		Genotype
Freq.
AFR2
- WEST AFRICA 		120120C=0.84166664
T=0.15833333C/C=0.69999999
C/T=0.28333333
T/T=0.01666667
Pr(chiSq=0.239,df=1)
=0.655		Genotype
Freq.
P3
- MULTI-NATIONAL 		554554C=0.90613717
T=0.09386282C/C=0.82310468
C/T=0.16606498
T/T=0.01083033
Pr(chiSq=0.156,df=1)
=0.752		Genotype
Freq.
CAUC3
- MULTI-NATIONAL 		128128C=0.82812500
T=0.17187500C/C=0.68750000
C/T=0.28125000
T/T=0.03125000
Pr(chiSq=0.009,df=1)
=1.000		Genotype
Freq.
AFR3
- MULTI-NATIONAL 		150150C=0.84666669
T=0.15333334C/C=0.70666665
C/T=0.28000000
T/T=0.01333333
Pr(chiSq=0.461,df=1)
=0.527		Genotype
Freq.
PAC3
- MULTI-NATIONAL 		178178C=0.96067417
T=0.03932584C/C=0.92134833
C/T=0.07865169
Pr(chiSq=0.011,df=1)
=1.000		Genotype
Freq.

  Submitted individual genotype for ss105439103 back to top
There is no individual genotype data for ss105439103.

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