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Preprint VersionCC BY V4.0, Open Access
Preprint
circVAR database: genome-wide archive of genetic variants for human circular RNAs
Research Square, Vol.20 October 2020
Research Square Company
2020
Appears in Cancer Research Cluster Research Collection
Abstract
Background: Circular RNAs (circRNAs) play important roles in regulating gene expression through binding miRNAs and RNA binding proteins. Genetic variation of circRNAs may affect complex traits/diseases by changing their binding efficiency to target miRNAs and proteins. There is a growing demand for investigations of the functions of genetic changes using large-scale experimental evidence. However, there is no online genetic resource for circRNA genes.
Results: We performed extensive genetic annotation of 295,526 circRNAs integrated from circBase, circNet and circRNAdb. All pre-computed genetic variants were presented at our online resource, circVAR, with data browsing and search functionality. We explored the chromosome-based distribution of circRNAs and their associated variants. We found that, based on mapping to the 1000 Genomes and ClinVAR databases, chromosome 17 has a relatively large number of circRNAs and associated common and health-related genetic variants. Following the annotation of genome wide association studies (GWAS)-based circRNA variants, we found many non-coding variants within circRNAs, suggesting novel mechanisms for common diseases reported from GWAS studies. For cancer-based somatic variants, we found that chromosome 7 has many highly complex mutations that have been overlooked in previous research.
Conclusion: We used the circVAR database to collect SNPs and small insertions and deletions (INDELs) in putative circRNA regions and to identify their potential phenotypic information. To provide a reusable resource for the circRNA research community, we have published all the pre-computed genetic data concerning circRNAs and associated genes together with data query and browsing functions at http://soft.bioinfo-minzhao.org/circvar
Details
- Title
- circVAR database: genome-wide archive of genetic variants for human circular RNAs
- Authors
- Min Zhao (Author) - University of the Sunshine Coast, Queensland, School of Science and Engineering - LegacyHong Qu (Author) - Peking University
- Publication details
- Research Square, Vol.20 October 2020
- Publisher
- Research Square Company
- Date published
- 2020
- DOI
- 10.21203/rs.3.rs-48904/v2
- ISSN
- 2693-5015
- Copyright note
- Copyright (c) The Authors. This work is licensed under a CC BY 4.0 License. (https://creativecommons.org/licenses/by/4.0/)
- Organisation Unit
- School of Science and Engineering - Legacy; Cancer Research Cluster; School of Science, Technology and Engineering; Centre for Bioinnovation
- Language
- English
- Record Identifier
- 99482290502621
- Output Type
- Preprint
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