In:
PLOS Computational Biology, Public Library of Science (PLoS), Vol. 18, No. 7 ( 2022-7-8), p. e1010264-
Abstract:
Interindividual variability in DNA damage response (DDR) dynamics may evoke differences in susceptibility to cancer. However, pathway dynamics are often studied in cell lines as alternative to primary cells, disregarding variability. To compare DDR dynamics in the cell line HepG2 with primary human hepatocytes (PHHs), we developed a HepG2-based computational model that describes the dynamics of DDR regulator p53 and targets MDM2, p21 and BTG2. We used this model to generate simulations of virtual PHHs and compared the results to those for PHH donor samples. Correlations between baseline p53 and p21 or BTG2 mRNA expression in the absence and presence of DNA damage for HepG2-derived virtual samples matched the moderately positive correlations observed for 50 PHH donor samples, but not the negative correlations between p53 and its inhibitor MDM2. Model parameter manipulation that affected p53 or MDM2 dynamics was not sufficient to accurately explain the negative correlation between these genes. Thus, extrapolation from HepG2 to PHH can be done for some DDR elements, yet our analysis also reveals a knowledge gap within p53 pathway regulation, which makes such extrapolation inaccurate for the regulator MDM2. This illustrates the relevance of studying pathway dynamics in addition to gene expression comparisons to allow reliable translation of cellular responses from cell lines to primary cells. Overall, with our approach we show that dynamical modeling can be used to improve our understanding of the sources of interindividual variability of pathway dynamics.
Type of Medium:
Online Resource
ISSN:
1553-7358
DOI:
10.1371/journal.pcbi.1010264
DOI:
10.1371/journal.pcbi.1010264.g001
DOI:
10.1371/journal.pcbi.1010264.g002
DOI:
10.1371/journal.pcbi.1010264.g003
DOI:
10.1371/journal.pcbi.1010264.g004
DOI:
10.1371/journal.pcbi.1010264.g005
DOI:
10.1371/journal.pcbi.1010264.s001
DOI:
10.1371/journal.pcbi.1010264.s002
DOI:
10.1371/journal.pcbi.1010264.s003
DOI:
10.1371/journal.pcbi.1010264.s004
DOI:
10.1371/journal.pcbi.1010264.s005
DOI:
10.1371/journal.pcbi.1010264.s006
DOI:
10.1371/journal.pcbi.1010264.s007
DOI:
10.1371/journal.pcbi.1010264.s008
DOI:
10.1371/journal.pcbi.1010264.s009
DOI:
10.1371/journal.pcbi.1010264.s010
DOI:
10.1371/journal.pcbi.1010264.s011
DOI:
10.1371/journal.pcbi.1010264.s012
DOI:
10.1371/journal.pcbi.1010264.s013
DOI:
10.1371/journal.pcbi.1010264.s014
DOI:
10.1371/journal.pcbi.1010264.s015
DOI:
10.1371/journal.pcbi.1010264.r001
DOI:
10.1371/journal.pcbi.1010264.r002
DOI:
10.1371/journal.pcbi.1010264.r003
DOI:
10.1371/journal.pcbi.1010264.r004
Language:
English
Publisher:
Public Library of Science (PLoS)
Publication Date:
2022
detail.hit.zdb_id:
2193340-6
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