SNP Report

Basic Info

Name	rs778294 dbSNP Ensembl
Location	chr13:105489886 - 105489886(1)
Variant Alleles	C/T
Ancestral Allele	C
Minor Allele	T
Minor Allele Frequence	0.217053
Functional Annotation	3_prime_UTR_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_exon_variant; non_coding_transcript_variant; synonymous_variant.
Consequence to Transcript	3_prime_UTR_variant(ENST00000471432, ENST00000601240); intron_variant(ENST00000329625, ENST00000375936, ENST00000473269, ENST00000488534, ENST00000489237, ENST00000559369, ENST00000600388, ENST00000618629); NMD_transcript_variant(ENST00000471432, ENST00000473269, ENST00000488534, ENST00000489237, ENST00000559369, ENST00000595812, ENST00000600388, ENST00000601240); non_coding_transcript_exon_variant(ENST00000448407); non_coding_transcript_variant(ENST00000448407); synonymous_variant(ENST00000595812)
No. of Studies	10 (Positive: 3; Negative: 7; Trend: 0)
Source	Literature
Overlap with SZ?	YES
Overlap with MDD?	NO

SNP related studies (count: 10)

Reference	Allele Change	Risk Allele	Statistical Values	Author Comments	Result Category
Grigoroiu-Serbanescu, M.,2010	C/T		Allelic association analysis: for non-psychotic patients, P-...... Allelic association analysis: for non-psychotic patients, P-value = 0.286, OR(95%CI)=0.68(0.34-1.38); for psychotic patients, P-value = 0.3657, OR(95%CI)=1.16(0.83-1.63) More...	No significant association was observed in BD. No significant association was observed in BD.	Negative
Muller, D. J.,2011	C/T		FBAT: for total sample, variance of the S-statistic=56.9, Z-...... FBAT: for total sample, variance of the S-statistic=56.9, Z-score=-1.03, P-value = 0.3; for European sample, variance of the S-statistic=53.6, Z-score=-1, P-value = 0.32; for BD patients with psychotic symptoms, variance of the S-statistic=28.3, Z-score=-0.47, P-value = 0.64; for BD patients without psychotic symptoms, variance of the S-statistic=19, Z-score=-0.69, P-value = 0.49 More...	No significant association was observed. No significant association was observed.	Negative
Maheshwari, M.,2009	A/G		TDT: Raw TDT P-value = 0.134, Adaptive permutation corrected...... TDT: Raw TDT P-value = 0.134, Adaptive permutation corrected P-value = 0.258 STEPC: sib_tdt P-value = 0.017, TG P-value = 0.023 More...	No significant allelic association with BP was found, but as...... No significant allelic association with BP was found, but association underlies the previously observed linkage signals in the CNGsample set was found. More...	Positive
Hattori, E.,2003	A/G	G	Association analysis: for CNG pedigrees, TDT P-value = 0.018...... Association analysis: for CNG pedigrees, TDT P-value = 0.018, Transmission Ratio=0.83; for NIMH pedigrees, TDT P-value = 0.24, Transmission Ratio=0.61 More...	Significant association was found in BD. Significant association was found in BD.	Positive
Schumacher, J.,2004	C/T		Association analysis: allele P-value = 0.337, OR=1.13, genot...... Association analysis: allele P-value = 0.337, OR=1.13, genotype P-value = 0.587, OR=1.19 More...	No significant association was observed in BD. No significant association was observed in BD.	Negative
Shi, J., 2008 (a)		T	OR (95% CI)=0.83 (0.60-1.16) , Z test P-value = 0.28 for Eu...... OR (95% CI)=0.83 (0.60-1.16) , Z test P-value = 0.28 for European samples. More...	No single maker showed evidence of overall association with ...... No single maker showed evidence of overall association with BP. More...	Negative
Williams, N. M., 2006			allelic P-value = 0.35, Gene-wide test P-value = 0.045 in Bi...... allelic P-value = 0.35, Gene-wide test P-value = 0.045 in Bipolar I Disorder More...	We observed significant evidence for whole-gene association ...... We observed significant evidence for whole-gene association (P=.04). More...	Negative
Bass, N. J.,2009	C/T		chi-squared tests: for BP, allele, X²(1 d.f.)=0.0...... chi-squared tests: for BP, allele, X²(1 d.f.)=0.033, P-value = 0.856 More...	No significant association was observed. No significant association was observed.	Negative
Zhang, Z.,2009(a)	A/G		Allelic association: Odds ratio (95% CI)=0.77(0.59-1.00), P-...... Allelic association: Odds ratio (95% CI)=0.77(0.59-1.00), P-value = 0.047 More...	Significant association was observed Significant association was observed	Positive
Detera-Wadleigh, S. D., 2006	A/G		Fisher P-value = 0.7598 for all, P-value = 0.8368 for BP Onl...... Fisher P-value = 0.7598 for all, P-value = 0.8368 for BP Only More...		Negative

