BDgene

SNP Report

Basic Info
Name rs548978 dbSNP Ensembl
Location chr6:152397487 - 152397487(1)
Variant Alleles T/C
Ancestral Allele T
Minor Allele C
Minor Allele Frequence 0.250799
Functional Annotation downstream_gene_variant; intron_variant; non_coding_transcript_variant; upstream_gene_variant.
Consequence to Transcript downstream_gene_variant(ENST00000535081); intron_variant(ENST00000341594, ENST00000367255, ENST00000423061, ENST00000461872); non_coding_transcript_variant(ENST00000461872); upstream_gene_variant(ENST00000458194)
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 G/A Adjusted P (ADD)=1.40E-04, OR=1.364 Adjusted P (ADD)=1.40E-04, OR=1.364 SNPs from top 1000 from our combined CAMH/IoP GWAS for BPAD,...... 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 rs548978 (count: 9) View in gBrowse (chr6:152393994..152440860 )
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: 9)


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

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