Zobrazeno 1 - 10
of 83
pro vyhledávání: '"Marcio Gameiro"'
Autor:
Breschine Cummins, Francis C Motta, Robert C Moseley, Anastasia Deckard, Sophia Campione, Marcio Gameiro, Tomáš Gedeon, Konstantin Mischaikow, Steven B Haase
Publikováno v:
PLoS Computational Biology, Vol 18, Iss 10, p e1010145 (2022)
Large programs of dynamic gene expression, like cell cyles and circadian rhythms, are controlled by a relatively small "core" network of transcription factors and post-translational modifiers, working in concerted mutual regulation. Recent work sugge
Externí odkaz:
https://doaj.org/article/55e1e7261831478a89eda5fc425d2f41
Publikováno v:
PLoS Computational Biology, Vol 17, Iss 7, p e1009189 (2021)
We demonstrate a modeling and computational framework that allows for rapid screening of thousands of potential network designs for particular dynamic behavior. To illustrate this capability we consider the problem of hysteresis, a prerequisite for c
Externí odkaz:
https://doaj.org/article/4e3fa112aaf9476398ffc49fdda9e05f
Autor:
Rocky Diegmiller, Lun Zhang, Marcio Gameiro, Justinn Barr, Jasmin Imran Alsous, Paul Schedl, Stanislav Y Shvartsman, Konstantin Mischaikow
Publikováno v:
PLoS Computational Biology, Vol 17, Iss 2, p e1008711 (2021)
Since the seminal 1961 paper of Monod and Jacob, mathematical models of biomolecular circuits have guided our understanding of cell regulation. Model-based exploration of the functional capabilities of any given circuit requires systematic mapping of
Externí odkaz:
https://doaj.org/article/62be1c007851437bbadeaa8318e00f40
Extending Combinatorial Regulatory Network Modeling to Include Activity Control and Decay Modulation
Publikováno v:
SIAM Journal on Applied Dynamical Systems, 21(3), 2096-2125. Society of Industrial and Applied Mathematics
Cummins, B, Gameiro, M, Gedeon, T, Kepley, S, Mischaikow, K & Zhang, L 2022, ' Extending Combinatorial Regulatory Network Modeling to Include Activity Control and Decay Modulation ', SIAM Journal on Applied Dynamical Systems, vol. 21, no. 3, pp. 2096-2125 . https://doi.org/10.1137/21M1456832
Cummins, B, Gameiro, M, Gedeon, T, Kepley, S, Mischaikow, K & Zhang, L 2022, ' Extending Combinatorial Regulatory Network Modeling to Include Activity Control and Decay Modulation ', SIAM Journal on Applied Dynamical Systems, vol. 21, no. 3, pp. 2096-2125 . https://doi.org/10.1137/21M1456832
Understanding how the structure of within-system interactions affects the dynamics of the system is important in many areas of science. We extend a network dynamics modeling platform DSGRN, which combinatorializes both dynamics and parameter space to
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::22c7a5bf53e849815647e4cbb3ee3cc9
https://doi.org/10.1137/21m1456832
https://doi.org/10.1137/21m1456832
Publikováno v:
Repositório Institucional da USP (Biblioteca Digital da Produção Intelectual)
Universidade de São Paulo (USP)
instacron:USP
Universidade de São Paulo (USP)
instacron:USP
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::e333e24439453b3e45d64dcf4d024433
https://doi.org/10.1016/j.cag.2021.10.023
https://doi.org/10.1016/j.cag.2021.10.023
Autor:
Ewerton R. Vieira, Edgar Granados, Aravind Sivaramakrishnan, Marcio Gameiro, Konstantin Mischaikow, Kostas E. Bekris
Publikováno v:
Algorithmic Foundations of Robotics XV ISBN: 9783031210891
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::51186b1af48f035118223b49f34d33f6
https://doi.org/10.1007/978-3-031-21090-7_26
https://doi.org/10.1007/978-3-031-21090-7_26
Autor:
Sabrina S. Calcina, Marcio Gameiro
Publikováno v:
Repositório Institucional da USP (Biblioteca Digital da Produção Intelectual)
Universidade de São Paulo (USP)
instacron:USP
Universidade de São Paulo (USP)
instacron:USP
We use persistent homology to extract topological information from complex spatio-temporal data generated by differential equations and use this information to estimate the corresponding parameters of the differential equation using regression method
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::a6c9503e4cec8fcb49452057fba03405
https://doi.org/10.1016/j.matcom.2021.01.013
https://doi.org/10.1016/j.matcom.2021.01.013
Autor:
Breschine Cummins, Robert C. Moseley, Anastasia Deckard, Mark Weston, George Zheng, Daniel Bryce, Joshua Nowak, Marcio Gameiro, Tomas Gedeon, Konstantin Mischaikow, Jacob Beal, Tessa Johnson, Matthew Vaughn, Niall I. Gaffney, Shweta Gopaulakrishnan, Joshua Urrutia, Robert P. Goldman, Bryan Bartley, Tramy T. Nguyen, Nicholas Roehner, Tom Mitchell, Justin D. Vrana, Katie J. Clowers, Narendra Maheshri, Diveena Becker, Ekaterina Mikhalev, Vanessa Biggers, Trissha R. Higa, Lorraine A. Mosqueda, Steven B. Haase
A challenge in the design and construction of synthetic genetic circuits is that they will operate within biological systems that have noisy and changing parameter regimes that are largely unmeasurable. The outcome is that these circuits do not opera
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::acb350e59a276963ace339cc4381b44a
https://doi.org/10.1101/2022.06.13.495701
https://doi.org/10.1101/2022.06.13.495701
Autor:
Breschine Cummins, Justin Vrana, Robert C Moseley, Hamed Eramian, Anastasia Deckard, Pedro Fontanarrosa, Daniel Bryce, Mark Weston, George Zheng, Joshua Nowak, Francis C Motta, Mohammed Eslami, Kara Layne Johnson, Robert P Goldman, Chris J Myers, Tessa Johnson, Matthew W Vaughn, Niall Gaffney, Joshua Urrutia, Shweta Gopaulakrishnan, Vanessa Biggers, Trissha R Higa, Lorraine A Mosqueda, Marcio Gameiro, Tomáš Gedeon, Konstantin Mischaikow, Jacob Beal, Bryan Bartley, Tom Mitchell, Tramy T Nguyen, Nicholas Roehner, Steven B Haase
Computational tools addressing various components of design–build–test–learn (DBTL) loops for the construction of synthetic genetic networks exist but do not generally cover the entire DBTL loop. This manuscript introduces an end-to-end sequenc
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::7d2c9b817f1b0a8d922071cda533d340
https://doi.org/10.1101/2022.06.10.495560
https://doi.org/10.1101/2022.06.10.495560
Publikováno v:
SSRN Electronic Journal.
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::4a677b8014b942d5801e27a602c2faf3
https://doi.org/10.2139/ssrn.4107065
https://doi.org/10.2139/ssrn.4107065