key: cord-0268245-vvigj1xi authors: Li, Ping; Zhang, Yan; Shen, Wenlong; Shi, Shu; Zhao, Zhihu title: dbGSRV: a manually curated database of genetic susceptibility to respiratory virus date: 2021-12-26 journal: bioRxiv DOI: 10.1101/2021.12.26.474200 sha: a9f36c86dc59eaf0636a7bc53f52f3e87df845af doc_id: 268245 cord_uid: vvigj1xi Human genetics has been proposed to play an essential role in inter-individual differences in respiratory virus infection occurrence and outcomes. To systematically understand human genetic contributions to respiratory virus infection, we developed the database dbGSRV, a manually curated database that integrated the host genetic susceptibility and severity studies of respiratory viruses scattered over literatures in PubMed. At present, dbGSRV contains 1932 records of genetic association studies relating 1010 unique variants and seven respiratory viruses, manually curated from 168 published articles. Users can access the records by quick searching, batch searching, advanced searching and browsing. Reference information, infection status, population information, mutation information and disease relationship are provided for each record, as well as hyper links to public databases in convenient of users accessing more information. In addition, a visual overview of the topological network relationship between respiratory viruses and associated genes is provided. Therefore, dbGSRV offers a promising avenue to facilitate researchers to dissect human factors in respiratory virus infection, define novel drug targets, conduct risk stratification of population and develop personalized medicine approaches. Database URL: http://www.ehbio.com/dbGSRV/front/ Respiratory viruses are viruses that enter from respiratory tract and proliferate in respiratory 31 mucosal epithelial cells, causing local infection in respiratory tract or lesions in other organs 32 (1). these variants in the publication were also included in the database as old name. The genomic 93 position of the variants was annotated based on hg38 human genome. Annotation of variants 94 relative to genes were based the following order: exon, 5' UTR, 3' UTR, intron, promoter 95 (within 2kb upstream), upstream (2-5kb upstream), downstream (within 2kb downstream). 96 The alternate allele frequencies of cases and controls, statistic method, odds ratio (OR), 95% 97 confidence interval (CI) and p value for the allele association were extracted from the full-text 98 or supplementary materials. If only genotype frequency was given in the paper, then alternate 99 allele frequency was calculated manually. As for p value, '> 0.05%' was marked if the paper 100 did not give a specific value but claimed that there was no statistically significant difference or 101 association. The allele, genotype, and haplotype association results were each classified into 102 one of the following four categories: 'severity', 'susceptibility', 'no association' and 'NA'. If 103 at least of one of the allele, genotype or haplotype association result reported 'severity' or 104 'susceptibility', then the overall association status was determined as 'severity' or 105 'susceptibility', otherwise the overall association status was determined as 'no association'. 106 Additional noteworthy information about sample, variant and disease association was included 107 in notes. Analysis of associated genes 109 Gene Ontology (GO) and pathway analysis of associated genes were conducted using in the text box or by uploading a txt file (Fig 1B) . On Advanced Search page, users can search 122 by logical combination of more keywords (Fig 1C) . The Browse page permits users to browse 123 all records by virus, annotation or study type (Fig 1D) . The search results are presented as pie charts and a table (Fig 1D) (Fig 1E) . 147 The Network page provides a visual overview of the topological relationship between 148 respiratory viruses and associated genes (Fig 2) . Nodes represent respiratory viruses and genes. GO and pathway analysis of associated genes 190 We performed GO and pathway analysis of associated genes using Database for Annotation, 191 Visualization and Integrated Discovery (DAVID). The top 10 significantly enriched GO terms 192 and pathways were shown in Table 1 and 2, respectively. Third, dbGSRV provides a user-friendly interface, which offers multiple means for users to 235 query and browse the data, hyper links to access more information of public databases 236 conveniently as well as network visualization of respiratory viruses and associated genes. 237 In conclusion, dbGSRV will be a convenient resource for researchers to query and retrieve 238 genetic associations with respiratory viruses, which may inspire future studies and provide new 239 insights in our understanding and treatment of respiratory virus infection. Human Respiratory Viruses. 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Epidemiology and 312 infection Association between IFITM3 rs12252 314 polymorphism and influenza susceptibility and severity: A meta-analysis Genetic susceptibility to infectious diseases: Current 242 We thank Mr. Tong Chen, Mr. Moyu Liu and Mr. Pu Xue in EHBIO Gene Technology (Beijing) 243 Co., Ltd for their help on the construction of the database 244