Novel interferon-sensitive genes unveiled by correlation-driven gene selection and systems biology.

Autor: Cheroni C; Virology, Istituto Nazionale Genetica Molecolare 'Romeo ed Enrica Invernizzi', 20122, Milan, Italy.; High Definition Disease Modelling Lab, Stem Cell and Organoid Epigenetics, IEO, European Institute of Oncology, IRCCS, Milan, Italy.; Department of Oncology and Hemato-Oncology, University of Milan, Milan, Italy., Manganaro L; Virology, Istituto Nazionale Genetica Molecolare 'Romeo ed Enrica Invernizzi', 20122, Milan, Italy., Donnici L; Virology, Istituto Nazionale Genetica Molecolare 'Romeo ed Enrica Invernizzi', 20122, Milan, Italy., Bevilacqua V; Virology, Istituto Nazionale Genetica Molecolare 'Romeo ed Enrica Invernizzi', 20122, Milan, Italy., Bonnal RJP; Integrative Biology, Istituto Nazionale Genetica Molecolare 'Romeo ed Enrica Invernizzi', 20122, Milan, Italy.; FIRC Institute of Molecular Oncology (IFOM), 20139, Milan, Italy., Rossi RL; Bioinformatics, Istituto Nazionale Genetica Molecolare 'Romeo ed Enrica Invernizzi', 20122, Milan, Italy. rossi@ingm.org., De Francesco R; Virology, Istituto Nazionale Genetica Molecolare 'Romeo ed Enrica Invernizzi', 20122, Milan, Italy. defrancesco@ingm.org.; Department of Pharmacological and Biomolecular Sciences (DiSFeB), University of Milan, Milan, Italy. defrancesco@ingm.org.
Jazyk: angličtina
Zdroj: Scientific reports [Sci Rep] 2021 Sep 10; Vol. 11 (1), pp. 18043. Date of Electronic Publication: 2021 Sep 10.
DOI: 10.1038/s41598-021-97258-8
Abstrakt: Interferons (IFNs) are key cytokines involved in alerting the immune system to viral infection. After IFN stimulation, cellular transcriptional profile critically changes, leading to the expression of several IFN stimulated genes (ISGs) that exert a wide variety of antiviral activities. Despite many ISGs have been already identified, a comprehensive network of coding and non-coding genes with a central role in IFN-response still needs to be elucidated. We performed a global RNA-Seq transcriptome profile of the HCV permissive human hepatoma cell line Huh7.5 and its parental cell line Huh7, upon IFN treatment, to define a network of genes whose coordinated modulation plays a central role in IFN-response. Our study adds molecular actors, coding and non-coding genes, to the complex molecular network underlying IFN-response and shows how systems biology approaches, such as correlation networks, network's topology and gene ontology analyses can be leveraged to this aim.
(© 2021. The Author(s).)
Databáze: MEDLINE
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