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PsyMuKB:An Integrative De Novo Variant Knowledge Base for Developmental Disorders

摘要De novo variants (DNVs) are one of the most significant contributors to severe earlyonset genetic disorders such as autism spectrum disorder, intellectual disability, and other developmental and neuropsychiatric (DNP) disorders. Presently, a plethora of DNVs have been identified using next-generation sequencing, and many efforts have been made to understand their impact at the gene level. However, there has been little exploration of the effects at the isoform level. The brain contains a high level of alternative splicing and regulation, and exhibits a more divergent splicing program than other tissues. Therefore, it is crucial to explore variants at the transcriptional regulation level to better interpret the mechanisms underlying DNP disorders. To facilitate a better usage and improve the isoform-level interpretation of variants, we developed NeuroPsychiatric Mutation Knowledge Base (PsyMuKB). It contains a comprehensive, carefully curated list of DNVs with transcriptional and translational annotations to enable identification of isoformspecific mutations. PsyMuKB allows a flexible search of genes or variants and provides both table-based descriptions and associated visualizations, such as expression, transcript genomic structures, protein interactions, and the mutation sites mapped on the protein structures. It also provides an easy-to-use web interface, allowing users to rapidly visualize the locations and characteristics of mutations and the expression patterns of the impacted genes and isoforms. PsyMuKB thus constitutes a valuable resource for identifying tissue-specific DNVs for further functional studies of related disorders. PsyMuKB is freely accessible at http://psymukb.net.

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作者单位 Shanghai Mental Health Center, Shanghai Jiao Tong University School of Medicine, School of Biomedical Engineering, Shanghai Jiao Tong University, Shanghai 200030, China;Shanghai Key Laboratory of Psychotic Disorders, Shanghai 200030, China;Brain Science and Technology Research Center, Shanghai Jiao Tong University, Shanghai 200030, China [1] College of Information Science and Technology, Northeast Normal University, Changchun 130117, China;Institution of Computational Biology, Northeast Normal University, Changchun 130117, China [2] Shanghai Mental Health Center, Shanghai Jiao Tong University School of Medicine, School of Biomedical Engineering, Shanghai Jiao Tong University, Shanghai 200030, China;Shanghai Key Laboratory of Psychotic Disorders, Shanghai 200030, China [3] Shanghai Mental Health Center, Shanghai Jiao Tong University School of Medicine, School of Biomedical Engineering, Shanghai Jiao Tong University, Shanghai 200030, China [4]
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发布时间 2020-03-20
基金项目
grants from the National Key R & D Program of China the National Natural Science Foundation of China Program for Professor of Special Appointment (Eastern Scholar) at Shanghai Institutions of Higher Learning Innovation Research Plan supported by Shanghai Municipal Education Commission Science and Technology Development Plan of Jilin Province the Fundamental Research Funds for the Central Universities
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