ArticlePLoS computational biology2006
Key role of local regulation in chemosensing revealed by a new molecular interaction-based modeling method.
Article in PLoS computational biology, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 75 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
75 citing papers in PubMed, 137 citations in OpenAlex.
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- Ras inhibitors gate chemoattractant concentration range for chemotaxis through controlling GPCR-mediated adaptation and cell sensitivity.Frontiers in immunology · 2022Review
- Ras inhibitor CAPRI enables neutrophil-like cells to chemotax through a higher-concentration range of gradients.Proceedings of the National Academy of Sciences of the United States of America · 2021Article
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- How Phagocytes Acquired the Capability of Hunting and Removing Pathogens From a Human Body: Lessons Learned From Chemotaxis and Phagocytosis ofFrontiers in cell and developmental biology · 2021Review
- Parallelisation strategies for agent based simulation of immune systems.BMC bioinformatics · 2019Article
- MCell-R: A Particle-Resolution Network-Free Spatial Modeling Framework.Methods in molecular biology (Clifton, N.J.) · 2019Article
- A spatio-temporal model reveals self-limiting FcRoyal Society open science · 2018Article
- Cell studio: A platform for interactive, 3D graphical simulation of immunological processes.APL bioengineering · 2018Article
- A multiscale modeling study of particle size effects on the tissue penetration efficacy of drug-delivery nanoparticles.BMC systems biology · 2017Article
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- GPCR-controlled membrane recruitment of negative regulator C2GAP1 locally inhibits Ras signaling for adaptation and long-range chemotaxis.Proceedings of the National Academy of Sciences of the United States of America · 2017Article
- Automated visualization of rule-based models.PLoS computational biology · 2017Article
- Rule-based modeling with Virtual Cell.Bioinformatics (Oxford, England) · 2016Article
- Point process models for localization and interdependence of punctate cellular structures.Cytometry. Part A : the journal of the International Society for Analytical Cytology · 2016Article
- A Model for Direction Sensing in Dictyostelium discoideum: Ras Activity and Symmetry Breaking Driven by a Gβγ-Mediated, Gα2-Ric8 -- Dependent Signal Transduction Network.PLoS computational biology · 2016Article
15 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
6 authors at 4 institutions in 2 countries.
Funding
Abstract
The signaling network underlying eukaryotic chemosensing is a complex combination of receptor-mediated transmembrane signals, lipid modifications, protein translocations, and differential activation/deactivation of membrane-bound and cytosolic components. As such, it provides particularly interesting challenges for a combined computational and experimental analysis. We developed a novel detailed molecular signaling model that, when used to simulate the response to the attractant cyclic adenosine monophosphate (cAMP), made nontrivial predictions about Dictyostelium chemosensing. These predictions, including the unexpected existence of spatially asymmetrical, multiphasic, cyclic adenosine monophosphate-induced PTEN translocation and phosphatidylinositol-(3,4,5)P3 generation, were experimentally verified by quantitative single-cell microscopy leading us to propose significant modifications to the current standard model for chemoattractant-induced biochemical polarization in this organism. Key to this successful modeling effort was the use of "Simmune," a new software package that supports the facile development and testing of detailed computational representations of cellular behavior. An intuitive interface allows user definition of complex signaling networks based on the definition of specific molecular binding site interactions and the subcellular localization of molecules. It automatically translates such inputs into spatially resolved simulations and dynamic graphical representations of the resulting signaling network that can be explored in a manner that closely parallels wet lab experimental procedures. These features of Simmune were critical to the model development and analysis presented here and are likely to be useful in the computational investigation of many aspects of cell biology.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.