Biophysical Model for Signal-Embedded Droplet Soaking into 2D Cell Culture

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dc.authorscopusid56779894300
dc.authorscopusid36169231900
dc.authorscopusid36149116900
dc.authorscopusid55032495600
dc.contributor.authorIsik I.
dc.contributor.authorArjmandi H.
dc.contributor.authorCorre C.
dc.contributor.authorNoel A.
dc.date.accessioned2024-08-04T20:04:02Z
dc.date.available2024-08-04T20:04:02Z
dc.date.issued2023
dc.departmentİnönü Üniversitesien_US
dc.descriptionNSFen_US
dc.description10th ACM International Conference on Nanoscale Computing and Communication, NANOCOM 2023 -- 20 September 2023 through 22 September 2023 -- 192880en_US
dc.description.abstractUsing agar plates hosting a 2D cell population stimulated with signaling molecules is crucial for experiments such as gene regulation and drug discovery in a wide range of biological studies. In this paper, a biophysical model is proposed that incorporates droplet soaking, diffusion of molecules within agar, cell growth over an agar surface, and absorption of signaling molecules by cells. The proposed model describes the channel response and provides valuable insights for designing experiments more efficiently and accurately. The molecule release rate due to droplet soaking into agar, which is characterized and modeled as the source term for the diffusion model, is derived. Furthermore, cell growth is considered over the surface, which dictates the dynamics of signaling molecule reactions and leads to a variable boundary condition. As a case study, genetically-modified E. coli bacteria are spread over the surface of agar and Isopropyl-beta-D thiogalactopyranoside (IPTG) is considered as a signaling molecule. IPTG droplets are dropped onto the bacteria-covered agar surface. The parameters for the IPTG molecule release rate as a diffusion source into the agar are estimated from this experiment. Then, a particle-based simulator is used to obtain the spatio-temporal profile of the signaling molecules received by the surface bacteria. The results indicate that the number of molecules reacting with or absorbed by bacteria at different locations on the surface could be widely different, which highlights the importance of taking this variation into account for biological inferences. © 2023 Owner/Author.en_US
dc.description.sponsorshipEngineering and Physical Sciences Research Council, EPSRC: EP/V030493/1en_US
dc.description.sponsorshipThis work was supported by the Engineering and Physical Sciences Research Council [EP/V030493/1].en_US
dc.identifier.doi10.1145/3576781.3608711
dc.identifier.endpage58en_US
dc.identifier.isbn9798400700347
dc.identifier.scopus2-s2.0-85174272787en_US
dc.identifier.scopusqualityN/Aen_US
dc.identifier.startpage53en_US
dc.identifier.urihttps://doi.org/10.1145/3576781.3608711
dc.identifier.urihttps://hdl.handle.net/11616/92307
dc.indekslendigikaynakScopusen_US
dc.language.isoenen_US
dc.publisherAssociation for Computing Machinery, Incen_US
dc.relation.ispartofNanoCom 2023 - Proceedings of the 10th ACM International Conference on Nanoscale Computing and Communicationen_US
dc.relation.publicationcategoryKonferans Öğesi - Uluslararası - Kurum Öğretim Elemanıen_US
dc.rightsinfo:eu-repo/semantics/openAccessen_US
dc.subjectagar platesen_US
dc.subjectbiophysical modelen_US
dc.subjectcell culturesen_US
dc.subjectdiffusionen_US
dc.titleBiophysical Model for Signal-Embedded Droplet Soaking into 2D Cell Cultureen_US
dc.typeConference Objecten_US

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