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- Data Summary
SNP Report
Name | rs3746544 dbSNP Ensembl | ||
---|---|---|---|
Location | Chr20:10287084(Fwd) | ||
Variant Alleles | G/T | ||
Ancestral Allele | T | ||
Functional Annotation | 3_prime_UTR_variant; intron_variant; nc_transcript_variant; non_coding_exon_variant. | ||
Consequence to Transcript | 3_prime_UTR_variant(ENST00000254976; ENST00000304886) intron_variant(ENST00000453544; ENST00000421143) nc_transcript_variant(ENST00000453544; ENST00000421143; ENST00000495883) non_coding_exon_variant(ENST00000495883) |
||
No. of Studies | 13 (significant: 5; non-significant: 8; trend: 0) | ||
Source | Literature-origin |
Reference | Allele Change | Risk Allele | Statistical Values | Author Comments | Result of Statistical Analysis |
---|---|---|---|---|---|
Nyman ES, 2007 | No available information. No available information. | No evidence of association was seen. No evidence of association was seen. | Non-significant | ||
Forero DA, 2009 | A/C | TDT P-value=0.028 (OR=1.15, 95% CI=1.01-1.31); Q statistic P...... TDT P-value=0.028 (OR=1.15, 95% CI=1.01-1.31); Q statistic P-value=0.86, I2= 0%. More... | Weak significant. Weak significant. | Significant | |
Hawi Z, 2005 | TDT P-value=0.18, X2=2.2, OR=1.5 for paternel tra...... TDT P-value=0.18, X2=2.2, OR=1.5 for paternel transmission; TDT P-value=0.6, X2=0.4, OR=0.8 for maternal transmission More... | a trend was seen for paternal transmission and no significan...... a trend was seen for paternal transmission and no significant association was observed for maternal transmission More... | Non-significant | ||
Kim JW, 2007 | T/G | G | Combined TDT P-value=0.048 (OR=1.14); Single marker analysis...... Combined TDT P-value=0.048 (OR=1.14); Single marker analysis FBAT P-value=0.101; Exploratory analyses FBAT P-value=0.233 for co-morbid CD, P-value=0.012 for co-morbid MDD, P-value=0.082 for co-morbid BD More... | Combined and exploratory analysis showed evidence of signifi...... Combined and exploratory analysis showed evidence of significant association with ADHD and co-morbid MDD More... | Significant |
Brophy K, 2002 | T/G | MnlI | HHRR analysis: overall P-value=0.90, RR=1.01; paternal trans...... HHRR analysis: overall P-value=0.90, RR=1.01; paternal transmission P-value=0.59, RR=1.1; maternal transmission P-value=1.0, RR=1.0; TDT analysis: overall P-value=0.90, RR=1.06; paternal transmission P-value=1.0, RR=1.08; maternal transmission P-value=1.0, RR=1.0 More... | No significant evidence was found for biased transmission No significant evidence was found for biased transmission | Non-significant |
Mill J, 2004 (b) | T/G | allelic TDT P-value=0.24, X2=1.35; HHRR P-value=0...... allelic TDT P-value=0.24, X2=1.35; HHRR P-value=0.26, X2=1.26; PDT P-value=0.23, X2=1.42, TRANSMIT P-value=0.06, X2=0.27 in parental samples. More... | the marker was not individually associated with ADHD in this...... the marker was not individually associated with ADHD in this sample More... | Non-significant | |
Barr CL, 2000 (a) | T/G | TDT P-value=0.918 TDT P-value=0.918 | no significant evidence for biased transmission no significant evidence for biased transmission | Non-significant | |
Kustanovich V, 2003 | T/G | allelic TDT P-value=0.085, allelic TDT P-value=0.012 for pat...... allelic TDT P-value=0.085, allelic TDT P-value=0.012 for paternal transmission More... | TDT of individual alleles did not reach statistical signific...... TDT of individual alleles did not reach statistical significance but paternal transmissions show significant biased transmission of the T allele More... | Significant | |
