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ZENODO
Software . 2026
Data sources: ZENODO
ZENODO
Software . 2026
Data sources: Datacite
ZENODO
Software . 2026
Data sources: Datacite
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jingchen-biomodel/cent-ploidy-evo: Code for tetraploid evolution model, sensitivity analysis, and data fitting

Authors: KeenNick; Chen Lab for Biological Modeling;

jingchen-biomodel/cent-ploidy-evo: Code for tetraploid evolution model, sensitivity analysis, and data fitting

Abstract

Oxidative stress and serum deprivation influence the evolution of newly formed tetraploid cells during tumorigenesis Megan L. Sweet, Mathew Bloomfield , Nicholas Keen, Nazia Bano, Xiang Pan, Nicolaas C. Baudoin, Barath Udayasuryan, Raffae N. Ahmad, Eva Riddervold, Erica Klaiber, Scott S. Verbridge, Eva M. Schmelz, Jing Chen, and Daniela Cimini PNAS, 2026 Abstract: We recently found that newly formed tetraploid (4N) cells in culture quickly lose extra centrosomes after whole genome doubling (WGD). This is inconsistent with the high incidence of centrosome number abnormalities in human cancers and with the observation that 4N cells from mouse tumors carry extra centrosomes, suggesting that centrosome numbers could be affected by certain conditions in the tumor microenvironment (TME). To determine the effect of the TME on the evolution of newly formed 4N cells, we induced WGD in DLD1 colorectal cancer cells and analyzed centrosome and chromosome numbers in mouse xenograft samples. We found that the 4N cells displayed a proliferation defect in vivo, that they could enhance the recruitment of stromal cells to the tumor site, and that they were more likely to harbor extra centrosomes compared to 4N cell populations evolved in vitro. Combining a mathematical model that tracks the coevolution of ploidy and centrosome numbers in different cell populations with Bayesian inference, we identified centrosome overduplication as the mechanism underlying the supernumerary centrosome phenotype. Finally, through in vitro evolution experiments, we found that deprivation of growth factors and oxidative stress could explain, respectively, the proliferation defect and the supernumerary centrosomes identified in our in vivo experiments. Overall, our work shows that oxidative stress plays a major role in centrosome overduplication, particularly in 4N cells, suggesting that supernumerary centrosomes and WGD may coexist in certain tumors. Moreover, our findings suggest that the oncogenic effects of WGD could be due, in part, to stromal cell recruitment. Full Changelog: https://github.com/jingchen-biomodel/cent-ploidy-evo/commits/cent-ploidy-evo_2026

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selected citations
These citations are derived from selected sources.
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
0
Average
Average
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