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

Francesco Russo*, Sebastiano Di Bella, Federica Vannini, Gabriele Berti, Flavia Scoyni, Helen Victoria Cook, Alberto Santos, Giovanni Nigita, Vincenzo Bonnici, Alessandro Laganà, Filippo Geraci, Alfredo Pulvirenti, Rosalba Giugno, Federico De Masi, Kirstine González-Izarzugaza Belling, Lars Juhl Jensen, Søren Brunak, Marco Pellegrini, Alfredo Ferro

*Corresponding author for this work

    Research output: Contribution to journalJournal articleResearchpeer-review

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    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.
    Original languageEnglish
    Article numbergkx854
    JournalNucleic acids research
    Volume46
    Issue numberD1
    Pages (from-to)D354-D359
    ISSN0305-1048
    DOIs
    Publication statusPublished - 2018

    Bibliographical note

    This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com

    Cite this

    Russo, F., Di Bella, S., Vannini, F., Berti, G., Scoyni, F., Cook, H. V., ... Ferro, A. (2018). miRandola 2017: a curated knowledge base of non-invasive biomarkers. Nucleic acids research, 46(D1), D354-D359. [gkx854]. https://doi.org/10.1093/nar/gkx854
    Russo, Francesco ; Di Bella, Sebastiano ; Vannini, Federica ; Berti, Gabriele ; Scoyni, Flavia ; Cook, Helen Victoria ; Santos, Alberto ; Nigita, Giovanni ; Bonnici, Vincenzo ; Laganà, Alessandro ; Geraci, Filippo ; Pulvirenti, Alfredo ; Giugno, Rosalba ; De Masi, Federico ; Belling, Kirstine González-Izarzugaza ; Jensen, Lars Juhl ; Brunak, Søren ; Pellegrini, Marco ; Ferro, Alfredo. / miRandola 2017: a curated knowledge base of non-invasive biomarkers. In: Nucleic acids research. 2018 ; Vol. 46, No. D1. pp. D354-D359.
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    title = "miRandola 2017: a curated knowledge base of non-invasive biomarkers",
    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.",
    author = "Francesco Russo and {Di Bella}, Sebastiano and Federica Vannini and Gabriele Berti and Flavia Scoyni and Cook, {Helen Victoria} and Alberto Santos and Giovanni Nigita and Vincenzo Bonnici and Alessandro Lagan{\`a} and Filippo Geraci and Alfredo Pulvirenti and Rosalba Giugno and {De Masi}, Federico and Belling, {Kirstine Gonz{\'a}lez-Izarzugaza} and Jensen, {Lars Juhl} and S{\o}ren Brunak and Marco Pellegrini and Alfredo Ferro",
    note = "This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com",
    year = "2018",
    doi = "10.1093/nar/gkx854",
    language = "English",
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    pages = "D354--D359",
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    Russo, F, Di Bella, S, Vannini, F, Berti, G, Scoyni, F, Cook, HV, Santos, A, Nigita, G, Bonnici, V, Laganà, A, Geraci, F, Pulvirenti, A, Giugno, R, De Masi, F, Belling, KG-I, Jensen, LJ, Brunak, S, Pellegrini, M & Ferro, A 2018, 'miRandola 2017: a curated knowledge base of non-invasive biomarkers', Nucleic acids research, vol. 46, no. D1, gkx854, pp. D354-D359. https://doi.org/10.1093/nar/gkx854

    miRandola 2017: a curated knowledge base of non-invasive biomarkers. / Russo, Francesco; Di Bella, Sebastiano; Vannini, Federica; Berti, Gabriele; Scoyni, Flavia; Cook, Helen Victoria; Santos, Alberto; Nigita, Giovanni; Bonnici, Vincenzo; Laganà, Alessandro; Geraci, Filippo; Pulvirenti, Alfredo; Giugno, Rosalba; De Masi, Federico; Belling, Kirstine González-Izarzugaza; Jensen, Lars Juhl; Brunak, Søren; Pellegrini, Marco; Ferro, Alfredo.

    In: Nucleic acids research, Vol. 46, No. D1, gkx854, 2018, p. D354-D359.

    Research output: Contribution to journalJournal articleResearchpeer-review

    TY - JOUR

    T1 - miRandola 2017: a curated knowledge base of non-invasive biomarkers

    AU - Russo, Francesco

    AU - Di Bella, Sebastiano

    AU - Vannini, Federica

    AU - Berti, Gabriele

    AU - Scoyni, Flavia

    AU - Cook, Helen Victoria

    AU - Santos, Alberto

    AU - Nigita, Giovanni

    AU - Bonnici, Vincenzo

    AU - Laganà, Alessandro

    AU - Geraci, Filippo

    AU - Pulvirenti, Alfredo

    AU - Giugno, Rosalba

    AU - De Masi, Federico

    AU - Belling, Kirstine González-Izarzugaza

    AU - Jensen, Lars Juhl

    AU - Brunak, Søren

    AU - Pellegrini, Marco

    AU - Ferro, Alfredo

    N1 - This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com

    PY - 2018

    Y1 - 2018

    N2 - 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.

    AB - 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.

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    DO - 10.1093/nar/gkx854

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    Russo F, Di Bella S, Vannini F, Berti G, Scoyni F, Cook HV et al. miRandola 2017: a curated knowledge base of non-invasive biomarkers. Nucleic acids research. 2018;46(D1):D354-D359. gkx854. https://doi.org/10.1093/nar/gkx854