Modeling transport of extended interacting objects with drop-off phenomenon.
We study a deterministic framework for important cellular transport phenomena involving a large number of interacting molecules called the excluded flow of extended interacting objects with drop-off effect (EFEIOD). This model incorporates many realistic features of biological transport process incl...
| Main Authors: | , |
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| Format: | Article |
| Language: | English |
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Public Library of Science (PLoS)
2022-01-01
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| Series: | PLoS ONE |
| Online Access: | https://doi.org/10.1371/journal.pone.0267858 |
| _version_ | 1811292736868843520 |
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| author | Aditi Jain Arvind Kumar Gupta |
| author_facet | Aditi Jain Arvind Kumar Gupta |
| author_sort | Aditi Jain |
| collection | DOAJ |
| description | We study a deterministic framework for important cellular transport phenomena involving a large number of interacting molecules called the excluded flow of extended interacting objects with drop-off effect (EFEIOD). This model incorporates many realistic features of biological transport process including the length of biological "particles" and the fact that they can detach along the biological 'tracks'. The flow between the consecutive sites is unidirectional and is described by a "soft" simple exclusion principle and by repelling or attracting forces between neighboring particles. We show that the model admits a unique steady-state. Furthermore, if the parameters are periodic with common period T, then the steady-state profile converge to a unique periodic solution of period T. Simulations of the EFEIOD demonstrate several non-trivial effects of the interactions on the system steady-state profile. For example, detachment rates may help in increasing the steady-state flow by alleviating traffic jams that can exist due to several reasons like bottleneck rate or interactive forces between the particles. We also analyze the special case of our model, when there are no forces exerted by neighboring particles, and called it as the ribosome flow model of extended objects with drop-off effect (RFMEOD), and study the sensitivity of its steady-state to variations in the parameters. |
| first_indexed | 2024-04-13T04:49:49Z |
| format | Article |
| id | doaj.art-80bc60642c9641ce8240b05fc58b5d20 |
| institution | Directory Open Access Journal |
| issn | 1932-6203 |
| language | English |
| last_indexed | 2024-04-13T04:49:49Z |
| publishDate | 2022-01-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
| series | PLoS ONE |
| spelling | doaj.art-80bc60642c9641ce8240b05fc58b5d202022-12-22T03:01:42ZengPublic Library of Science (PLoS)PLoS ONE1932-62032022-01-01175e026785810.1371/journal.pone.0267858Modeling transport of extended interacting objects with drop-off phenomenon.Aditi JainArvind Kumar GuptaWe study a deterministic framework for important cellular transport phenomena involving a large number of interacting molecules called the excluded flow of extended interacting objects with drop-off effect (EFEIOD). This model incorporates many realistic features of biological transport process including the length of biological "particles" and the fact that they can detach along the biological 'tracks'. The flow between the consecutive sites is unidirectional and is described by a "soft" simple exclusion principle and by repelling or attracting forces between neighboring particles. We show that the model admits a unique steady-state. Furthermore, if the parameters are periodic with common period T, then the steady-state profile converge to a unique periodic solution of period T. Simulations of the EFEIOD demonstrate several non-trivial effects of the interactions on the system steady-state profile. For example, detachment rates may help in increasing the steady-state flow by alleviating traffic jams that can exist due to several reasons like bottleneck rate or interactive forces between the particles. We also analyze the special case of our model, when there are no forces exerted by neighboring particles, and called it as the ribosome flow model of extended objects with drop-off effect (RFMEOD), and study the sensitivity of its steady-state to variations in the parameters.https://doi.org/10.1371/journal.pone.0267858 |
| spellingShingle | Aditi Jain Arvind Kumar Gupta Modeling transport of extended interacting objects with drop-off phenomenon. PLoS ONE |
| title | Modeling transport of extended interacting objects with drop-off phenomenon. |
| title_full | Modeling transport of extended interacting objects with drop-off phenomenon. |
| title_fullStr | Modeling transport of extended interacting objects with drop-off phenomenon. |
| title_full_unstemmed | Modeling transport of extended interacting objects with drop-off phenomenon. |
| title_short | Modeling transport of extended interacting objects with drop-off phenomenon. |
| title_sort | modeling transport of extended interacting objects with drop off phenomenon |
| url | https://doi.org/10.1371/journal.pone.0267858 |
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