BDgene

Core Gene from Gene Prioritization Pathways from PBA (Pathway-based Analysis) Enriched Pathways for Core Genes Enriched Pathways for Cross-disorder Genes

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Basic Info

Name	SLC6A4 intron2 VNTR
Type	VNTR
Location	intron2
Related Gene	SLC6A4
No. of Study	16 (Positive: 4; Negative 12; Trend: 0)
Overlap with SZ?	YES
Overlap with MDD?	YES

Variant related studies (count: 16)

Reference	Allele Change	Risk Allele	Statistical Values	Author Comments	Result Category
Mellerup, E.,2001	9, 10 or 12 repeats		Association analysis:allele P-value > 0.05, genotype P-value > 0.05	No significant association was observed in BD.	Negative
Sun, H. S., 2004	10/12 repeated units		Fisher's exact test, allelic P-value = 1, genotypic P-value = 1	No association can be obtained between any of the SLC6A4 gen..... More No association can be obtained between any of the SLC6A4 gene polymorphisms and BPD. Less	Negative
Cho, H. J.,2005	9-10-12 repeat		meta-analysis:the pooled estimate using the fixed-effects model(OR 1.12, 95% CI 1.02-1.22, P=0.016)	Significant associations were found in BP.	Positive
Ikeda, M., 2006			allelic P-value = 0.93, genotypic P-value = 0.993, Power calculation GRR=1.99	No associations of 'tagging' marker with BP was found.	Negative
Kirov, G.,1999(c)	multi-alleles		TDT:chi2 = 2.0, 1 df, P = 0.16 for all samples;chi2 = 3.85, 1 df, P < 0.05 after excluding overlaps	If we exclude 24 families in which the proband was a case in..... More If we exclude 24 families in which the proband was a case in our published case-control studies (Collier et al. 1996a; Rees et al. 1997), the excess transmission of allele 12 reaches conventional levels of statistical significance. Less	Positive
Alaerts, M.,2009	9-10-12 repeat		Allelic association P-value = 0.70;Genotypic association P-value = 0.72	no significant associations were found	Negative
Saleem, Q.,2000	12-10bp		Association analysis:allele frequency, P-value > 0.4; genotype P-value > 0.5	No significant association was observed in BD.	Negative
Kunugi, H.,1997(a)	multi-alleles		Chi-square tests:homozygosity for STin12 allele,chi square = 6.4, d.f. = 1, P = 0.01; odds ratio 2.2,95% CI 1.2â€“4.0;allele chi square = 3.9, d.f. = 1, P = 0.05; odds ratio 1.7, 95% CI 1.0â€“3.0.	The STin12 allele was found to be significantly more common ..... More The STin12 allele was found to be significantly more common in the patients with bipolar disorder than in the controls. Less	Positive
Soronen, P.,2011	9Rt10R/12R		For BD, allele, P-value = 0.5695	No significant association was observed.	Negative
Battersby, S.,1996	multi-alleles		For the risk of bipolar disorder given a single STin2.9 allele, the odds ratio was 3.22 (95% Cl, 1.15-9.09),P-value < 0.05	There was a significant difference between patients with bip..... More There was a significant difference between patients with bipolar disorder and controls in the proportion of individuals carrying the STin2.9 allele. Less	Positive
Kumar, H. B., 2007			not given in the original text	The BPAD group did not differ from controls,	Negative
Dimitrova, A.,2002	Allele9/Allele10/Allele12		Association analysis:TDT, for allele10, T/NT=54/53, P-value = 0.92;for allele12, T/NT=54/58, P-value = 0.7	No significant association was observed in BD.	Negative
Masoliver, E., 2006	10, 12 repeat		P-value = NS (not significant) of allele frequencies and distribution of genotypes in individuals with bipolar disorder, unipolar disorder and controls	No significant differences in the genotype distribution were..... More No significant differences in the genotype distribution were observed. Less	Negative
Mynett-Johnson, L.,2000	12-10bp		Assocaition analysis:TDT, Independent trios(N=92), chi square=0.52, 1df, P-value = 0.471;all trios(N=106), chi square=0.74, 1df, P-value = 0.389	No significant association was observed in BD.	Negative
Lotrich, F. E., 2004			X² (df=2)=3.8, P-value = 0.15 in European/American populations. X² (df=2)=1.8, P-value = 0.18 in the Asian population.	There were no significant allele frequency associations with..... More There were no significant allele frequency associations with BPD in either the predominantly European/American populations or the Asian populations. None of the three alleles (Stin2.9, Stin2.10, Stin2.12) were associated with BPD. Less	Negative
Lasky-Su, J. A.,2005	9-10-12 repeat		meta-analysis:OR=1.05, z=1.06, 95% CI (OR): [0.96, 1.14], P-value = 0.29	No significant associations were found in BPD.	Negative

Overlap with SZ from cross-disorder studies (count: 2)

Reference	Statistical Result	Description	Result Category
Ikeda, M., 2006	allelic P-value = 0.583, genotypic P-value = 0.35, Power calculation GRR=1.78	No associations of 'tagging' marker with SCZ was found.	Negative
Dimitrova, A.,2002	Association analysis:TDT, for allele9, T/NT=10/9, P-value = 0.82;for allele10, T/NT=116/125, P-value = 0.56;for allele12, T/NT=128/122, P-value = 0.7	No significant association was observed in SZ.	Negative

Overlap with MDD from cross-disorder studies (count: 6)

Reference	Statistical Result	Description	Result Category
Lotrich, F. E., 2004	X² (df=2)=0.14, P-value = 0.14 in European/American populations. X² (df=2)=2.6, P-value = 0.11 in the Asian population	None of the three alleles (Stin2.9, Stin2.10, Stin2.12) were associated with MDD.	Negative
Mellerup, E.,2001	Association analysis:allele P-value > 0.05, genotype P-value > 0.05	No significant association was observed in MDD.	Negative
Lasky-Su, J. A.,2005	meta-analysis:OR=0.99, z=0.29, P-value = 0.77, CI (OR): [0.92-1.06]	No significant associations were found in MDD.	Negative
Battersby, S.,1996	For the risk of unipolar disorder given a single STin2.9 allele, the odds ratio was 4.44 (95% Cl, 1.65-11.95),P-value < 0.05	There was a significant difference between patients with unipolar disorder and controls in the proportion of individuals carrying the STin2.9 allele.	Positive
Kunugi, H.,1997(a)	chi square tests:all P-value >0.05	No significant differences were found in unipolar groups.	Negative
Soronen, P.,2011	For MDD, allele, P-value = 0.0017;For Mood, allele, P-value = 0.0067, OR=1.248, P-value(perm)=0.282	Significant associations were found in MDD.	Positive