SNP Report

Basic Info
Name rs12998068 dbSNP Ensembl
Location chr2:154382620 - 154382620(1)
Variant Alleles A/G
Ancestral Allele A
Minor Allele G
Minor Allele Frequence 0.117212
Functional Annotation intron_variant; NMD_transcript_variant; non_coding_transcript_variant.
Consequence to Transcript intron_variant(ENST00000392825, ENST00000409237, ENST00000431076, ENST00000450838, ENST00000487047); NMD_transcript_variant(ENST00000431076); non_coding_transcript_variant(ENST00000487047)
No. of Studies 1 (Positive: 0; Negative: 1; Trend: 0)
Source Literature
Overlap with SZ? YES
Overlap with MDD? NO

SNP related studies (count: 1)
Reference Allele Change Risk Allele Statistical Values Author Comments Result Category
Bergen, S. E.,2012 A logistic regression: P-value > E-05 logistic regression: P-value > E-05 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)
GALNT13 polypeptide N-acetylgalactosaminyltransferase 13 2q24.1 1(0/1/0)

SNPs in LD with rs12998068 (count: 8) View in gBrowse (chr2:154376679..154431364 )
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: 1)
Reference Statistical Result Description Result Category
Bergen, S. E.,2012 logistic regression:for SZ new sample, OR=1.4, P-value = 1.50E-06, for SZ full sample, OR=1.32, P-value = 8.60E-06 No significant association was observed in SZ. Negative

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