BAP1 and mesothelioma: In order to confirm the phenotypes predicted by IPA on the SILAC-based proteomics data and to determine the involvement of BAP1 catalytic activity, NCI-H226 and QR (also known as MPM_33 [23]) mesothelioma cell lines were complemented with pBABE retroviral vector alone (EV), pBABE expressing a wild-type BAP1 protein (BAP1wt), or the same vector expressing a catalytically dead BAP1 protein carrying the C91S point mutation (BAP1C91S) (Supplementary Figure 3A&3B).This mutation specifically affects the catalytic cysteine and prevents BAP1 deubiquitinase activity [11].