SNP Report

Basic Info

Name	rs988748 dbSNP Ensembl
Location	chr11:27703198 - 27703198(1)
Variant Alleles	C/G
Ancestral Allele	G
Minor Allele	C
Minor Allele Frequence	0.243011
Functional Annotation	intron_variant; non_coding_transcript_variant; upstream_gene_variant.
Consequence to Transcript	intron_variant(ENST00000314915, ENST00000395978, ENST00000395981, ENST00000525950, ENST00000530663, ENST00000532997); non_coding_transcript_variant(ENST00000530663); upstream_gene_variant(ENST00000356660, ENST00000395980, ENST00000395983, ENST00000395986, ENST00000418212, ENST00000420794, ENST00000438929, ENST00000530786, ENST00000530861, ENST00000533131, ENST00000533246, ENST00000584049)
No. of Studies	2 (Positive: 0; Negative: 2; Trend: 0)
Source	Literature
Overlap with SZ?	YES
Overlap with MDD?	YES

SNP related studies (count: 2)

Reference	Allele Change	Risk Allele	Statistical Values	Author Comments	Result Category
Liu, L., 2008			Average PDT statistic P-value = 0.55 for the model 1; avera...... Average PDT statistic P-value = 0.55 for the model 1; average PDT statistic P-value = 0.58 for the model 2; average PDT statistic P-value = 0.21 for the model 3 between the SNP and bipolar disorder. More...		Negative
Schumacher, J.,2005	C/G		Armitage Trend Test: in Bonn sample, for BPAD, P-value(odds ...... Armitage Trend Test: in Bonn sample, for BPAD, P-value(odds ratio)=0.618(1.06) 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)
BDNF	brain-derived neurotrophic factor	11p14.1	37(24/12/1)

SNPs in LD with rs988748 (count: 14) View in gBrowse (chr11:27615338..27706992 )

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]
rs11030084	intron_variant; non_coding_transcript_variant	0.877[CEU]
rs10501087	intron_variant; non_coding_transcript_variant	0.889[CEU]
rs10767664	intron_variant; non_coding_transcript_variant; upstream_gene_variant	1.0[CEU]
rs2030323	intron_variant; non_coding_transcript_variant	1.0[CEU]
rs6416056	intron_variant; non_coding_transcript_variant	0.802[CEU]
rs4923461	intron_variant; non_coding_transcript_variant; upstream_gene_variant	0.889[CEU]
rs4923460	intron_variant; non_coding_transcript_variant; upstream_gene_variant	0.889[CEU]
rs4074134	intron_variant; non_coding_transcript_variant	0.889[CEU]
rs6484320	downstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_variant	1.0[CEU]
rs1488830	downstream_gene_variant; intron_variant; non_coding_transcript_variant	0.889[CEU]
rs879048	downstream_gene_variant; intron_variant; non_coding_transcript_variant	0.889[CEU]
rs12419948	intron_variant; non_coding_transcript_variant	0.891[CEU]
rs925947	intron_variant; non_coding_transcript_variant	0.889[CEU]
rs4923457	intron_variant; non_coding_transcript_variant	0.891[CEU]

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

Reference	Statistical Result	Description	Result Category
Schumacher, J.,2005	Armitage Trend Test:in Bonn sample, for Schizophrenia, P-value(odds ratio)=0.418(1.07)	No significant association was observed.	Negative

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

Reference	Statistical Result	Description	Result Category
Schumacher, J.,2005	Armitage Trend Test:in Bonn sample, for MDD, P-value(odds ratio)=0.651(1.04);in Munich sample, for MDD, P-value(odds ratio)=0.470(1.10)	No association was observed.	Negative