Choi TK, 2007 | T/G | Pearson's chi-square test P-value=0.28, X2(1df)=1...... Pearson's chi-square test P-value=0.28, X2(1df)=1.15 for allele frequency, Pearson's chi-square test P-value=0.008, X2(2df)=9.57 for genotype frequency More... | there was an excess of the T allele but the difference was n...... there was an excess of the T allele but the difference was not statistically significant, and analysis of the distribution of genotypes detected a significant difference between cases and controls More... | Significant | |
Sarkar, K., 2012 | T/G | allelic P-value=0.87, X2=0.0 for case-control, P...... allelic P-value=0.87, X2=0.0 for case-control, P-value=1, X2=0.0 for family-based; genotypic P-value=0.94, X2=0.11 for case-control, P-value=0.83, X2=0.36 for family-based; X2=3.89, TDT P-value=0.05, Relative risk (95% CI)=2.5 (1.3¨C4.9) More... | Case-control analysis revealed lack of any significant diffe...... Case-control analysis revealed lack of any significant difference in allelic frequencies between ADHD probands, their parents and controls P>0.05. rs3746544 'T' allele also showed mild over transmission from parents to probands, with a power of 67.6%, primarily due to a bias in maternal transmission. Comparative analysis of all published reports on rs3746544 also revealed statistically significant transmission of rs3746544 'T' allele. More... | Non-significant | |
Gizer IR, 2009 | Meta-analysis model: Fixed: OR=1.15, 95% CI=1.01-1.31, two-t...... Meta-analysis model: Fixed: OR=1.15, 95% CI=1.01-1.31, two-tailed P-value=0.03; Q-statistic: P-value=0.847, I2=0 More... | significant but modest association significant but modest association | Significant | ||
Feng Y, 2005(b) | T/G | allelic TDT P-value=0.906, X2=0.014 in Irvine sam...... allelic TDT P-value=0.906, X2=0.014 in Irvine sample; allelic TDT P-value=0.813, X2=0.056 in Toronto sample More... | there was no significant result both in the Toronto sample a...... there was no significant result both in the Toronto sample and the Irvine sample More... | Non-significant | |
Ilott NE, 2010 | QTDT AT P-value=0.83, X2=0.05, df=1, QTDT AW P-va...... QTDT AT P-value=0.83, X2=0.05, df=1, QTDT AW P-value=0.67, X2=0.18, df=1 at age 2; QTDT AT P-value=0.21, X2=1.75, df=1, QTDT AW P-value=0.16, X2=1.98, df=1 at age 3 More... | no significant association no significant association | Non-significant |
Literature-origin genes (count: 1)
Approved Symbol | Approved Name | Location | No. of Studies (significant/non-significant/trend) |
---|---|---|---|
SNAP25 | synaptosomal-associated protein, 25kDa | 20p12-p11.2 | 18(13/5/0) |
Genes from other sources (count: 1)
Approved Symbol | Approved Name | Location |
---|---|---|
SNAP25-AS1 | SNAP25 antisense RNA 1 | 20p12.2 |
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: 2)
rs_ID | Functional Annotation | #studies(significant/non-significant/trend) | r2[population] |
---|---|---|---|
rs4813925 | intron_variant; nc_transcript_variant | 1(1/0/0) | 1.0[CEU]; 0.915[CHB]; 1.0[CHD]; 1.0[GIH]; 1.0[JPT]; 0.89[MEX]; 1.0[TSI] |
rs8636 | 3_prime_UTR_variant; intron_variant; nc_transcript_variant; non_coding_exon_variant | 4(2/2/0) | 1.0[CEU]; 1.0[CHB]; 1.0[CHD]; 1.0[GIH]; 1.0[JPT]; 1.0[MEX]; 0.974[TSI] |
LD-proxies (count: 0)
Copyright: Bioinformatics Lab, Institute of Psychology, Chinese Academy of Sciences Feedback
Last update: Feb 26, 2014