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


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


Parameters needed to configure the workflow:

screenId: Identifier of a screen in IDR.


Output file generated:

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

Total size: 228 KB
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Created: 16th Nov 2021 at 10:19

Last used: 19th Jan 2022 at 08:49

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

Added/updated 1 files

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