Metabolomics and lipidomics studies based on LC/MS in breast cancer (MCF-7) cell line

In this thesis, the effects of five different drug carrier nanoparticles, both loaded and unloaded with paclitaxel, on MCF-7 cancer cell lines were investigated using liquid chromatography-mass spectrometry (LC/MS)-based metabolomics, lipidomics, and short-chain fatty acids comparison methods. In the first stage of the study, lysates obtained from MCF-7 human breast cancer cell line samples were examined at the metabolome level to compare two different cell lysis methods. In the second stage of the study, metabolomic data processing methods were compared using human blood plasma as a homogeneous biological material, and experimental data obtained from a metabolomic study conducted on plasma samples collected from patients with a model disease (ectopic pregnancy) were evaluated using two different data processing models, and the results were discussed. Based on the information obtained from the first two stages, in the third stage of the study, the application of five different nanoparticles, both loaded and unloaded with paclitaxel, on MCF-7 cancer cell lines was carried out, and the differences between the obtained lysates were examined using LC/MS-based omics approaches. The findings showed that different nanoparticles, both loaded and unloaded with paclitaxel, activated different biochemical processes and that the biochemical activity of the active ingredient should not be evaluated independently of the carrier system in drug carrier nanosystems. The LC/MS-based metabolomic and lipidomic approaches developed in this study can be easily transferred to future biological material analyses.