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4 results for “Reaction-Diffusion Model”
Deep Learning for Reaction-Diffusion Glioma Growth Modeling: Towards a Fully Personalized Model? — Supporting Data
<p>Supporting data for Martens et al. Deep Learning for Reaction-Diffusion Glioma Growth Modelling: Towards a Fully Personalised Model? arXiv:2111.13404.</p>
Vesicle and reaction-diffusion hybrid modeling with STEPS
<p>This repository, a snapshot from Github public repository <a href="https://github.com/CNS-OIST/STEPS_Validation/tree/main/vesicles">https://github.com/CNS-OIST/STEPS_Validation/vesicles</a>, contains all data and modeling scripts to reproduce the data presented in: </p> <p>Iain Hepburn, Jules Lallouette, Weiliang Chen, Andrew R. Gallimore, Sarah Y. Nagasawa-Soeda, Erik De Schutter (2024) Vesicle and reaction-diffusion hybrid modeling with STEPS. Communications Biology 7(1):573. doi:10.1038/s42003-024-06276-5</p> <p>The repository contains README files with instruction for how to run the model scripts and reproduce the figures.</p> <p>The work presented is based on the simulator STochastic Engine for Pathway Simulation (STEPS) version 5.0.1, which is publicly availble from: https://github.com/CNS-OIST/STEPS/releases/tag/5.0.1 </p> <p> </p>
The role of chloroplast movement in C4 photosynthesis: A theoretical analysis using a 3-D reaction-diffusion model for maize
<p>Chloroplast movement within mesophyll (M) cells in C<sub>4</sub> plants is hypothesized to enhance the CO<sub>2</sub> concentrating mechanism (CCM), but this is difficult to verify experimentally. A three-dimensional (3-D) leaf model can help analyze how chloroplast movement influences the operation of CCM. The first volumetric reaction-diffusion model of C<sub>4</sub> photosynthesis that incorporates: detailed 3-D leaf anatomy, light propagation, ATP and NADPH production and CO<sub>2</sub>, O<sub>2</sub> and bicarbonate concentration driven by diffusional and assimilation/emission processes, was developed and implemented for maize leaves to simulate various chloroplast movement scenarios within M cells: the movement of all M chloroplasts towards bundle-sheath (BS) cells (aggregative movement) and movement of only those of interveinal M cells towards BS cells (avoidance movement). Light absorbed by bundle-sheath (BS) chloroplasts relative to M chloroplasts increased in both cases. Avoidance movement decreased light absorption by M chloroplasts considerably. Consequently, total ATP and NADPH production and net photosynthesis rate increased for aggregative movement and decreased for avoidance movement case compared to the default case of no chloroplast movement at high light intensities. Leakiness increased in both chloroplast movement scenarios due to the imbalance in energy production and demand in M and BS cells. These results suggest the need to design strategies for coordinated increases in electron transport and Rubisco activities for an efficient CCM at very high light intensities.</p>
The role of chloroplast movement in C4 photosynthesis: A theoretical analysis using a 3-D reaction-diffusion model for maize
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