Study Report
Basic Info
| Reference |
Verma, R.,2005(a) PMID: 16215643
|
| Citation |
Verma, R., S. Kubendran, et al. (2005). SYNGR1 is associated with schizophrenia and bipolar disorder in southern India. J Hum Genet 50(12): 635-640.
|
| Disease Type |
Bipolar Disorder & Schizophrenia |
| Study Design |
case-control |
| Study Type |
Candidate-gene association study |
| Sample Size |
198 BPAD patients,193 SCZ patients and 107 matched controls |
| SNP/Region/Marker Size |
11 polymorphisms |
| Predominant Ethnicity |
Mongloid |
| Population |
Indian |
| Gender |
Male/female:105/93 in patients with BPAD,116/77 in patients with SCZ,70/37 in controls |
| Age Group |
Adults
:
Mean age(SD)(year):20.76(7.38)at onset,28.95(10.79) at assessment in patients with BPAD,22.53(7.69) at onset,29.8(9.31) at assessment in patients with SCZ,29.39(9.09) in controls
|
Detail Info
| Sample Diagnosis |
DSM |
| Sample Status |
All bipolar subjects analyzed in this study were BPAD I cases with severe disease phenotype and substantially early age at onset. All patients were of southern Indian origin and were recruited from the clinical services of the National Institute of Mental Health and Neuroscience (NIMHANS), Bangalore, India. Diagnosis was made according to DSM IV criteria for both SCZ and BPAD cases. The final best estimate diagnosis was established on the basis of a structured interview of all patients by experienced psychiatrists using SCAN (Schedules for Clinical Assessment in Neuropsychiatry; Wing et al. 1990) and OPCRIT 3.1 (Operational Criteria for Psychotic illness; McGuffin et al. 1991). Additional information was obtained through examination of hospital records and interviews with family members of the probands. Control individuals were also recruited from the same location (Bangalore) and ethnicity (southern Indian origin) with due consent. In addition, control subjects were further interviewed in order to exclude any family history of psychiatric illness. The case-control sample set analyzed in this study is ethnically quite homogenous, being of south Indian origin. Further details of the study cohort are described elsewhere (Verma et al. 2005). |
| Technique |
genotyping |
| Statistical Method |
Allelic association for SYNGR1 polymorphisms with SCZ/BPAD was performed by Fisher's exact test.Genotypic association was calculated for these polymorphisms using chi-square test. Genotypes were also tested for Hardy-Weinberg equilibrium as a quality check. Global haplotypic association in our case-control data set was calculated using the PHASE program, and association of individual haplotypes was calculated by 2*2 chi-square test using ''best reconstructed'' haplotype counts from PHASE; odds ratios were also calculated. |
| Result Summary |
We also validated 9 out of 14 dbSNPs in our population. Case-control analysis revealed allelic (P = 0.028-0.00007) association of five polymorphisms with SCZ and/or BPAD cases. Further, 3-SNP (with LD block 1 SNPs) and 2-SNP (with LD block 2 SNPs) haplotype analyses did not show any association with either SCZ or BPAD. Our results support SYNGR1 as a probable susceptibility gene for SCZ and BPAD. Also, the observed association of SYNGR1 with both SCZ and BPAD suggests the likely involvement of a common pathway in the etiology of these disorders. |
Genetic factors reported by this study for BD
SNPs reported by this study for BD (count: 9)
| SNP |
Related Gene(s) |
Allele Change |
Risk Allele |
Statistical Values |
Author Comments |
Result Category |
| rs2010904 |
SYNGR1
|
G/A |
|
Fisher's exact test: allele P-value = 0.015, chi-square test: genotype P-value = 0.09 in BPAD
|
Significant association was observed in both allelic associa......
Significant association was observed in both allelic association and genotypic association.
More...
|
Positive
|
| rs2012906 |
SYNGR1
|
G/T |
|
Fisher's exact test: allele P-value = 0.7, chi-square test: genotype P-value = 0.8 in BPAD
|
No significant association was observed.
No significant association was observed.
|
Negative
|
| rs4821888 |
SYNGR1
|
G/A |
|
Fisher's exact test: allele P-value = 0.1, chi-square test: genotype P-value = 0.4 in BPAD
|
No significant association was observed.
No significant association was observed.
|
Negative
|
| rs6001566 |
SYNGR1
|
G/A |
|
Fisher's exact test: allele P-value = 0.8, chi-square test: genotype P-value = 0.7 in BPAD
|
No significant association was observed.
No significant association was observed.
|
Negative
|
| rs715505 |
SYNGR1
|
G/C |
|
Fisher's exact test: allele P-value = 0.007, chi-square test: genotype P-value = 0.029 in BPAD
|
Significant association was observed in allelic association.
Significant association was observed in allelic association.
|
Positive
|
| rs739363 |
SYNGR1
|
A/C |
|
Fisher's exact test: allele P-value = 0.9, chi-square test: genotype P-value = 0.5 in BPAD
|
No significant association was observed.
No significant association was observed.
|
Negative
|
| rs760742 |
SYNGR1
|
T/G |
|
Fisher's exact test: allele P-value = 0.4, chi-square test: genotype P-value = 0.9 in BPAD
|
No significant association was observed.