SNP related genes (count: 2)

Approved Symbol	Approved Name	Location	No. of Studies (Positive/Negative/Trend)
DAOA-AS1	DAOA antisense RNA 1	13q33.2	Mapped by Literature SNP
DAOA	D-amino acid oxidase activator	13q33.2	21(13/7/1)

SNPs in LD with rs778294 (count: 9) View in gBrowse (chr13:105477549..105495223 )

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)

rs_ID	Functional Annotation	r²[population]
rs2153674	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	0.888[CHB]; 1.0[JPT]
rs7989006	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	1.0[CEU]; 0.875[CHB]; 1.0[JPT]
rs2226083	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	1.0[CEU]; 1.0[JPT]
rs6491961	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	0.845[CEU]
rs778324	downstream_gene_variant; intron_variant; non_coding_transcript_variant	0.96[CEU]; 0.971[TSI]; 1.0[CHB]; 0.944[CHD]; 1.0[JPT]
rs9514392	downstream_gene_variant; intron_variant; non_coding_transcript_variant	0.814[CEU]; 0.877[CHB]; 0.887[JPT]
rs9519686	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	0.816[CEU]
rs7995553	downstream_gene_variant; intron_variant; non_coding_transcript_variant	1.0[CEU]; 0.971[TSI]; 1.0[CHB]; 1.0[CHD]; 1.0[JPT]
rs9519689	downstream_gene_variant; intron_variant; non_coding_transcript_variant	0.865[CEU]; 0.877[CHB]; 0.904[JPT]

Overlap with SZ from cross-disorder studies (count: 5)

Reference	Statistical Result	Description	Result Category
Schumacher, J.,2004	Association analysis:allele P-value = 0.27, OR=1.15, genotype P-value = 0.504, OR=1.21	No significant association was observed in SZ.	Negative
Bass, N. J.,2009	chi-squared tests:for SCZ, allele, X²(1 d.f.)=0.141, P-value = 0.707	No significant association was observed.	Negative
Shi, J., 2008 (a)	OR (95% CI)=0.94 (0.85-1.04), Z test P-value = 0.21 all samples; OR (95% CI)=0.92 (0.76-1.12), Z test P-value = 0.41 for Asian; OR (95% CI)=0.92 (0.82-1.05), Z test P-value = 0.21 for European.	No association was detected with schizophrenia in allelic association studies.	Negative
Detera-Wadleigh, S. D., 2006	Fisher P-value = 0.7598 for all, P-value = 0.9373 for SCZ Only		Negative
Williams, N. M., 2006	allelic P-value = 0.63 in Schizophrenia	We found no evidence for allelic or genotypic association with any of the polymorphisms studied for schizophrenia. We observed nominally significant evidence (P=.01-.047) for allelic association with 3 of the polymorphisms for bipolar disorder and significant evidence for whole-gene association (P=.04).	Negative

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