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In Silico Identification and Characterization of circRNAs During Host-Pathogen Interactions
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circMine: a comprehensive database to integrate, analyze and visualize human disease-related circRNA transcriptome.

Wenliang Zhang1,2,3, Yang Liu2,4,5, Zhuochao Min6

  • 1Department of Pediatrics, The University of Hong Kong-Shenzhen Hospital, Shenzhen, Guangdong 518053, China.

Nucleic Acids Research
|September 16, 2021
PubMed
Summary

circMine is a new web resource for analyzing circular RNA (circRNA) transcriptome data. It offers user-friendly tools for researchers to explore circRNA significance in various diseases, aiding discovery.

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Area of Science:

  • Genomics
  • Bioinformatics
  • Computational Biology

Background:

  • Publicly available circRNA transcriptome data exhibit significant heterogeneity.
  • Researchers often lack bioinformatics expertise to analyze complex circRNA datasets.

Purpose of the Study:

  • To develop a user-friendly web resource, circMine, for comprehensive analysis of circRNA transcriptome data.
  • To facilitate the investigation of clinical and biological significance of circRNAs for researchers of all skill levels.

Main Methods:

  • circMine integrates over 1.8 million entries, including 136,871 circRNAs, 87 diseases, and 120 datasets from 1107 samples.
  • Provides 13 online analytical functions with standardized and clinically annotated datasets.
  • Includes tools for circRNA-miRNA interaction and circRNA translatability analysis.

Main Results:

  • circMine enables users to group samples by clinical data and perform custom analyses on their own data.
  • Systematic discovery of five potential translatable circRNAs linked to prostate cancer progression.
  • Facilitates free browsing, searching, analysis, and downloading of circRNA data.

Conclusions:

  • circMine offers a valuable, accessible resource for discovering disease-associated circRNAs.
  • Empowers researchers to explore circRNA functions and interactions through intuitive web interfaces.
  • Supports data submission for further integration, enhancing the circRNA research community.