BDgene

SNP Report

Basic Info
Name rs6102947 dbSNP Ensembl
Location chr20:42612212 - 42612212(1)
Variant Alleles C/T
Ancestral Allele T
Minor Allele T
Minor Allele Frequence 0.127196
Functional Annotation downstream_gene_variant; intron_variant; NMD_transcript_variant.
Consequence to Transcript downstream_gene_variant(ENST00000446195); intron_variant(ENST00000356100, ENST00000373184, ENST00000373187, ENST00000373190, ENST00000373193, ENST00000373198, ENST00000373201, ENST00000617474); NMD_transcript_variant(ENST00000617474)
No. of Studies 1 (Positive: 0; Negative: 0; Trend: 1)
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
Green, E. K.,2012 C/G BD ImmunoChip:P-value = 0.2562,OR = 1.189;ImmunoChip, PGC-BD...... BD ImmunoChip:P-value = 0.2562,OR = 1.189;ImmunoChip, PGC-BD combined data:P-balue = 0.0000513,OR = 1.289 More... Suggestive association was found. Suggestive association was found. Trend

SNP related genes (count: 1)
Approved Symbol Approved Name Location No. of Studies (Positive/Negative/Trend)
PTPRT protein tyrosine phosphatase, receptor type, T 20q12-q13 2(0/1/1)

SNPs in LD with rs6102947 (count: 13) View in gBrowse (chr20:42603397..42627137 )
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: 13)


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