| The
linkage gene sets are collected from two recent meta-analysis. In
SZGR, linkage-related gene sets are classified into three
categories: |
- Gene set name: GSMA_I
- Method: genome scan meta-analysis
- Number of genes: 2155
- Reference: Lewis et al., (2003) Genome Scan
Meta-Analysis of Schizophrenia and Bipolar Disorder, Part II:
Schizophrenia. The American Journal of Human Genetics
73(1): 34 - 48 PubMed
- Gene set summary: The GSMA_I gene set includes 2158 genes
from 12 bins having both PAvgRnk and Pord
<0.05 in Lewis et al. (2003) genome scan
meta-analysis. Detailed information can be found here
| GSMA_I |
| Pos |
Bin |
cM |
Mb |
Psr |
Por |
| 1 | 2.5 | 101.6-128.4 | 2p12-q22.1 | 0.0004 | 0.0327 | | 2 | 5.5 | 131.5-164.2 | 5q23.2-q34 | 0.0032 | 0.0491 | | 3 | 3.2 | 32.4-63.1 | 3p25.3-p22.1 | 0.006 | 0.0311 | | 4 | 11.5 | 99.0-123.0 | 11q22.3-q24.1 | 0.006 | 0.004 | | 5 | 6.1 | 0-32.6 | 6pter-p22.3 | 0.0159 | 0.0328 | | 6 | 2.6 | 128.4-154.5 | 2q22.1-q23.3 | 0.023 | 0.0448 | | 7 | 1.6 | 142.2-170.8 | 1p13.3-q23.3 | 0.0235 | 0.0136 | | 8 | 22.1 | 0-33.8 | 22pter-q12.3 | 0.031 | 0.0216 | | 9 | 8.2 | 27.4-55.0 | 8p22-p21.1 | 0.031 | 0.0068 | | 10 | 6.2 | 32.6-65.1 | 6p22.3-p21.1 | 0.033 | 0.0024 | | 11 | 20.2 | 21.2-47.5 | 20p12.3-p11 | 0.046 | 0.0098 | | 12 | 14.1 | 0-40.1 | 14pter-q13.1 | 0.047 | 0.0043 |
|
- Gene set name: GSMA_IIA (GSMA_II, All studies)
- Method: genome scan meta-analysis
- Number of genes: 2295
- Reference: Ng et al., (2008) Meta-analysis of 32
genome-wide linkage studies of schizophrenia. Molecular
Psychiatry: 1 - 12
Advanced Online Access
- Gene set summary: The GSMA_IIA gene set includes 2295
genes from 10 bins that meet an empirical aggregate criterion for
genome-wide significance linkage in Ng et al., (2008)
. It's consistent of 1640 protein-coding genes and 655 other genes
including miscRNA, snoRNA and pseudo genes.
| GSMA_II,
All studies |
| Pos |
Bin |
cM |
Mb |
Psr |
Por |
| 1 | 5.6 | 148.9-178.7 | 141.8-167.7 | 0.00459 | 0.43156 | | 2 | 2.5 | 117.5-146.9 | 103.3-134.0 | 0.00755 | 0.22798 | | 3 | 1.6 | 143.1-171.7 | 114.6-162.1 | 0.00814 | 0.06639 | | 4 | 2.8 | 205.7-235.1 | 206.3-228.3 | 0.00916 | 0.0197 | | 5 | 2.6 | 146.9-176.3 | 134.0-169.9 | 0.02395 | 0.14269 | | 6 | 1.4 | 85.8-114.5 | 57.3-84.6 | 0.02692 | 0.08449 | | 7 | 5.7 | 178.7-208.5 | 167.7-180.4 | 0.0276 | 0.0343 | | 8 | 8.2 | 28.1-56.2 | 15.7-32.7 | 0.03086 | 0.0207 | | 9 | 10.6 | 145.9-175.0 | 123.1-135.1 | 0.03487 | 0.0135 | | 10 | 3.4 | 95.9-127.9 | 71.6-120.2 | 0.04047 | 0.0114 |
|
- Gene set name: GSMA_IIE (GSMA_II, European studies)
- Method: genome scan meta-analysis
- Number of genes: 1474
- Reference: Ng et al., (2008) Meta-analysis of 32
genome-wide linkage studies of schizophrenia. Molecular
Psychiatry: 1 - 12
Advanced Online Access
- Gene set summary: The GSMA_IIE gene set includes 1474
genes from 6 nominally significant bins for European specific
linkage studies in Ng et al., (2008)
.
| GSMA_II,
European studies |
| Pos |
Bin |
cM |
Mb |
Psr |
Por |
| 1 | 8.2 | 28.1-56.2 | 15.7-32.7 | 0.00057 | 0.06659 GSMA_II European Studies | | 2 | 2.8 | 205.7-235.1 | 206.3-228.3 | 0.01016 | 0.35077 GSMA_II European Studies | | 3 | 5.6 | 148.9-178.7 | 141.8-167.7 | 0.01718 | 0.33717 GSMA_II European Studies | | 4 | 16.2 | 33.3-66.7 | 13.2-51.5 | 0.01775 | 0.15808 GSMA_II European Studies | | 5 | 3.4 | 95.9-127.9 | 71.6-120.2 | 0.04359 | 0.62724 GSMA_II European Studies | | 6 | 6.3 | 56.0-84.0 | 33.9-56.6 | 0.04433 | 0.44626 GSMA_II European Studies |
|
