Proteome Analysis of Multiple Myeloma Samples

Proteome analysis was performed for 35 MM patient samples as described previously (Tierney et al., 2021 (link)). Briefly, CD138 + cells were lysed in RIPA buffer (Cell Signaling Technology, Danvers, MA, United States). The whole cell lysates were then digested and loaded onto a Q Exactive (Thermo Fisher Scientific, Hemel Hempstead, United Kingdom) high-resolution accurate mass spectrometer connected to a Dionex Ultimate 3000 (RSLCnano) chromatography system (Thermo Fisher Scientific, Hemel Hempstead, United Kingdom). Protein identification and quantification was performed using MaxQuant v1.5.2.8³. Perseus v.1.5.6.0⁴ was used for data analysis, processing, and visualization. Normalized label-free quantification intensity values were used as the quantitative measurement of protein abundance for subsequent analysis. The dataset is available on the OSF platform (see text footnote 1).