The KM-12 cell line, representative of colorectal cancer indications, was used to explore the effect that multiple compounds would have in the profile of transcription factor occupancy. Cells were dosed with 3 concentrations of each of the 5 compounds provided for 3 different timepoints. Both a chromatin fraction (ChESS) and a whole cell lysate preparation were performed. Resulting proteins were digested via SP3 digestion and resulting peptides were analyzed by data independent acquisition liquid chromatography mass spectrometry. (DIA-LCMS) in order to determine the effects of each of the provided compounds in both chromatin and whole cell lysate matrices on a variety of transcription factor proteins. The following dataset includes data corresponding to peptides resulting from nuclear isolation after a 6 hour treatment with 100 nanomolar concentration CG-428 (positive control, published TRK PROTAC), JWJ-378 (novel PROTAC developed by Nabet lab), and DMSO (negative control).