screenwerk: a modular tool for the design and analysis of drug combination screens.

Simple item page
dc.creatorHanes, Robert
dc.creatorAyuda-Durán, Pilar
dc.creatorRønneberg, Leiv
dc.creatorNakken, Sigve
dc.creatorHovig, Eivind
dc.creatorZucknick, Manuela
dc.creatorEnserink, Jorrit M
dc.date2023-12-23T21:25:16Z
dc.date2023-01-01
dc.date2022-06-21
dc.date2023-12-23T21:25:16Z
dc.date.accessioned2026-08-03T03:36:56Z
dc.descriptionMOTIVATION: There is a rapidly growing interest in high-throughput drug combination screening to identify synergizing drug interactions for treatment of various maladies, such as cancer and infectious disease. This creates the need for pipelines that can be used to design such screens, perform quality control on the data and generate data files that can be analyzed by synergy-finding bioinformatics applications. RESULTS: screenwerk is an open-source, end-to-end modular tool available as an R-package for the design and analysis of drug combination screens. The tool allows for a customized build of pipelines through its modularity and provides a flexible approach to quality control and data analysis. screenwerk is adaptable to various experimental requirements with an emphasis on precision medicine. It can be coupled to other R packages, such as bayesynergy, to identify synergistic and antagonistic drug interactions in cell lines or patient samples. screenwerk is scalable and provides a complete solution for setting up drug sensitivity screens, read raw measurements and consolidate different datasets, perform various types of quality control and analyze, report and visualize the results of drug sensitivity screens. AVAILABILITY AND IMPLEMENTATION: The R-package and technical documentation is available at https://github.com/Enserink-lab/screenwerk; the R source code is publicly available at https://github.com/Enserink-lab/screenwerk under GNU General Public License v3.0; bayesynergy is accessible at https://github.com/ocbe-uio/bayesynergy. Selected modules are available through Galaxy, an open-source platform for FAIR data analysis at https://oncotools.elixir.no. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
dc.formattext/xml
dc.formatapplication/zip
dc.formatapplication/pdf
dc.identifier1367-4803
dc.identifierbtac840
dc.identifierhttps://www.repository.cam.ac.uk/handle/1810/362725
dc.identifier1367-4811
dc.identifier.urihttps://repo.dare.co.zw/handle/123456789/178654
dc.languageen
dc.languageeng
dc.publisherOxford University Press (OUP)
dc.publisherhttps://doi.org/10.1093/bioinformatics/btac840
dc.subjectSoftware
dc.subjectDrug Combinations
dc.subjectDocumentation
dc.subjectData Analysis
dc.subjectHigh-Throughput Screening Assays
dc.titlescreenwerk: a modular tool for the design and analysis of drug combination screens.
dc.typeOther

Files

Collections

University of Cambridge Apollo