SNP Report

Basic Info

Name	rs224278 dbSNP Ensembl
Location	chr10:62820815 - 62820815(1)
Variant Alleles	C/T
Ancestral Allele	C
Minor Allele	T
Minor Allele Frequence	0.419529
Functional Annotation	intron_variant; non_coding_transcript_variant; upstream_gene_variant.
Consequence to Transcript	intron_variant(ENST00000493899); non_coding_transcript_variant(ENST00000493899); upstream_gene_variant(ENST00000242480, ENST00000411732, ENST00000439032, ENST00000637191, LRG_239t1)
No. of Studies	1 (Positive: 0; Negative: 1; Trend: 0)
Source	Literature
Overlap with SZ?	YES
Overlap with MDD?	NO

SNP related studies (count: 1)

Reference	Allele Change	Risk Allele	Statistical Values	Author Comments	Result Category
Kim, S. H.,2011	T/C		For BD, chi-square tests: allele, OR=1.121, X²=0....... For BD, chi-square tests: allele, OR=1.121, X²=0.9756, P-value = 0.3233, P-value(permutation)=0.8547; Fisher's exact test, genotype, X²=1.3887, P-value = 0.4994 More...	No significant association was observed. No significant association was observed.	Negative

SNP related genes (count: 1)

Approved Symbol	Approved Name	Location	No. of Studies (Positive/Negative/Trend)
EGR2	early growth response 2	10q21.1	3(1/2/0)

SNPs in LD with rs224278 (count: 8) View in gBrowse (chr10:62820301..62834404 )

The LD data used here is based on HapMap rel#27. LD SNP pairs were selected with a threshold r²<=0.8.

rs_ID	Functional Annotation	r²[population]
rs224299	intron_variant; non_coding_transcript_variant	0.844[CHB]; 0.935[JPT]
rs224291	intron_variant; non_coding_transcript_variant	1.0[CHB]; 1.0[CHD]; 1.0[JPT]
rs224277	intron_variant; non_coding_transcript_variant; upstream_gene_variant	1.0[CHB]; 1.0[CHD]; 1.0[JPT]
rs224294	intron_variant; non_coding_transcript_variant	1.0[CHB]; 0.937[JPT]
rs2136613	intron_variant; non_coding_transcript_variant	0.86[CHD]
rs224293	intron_variant; non_coding_transcript_variant	1.0[CHB]; 1.0[JPT]
rs224282	intron_variant; non_coding_transcript_variant; upstream_gene_variant	1.0[CHB]; 1.0[CHD]; 1.0[JPT]
rs224302	intron_variant; non_coding_transcript_variant	0.857[CHB]; 0.954[CHD]; 0.937[JPT]

Overlap with SZ from cross-disorder studies (count: 1)

Reference	Statistical Result	Description	Result Category
Kim, S. H.,2011	For SZ, chi-square tests:allele, OR=0.979, X²=0.0268, P-value = 0.8698, P-value(permutation)=1;Fisher's exact test, genotype, X²=0.0339, P-value = 0.9832	No significant association was observed.	Negative

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