BDgene

SNP Report

Basic Info
Name rs2989476 dbSNP Ensembl
Location chr1:60593587 - 60593587(1)
Variant Alleles G/C
Ancestral Allele G
Minor Allele G
Minor Allele Frequence 0.439497
Functional Annotation intron_variant; non_coding_transcript_variant.
Consequence to Transcript intron_variant(ENST00000439156, ENST00000634281, ENST00000634836, ENST00000635048, ENST00000635616); non_coding_transcript_variant(ENST00000439156, ENST00000634281, ENST00000634836, ENST00000635048, ENST00000635616)
No. of Studies 3 (Positive: 0; Negative: 2; Trend: 1)
Source Literature
Overlap with SZ? NO
Overlap with MDD? NO

SNP related studies (count: 3)
Reference Allele Change Risk Allele Statistical Values Author Comments Result Category
Smith, E. N.,2011 C/G Genome-Wide Association: OR=1.12, P-value = 0.0299 Genome-Wide Association: OR=1.12, P-value = 0.0299 No significant association was observed. No significant association was observed. Negative
Jiang, Y.,2011 Non-weighted test under H0: P-value(additive)=0.0000227, P-v...... Non-weighted test under H0: P-value(additive)=0.0000227, P-value(dominant)=0.0000022, P-value(recessive)=0.0461; weighted test under H'0: P-value(additive)=0.0000266, P-value(dominant)=0.00000225, P-value(recessive)=0.0727; logistic regression: P-value(additive)=0.0000403, P-value(dominant)=0.00000323, P-value(recessive)=0.0606 More... Suggestive association was found. Suggestive association was found. Trend
Ollila, H. M.,2009 G/C FBAT: P-value = 0.892598 FBAT: P-value = 0.892598 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)
NFIA nuclear factor I/A 1p31.3-p31.2 1(0/1/0)

SNPs in LD with rs2989476 (count: 22) View in gBrowse (chr1:60541510..60653259 )
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: 22)


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

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