Space: Independent Teams
SEEK ID: https://workflowhub.eu/projects/94
Public web page: https://www.eu-openscreen.eu/
Organisms: No Organisms specified
WorkflowHub PALs: No PALs for this Team
Team created: 16th May 2022
Organizations: Fraunhofer Institute for Translational Medicine and Pharmacology ITMPhttps://orcid.org/0000-0002-8080-9170
Expertise: Bioinformatics, Cheminformatics, Machine Learning
Teams: EU-Openscreen, OME
Organizations: Fraunhofer Institute for Translational Medicine and Pharmacology ITMP, /https://orcid.org/0000-0002-1740-8390
Expertise: Cheminformatics, Bioinformatics
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This workflow can be used to fit dose-response curves from normalised cell-based assay data (%confluence) using the KNIME HCS extension. The workflow expects triplicates for each of eight test concentrations. This workflow needs R-Server to run in the back-end. Start R and run the following command: library(Rserve); Rserve(args = "--vanilla"). Three types of outliers can be removed: 1 - Outliers from triplicate measurement (standard deviation cut-off can be selected), 2 - inactive and weekly ...
This workflow can be used to fit dose-response curves from normalised biochemical assay data (%Inhibition) using the HCS extension. This workflow needs R-Server to run in the back-end. Start R and run the following command: library(Rserve); Rserve(args = "--vanilla") IC50 values will not be extrapolated outside the tested concentration range For activity classification the following criteria are applied:
- maximum (average % inhibion) >25 % and slope is >0 and IC50 > 5 µM or
- minimum ...
Generates Dose-response curve fits on cell-based toxicity data. Outliers of replicate data-sets can be removed by setting a threshold for standard deviation (here set to 25). Curve fits for compounds showing low response can be removed by setting a threshold for minimum activity (here set to 75% confluence). This workflow needs R-Server to run in the back-end. Start R and run the following command: library(Rserve); Rserve(args = "--vanilla")