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The RNA world: from experimental laboratory to "in silico" approach. Part 1: User friendly RNA expression databases portals.

Tomasz KolendaMarianna ŚmiełowskaJulia LipowiczJulia OstapowiczPaula PacześnaMonika Anna RosochowiczPaulina PoterJoanna Kozłowska-MasłońKacper GuglasKlaudia DudekNina GrzejdaKatarzyna RegulskaAnna FlorczakUrszula KazimierczakKatarzyna LamperskaAnna Teresiak
Published in: Reports of practical oncology and radiotherapy : journal of Greatpoland Cancer Center in Poznan and Polish Society of Radiation Oncology (2024)
Cellular information about "life instruction" is stored, transferred, and modified using different types of RNA molecules. During the last decades, a growing number of RNA data has been generated thanks to the development of microarray chips and next-generation sequencing (NGS) methods. Improvement of bioinformatics contributed to the discovery of many types of new non-coding RNAs (ncRNAs), mostly with regulatory functions that supplemented the knowledge about the world of RNA. All of it, as well as the Human Genome Project (HGP) and the Cancer Genome Atlas (TCGA) project, has resulted in the formation of data storage and analysis portals which are widely used in cancer research and moved science from in vitro to in silico research. In this review we presented and discussed the data storage and analysis portals used by us, such as cBioPortal, UALCAN, ENCORI, and others. During the revision of these sites, we paid attention to data integration, simplicity of analysis, and results visualization, which are important for users without bioinformatic or statistical skills. In our opinion, the RNA analysis online tools will rapidly develop during the next decade and it seems to be a way for personalization of cancer treatment.
Keyphrases
  • big data
  • healthcare
  • machine learning
  • gene expression
  • poor prognosis
  • quality improvement
  • endothelial cells
  • social media
  • single cell
  • health information
  • nucleic acid
  • genome wide
  • data analysis
  • long non coding rna