Calculate the half maximal inhibitory concentration (IC50) for each compound used in a SARS-CoV-2 study
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Workflow Type: Jupyter
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Summary

This notebook demonstrates how to retrieve metadata associated to the paper A SARS-CoV-2 cytopathicity dataset generated by high-content screening of a large drug repurposing collection and available in IDR at idr0094-ellinger-sarscov2. Over 300 compounds were used in this investigation. This notebook allows the user to calculate the half maximal inhibitory concentration (IC50) for each compound. IC50 is a measure of the potency of a substance in inhibiting a specific biological or biochemical function. IC50 is a quantitative measure that indicates how much of a particular inhibitory substance (e.g. drug) is needed to inhibit, in vitro, a given biological process or biological component by 50%. User can download the IC50 for each compound used in that study

The notebook can be launched in My Binder.

A shiny app is also available for dynamic plotting of the IC50 curve for each compound. This R shiny app can be launched in My Binder

Inputs

Parameters needed to configure the workflow:

screenId: Identifier of a screen in IDR.

Ouputs

Output file generated:

ic50.csv: Comma separate value file containing the IC50 for each compound.

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Citation
BUREL, J. E. A. N.-M. A. R. I. E. (2021). Calculate the half maximal inhibitory concentration (IC50) for each compound used in a SARS-CoV-2 study. WorkflowHub. https://doi.org/10.48546/WORKFLOWHUB.WORKFLOW.238.1
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Created: 16th Nov 2021 at 10:19

Last used: 29th Nov 2021 at 21:54

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Version 1 Created 16th Nov 2021 at 10:19 by Jean-Marie Burel

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