SNP Report

Basic Info
Name rs472913 dbSNP Ensembl
Location chr1:60629886 - 60629886(1)
Variant Alleles G/C
Ancestral Allele G
Minor Allele G
Minor Allele Frequence 0.47484
Functional Annotation intron_variant; non_coding_transcript_variant.
Consequence to Transcript intron_variant(ENST00000439156); non_coding_transcript_variant(ENST00000439156)
No. of Studies 2 (Positive: 0; Negative: 1; Trend: 1)
Source Literature
Overlap with SZ? YES
Overlap with MDD? NO

SNP related studies (count: 2)
Reference Allele Change Risk Allele Statistical Values Author Comments Result Category
Scott, L. J.,2009 C/G NIMH/Pritzker: OR (95% CI)=1.12(0.97-1.29), P-value = 0.11; ...... NIMH/Pritzker: OR (95% CI)=1.12(0.97-1.29), P-value = 0.11; GSK(reduced sample): OR (95% CI)=1.17(1.00-1.36), P-value = 0.051; WTCCC: OR (95% CI)=1.20?(1.11-1.28), P-value = 0.00000063; 3-study meta-analysis: OR (95% CI)=1.18(1.11-1.25), P-value = 0.0000002; Heterogeneity: I2%=0, P-value = 0.72 More... Trend
Kondo, K.,2013 G/C P-value = 0.20,OR= 0.945 P-value = 0.20,OR= 0.945 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)
NFIX nuclear factor I/X (CCAAT-binding transcription factor) 19p13.3 4(0/3/1)

SNPs in LD with rs472913 (count: 29) View in gBrowse (chr1:60594841..60659706 )
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: 29)

Overlap with SZ from cross-disorder studies (count: 1)
Reference Statistical Result Description Result Category
Kondo, K.,2013 P-value = 0.036,OR= 0.888 Significant association was observed. Positive

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