tcm serum replacement  (Protide Pharma)

Journal: Journal of Proteome Research

Article Title: Comparative Proteomic Characterization of Serum-Free Cultivated HepG2 Cells Reveals Upregulated Drug Metabolism and Increased Oxidative Stress Protection

doi: 10.1021/acs.jproteome.5c00100

Figure Lengend Snippet: Initial data set analysis. (A) Normality assessment using log 2 intensity histograms, shown exemplarily for Standard media, Advanced DMEM/F12, and TCM Serum Replacement for either passage 1 or passage 20. (B) Exemplary protein rank plot. Distribution of all proteins found in Standard media, passage 1, demonstrating the dynamic range and the signal distribution of drug-metabolizing enzymes and transporters. (C) Sample correlation matrix using the Pearson correlation. (D) Exemplary pairwise correlation plots to demonstrate biological and technical reproducibility.

Article Snippet: TCM serum replacement , MP Biomedicals , serum-free , BSA, bovine transferrin , <0.1% (at final concentration).

Techniques:

Journal: Journal of Proteome Research

Article Title: Comparative Proteomic Characterization of Serum-Free Cultivated HepG2 Cells Reveals Upregulated Drug Metabolism and Increased Oxidative Stress Protection

doi: 10.1021/acs.jproteome.5c00100

Figure Lengend Snippet: Comparison between serum-free cultivated cells and cells cultivated under FBS-containing conditions. (A) Volcano plots generated from log 2 fold changes and −log 10 ( p -values) for either 20 or 3 passages. (B) Venn diagram showing overlap between significantly regulated proteins in Advanced DMEM/F12 and TCM Serum Replacement when compared to cells cultivated under standard conditions based on 20 passages. (C) Venn diagram showing overlaps between significantly regulated proteins in all serum-free media when compared to cells cultivated under standard conditions based on the first three passages. (D) Heatmap of all proteins identified as significantly regulated in any of the analyzed serum-free conditions. Hierarchical clustering was performed using the Euclidean distance metric with the average linkage.

Article Snippet: TCM serum replacement , MP Biomedicals , serum-free , BSA, bovine transferrin , <0.1% (at final concentration).

Techniques: Comparison, Generated

Journal: Journal of Proteome Research

Article Title: Comparative Proteomic Characterization of Serum-Free Cultivated HepG2 Cells Reveals Upregulated Drug Metabolism and Increased Oxidative Stress Protection

doi: 10.1021/acs.jproteome.5c00100

Figure Lengend Snippet: Canonical pathways analysis. (A) Bubble plot of canonical pathways differentially regulated in Advanced DMEM/F12 when considering all 20 passages. Only pathways with absolute z -scores ≥ 2 and p -values <0.05 are shown. Pathways are clustered according to functionality. Size indicates the protein ratio of regulated to unregulated proteins, while color indicates z -scores. (B) Bubble plot of canonical pathways differentially regulated in TCM Serum Replacement when considering all 20 passages. Only pathways with absolute z -scores ≥ 2 and p -values <0.05 are shown. Pathways are clustered according to functionality. Size indicates the protein ratio of regulated to unregulated proteins, while color indicates z -scores. (C) Bar plots visualizing p- values, z -scores, and protein ratios of canonical pathways related to oxidative stress protection or drug metabolism for the comparison of cells cultivated in Advanced DMEM/F12 in comparison to cells cultivated in FBS-containing medium based on 20 passages in culture. (D) Bar plots visualizing p -values, z -scores, and protein ratios of canonical pathways related to oxidative stress protection or drug metabolism for the comparison of cells cultivated in TCM Serum Replacement in comparison to cells cultivated in FBS-containing medium based on 20 passages in culture. (E) Heatmap of canonical pathways related to oxidative stress protection or drug metabolism for comparisons between serum-free media and the standard based on the first three passages only.

Article Snippet: TCM serum replacement , MP Biomedicals , serum-free , BSA, bovine transferrin , <0.1% (at final concentration).

