Comparison of rule- and ordinary differential equation-based dynamic model of DARPP-32 signalling network

Autor: Emilia M. Wysocka, Matthew Page, James Snowden, T. Ian Simpson

Publikováno v: PeerJ, Vol 10, p e14516 (2022)

Dynamic modelling has considerably improved our understanding of complex molecular mechanisms. Ordinary differential equations (ODEs) are the most detailed and popular approach to modelling the dynamics of molecular systems. However, their applicatio

Externí odkaz: https://doaj.org/article/2b08a6ec17a1466f930b987be94198ea

Long lived transients in gene regulation

Autor: Ali Sezgin, Tatjana Petrov, Thomas A. Henzinger, Claudia Igler, Călin C. Guet

Publikováno v: Theoretical Computer Science, 893

Gene expression is regulated by the set of transcription factors (TFs) that bind to the promoter. The ensuing regulating function is often represented as a combinational logic circuit, where output (gene expression) is determined by current input val

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::4a4dabb3e083989c1aac0774317af3fc
https://hdl.handle.net/20.500.11850/512193

Comparison of rule- and ordinary differential equation-based dynamic model of DARPP-32 signalling network

Autor: Wysocka, Emilia M., Page, Matthew, Snowden, James, Simpson, T. Ian

Publikováno v: Wysocka, E M, Page, M, Snowden, J & Simpson, T I 2022 ' Comparison of rule-and ordinary differential equation-based dynamic model of DARPP-32 signalling network ' . https://doi.org/10.1101/2022.03.26.485918

Dynamic modelling has considerably improved our understanding of complex molecular mechanisms. Ordinary differential equations (ODEs) are the most detailed and popular approach to modelling the dynamics of molecular systems. However, their applicatio

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=od______3094::8e4e5b5aeab0d4bf62b508a0366d1144
https://hdl.handle.net/20.500.11820/645b9960-399f-43ea-8be0-2feae72eb61c

Development of large scale in silico models to explore biological mechanisms in research and teaching

Autor: Fitzpatrick, Richard

[No Deposit Agreement]

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::718b76115b9a2522c293619bf851af51
https://hdl.handle.net/1842/38373

Distinguishing Context Dependent Events in Quotients of Causal Stories

Autor: Légaré, Sébastien, Krivine, Jean, Feret, Jérôme

Publikováno v: JOBIM 2021-Journées Ouvertes en Biologie, Informatique et Mathématiques
JOBIM 2021-Journées Ouvertes en Biologie, Informatique et Mathématiques, Sophie Schbath; Denis Thieffry, Jul 2021, Virtuel, France. pp.54-61

National audience; Causality analysis of rule-based models allows the reconstruction of the causalpaths leading to chosen events of interest. This potentially reveals emerging paths that werecompletely unknown at the time of creation of a model. Howe

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=dedup_wf_001::731aa4aae4b082eca30df97deb89f78a
https://hal.inria.fr/hal-03389052/file/JOBIM2021_paper_39.pdf