BDgene

SNP Report

Basic Info
Name rs12966547 dbSNP Ensembl
Location chr18:55084786 - 55084786(1)
Variant Alleles G/A
Ancestral Allele A
Minor Allele A
Minor Allele Frequence 0.393371
No. of Studies 2 (Positive: 2; Negative: 0; Trend: 0)
Source Literature
Overlap with SZ? YES
Overlap with MDD? YES

SNP related studies (count: 2)
Reference Allele Change Risk Allele Statistical Values Author Comments Result Category
Cross-Disorder Group of the Psychiatric Genomics Consortium,2013 G/A Association analysis:P-value = 0.00000000026 when BPD,MDD an...... Association analysis:P-value = 0.00000000026 when BPD,MDD and SZ were combined. More... Significant association was observed in cross-disorder analy...... Significant association was observed in cross-disorder analysis. More... Positive
Andreassen OA, 2013 Conditional FDR; SCZ loci given BD:: FDR=0.019 for SCZ and B...... Conditional FDR; SCZ loci given BD:: FDR=0.019 for SCZ and BD More... To estimate the number of independent loci, we 'pruned' the ...... To estimate the number of independent loci, we 'pruned' the associated SNPs (removed SNPs with linkage disequilibrium (LD)>0.2), and identified a total of 58 independent loci with a significance threshold of conditional FDR<0.32. More... Positive

SNP related genes (count: 1)
Approved Symbol Approved Name Location No. of Studies (Positive/Negative/Trend)
CCDC68 coiled-coil domain containing 68 18q21 1(1/0/0)

SNPs in LD with rs12966547 (count: 5) View in gBrowse (chr18:55080458..55085469 )
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: 5)


Overlap with SZ from cross-disorder studies (count: 2)
Reference Statistical Result Description Result Category
Cross-Disorder Group of the Psychiatric Genomics Consortium,2013 Association analysis:P-value = 0.00000000026 when BPD,MDD and SZ were combined. Significant association was observed in cross-disorder analysis. Positive
Andreassen OA, 2013 Conditional FDR; SCZ loci given BD: P-value=0.00000623, FDR=0.071, FDR=0.019 for SCZ and BD To estimate the number of independent loci, we 'pruned' the associated SNPs (removed SNPs with linkage disequilibrium (LD)>0.2), and identified a total of 58 independent loci with a significance threshold of conditional FDR<0.32. Positive

Overlap with MDD from cross-disorder studies (count: 1)
Reference Statistical Result Description Result Category
Cross-Disorder Group of the Psychiatric Genomics Consortium,2013 Association analysis:P-value = 0.00000000026 when BPD,MDD and SZ were combined. Significant association was observed in cross-disorder analysis. Positive

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