ReviewBiochemistry2010
Logic-based models for the analysis of cell signaling networks.
Review in Biochemistry, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 141 papers.
What it found
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Who cites it
141 citing papers in PubMed.
- Establishment of a human 3D lung cancer model based on a biological tissue matrix combined with a Boolean in silico model.Molecular oncology · 2014Trial
- Control-guided refinement of partially specified Boolean networks: applications to RTK signaling.Bioinformatics (Oxford, England) · 2026Article
- Zero-shot prediction of drug responses using biologically informed neural networks trained on phosphoproteomic timeseries.PLoS computational biology · 2026Article
- Molecular insights into heart field-specific cardiomyocyte differentiation - A computational study.PloS one · 2026Article
- The Evolution of Systems Biology and Systems Medicine: From Mechanistic Models to Uncertainty Quantification.Annual review of biomedical engineering · 2025Review
- Dynamic modelling of signalling pathways when ordinary differential equations are not feasible.Bioinformatics (Oxford, England) · 2024Article
- From Crypts to Cancer: A Holistic Perspective on Colorectal Carcinogenesis and Therapeutic Strategies.International journal of molecular sciences · 2024Review
- Self-consistent signal transduction analysis for modeling context-specific signaling cascades and perturbations.NPJ systems biology and applications · 2024Article
- Large-scale computational modelling of the M1 and M2 synovial macrophages in rheumatoid arthritis.NPJ systems biology and applications · 2024Article
- Statistical control of structural networks with limited interventions to minimize cellular phenotypic diversity represented by point attractors.Scientific reports · 2023Article
- Functional selectivity of Receptor Tyrosine Kinases regulates distinct cellular outputs.Frontiers in cell and developmental biology · 2023Review
- An Account of Models of Molecular Circuits for Associative Learning with Reinforcement Effect and Forced Dissociation.Sensors (Basel, Switzerland) · 2022Article
- From data to QSP models: a pipeline for using Boolean networks for hypothesis inference and dynamic model building.Journal of pharmacokinetics and pharmacodynamics · 2022Article
- Is There a Need for a More Precise Description of Biomolecule Interactions to Understand Cell Function?Current issues in molecular biology · 2022Review
- Modeling and Simulation of Cell Signaling Networks for Subsequent Analytics Processes Using Big Data and Machine Learning.Bioinformatics and biology insights · 2022Article
- Comparison of rule- and ordinary differential equation-based dynamic model of DARPP-32 signalling network.PeerJ · 2022Article
- Synthetic Biology Tools for Engineering Microbial Cells to Fight Superbugs.Frontiers in bioengineering and biotechnology · 2022Review
- Computational prediction of intracellular targets of wild-type or mutant vesicular stomatitis matrix protein.PloS one · 2022Article
- Can Systems Biology Advance Clinical Precision Oncology?Cancers · 2021Review
- Roles of mTOR in thoracic aortopathy understood by complex intracellular signaling interactions.PLoS computational biology · 2021Article
81 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
4 authors.
Funding
Abstract
Computational models are increasingly used to analyze the operation of complex biochemical networks, including those involved in cell signaling networks. Here we review recent advances in applying logic-based modeling to mammalian cell biology. Logic-based models represent biomolecular networks in a simple and intuitive manner without describing the detailed biochemistry of each interaction. A brief description of several logic-based modeling methods is followed by six case studies that demonstrate biological questions recently addressed using logic-based models and point to potential advances in model formalisms and training procedures that promise to enhance the utility of logic-based methods for studying the relationship between environmental inputs and phenotypic or signaling state outputs of complex signaling networks.
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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.