MassIVEapplication/xmlftp://massive-ftp.ucsd.edu/v10/MSV000099266/primaryOK200Jason C Kovacichttps://massive.ucsd.edu/ProteoSAFe/dataset.jsp?task=b0b1e8502ccf4d83a19a875c95b27f7eJ.Kovacic@victorchang.edu.auMassIVE157MOD:00935 - "Oxidation of methionine to methionine sulfoxide with neutral loss of CH3SOH."UNIMOD:1 - "Acetylation."MOD:00768 - "Oxidation of methionine to methionine sulfone with neutral loss of CH3SO2H."UNIMOD:6 - "Iodoacetic acid derivative."ProteomicsOrbitrap Fusion LumosHomo Sapiens (ncbitaxon:9606)Victor Chang Cardiac Research InstitutePXD068755falseProteomic analysis of PHACTR1 overexpressing and knockdown HT1080 stable cell lines The PHACTR1 gene to a range of vascular and neurological diseases, underscoring its pivotal role in biology. To investigate the role of PHACTR1 in cells, we used lentiviral transfection of HT1080 cells with plasmids to overexpress (O) or knockdown (K) the PHACTR1 gene or a scrambled control plasmid (S) and created stable cell lines. As part of a larger multi-omics study, we performed untargeted on cell lysates (n=6 per condition). Peptide extracts were fractionated into 8, and analysed by LC-MS/MS using a C18AQ column on an Ultimate nanoRSLC UPLC coupled to a Orbitrap Fusion Lumos. Mass spectrometry raw data files were searched using MaxQuant (v2.1.3.0) against the Uniprot human canonical proteome (downloaded April 2023).MSV000099266