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Updated: Jun 16, 2025
07:09
A Bioinformatics Pipeline for Investigating Molecular Evolution and Gene Expression using RNA-seq
Published on: May 28, 2021
9.5K
The RNA world: from experimental laboratory to "in silico" approach. Part 1: User friendly RNA expression databases
Tomasz Kolenda1,2, Marianna Śmiełowska3, Julia Lipowicz4
1Laboratory of Cancer Genetics, Greater Poland Cancer Center, Poznan, Poland.
Summary
RNA analysis tools are crucial for cancer research, enabling data storage and analysis. These bioinformatics resources facilitate the discovery of non-coding RNAs and personalized cancer treatment strategies.
Area of Science:
- Bioinformatics
- Genomics
- Molecular Biology
Background:
- RNA molecules store and transfer cellular information.
- Advances in sequencing and bioinformatics have revealed numerous non-coding RNAs (ncRNAs) with regulatory roles.
- Large-scale projects like the Human Genome Project and The Cancer Genome Atlas have spurred the development of data portals.
Purpose of the Study:
- To review and discuss RNA data storage and analysis portals relevant to cancer research.
- To evaluate portals based on data integration, ease of analysis, and visualization capabilities.
- To highlight the shift towards in silico research in oncology.
Main Methods:
- Review of existing RNA data storage and analysis portals (e.g., cBioPortal, UALCAN, ENCORI).
- Assessment of portal features focusing on user-friendliness for non-bioinformaticians.
- Analysis of data integration, analytical simplicity, and result visualization.
Main Results:
- Several data storage and analysis portals are available for RNA research in cancer.
- Key features for usability include data integration, simplified analysis, and clear visualization.
- These tools are instrumental in advancing cancer research from in vitro to in silico approaches.
Conclusions:
- Online RNA analysis tools are rapidly evolving and essential for modern cancer research.
- The development of user-friendly bioinformatics platforms supports personalized cancer treatment.
- These platforms are crucial for researchers without specialized bioinformatics or statistical skills.
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