Calculate the half maximal inhibitory concentration for each compound used in SARS-CoV-2 investigation

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

Total size: 227 KB
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Views: 264

Created: 2nd Nov 2021 at 09:31

Last updated: 4th Nov 2021 at 09:09

Last used: 27th Nov 2021 at 05:34

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Version 2 (latest) Created 2nd Nov 2021 at 10:36 by JEAN-MARIE BUREL

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Version 1 (earliest) Created 2nd Nov 2021 at 09:31 by JEAN-MARIE BUREL

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