ArticleBiophysical journal2005
Signaling through receptors and scaffolds: independent interactions reduce combinatorial complexity.
Article in Biophysical journal, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
35 citing papers in PubMed.
- Mathematical modelling of Alzheimer's disease biomarkers: Targeting Amyloid beta, Tau protein, Apolipoprotein E and Apoptotic pathways.American journal of translational research · 2024Review
- Targeted Quantification of Protein Phosphorylation and Its Contributions towards Mathematical Modeling of Signaling Pathways.Molecules (Basel, Switzerland) · 2023Review
- Evaluating model reduction under parameter uncertainty.BMC systems biology · 2018Article
- Article
- Methods of Model Reduction for Large-Scale Biological Systems: A Survey of Current Methods and Trends.Bulletin of mathematical biology · 2017Article
- Biologically Relevant Heterogeneity: Metrics and Practical Insights.SLAS discovery : advancing life sciences R & D · 2017Review
- Analytical reduction of combinatorial complexity arising from multiple protein modification sites.Journal of the Royal Society, Interface · 2015Article
- Exact hybrid particle/population simulation of rule-based models of biochemical systems.PLoS computational biology · 2014Article
- Navigating the multilayered organization of eukaryotic signaling: a new trend in data integration.PLoS computational biology · 2014Review
- Signalling by protein phosphatases and drug development: a systems-centred view.The FEBS journal · 2013Review
- Reconstruction and analysis of nutrient-induced phosphorylation networks in Arabidopsis thaliana.Frontiers in plant science · 2013Article
- Competing G protein-coupled receptor kinases balance G protein and β-arrestin signaling.Molecular systems biology · 2012Article
- Article
- Crosstalk and signaling switches in mitogen-activated protein kinase cascades.Frontiers in physiology · 2012Article
- Reduction of dynamical biochemical reactions networks in computational biology.Frontiers in genetics · 2012Article
- Bigger, better, faster: principles and models of AKAP anchoring protein signaling.Journal of cardiovascular pharmacology · 2011Review
- Rule-based modelling and simulation of biochemical systems with molecular finite automata.IET systems biology · 2010Article
- Article
- Zooming of states and parameters using a lumping approach including back-translation.BMC systems biology · 2010Article
- Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
4 authors.
Funding
Abstract
After activation, many receptors and their adaptor proteins act as scaffolds displaying numerous docking sites and engaging multiple targets. The consequent assemblage of a variety of protein complexes results in a combinatorial increase in the number of feasible molecular species presenting different states of a receptor-scaffold signaling module. Tens of thousands of such microstates emerge even for the initial signal propagation events, greatly impeding a quantitative analysis of networks. Here, we demonstrate that the assumption of independence of molecular events occurring at distinct sites enables us to approximate a mechanistic picture of all possible microstates by a macrodescription of states of separate domains, i.e., macrostates that correspond to experimentally verifiable variables. This analysis dissects a highly branched network into interacting pathways originated by protein complexes assembled on different sites of receptors and scaffolds. We specify when the temporal dynamics of any given microstate can be expressed using the product of the relative concentrations of individual sites. The methods presented here are equally applicable to deterministic and stochastic calculations of the temporal dynamics. Our domain-oriented approach drastically reduces the number of states, processes, and kinetic parameters to be considered for quantification of complex signaling networks that propagate distinct physiological responses.
Indexed as
Identifiers
What OpenQuestion holds
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.