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Cooperative binding mitigates the high-dose hook effect.
- Published in:
- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0447-8
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Quantitative reproducibility analysis for identifying reproducible targets from high-throughput experiments.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0444-y
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Snoopy's hybrid simulator: a tool to construct and simulate hybrid biological models.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0449-6
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Manatee invariants reveal functional pathways in signaling networks.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0448-7
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Combination therapy for melanoma with BRAF/MEK inhibitor and immune checkpoint inhibitor: a mathematical model.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0446-9
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Modeling de novo granulation of anaerobic sludge.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0443-z
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Development of an in silico method for the identification of subcomplexes involved in the biogenesis of multiprotein complexes in Saccharomyces cerevisiae.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0442-0
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An agent-based model of triple-negative breast cancer: the interplay between chemokine receptor CCR5 expression, cancer stem cells, and hypoxia.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0445-x
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Reconstruction of the microalga Nannochloropsis salina genome-scale metabolic model with applications to lipid production.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0441-1
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Gene expression profiles and signaling mechanisms in α<sub>2B</sub>-adrenoceptor-evoked proliferation of vascular smooth muscle cells.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0439-8
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The CD4+ T cell regulatory network mediates inflammatory responses during acute hyperinsulinemia: a simulation study.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0436-y
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Evaluation and improvement of the regulatory inference for large co-expression networks with limited sample size.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0440-2
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Comprehensive benchmarking of Markov chain Monte Carlo methods for dynamical systems.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0433-1
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HGPEC: a Cytoscape app for prediction of novel disease-gene and disease-disease associations and evidence collection based on a random walk on heterogeneous network.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0437-x
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Remodeling adipose tissue through in silico modulation of fat storage for the prevention of type 2 diabetes.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0438-9
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Single-cell study links metabolism with nutrient signaling and reveals sources of variability.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0435-z
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Clostridium butyricum maximizes growth while minimizing enzyme usage and ATP production: metabolic flux distribution of a strain cultured in glycerol.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0434-0
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Modeling the dynamics of mouse iron body distribution: hepcidin is necessary but not sufficient.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0431-3
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Emergence of microbial diversity due to cross-feeding interactions in a spatial model of gut microbial metabolism.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0430-4
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A mathematical model of mechanotransduction reveals how mechanical memory regulates mesenchymal stem cell fate decisions.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0429-x
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Parameter identifiability analysis and visualization in large-scale kinetic models of biosystems.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0428-y
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Parameter identifiability-based optimal observation remedy for biological networks.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0432-2
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A scalable metabolite supplementation strategy against antibiotic resistant pathogen Chromobacterium violaceum induced by NAD<sup>+</sup>/NADH<sup>+</sup> imbalance.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0427-z
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Parameter inference for stochastic single-cell dynamics from lineage tree data.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0425-1
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SSER: Species specific essential reactions database.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0426-0
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Membrane potential independent transport of NH<sub>3</sub> in the absence of ammonium permeases in Saccharomyces cerevisiae.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-016-0381-1
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Period doubling cascades of limit cycles in cardiac action potential models as precursors to chaotic early Afterdepolarizations.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0422-4
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An additional k-means clustering step improves the biological features of WGCNA gene co-expression networks.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0420-6
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SBpipe: a collection of pipelines for automating repetitive simulation and analysis tasks.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0423-3
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Quantitative evaluation and reversion analysis of the attractor landscapes of an intracellular regulatory network for colorectal cancer.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0424-2
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Mathematical model of TGF-β signalling: feedback coupling is consistent with signal switching.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0421-5
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Rewiring of the inferred protein interactome during blood development studied with the tool PPICompare.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0400-x
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Image analysis driven single-cell analytics for systems microbiology.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0399-z
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Estimating genome-wide regulatory activity from multi-omics data sets using mathematical optimization.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0419-z
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Optimisation of an exemplar oculomotor model using multi-objective genetic algorithms executed on a GPU-CPU combination.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0416-2
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Quantifying the roles of random motility and directed motility using advection-diffusion theory for a 3T3 fibroblast cell migration assay stimulated with an electric field.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0413-5
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Delineating functional principles of the bow tie structure of a kinase-phosphatase network in the budding yeast.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0418-0
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Systematic identification of an integrative network module during senescence from time-series gene expression.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0417-1
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Finding low-conductance sets with dense interactions (FLCD) for better protein complex prediction.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0405-5
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Network reconstruction of the mouse secretory pathway applied on CHO cell transcriptome data.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0414-4
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SEQUOIA: significance enhanced network querying through context-sensitive random walk and minimization of network conductance.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0404-6
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SNP by SNP by environment interaction network of alcoholism.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0403-7
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DIGNiFI: Discovering causative genes for orphan diseases using protein-protein interaction networks.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0402-8
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Stochastic modeling and simulation of reaction-diffusion system with Hill function dynamics.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0401-9
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Selecting high-quality negative samples for effectively predicting protein-RNA interactions.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0390-8
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Prior knowledge guided active modules identification: an integrated multi-objective approach.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0388-2
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A sequence-based method to predict the impact of regulatory variants using random forest.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0389-1
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- Article
PINTnet: construction of condition-specific pathway interaction network by computing shortest paths on weighted PPI.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0387-3
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Predicting protein-binding regions in RNA using nucleotide profiles and compositions.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0386-4
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Receptor-guided 3D-QSAR studies, molecular dynamics simulation and free energy calculations of Btk kinase inhibitors.
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- BMC Systems Biology, 2017, v. 11, p. 1, doi. 10.1186/s12918-017-0385-5
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