Michael L Blinov
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Explore the profile of Michael L Blinov including associated specialties, affiliations and a list of published articles.
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Recent Articles
11.
BioSimulators: a central registry of simulation engines and services for recommending specific tools
Shaikh B, Smith L, Vasilescu D, Marupilla G, Wilson M, Agmon E, et al.
Nucleic Acids Res
. 2022 May;
50(W1):W108-W114.
PMID: 35524558
Computational models have great potential to accelerate bioscience, bioengineering, and medicine. However, it remains challenging to reproduce and reuse simulations, in part, because the numerous formats and methods for simulating...
12.
Chattaraj A, Blinov M, Loew L
Elife
. 2021 Jul;
10.
PMID: 34236318
Biomolecular condensates are formed by liquid-liquid phase separation (LLPS) of multivalent molecules. LLPS from a single ("homotypic") constituent is governed by buffering: above a threshold, free monomer concentration is clamped,...
13.
Shaikh B, Marupilla G, Wilson M, Blinov M, Moraru I, Karr J
Nucleic Acids Res
. 2021 May;
49(W1):W597-W602.
PMID: 34019658
Comprehensive, predictive computational models have significant potential for science, bioengineering, and medicine. One promising way to achieve more predictive models is to combine submodels of multiple subsystems. To capture the...
14.
Rougny A, Toure V, Albanese J, Waltemath D, Shirshov D, Sorokin A, et al.
Brief Bioinform
. 2021 Mar;
22(5).
PMID: 33758926
A comprehensible representation of a molecular network is key to communicating and understanding scientific results in systems biology. The Systems Biology Graphical Notation (SBGN) has emerged as the main standard...
15.
Keating S, Waltemath D, Konig M, Zhang F, Drager A, Chaouiya C, et al.
Mol Syst Biol
. 2020 Aug;
16(8):e9110.
PMID: 32845085
Systems biology has experienced dramatic growth in the number, size, and complexity of computational models. To reproduce simulation results and reuse models, researchers must exchange unambiguous model descriptions. We review...
16.
Zhang F, Smith L, Blinov M, Faeder J, Hlavacek W, Juan Tapia J, et al.
J Integr Bioinform
. 2020 Jul;
17(2-3).
PMID: 32628633
Rule-based modeling is an approach that permits constructing reaction networks based on the specification of rules for molecular interactions and transformations. These rules can encompass details such as the interacting...
17.
Waltemath D, Golebiewski M, Blinov M, Gleeson P, Hermjakob H, Hucka M, et al.
J Integr Bioinform
. 2020 Jun;
17(2-3).
PMID: 32598315
This paper presents a report on outcomes of the 10th Computational Modeling in Biology Network (COMBINE) meeting that was held in Heidelberg, Germany, in July of 2019. The annual event...
18.
Bergmann F, Czauderna T, Dogrusoz U, Rougny A, Drager A, Toure V, et al.
J Integr Bioinform
. 2020 Jun;
17(2-3).
PMID: 32568733
This document defines Version 0.3 Markup Language (ML) support for the Systems Biology Graphical Notation (SBGN), a set of three complementary visual languages developed for biochemists, modelers, and computer scientists....
19.
Ding B, Patterson E, Holalu S, Li J, Johnson G, Stanley L, et al.
Curr Biol
. 2020 Mar;
30(5):802-814.e8.
PMID: 32155414
Many organisms exhibit visually striking spotted or striped pigmentation patterns. Developmental models predict that such spatial patterns can form when a local autocatalytic feedback loop and a long-range inhibitory feedback...
20.
Cowan A, Mendes P, Blinov M
NPJ Syst Biol Appl
. 2019 Oct;
5:37.
PMID: 31602314
Most computational models in biology are built and intended for "single-use"; the lack of appropriate annotation creates models where the assumptions are unknown, and model elements are not uniquely identified....