The IMEx Coronavirus interactome: an evolving map of Coronaviridae-Host molecular interactions

  1. L Perfetto
  2. C Pastrello
  3. N Del-Toro
  4. M Duesbury
  5. M Iannuccelli
  6. M Kotlyar
  7. L Licata
  8. B Meldal
  9. K Panneerselvam
  10. S Panni
  11. N Rahimzadeh
  12. S Ricard-Blum
  13. L Salwinski
  14. A Shrivastava
  15. G Cesareni
  16. M Pellegrini
  17. S Orchard
  18. I Jurisica
  19. HH Hermjakob
  20. P Porras

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Abstract

The current Coronavirus Disease 2019 (COVID-19) pandemic, caused by the Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2), has spurred a wave of research of nearly unprecedented scale. Among the different strategies that are being used to understand the disease and develop effective treatments, the study of physical molecular interactions enables studying fine-grained resolution of the mechanisms behind the virus biology and the human organism response. Here we present a curated dataset of physical molecular interactions, manually extracted by IMEx Consortium curators focused on proteins from SARS-CoV-2, SARS-CoV-1 and other members of the Coronaviridae family. Currently, the dataset comprises over 2,200 binarized interactions extracted from 86 publications. The dataset can be accessed in the standard formats recommended by the Proteomics Standards Initiative (HUPO-PSI) at the IntAct database website ( www.ebi.ac.uk/intact ), and will be continuously updated as research on COVID-19 progresses.

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    SciScore for 10.1101/2020.06.16.153817: (What is this?)

    Please note, not all rigor criteria are appropriate for all manuscripts.

    Table 1: Rigor

    NIH rigor criteria are not applicable to paper type.

    Table 2: Resources

    Software and Algorithms
    SentencesResources
    Data sources: All stats and details shown on this manuscript are derived from the IntAct database release of 2020-04-30.
    IntAct
    suggested: (IntAct, RRID:SCR_006944)

    Results from OddPub: Thank you for sharing your data.

    Results from LimitationRecognizer: An explicit section about the limitations of the techniques employed in this study was not found. We encourage authors to address study limitations.

    Results from TrialIdentifier: No clinical trial numbers were referenced.

    Results from Barzooka: We did not find any issues relating to the usage of bar graphs.

    Results from JetFighter: We did not find any issues relating to colormaps.

    Results from rtransparent:
    • Thank you for including a conflict of interest statement. Authors are encouraged to include this statement when submitting to a journal.
    • Thank you for including a funding statement. Authors are encouraged to include this statement when submitting to a journal.
    • No protocol registration statement was detected.

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  2. Version published to 10.1101/2020.06.16.153817v1 on bioRxiv