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. 2023 Dec 18;20(1):28–55. doi: 10.1038/s44320-023-00004-7

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© The Author(s) 2023

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/. Creative Commons Public Domain Dedication waiver http://creativecommons.org/publicdomain/zero/1.0/ applies to the data associated with this article, unless otherwise stated in a credit line to the data, but does not extend to the graphical or creative elements of illustrations, charts, or figures. This waiver removes legal barriers to the re-use and mining of research data. According to standard scholarly practice, it is recommended to provide appropriate citation and attribution whenever technically possible.

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Seventeen sarcoma cell lines representing 11 histological subtypes were used as models to investigate the relationships between their proteotypes and drug phenotypes. Three datasets were generated for this cell line panel: First, response (viability) to 150 cancer drugs (grouped by state of clinical evaluation). Second, baseline protein expression (following lysis, tryptic digestion and peptide off-line fractionation by high pH reversed-phase liquid chromatography and online LC–MS/MS analysis. Third, baseline phosphorylation following phosphopeptide enrichment by immobilised metal affinity chromatography and online LC–MS/MS analysis. p-site phosphorylation site.