Cancer-Associated Fibroblasts Regulate Patient-Derived Organoid Drug Responses
This dataframe contains the full PDO + CAF screening developed and detailed in "Cancer-Associated Fibroblasts Regulate Patient-Derived Organoid Drug Responses", 2022 (https://www.biorxiv.org/content/10.1101/2022.10.19.512668v1). We developed a highly multiplexed thiol-reactive organoid barcoding in situ mass cytometry (TOBis MC) platform to perform single-cell post translational modification (PTM) signalling analysis of colorectal cancer (CRC) PDOs and cancer associated fibroblasts (CAFs) in response to clinical therapies. The dataframe is structured in rows that correspond to each single cell, and columns that include information on the PTM or protein measured, and the metadata (information on the provenance of each cell). Metadata columns include: -Date: in format YYYMMDD, correspond to the date those rows were acquired. -Patient: PDO number (5, 11, 21, 23, 27, 75, 99, 109, 141, 216) -Culture: indicates the nature (monoculture/co-culture of the sample). PDO (PDO monoculture), F (CAF monoculture), PDOF (PDO+CAF co-culture). -Treatment: drug(s) administered to each culture. The key for the drug labels appear detailed in Table S2 in the article referenced. -Concentration: concentration used for each treatment. The key for the drug concentrations appear detailed in Table S2 in the article referenced. -Replicate: treatment conditions were performed in triplicate (A, B, C) and control conditions in triplicate or duplicate (A, B, C, AA, BB, CC) -Cell_type: refers to the cell-type of the cell gated (PDOs, or CAFs). In monocultures there is one cell type, and in co-cultures 2. -Plate: since different treatments contain different vehicle controls (DMSO, AH, O), the plate column helps to specify which vehicle corresponds to which treatments. This is important for pairing. -Batch: the data was acquired along 10 months, but the acquisition was performed in 2 general batches, with 5 months in between. However, for a more accurate batch representation, we recommend using the columns "Date" and "Patient".
Steps to reproduce
Methods used to gather the data are detailed in the article referenced.