Experiment Overview
| Repository ID: | FR-FCM-Z6ZZ | Experiment name: | AMG232 and irradiation treatment of patient-derived GBM cell lines | MIFlowCyt score: | 56.00% |
| Primary researcher: | Dena Panovska | PI/manager: | Frederik De Smet | Uploaded by: | Dena Panovska |
| Experiment dates: | 2020-03-02 - 2020-03-04 | Dataset uploaded: | Dec 2022 | Last updated: | Dec 2023 |
| Keywords: | [glioblastoma] [predictive model] [functional diagnostics] | Manuscripts: | |||
| Organizations: |
KU Leuven, Leuven, Vlaams Brabant (Belgium)
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| Purpose: | Patient-derived GBM cell lines were acutely treated in vitro with AMG232 and radiotherapy (RT), after which we measured the changes in drug-relevant and GBM phenotypic markers between control and treated samples. In parallel, on the same cell line pool, we performed bulk cytotoxicity assays, where we tested the long-term survival of the cell lines. Finally, we used the expression changes of the protein markers and correlated them to the sensitivity profiles, to ultimately generate a predictive model. | ||||
| Conclusion: | As in the bulk dose-response assays, at the protein level, we saw that TP53 wild type cells were more sensitive to the therapies than TP53 mutant cells. However, there was heterogeneous response potential within the TP53 wild type pool. As such, we learned that drug-response markers induced upon drug treatment, an approach called functional diagnostics is more predictive of in vitro cell survival outcome, than baseline protein expression levels. | ||||
| Comments: | All samples were barcoded, pooled, stained and analysed in a single experiment. | ||||
| Funding: | Not disclosed | ||||
| Quality control: | Cytotoxicity | Batch control samples of BT112 (TP53 wild type) sensitive cell line and BT245 (TP53 mutant) resistant cell line, were included in each analysis tube. | |||
Experiment variables
| Timepoints | |
|---|---|
| · 8 hours AMG232 | BT360_AMG232_8_S_3.fcs · LBT005_AMG232_8_S_2.fcs |
| · 16 hours AMG232 | BT360_AMG232_16_S_3.fcs · LBT005_AMG232_16_S_2.fcs |
| · 24 hours AMG232 | BT360_AMG232_24_S_3.fcs · LBT005_AMG232_24_S_2.fcs |
| · 48 hours AMG232 | BT360_AMG232_48_S_3.fcs · LBT005_AMG232_48_S_2.fcs |
| · 8 hours RT | BT360_RT_48_S_3.fcs · LBT005_RT_8_S_2.fcs |
| · 16 hours RT | BT360_RT_16_S_3.fcs · LBT005_RT_16_S_2.fcs |
| · 24 hours RT | BT360_RT_24_S_3.fcs · LBT005_RT_24_S_2.fcs |
| · 48 hours RT | BT360_RT_8_S_3.fcs · LBT005_RT_48_S_2.fcs |
| Conditions | |
|---|---|
| · Control | 2080_Control_16_S_2.fcs · 5050_Control_16_S_2.fcs · 8020_Control_16_S_2.fcs · BT112_Control_0_Sample_2.fcs · BT112_Control_16_BC_1.fcs · BT112_Control_16_BC_2.fcs · BT112_Control_16_BC_3.fcs · BT245_Control_16_BC_1.fcs · BT245_Control_16_BC_2.fcs · BT245_Control_16_BC_3.fcs · BT245_Control_16_S_1.fcs · BT248_Control_16_S_3.fcs · BT320_Control_16_S_3.fcs · BT333_Control_16_S_3.fcs · BT360_Control_48_S_3.fcs · BT569_Control_16_S_2.fcs · LBT003_Control_16_S_1.fcs · LBT005_Control_16_S_2.fcs · LBT059_Control_16_S_3.fcs · LBT062_Control_16_S_3.fcs · LBT070_Control_0_Sample_1.fcs · LBT086_Control_16_S_3.fcs · LBT124_Control_16_S_3.fcs |
| · AMG232 | 2080_AMG232_16_S_2.fcs · 5050_AMG232_16_S_2.fcs · 8020_AMG232_16_S_2.fcs · BT112_AMG232_0_Sample_2.fcs · BT112_AMG232_16_BC_1.fcs · BT112_AMG232_16_BC_2.fcs · BT112_AMG232_16_BC_3.fcs · BT245_AMG232_16_BC_1.fcs · BT245_AMG232_16_BC_2.fcs · BT245_AMG232_16_BC_3.fcs · BT245_AMG232_16_S_1.fcs · BT248_AMG232_16_S_3.fcs · BT320_AMG232_16_S_3.fcs · BT333_AMG232_16_S_3.fcs · BT360_AMG232_16_S_3.fcs · BT360_AMG232_24_S_3.fcs · BT360_AMG232_48_S_3.fcs · BT360_AMG232_8_S_3.fcs · BT569_AMG232_16_S_2.fcs · LBT003_AMG232_16_S_1.fcs · LBT005_AMG232_16_S_2.fcs · LBT005_AMG232_24_S_2.fcs · LBT005_AMG232_48_S_2.fcs · LBT005_AMG232_8_S_2.fcs · LBT059_AMG232_16_S_3.fcs · LBT062_AMG232_16_S_3.fcs · LBT070_AMG232_0_Sample_1.fcs · LBT086_AMG232_16_S_3.fcs · LBT124_AMG232_16_S_3.fcs |
| · RT | 2080_RT_16_S_2.fcs · 5050_RT_16_S_2.fcs · 8020_RT_16_S_2.fcs · BT112_RT_0_Sample_2.fcs · BT245_RT_16_S_1.fcs · BT248_RT_16_S_3.fcs · BT320_RT_16_S_3.fcs · BT333_RT_16_S_3.fcs · BT360_RT_16_S_3.fcs · BT360_RT_24_S_3.fcs · BT360_RT_48_S_3.fcs · BT360_RT_8_S_3.fcs · BT569_RT_16_S_2.fcs · LBT003_RT_16_S_1.fcs · LBT005_RT_16_S_2.fcs · LBT005_RT_24_S_2.fcs · LBT005_RT_48_S_2.fcs · LBT005_RT_8_S_2.fcs · LBT059_RT_16_S_3.fcs · LBT062_RT_16_S_3.fcs · LBT086_RT_16_S_3.fcs · LBT124_RT_16_S_3.fcs · PDCL_LBT070_RT_0_Sample-_2__viable-(1).fcs |
| Sample Type | |
|---|---|
| · Mixes BT360 and BT333 - AMG232 | 2080_AMG232_16_S_2.fcs · 5050_AMG232_16_S_2.fcs · 8020_AMG232_16_S_2.fcs |
| · Mixes BT360 and BT333 - RT | 2080_RT_16_S_2.fcs · 5050_RT_16_S_2.fcs · 8020_RT_16_S_2.fcs |
| · Mixes BT360 and BT333 - Controls | 2080_Control_16_S_2.fcs · 5050_Control_16_S_2.fcs · 8020_Control_16_S_2.fcs |
| · Batch Controls | BT112_AMG232_16_BC_1.fcs · BT112_AMG232_16_BC_2.fcs · BT112_AMG232_16_BC_3.fcs · BT112_Control_16_BC_1.fcs · BT112_Control_16_BC_2.fcs · BT112_Control_16_BC_3.fcs · BT245_AMG232_16_BC_1.fcs · BT245_AMG232_16_BC_2.fcs · BT245_AMG232_16_BC_3.fcs · BT245_Control_16_BC_1.fcs · BT245_Control_16_BC_2.fcs · BT245_Control_16_BC_3.fcs |
