Rights statement: This is the peer reviewed version of the following article: Li W, Fan CC, Mäki‐Marttunen T, et al. A molecule‐based genetic association approach implicates a range of voltage‐gated calcium channels associated with schizophrenia. Am J Med Genet Part B. 2018;177B:454–467. https://doi.org/10.1002/ajmg.b.32634 which has been published in final form at http://onlinelibrary.wiley.com/doi/10.1002/ajmg.b.32634/abstract This article may be used for non-commercial purposes in accordance With Wiley Terms and Conditions for self-archiving.
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TY - JOUR
T1 - A molecule-based genetic association approach implicates a range of voltage-gated calcium channels associated with schizophrenia
AU - Li, Wen
AU - Fan, Chun Chieh
AU - Mäki-Marttunen, Tuomo
AU - Thompson, Wesley K
AU - Schork, Andrew J
AU - Bettella, Francesco
AU - Djurovic, Srdjan
AU - Dale, Anders M
AU - Andreassen, Ole A
AU - Wang, Yunpeng
AU - Knight, Jo
AU - Schizophrenia Working Group of the Psychiatric Genomics Consortium
N1 - This is the peer reviewed version of the following article: Li W, Fan CC, Mäki‐Marttunen T, et al. A molecule‐based genetic association approach implicates a range of voltage‐gated calcium channels associated with schizophrenia. Am J Med Genet Part B. 2018;177B:454–467. https://doi.org/10.1002/ajmg.b.32634 which has been published in final form at http://onlinelibrary.wiley.com/doi/10.1002/ajmg.b.32634/abstract This article may be used for non-commercial purposes in accordance With Wiley Terms and Conditions for self-archiving.
PY - 2018/6
Y1 - 2018/6
N2 - Traditional genome-wide association studies (GWAS) have successfully detected genetic variants associated with schizophrenia. However, only a small fraction of heritability can be explained. Gene-set/pathway-based methods can overcome limitations arising from single nucleotide polymorphism (SNP)-based analysis, but most of them place constraints on size which may exclude highly specific and functional sets, like macromolecules. Voltage-gated calcium (Cav ) channels, belonging to macromolecules, are composed of several subunits whose encoding genes are located far away or even on different chromosomes. We combined information about such molecules with GWAS data to investigate how functional channels associated with schizophrenia. We defined a biologically meaningful SNP-set based on channel structure and performed an association study by using a validated method: SNP-set (sequence) kernel association test. We identified eight subtypes of Cav channels significantly associated with schizophrenia from a subsample of published data (N = 56,605), including the L-type channels (Cav 1.1, Cav 1.2, Cav 1.3), P-/Q-type Cav 2.1, N-type Cav 2.2, R-type Cav 2.3, T-type Cav 3.1, and Cav 3.3. Only genes from Cav 1.2 and Cav 3.3 have been implicated by the largest GWAS (N = 82,315). Each subtype of Cav channels showed relatively high chip heritability, proportional to the size of its constituent gene regions. The results suggest that abnormalities of Cav channels may play an important role in the pathophysiology of schizophrenia and these channels may represent appropriate drug targets for therapeutics. Analyzing subunit-encoding genes of a macromolecule in aggregate is a complementary way to identify more genetic variants of polygenic diseases. This study offers the potential of power for discovery the biological mechanisms of schizophrenia.
AB - Traditional genome-wide association studies (GWAS) have successfully detected genetic variants associated with schizophrenia. However, only a small fraction of heritability can be explained. Gene-set/pathway-based methods can overcome limitations arising from single nucleotide polymorphism (SNP)-based analysis, but most of them place constraints on size which may exclude highly specific and functional sets, like macromolecules. Voltage-gated calcium (Cav ) channels, belonging to macromolecules, are composed of several subunits whose encoding genes are located far away or even on different chromosomes. We combined information about such molecules with GWAS data to investigate how functional channels associated with schizophrenia. We defined a biologically meaningful SNP-set based on channel structure and performed an association study by using a validated method: SNP-set (sequence) kernel association test. We identified eight subtypes of Cav channels significantly associated with schizophrenia from a subsample of published data (N = 56,605), including the L-type channels (Cav 1.1, Cav 1.2, Cav 1.3), P-/Q-type Cav 2.1, N-type Cav 2.2, R-type Cav 2.3, T-type Cav 3.1, and Cav 3.3. Only genes from Cav 1.2 and Cav 3.3 have been implicated by the largest GWAS (N = 82,315). Each subtype of Cav channels showed relatively high chip heritability, proportional to the size of its constituent gene regions. The results suggest that abnormalities of Cav channels may play an important role in the pathophysiology of schizophrenia and these channels may represent appropriate drug targets for therapeutics. Analyzing subunit-encoding genes of a macromolecule in aggregate is a complementary way to identify more genetic variants of polygenic diseases. This study offers the potential of power for discovery the biological mechanisms of schizophrenia.
U2 - 10.1002/ajmg.b.32634
DO - 10.1002/ajmg.b.32634
M3 - Journal article
C2 - 29704319
VL - 177
SP - 454
EP - 467
JO - American Journal of Medical Genetics Part B: Neuropsychiatric Genetics
JF - American Journal of Medical Genetics Part B: Neuropsychiatric Genetics
SN - 1552-4841
IS - 4
ER -