BDgene

SNP Report

Basic Info
Name rs3755806 dbSNP Ensembl
Location chr3:52609669 - 52609669(1)
Variant Alleles T/C
Ancestral Allele T
Minor Allele C
Minor Allele Frequence 0.322484
Functional Annotation NMD_transcript_variant; non_coding_transcript_exon_variant; non_coding_transcript_variant; synonymous_variant; upstream_gene_variant.
Consequence to Transcript NMD_transcript_variant(ENST00000412587); non_coding_transcript_exon_variant(ENST00000480064); non_coding_transcript_variant(ENST00000480064); synonymous_variant(ENST00000296302, ENST00000337303, ENST00000356770, ENST00000394830, ENST00000409057, ENST00000409114, ENST00000409767, ENST00000410007, ENST00000412587, ENST00000423351, ENST00000446103); upstream_gene_variant(ENST00000462207)
No. of Studies 2 (Positive: 1; Negative: 0; Trend: 1)
Source Literature
Overlap with SZ? NO
Overlap with MDD? YES

SNP related studies (count: 2)
Reference Allele Change Risk Allele Statistical Values Author Comments Result Category
Green, E. K.,2012 C/T BD ImmunoChip:P-value = 0.0222,OR = 0.891;ImmunoChip, PGC-BD...... BD ImmunoChip:P-value = 0.0222,OR = 0.891;ImmunoChip, PGC-BD combined data:P-balue = 0.000000421,OR = 0.889 More... Suggestive association was found. Suggestive association was found. Trend
Major Depressive Disorder Working Group of the Psychiatric, G. C., 2013 P-value=0.0000001175, OR=1.144 for BIP, P-value=0.0000000309...... P-value=0.0000001175, OR=1.144 for BIP, P-value=0.00000003091, OR=1.098 for combined sample More... In the combined analysis of these 819 SNPs, 15 exceeded geno...... In the combined analysis of these 819 SNPs, 15 exceeded genome-wide significance and all were in a 248 kb interval of high LD on 3p21.8. More... Positive

SNP related genes (count: 1)
Approved Symbol Approved Name Location No. of Studies (Positive/Negative/Trend)
PBRM1 polybromo 1 3p21 5(4/0/1)

SNPs in LD with rs3755806 (count: 91) View in gBrowse (chr3:52526005..52789110 )
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: 91)


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

Overlap with MDD from cross-disorder studies (count: 1)
Reference Statistical Result Description Result Category
Major Depressive Disorder Working Group of the Psychiatric, G. C., 2013 P-value=0.006818, OR=1.063 for MDD, P-value=0.00000003091, OR=1.098 for combined sample In the combined analysis of these 819 SNPs, 15 exceeded genome-wide significance and all were in a 248 kb interval of high LD on 3p21.8. Positive

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