Works (9)
Updated: July 5th, 2023 16:02
2020 journal article
Mechanistic models of PLC/PKC signaling implicate phosphatidic acid as a key amplifier of chemotactic gradient sensing
PLOS COMPUTATIONAL BIOLOGY, 16(4).
MeSH headings : Animals; Chemotaxis / physiology; Diglycerides / metabolism; Fibroblasts / metabolism; Humans; Intracellular Signaling Peptides and Proteins / metabolism; Membrane Proteins / metabolism; Models, Theoretical; Myristoylated Alanine-Rich C Kinase Substrate / metabolism; Phosphatidic Acids / metabolism; Phosphatidic Acids / physiology; Phospholipase D / metabolism; Phosphorylation; Platelet-Derived Growth Factor / metabolism; Protein Kinase C / metabolism; Protein Kinase C / physiology; Signal Transduction / physiology; Type C Phospholipases / metabolism; Type C Phospholipases / physiology
TL;DR:
In simulations of wound invasion, efficient collective migration is achieved with thresholds for chemotaxis matching those of polarization in the reaction-diffusion models, and increasing DAG kinase activity can enhance the robustness of DAG/active PKC polarization with respect to chemoattractant concentration while decreasing their whole-cell levels.
(via Semantic Scholar)
open access via journals.plos.org (publisher PDF)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: May 26, 2020
2003 journal article
Fluctuations in transcription factor binding can explain the graded and binary responses observed in inducible gene expression
JOURNAL OF THEORETICAL BIOLOGY, 226(1), 111–121.
author keywords: inducible gene expression; stochastic model; binary and graded response
MeSH headings : Animals; Cells / metabolism; DNA-Binding Proteins / metabolism; Gene Expression Regulation; Interleukin-2 / genetics; Models, Biological; NFATC Transcription Factors; Nuclear Proteins; Protein Binding; Signal Transduction / physiology; Transcription Factors / metabolism; Transcription, Genetic; beta-Galactosidase / genetics
TL;DR:
The modeling results are in good qualitative agreement with the experimental data, and illustrate how the binary and graded responses can stem from the same underlying mechanism.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2002 journal article
The Brownian ratchet and power stroke models for posttranslational protein translocation into the endoplasmic reticulum
BIOPHYSICAL JOURNAL, 82(3), 1239–1253.
MeSH headings : Algorithms; Binding Sites; Biophysical Phenomena; Biophysics; Dose-Response Relationship, Drug; Endoplasmic Reticulum / metabolism; Least-Squares Analysis; Likelihood Functions; Models, Statistical; Models, Theoretical; Monte Carlo Method; Protein Binding; Protein Transport; Time Factors
TL;DR:
It is revealed that translocation involves a single rate-limiting step, which is postulated to be the release of the signal sequence from the translocation channel, and the data considered here cannot be used to reject this import mechanism.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2001 journal article
A linear two-state model with complex dynamics
PHYSICS LETTERS A, 280(4), 204–208.
Source: Web Of Science
Added: August 6, 2018
2001 journal article
Stochasticity in transcriptional regulation: Origins, consequences, and mathematical representations
BIOPHYSICAL JOURNAL, 81(6), 3116–3136.
MeSH headings : Feedback, Physiological; Gene Expression Regulation; Models, Theoretical; Monte Carlo Method; Promoter Regions, Genetic; Stochastic Processes; Time Factors; Transcription, Genetic
TL;DR:
Stochastic bistability where the deterministic equations predict monostability and vice-versa is found; among them, bifurcations driven solely by changing the rate of operator fluctuations even as the underlying deterministic system remains unchanged are found.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2000 journal article
A macroscopic description of biomolecular transport
JOURNAL OF MATHEMATICAL BIOLOGY, 41(3), 189–206.
author keywords: diffusion coefficient; processive enzyme; stochastic process
MeSH headings : Algorithms; Biological Transport, Active; Diffusion; Kinetics; Models, Biological; Monte Carlo Method; Proteins / metabolism
TL;DR:
A general algorithm for computing the effective diffusion coefficient of a general class of biomolecular transport processes and takes into account the effects of thermal diffusion and chemical kinetics is presented.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2000 journal article
Models of post-translational protein translocation
BIOPHYSICAL JOURNAL, 79(5), 2235–2251.
MeSH headings : Animals; Biological Transport, Active; Biophysical Phenomena; Biophysics; Endoplasmic Reticulum / metabolism; HSP70 Heat-Shock Proteins / chemistry; HSP70 Heat-Shock Proteins / metabolism; Kinetics; Mitochondria / metabolism; Models, Biological; Protein Conformation; Protein Processing, Post-Translational; Proteins / chemistry; Proteins / metabolism
TL;DR:
Qualitative differences between the models occur in the behavior of the mean velocity and effective diffusion coefficient as a function of Hsp-70 concentration, and an experimental method is proposed for measuring these two quantities.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: August 6, 2018
2000 journal article
Protein flexibility and the correlation ratchet
SIAM Journal on Applied Mathematics, 61(3), 842–867.
Source: NC State University Libraries
Added: August 6, 2018
2000 journal article
The role of protein flexibility in molecular motor function: Coupled diffusion in a tilted periodic potential
SIAM JOURNAL ON APPLIED MATHEMATICS, 60(3), 842–867.
author keywords: biomolecular motors; Brownian ratchet; protein flexibility; stochastic processes; diffusion equation
TL;DR:
This paper evaluates the influence of the elasticity of the tether on the speed of an imperfect Brownian ratchet in two limiting cases: (1) large diffusion coefficient of the motor and (2) large potential barrier against reverse motion at each r...
(via Semantic Scholar)
Source: Web Of Science
Added: August 6, 2018
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