Study Report
Basic Info
| Reference |
Prabhu, S.,2012 PMID: 22767386
|
| Citation |
Prabhu, S. and I. Pe'er (2012). "Ultrafast genome-wide scan for SNP-SNP interactions in common complex disease." Genome Res 22(11): 2230-2240.
|
| Disease Type |
Bipolar Disorder |
| Study Design |
case-control |
| Study Type |
Genetic interaction study |
| Sample Size |
1868 cases of the bipolar disorder(BD) cohort in the WTCCC against 2938 combined controls |
| SNP/Region/Marker Size |
455,566 SNPs |
| Predominant Ethnicity |
Caucasian |
| Population |
WTCCC and GAIN collection |
Detail Info
| Sample Diagnosis |
DSM-IV |
| Sample Status |
SIXPAC was used to analyze 1868 cases of the bipolar disorder(BD) cohort in the WTCCC against 2938 combined controls from the 1958 British birth cohort (58C) and UK national blood service (NBS), all typed on the Affymetrix 5.0 platform, after cleaning all data as per requirement (Craddock 2007). |
| Technique |
Genotyping |
| Statistical Method |
We applied our method to the Wellcome Trust bipolar disorder data and found a significant interaction between SNPs located within genes encoding two calcium channel subunits: RYR2 on chr1q43 and CACNA2D4 on chr12p13 (LD-contrast test, ). We replicated this pattern of interchromosomal LD between the genes in a separate bipolar data set from the GAIN project, demonstrating an example of gene-gene interaction that plays a role in the largely uncharted genetic landscape of bipolar disorder. |
Genes reported by this study for BD (count: 2)
| Gene |
Statistical Values/Author Comments |
Result Category |
| RYR2 |
We found a significant interaction between SNPs located within genes encoding two calcium channel su......
We found a significant interaction between SNPs located within genes encoding two calcium channel subunits: RYR2 on chr1q43 and CACNA2D4 on chr12p13 (LD-contrast test, )
More...
|
Positive
|
| CACNA2D4 |
We found a significant interaction between SNPs located within genes encoding two calcium channel su......
We found a significant interaction between SNPs located within genes encoding two calcium channel subunits: RYR2 on chr1q43 and CACNA2D4 on chr12p13 (LD-contrast test, )
More...
|
Positive
|
Gene-gene interactions reported by this study for BD (count: 1)
| Gene Group |
Markers |
Statistical Values |
Author Comments |
Result Category |
|
RYR2
CACNA2D4
|
rs10925490 - rs2041140; rs677730 - rs11062012 |
Interaction P-value:LD-contrast test = 4.61E-14;Logistic Regression P-value = 1.28E-09
|
We found a significant interaction between SNPs located with......
We found a significant interaction between SNPs located within genes encoding two calcium channel subunits: RYR2 on chr1q43 and CACNA2D4 on chr12p13 (LD-contrast test, )
More...
|
Positive
|