No significant association was observed.
|
Negative
|
| rs760741 |
SYNGR1
|
T/C |
|
Fisher's exact test: allele P-value = 0.06, chi-square test: genotype P-value = 0.2 in BPAD
|
No significant association was observed.
No significant association was observed.
|
Negative
|
| rs909685 |
SYNGR1
|
T/A |
|
Fisher's exact test: allele P-value = 0.028, chi-square test: genotype P-value = 0.1 in BPAD
|
Significant association was observed in allelic association.
Significant association was observed in allelic association.
|
Positive
|
Other variants reported by this study for BD (count: 2)
| Variant Name |
Related Gene |
Type |
Allele Change |
Risk Allele |
Statistical Values |
Author Comments |
Result Category |
| SYNGR1 exon6 Asn(ins/del) |
SYNGR1 |
insertion/deletion |
Asn(ins/del) |
|
Fisher's exact test:allele P-value = 0.07, chi-square test:genotype P-value = 0.3 in BPAD
|
No significant association was observed.
No significant association was observed.
|
Negative
|
| SYNGR1 exon3 Ser97Ser |
SYNGR1 |
point mutation |
C/T |
|
Fisher's exact test:allele P-value = 0.018, chi-square test:genotype P-value = 0.08 in BPAD
|
Significant associations was observed in allelic association......
Significant associations was observed in allelic association.
More...
|
Positive
|
Genes reported by this study for BD (count: 1)
| Gene |
Statistical Values/Author Comments |
Result Category |
| SYNGR1 |
Our results support SYNGR1 as a probable susceptibility gene for SCZ and BPAD. Also, the observed as......
Our results support SYNGR1 as a probable susceptibility gene for SCZ and BPAD. Also, the observed association of SYNGR1 with both SCZ and BPAD suggests the likely involvement of a common pathway in the etiology of these disorders.
More...
|
Positive
|
Genetic factors reported by this study for SZ and/or MDD
SNPs reported by this study for SZ/MDD
| Disease |
SNP |
Related Gene(s) |
Statistical Values |
Description |
Result Category |
| SZ |
rs909685 |
SYNGR1
|
Fisher's exact test:allele P-value = 0.007, chi-square test:genotype P-value = 0.025 in SCZ |
Significant association was observed in allelic association. |
Positive |
| SZ |
rs760742 |
SYNGR1
|
Fisher's exact test:allele P-value = 0.9, chi-square test:genotype P-value = 0.3 in SCZ |
No significant association was observed. |
Negative |
| SZ |
rs760741 |
SYNGR1
|
Fisher's exact test:allele P-value = 0.5, chi-square test:genotype P-value = 0.9 in SCZ |
No significant association was observed. |
Negative |
| SZ |
rs739363 |
SYNGR1
|
Fisher's exact test:allele P-value = 0.9, chi-square test:genotype P-value = 0.8 in SCZ |
No significant association was observed. |
Negative |
| SZ |
rs715505 |
SYNGR1
|
Fisher's exact test:allele P-value = 0.00007, chi-square test:genotype P-value = 0.0004 in SCZ |
Significant association was observed in allelic association. |
Positive |
| SZ |
rs6001566 |
SYNGR1
|
Fisher's exact test:allele P-value = 0.025, chi-square test:genotype P-value = 0.1 in SCZ |
Significant association was observed in allelic association. |
Positive |
| SZ |
rs4821888 |
SYNGR1
|
Fisher's exact test:allele P-value = 0.7, chi-square test:genotype P-value = 0.9 in SCZ |
No significant association was observed. |
Negative |
| SZ |
rs2012906 |
SYNGR1
|
Fisher's exact test:allele P-value = 0.9, chi-square test:genotype P-value = 0.4 in SCZ |
No significant association was observed. |
Negative |
| SZ |
rs2010904 |
SYNGR1
|
Fisher's exact test:allele P-value = 0.5, chi-square test:genotype P-value = 0.9 in SCZ |
No significant association was observed. |
Negative |
Other variants reported by this study for SZ/MDD
| Disease |
Variant Name |
Related Gene |
Type |
Statistical Values |
Description |
Result Category |
| SZ |
SYNGR1 exon6 Asn(ins/del) |
SYNGR1 |
insertion/deletion |
Fisher's exact test:allele P-value = 0.6, chi-square test:genotype P-value = 0.9 in SCZ |
No significant association was observed. |
Negative |
| SZ |
SYNGR1 exon3 Ser97Ser |
SYNGR1 |
point mutation |
Fisher's exact test:allele P-value = 0.7, chi-square test:genotype P-value = 0.7 in SCZ |
No significant association was observed. |
Negative |
Genes reported by this study for SZ/MDD
| Disease |
Gene |
Description |
Result Category |
| SZ |
SYNGR1 |
Our results support SYNGR1 as a probable susceptibility gene for SCZ and BPAD. Also, the observed association of SYNGR1 with both SCZ and BPAD suggests the likely involvement of a common pathway in the etiology of these disorders. |
Positive |
