Fig. 2. MetRS*- and FACS-based cancer cell-selective proteomics in vivo.

a Scheme of PDAC transplantation for cell-selective proteomics: MetRS*-eGFP expressing 8661 PDAC (>90% eGFP-positive cells before transplantation, see Supplementary Fig. 5a) and wild-type (Ctrl) cells were orthotopically transplanted into fully immunocompetent syngeneic mice (n = 3, biological replicates). After a 16 days tumor growth period, mice were interperitoneally injected with Anl twice daily for 5 days. Afterward, tumors were harvested and cut in half. One half was snap-frozen for subsequent click chemistry enrichment, the other half was used fresh for cell dissociation and eGFP-FACS. b Peptide yields (mean ± SD) determined by absorbance at 280 nm. c Exclusively identified and overlap of (specifically enriched) cancer cell-derived protein groups with either method. d Distribution of precursor coefficients of variation (CVs) between biological replicates. e Analysis of enriched GO annotations (Fisher’s exact test) within exclusively identified proteins with either method compared to all other identified proteins (full list in Supplementary Data 4). Source data are provided as a Source Data file.