Techniques: Comparison

Journal: Journal of Proteome Research

Article Title: Comparative Proteomic Characterization of Serum-Free Cultivated HepG2 Cells Reveals Upregulated Drug Metabolism and Increased Oxidative Stress Protection

doi: 10.1021/acs.jproteome.5c00100

Figure Lengend Snippet: NRF2-mediated oxidative stress response. (A) Simplified schematic depiction of NRF2-mediated oxidative stress response overlaid with measurement and prediction data for Advanced DMEM/F12 vs Standard medium based on the whole experimental timeline (20 passages). Pink-labeled molecules were upregulated in the data set. Orange (arrows and molecules) indicates a predicted upregulation. Gray molecules were found in the data set but did not pass the threshold. The pathway was adapted from IPA. (B) Hierarchically clustered heatmap visualization of 133 proteins involved in NRF2-mediated oxidative stress response for Advanced DMEM/F12 versus Standard medium and TCM Serum Replacement versus Standard medium based on the whole experimental timeline. (C) Hierarchically clustered heatmap visualization of 131 proteins involved in NRF2-mediated oxidative stress response for all serum-free media versus standard medium based on the first three passages. (D) Log 2 fold changes of proteins determined to be up- or downregulated in at least one passage in Advanced DMEM/F12. (E) Log 2 fold changes of proteins determined to be up- or downregulated in at least one passage in TCM Serum Replacement.

Article Snippet: TCM serum replacement , MP Biomedicals , serum-free , BSA, bovine transferrin , <0.1% (at final concentration).

Techniques: Labeling

Journal: Journal of Proteome Research

Article Title: Comparative Proteomic Characterization of Serum-Free Cultivated HepG2 Cells Reveals Upregulated Drug Metabolism and Increased Oxidative Stress Protection

doi: 10.1021/acs.jproteome.5c00100

Figure Lengend Snippet: Expression analysis of antioxidant enzymes under serum-free conditions compared to cells cultivated under FBS-containing conditions. (A) Log 2 fold changes of antioxidant enzyme families for Advanced DMEM/F12 vs Standard. (B) Log 2 fold changes of antioxidant enzyme families for TCM Serum Replacement versus Standard.

Article Snippet: TCM serum replacement , MP Biomedicals , serum-free , BSA, bovine transferrin , <0.1% (at final concentration).

Techniques: Expressing

Journal: Journal of Proteome Research

Article Title: Comparative Proteomic Characterization of Serum-Free Cultivated HepG2 Cells Reveals Upregulated Drug Metabolism and Increased Oxidative Stress Protection

doi: 10.1021/acs.jproteome.5c00100

Figure Lengend Snippet: Antioxidant enzyme activity in cell lysates after 10 passages in a serum-free culture. Enzyme activity was normalized to protein concentration to allow for comparison between samples. Ordinary one-way ANOVA with Dunnett’s correction for multiple comparisons was used to assess statistical significance ( N = 3; n = 2). (A) GST activity in nmol/mL/mg protein. Serum-free cultivated cells displayed higher GST activity. The highest enzyme activity was observed for cells cultivated in TCM Serum Replacement. (B) GPX activity in nmol/mL/mg protein. Serum-free cultivated cells show a significantly increased GPX activity. The highest enzyme activity was observed for cells cultivated in Advanced DMEM/F12.

Article Snippet: TCM serum replacement , MP Biomedicals , serum-free , BSA, bovine transferrin , <0.1% (at final concentration).

Techniques: Activity Assay, Protein Concentration, Comparison

Journal: Journal of Proteome Research

Article Title: Comparative Proteomic Characterization of Serum-Free Cultivated HepG2 Cells Reveals Upregulated Drug Metabolism and Increased Oxidative Stress Protection

doi: 10.1021/acs.jproteome.5c00100

Figure Lengend Snippet: Expression analysis of selenoproteins expressed in serum-cultivated HepG2 cells in comparison to cells cultured in standard medium. (A) Log 2 fold changes of selenoproteins for Advanced DMEM/F12 versus Standard. (B) Log 2 fold changes of selenoproteins for TCM Serum Replacement versus Standard.

Article Snippet: TCM serum replacement , MP Biomedicals , serum-free , BSA, bovine transferrin , <0.1% (at final concentration).

Techniques: Expressing, Comparison, Cell Culture