SNP Report

Basic Info
Name rs228642 dbSNP Ensembl
Location chr1:7803233 - 7803233(1)
Variant Alleles C/T
Ancestral Allele C
Minor Allele T
Minor Allele Frequence 0.416334
Functional Annotation intron_variant; non_coding_transcript_variant.
Consequence to Transcript intron_variant(ENST00000361923, ENST00000377532, ENST00000377541, ENST00000463106, ENST00000613533, ENST00000614998); non_coding_transcript_variant(ENST00000463106)
No. of Studies 2 (Positive: 1; Negative: 1; Trend: 0)
Source Literature
Overlap with SZ? NO
Overlap with MDD? YES

SNP related studies (count: 2)
Reference Allele Change Risk Allele Statistical Values Author Comments Result Category
Soria, V.,2010 X2-tests: allele P-value = 0.202, Model Recessive...... X2-tests: allele P-value = 0.202, Model Recessive, genotype P-value = 0.028, OR(95%CI)=1.66 (1.06-2.60) More... Significant association was found in BD. Significant association was found in BD. Positive
Yosifova, A.,2009 C/T Allelic association: P-value = 0.52 Allelic association: P-value = 0.52 No significant association was observed No significant association was observed 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 rs228642 (count: 8) View in gBrowse (chr1:7787776..7823774 )
The LD data used here is based on HapMap rel#27. LD SNP pairs were selected with a threshold r2<=0.8.

Literature-origin SNPs (count: 0)

LD-proxies (count: 8)

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 > 0.05, genotype P-value > 0.05 in all model No significant association was observed. Negative