BDgene

SNP Report

Basic Info
Name rs2623966 dbSNP Ensembl
Location chr6:152532539 - 152532539(1)
Variant Alleles T/C
Ancestral Allele T
Minor Allele C
Minor Allele Frequence 0.212061
Functional Annotation intron_variant; non_coding_transcript_variant.
Consequence to Transcript intron_variant(ENST00000341594, ENST00000367248, ENST00000367253, ENST00000367255, ENST00000413186, ENST00000423061, ENST00000461872, ENST00000466159, ENST00000537750, ENST00000610489); non_coding_transcript_variant(ENST00000461872)
No. of Studies 1 (Positive: 0; Negative: 1; Trend: 0)
Source Literature
Overlap with SZ? NO
Overlap with MDD? NO

SNP related studies (count: 1)
Reference Allele Change Risk Allele Statistical Values Author Comments Result Category
Xu, W., 2014 C/T P(unadj)-value=1.50E-05, OR (unadj)=1.424, P(adj)-value=3....... P(unadj)-value=1.50E-05, OR (unadj)=1.424, P(adj)-value=3.02E-06, OR (adj)=1.481 More... Top 68 SNPs (showing suggestive association to BD: p<0.0001)...... Top 68 SNPs (showing suggestive association to BD: p<0.0001) in our combined (CAMH and IoP) GWAS. SNPs from top 1000 from our combined CAMH/IoP GWAS for BPAD, for which at least one other non-overlapping GWAS also shows association at same gene. More... Negative

SNP related genes (count: 1)
Approved Symbol Approved Name Location No. of Studies (Positive/Negative/Trend)
SYNE1 spectrin repeat containing, nuclear envelope 1 6q25.2 6(3/2/1)

SNPs in LD with rs2623966 (count: 22) View in gBrowse (chr6:152445631..152548430 )
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)

Copyright: Bioinformatics Lab, Institute of Psychology, Chinese Academy of Sciences Feedback Acknowledgements
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Last update: March 31, 2016