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Published VersionCC BY V4.0, Open Access
Journal article
circExp database: an online transcriptome platform for human circRNA expressions in cancers
Database, Vol.2021, pp.1-9
2021
Appears in Cancer Research Cluster Research Collection
Abstract
Circular RNA (circRNA) is a highly stable, single-stranded, closed-loop RNA that works as RNA or as a protein decoy to regulate gene expression. In humans, thousands of circRNA transcriptional products precisely express in specific developmental stages, tissues and cell types. Due to their stability and specificity, circRNAs are ideal biomarkers for cancer diagnosis and prognosis. To provide an integrated and standardized circRNA expression profile for human cancers, we performed extensive data curation across 11 technical platforms, collecting 48 expression profile data sets for 18 cancer types and amassing 860 751 expression records. We also identified 189 193 differential expression signatures that are significantly different between normal and cancer samples. All the pre-calculated expression analysis results are organized into 132 plain text files for bulk download. Our online interface, circExp, provides data browsing and search functions. For each data set, a dynamic expression heatmap provides a profile overview. Based on the processed data, we found that 52 circRNAs were consistently and differentially expressed in 20 or more processed analyses. By mapping those circRNAs to their parent protein-coding genes, we found that they may have profoundly affected the survival of 10 797 patients in the The Cancer Genome Atlas pan-cancer data set. In sum, we developed circExp and demonstrated that it is useful to identify circRNAs that have potential diagnostic and prognostic significance for a variety of cancer types. In this online and reusable database, found at http://soft.bioinfo-minzhao.org/circexp, we have provided pre-calculated expression data about circRNAs and their parental genes, as well as data browsing and searching functions.
Database URL: http://soft.bioinfominzhao.org/circexp/
Details
- Title
- circExp database: an online transcriptome platform for human circRNA expressions in cancers
- Authors
- Min Zhao (Author) - University of the Sunshine Coast, Queensland, School of Science, Technology and EngineeringYining Liu (Author) - Guangzhou Medical UniversityHong Qu (Corresponding Author) - Peking University
- Publication details
- Database, Vol.2021, pp.1-9
- Publisher
- Oxford University Press
- Date published
- 2021
- DOI
- 10.1093/database/baab045
- ISSN
- 1758-0463
- Copyright note
- Copyright © The Author(s) 2021. Published by Oxford University Press. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
- Organisation Unit
- University of the Sunshine Coast, Queensland; GeneCology Research Centre - Legacy; Cancer Research Cluster; School of Science, Technology and Engineering; Centre for Bioinnovation
- Language
- English
- Record Identifier
- 99571605702621
- Output Type
- Journal article
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