BDgene

SNP Report

Basic Info
Name rs1556314 dbSNP Ensembl
Location chr21:44391460 - 44391460(1)
Variant Alleles T/G
Ancestral Allele G
Minor Allele G
Minor Allele Frequence 0.204473
Functional Annotation intron_variant; missense_variant; non_coding_transcript_exon_variant; non_coding_transcript_variant.
Polyphen Annotation: benign(ENST00000300482, ENST00000397928, ENST00000397932)
SIFT Annotation: tolerated(ENST00000300482, ENST00000397928, ENST00000397932)
Consequence to Transcript intron_variant(ENST00000300481); missense_variant(ENST00000300482, ENST00000397928, ENST00000397932); non_coding_transcript_exon_variant(ENST00000498430); non_coding_transcript_variant(ENST00000498430)
No. of Studies 3 (Positive: 2; Negative: 1; Trend: 0)
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
McQuillin, A., 2006 P-value = 0.008, Pearson's X2=7.039 P-value = 0.008, Pearson's X2=7.039 showed allelic association with bipolar disorder showed allelic association with bipolar disorder Positive
Xu, C.,2009 G TDT: in BD families, X2=1.87, P-value = 0.172; in...... TDT: in BD families, X2=1.87, P-value = 0.172; in BD-I families, X2=5.58, P-value = 0.018; in BD-II families, X2=2.76, P-value = 0.097; in BD-I probands (AAO<=24 years), X2=5.04, P-value = 0.024; case-control study: in BD, OR (95% CI)=1.40(1.00-1.96), X2=3.92, P-value = 0.047, P-permutation value=0.056; in BD--I, OR (95% CI)=1.59(1.11-2.28), X2=6.47, P-value = 0.011, P-permutation value=0.015; in BD-II, OR (95% CI)=1.02(0.60-1.73), X2=0, P-value = 0.952, P-permutation value=0.096 More... Significant association was observed in BD-I probands (AAO<=...... Significant association was observed in BD-I probands (AAO<=24 years)in TDT and in BD-I in the case-control study. More... Positive
Roche, S., 2007 TDT allelic P-value = 0.646, X6=0.211 TDT allelic P-value = 0.646, X6=0.211 There was no evidence for association in the single-marker a...... There was no evidence for association in the single-marker association analyses More... Negative

SNP related genes (count: 1)
Approved Symbol Approved Name Location No. of Studies (Positive/Negative/Trend)
TRPM2 transient receptor potential cation channel, subfamily M, member 2 21q22.3 5(3/2/0)

SNPs in LD with rs1556314 (count: 14) View in gBrowse (chr21:44357261..44392820 )
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: 14)


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