miRandola 2017: a curated knowledge base of non-invasive biomarkers.

Journal: Nucleic acids research
PMID: 29036351

Abstract

miRandola (http://mirandola.iit.cnr.it/) is a database of extracellular non-coding RNAs (ncRNAs) that was initially published in 2012, foreseeing the relevance of ncRNAs as non-invasive biomarkers. An increasing amount of experimental evidence shows that ncRNAs are frequently dysregulated in diseases. Further, ncRNAs have been discovered in different extracellular forms, such as exosomes, which circulate in human body fluids. Thus, miRandola 2017 is an effort to update and collect the accumulating information on extracellular ncRNAs that is spread across scientific publications and different databases. Data are manually curated from 314 articles that describe miRNAs, long non-coding RNAs and circular RNAs. Fourteen organisms are now included in the database, and associations of ncRNAs with 25 drugs, 47 sample types and 197 diseases. miRandola also classifies extracellular RNAs based on their extracellular form: Argonaute2 protein, exosome, microvesicle, microparticle, membrane vesicle, high density lipoprotein and circulating. We also implemented a new web interface to improve the user experience.

Authors

  • Francesco Russo
    Disease Systems Biology, Novo Nordisk Foundation Center for Protein Research, Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, 2200, Denmark.
  • Sebastiano Di Bella
    Business Unit Oncology, Nerviano Medical Sciences, Milan, 20014, Italy.
  • Federica Vannini
    Institute of Life Sciences, Scuola Superiore Sant'Anna, Pisa, 56127, Italy.
  • Gabriele Berti
    Institute of Life Sciences, Scuola Superiore Sant'Anna, Pisa, 56127, Italy.
  • Flavia Scoyni
    University of Eastern Finland, Kuopio, 72010, Finland.
  • Helen V Cook
    Disease Systems Biology, Novo Nordisk Foundation Center for Protein Research, Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, 2200, Denmark.
  • Alberto Santos
    Disease Systems Biology, Novo Nordisk Foundation Center for Protein Research, Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, 2200, Denmark.
  • Giovanni Nigita
    Department of Cancer Biology and Genetics, The Ohio State University, OH 43210, USA.
  • Vincenzo Bonnici
    Department of Computer Science, University of Verona, Strada Le Grazie 15 - 37134, Verona.
  • Alessandro Laganà
    Department of Genetics and Genomic Sciences, Icahn School of Medicine at Mount Sinai, New York, NY 10029-6574, USA.
  • Filippo Geraci
    Institute of Informatics and Telematics (IIT), National Research Council (CNR), Pisa, 56124, Italy.
  • Alfredo Pulvirenti
  • Rosalba Giugno
  • Federico De Masi
    Department of Bio and Health Informatics, DTU Bioinformatics, Technical University of Denmark, Lyngby, 2800, Denmark.
  • Kirstine Belling
    Disease Systems Biology, Novo Nordisk Foundation Center for Protein Research, Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, 2200, Denmark.
  • Lars J Jensen
    Disease Systems Biology, Novo Nordisk Foundation Center for Protein Research, Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, 2200, Denmark.
  • Søren Brunak
    NNF Center for Protein Research, Faculty of Health and Medical Sciences, University of Copenhagen, Denmark.
  • Marco Pellegrini
    Department of Translational Medicine, University of Ferrara, Ferrara, Italy.
  • Alfredo Ferro

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