SNP Report

Basic Info

Name	rs11121029 dbSNP Ensembl
Location	chr1:7816416 - 7816416(1)
Variant Alleles	G/A
Ancestral Allele	G
Minor Allele	A
Minor Allele Frequence	0.182308
Functional Annotation	intron_variant; non_coding_transcript_variant.
Consequence to Transcript	intron_variant(ENST00000361923, ENST00000377532, ENST00000451646, ENST00000613533, ENST00000614998); non_coding_transcript_variant(ENST00000451646)
No. of Studies	1 (Positive: 0; Negative: 1; Trend: 0)
Source	Literature
Overlap with SZ?	NO
Overlap with MDD?	YES

SNP related studies (count: 1)

Reference	Allele Change	Risk Allele	Statistical Values	Author Comments	Result Category
Soria, V.,2010			X²-tests: allele P-value > 0.05, genotype P-value...... X²-tests: allele P-value > 0.05, genotype P-value > 0.05 in all model More...	No significant association was observed in BD. No significant association was observed in BD.	Negative

SNP related genes (count: 1)

Approved Symbol	Approved Name	Location	No. of Studies (Positive/Negative/Trend)
PER3	period circadian clock 3	1p36.23	7(3/4/0)

SNPs in LD with rs11121029 (count: 7) View in gBrowse (chr1:7788497..7868699 )

The LD data used here is based on HapMap rel#27. LD SNP pairs were selected with a threshold r²<=0.8.

rs_ID	Functional Annotation	r²[population]
rs10864317	downstream_gene_variant; intron_variant	1.0[CEU]
rs2066978		0.847[CEU]
rs12035969	intron_variant; upstream_gene_variant	1.0[CEU]
rs10127838	intron_variant; non_coding_transcript_variant	1.0[CEU]
rs11121023	downstream_gene_variant; intron_variant; non_coding_transcript_exon_variant; non_coding_transcript_variant	0.949[CEU]
rs12025388	intron_variant; upstream_gene_variant	1.0[CEU]
rs2172563	downstream_gene_variant; intron_variant; non_coding_transcript_variant	1.0[CEU]

Overlap with SZ from cross-disorder studies (count: 0)

Overlap with MDD from cross-disorder studies (count: 1)

Reference	Statistical Result	Description	Result Category
Soria, V.,2010	X²-tests:allele P-value = 0.769, Model Recessive, genotype P-value = 0.047, OR(95%CI)=0.43 (0.18-1.04)	Significant association was found.	Positive