SNP Report

Basic Info

Name	rs1540300 dbSNP Ensembl
Location	chr22:34719922 - 34719922(1)
Variant Alleles	G/C
Ancestral Allele	C
Minor Allele	G
Minor Allele Frequence	0.116414
Functional Annotation	intron_variant; non_coding_transcript_variant.
Consequence to Transcript	intron_variant(ENST00000440858); non_coding_transcript_variant(ENST00000440858)
No. of Studies	1 (Positive: 1; Negative: 0; 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
Potash, J. B., 2008	G/C		Family-based P-value = 0.54 for all BPAD subjects, family-ba...... Family-based P-value = 0.54 for all BPAD subjects, family-based P-value = 0.42 for BPAD subjects with psychotic symptoms, family-based P-value = 0.064 (3-marker sliding window with indicated marker first of the three), family-based P-value = 0.14 (3-marker sliding window with indicated marker first of the three using only those BPAD subjects with psychotic symptoms).Case-control P-value = 0.07 for all BPAD subjects, case-control P-value = 0.02 for BPAD subjects with psychotic symptoms, case-control P-value = 0.33 (3-marker sliding window with indicated marker first of the three), case-control P-value = 0.11 (3-marker sliding window with indicated marker first of the three using only those BPAD subjects with psychotic symptoms). More...		Positive

SNP related genes (count: 0)

SNPs in LD with rs1540300 (count: 5) View in gBrowse (chr22:34591546..34741102 )

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]
rs4821288		0.95[TSI]
rs5755123	upstream_gene_variant	0.908[TSI]
rs5755257		1.0[CEU]
rs4821292		1.0[CEU]; 0.955[TSI]
rs5749894		0.908[TSI]

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

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