Submitted SNP(ss) Details: ss16358794

Submitted SNP(ss) Details: ss16358794

Submitter
Handle	EGP_SNPS
Submitter SNP ID	TNFRSF11B-001280
RefSNP(rs#)	rs3134070
Submitted Batch ID	TNFRSF11B-PDR90-012104
Submitted Date	Jan 23, 2004
Publication Cited	[1] NIEHS-SNPs, Environmental Genome Project, NIEHS ES15478.
First entry to dbSNP	Jan 23 2004 12:00:00:000AM

Resource Links
GenBank Accession	AY466112
Submitted Gene Name	TNFRSF11B
Submitted Gene ID	4982
Submitted SNP Synonyms	N.D
Submitted linkout	N.D

Assay
Species	Homo sapiens
Molecular Type	GENOMIC
Method	METHOD-E
Ascertainment Samplesize	176
Population	PDR90

Allele
Observed Allele	A/G
Ancestral Allele	N.D.
Allele Origin	N/A
SNP Class	SNV
CpG Code	c_g/a

Validation
Validation Status
HWE Goodness of Fit	not applicable
Homozygote Detected	Y

Variation
Frequency Submission	population count: 1
Genotype Summary	population count: 15
Genotype Submission	N.D.
Haplotype	N.D.

Fasta sequence (Legend)

 TCACCTTCCT TCCCTTGAAT CTGGTGAAAG GCAGTATTTG CCCTTCTCTG GAGACATATA
 ACTTGAACAC TTGGCCCTGA TGGGGAAGCA GCTCTGCAGG GACTTTTTCA GCCATCTGTA
 AACAATTTCA GTGGCAACCC GCGAACTGTA ATCCATGAAT GGGACCACAC TTTACAAGTC
 ATCAAGTCTA ACTTCTAGAC CAGGGAATTA ATGGGGGAGA CAGCGAACCC TAGAGCAAAG
 TGCCAAACTT CTGTC
 R
 ATAGCTTGAG GCTAGTGGAA AGACCTCGAG GAGGCTACTC CAGAAGTTCA GCGCGTAGGA
 AGCTCCGATA CCAATAGCCC TTTGATGATG GTGGGGTTGG TGAAGGGAAC AGTGCTCCGC
 AAGGTTATCC CTGCCCCAGG CAGTCCAATT TTCACTCTGC AGATTCTCTC TGGCTCTAAC
 TACCCCAGAT AACAAGGAGT GAATGCAGAA TAGCACGGGC TTTAGGGCCA ATCAGACATT
 AGTTAGAAAA ATTCC

Submitted Frequency for ss16358794

Population ID -Class	Sample (2n)	Major Allele Freq.	Minor Allele Freq.	Estimated Heterozygosity +/-std.err.	Genotype Freq.	Submitted Hetero- zygosity	Submission Batch	Submitter
PDR90	176	G=0.87500000	A=0.12500000	0.219 +/-0.053			TNFRSF11B-PDR90-012104	EGP_SNPS

dbSNP summary of Genotypes for ss16358794

Population ID -Class	Total Sample (2N)	Founder (2N)	Major Allele Freq.	Minor Allele Freq.	Genotype Freq.	HWE Goodness of Fit	Data Source
PDR90	176	176	G=0.87500000	A=0.12500000	G/G=0.77272725 A/G=0.20454545 A/A=0.02272727	Pr(chiSq=0.371,df=1) =0.584	Genotype Freq.
HapMap-CEU	226	226	G=0.93805307	A=0.06194690	G/G=0.88495576 A/G=0.10619469 A/A=0.00884956	Pr(chiSq=0.841,df=1) =0.371	Genotype Freq.
HapMap-HCB - EAST ASIA	86	86	G=0.89534885	A=0.10465116	G/G=0.81395346 A/G=0.16279070 A/A=0.02325581	Pr(chiSq=0.741,df=1) =0.403	Genotype Freq.
HapMap-JPT	172	172	G=0.86046511	A=0.13953489	G/G=0.74418604 A/G=0.23255815 A/A=0.02325581	Pr(chiSq=0.086,df=1) =1.000	Genotype Freq.
HapMap-YRI	226	226	G=0.81415927	A=0.18584071	G/G=0.65486723 A/G=0.31858408 A/A=0.02654867	Pr(chiSq=0.315,df=1) =0.584	Genotype Freq.
HAPMAP-ASW	98	98	G=0.83673471	A=0.16326530	G/G=0.67346936 A/G=0.32653061	Pr(chiSq=0.559,df=1) =0.479	Genotype Freq.
HAPMAP-CHB	82	82	G=0.86585367	A=0.13414635	G/G=0.73170733 A/G=0.26829270	Pr(chiSq=0.246,df=1) =0.655	Genotype Freq.
HAPMAP-CHD	170	170	G=0.81764704	A=0.18235295	G/G=0.64705884 A/G=0.34117648 A/A=0.01176471	Pr(chiSq=1.765,df=1) =0.200	Genotype Freq.
HAPMAP-GIH	176	176	G=0.97727275	A=0.02272727	G/G=0.95454544 A/G=0.04545455	Pr(chiSq=0.002,df=1) =1.000	Genotype Freq.
HAPMAP-LWK	178	178	G=0.78089887	A=0.21910113	G/G=0.60674155 A/G=0.34831461 A/A=0.04494382	Pr(chiSq=0.028,df=1) =1.000	Genotype Freq.
HAPMAP-MEX	100	100	G=0.85000002	A=0.15000001	G/G=0.72000003 A/G=0.25999999 A/A=0.02000000	Pr(chiSq=0.019,df=1) =1.000	Genotype Freq.
HAPMAP-MKK	286	286	G=0.83916086	A=0.16083916	G/G=0.73426574 A/G=0.20979021 A/A=0.05594406	Pr(chiSq=7.100,df=1) =0.010	Genotype Freq.
HAPMAP-TSI	176	176	G=0.94886363	A=0.05113636	G/G=0.89772725 A/G=0.10227273	Pr(chiSq=0.025,df=1) =1.000	Genotype Freq.

Submitted individual genotype for ss16358794

There is no individual genotype data for ss16358794.

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