Logical modeling and dynamical analysis of cellular networks
W Abou-Jaoudé, P Traynard, PT Monteiro… - Frontiers in …, 2016 - frontiersin.org
The logical (or logic) formalism is increasingly used to model regulatory and signaling
networks. Complementing these applications, several groups contributed various methods …
networks. Complementing these applications, several groups contributed various methods …
Pharmacodynamics and pharmacokinetics of inositol (s) in health and disease
M Bizzarri, A Fuso, S Dinicola, A Cucina… - Expert opinion on …, 2016 - Taylor & Francis
Introduction: Inositol and its derivatives comprise a huge field of biology. Myo-inositol is not
only a prominent component of membrane-incorporated phosphatidylinositol, but …
only a prominent component of membrane-incorporated phosphatidylinositol, but …
Integrative computational approach identifies drug targets in CD4+ T-cell-mediated immune disorders
CD4+ T cells provide adaptive immunity against pathogens and abnormal cells, and they
are also associated with various immune-related diseases. CD4+ T cells' metabolism is …
are also associated with various immune-related diseases. CD4+ T cells' metabolism is …
A practical guide to mechanistic systems modeling in biology using a logic-based approach
A Niarakis, T Helikar - Briefings in bioinformatics, 2021 - academic.oup.com
Mechanistic computational models enable the study of regulatory mechanisms implicated in
various biological processes. These models provide a means to analyze the dynamics of the …
various biological processes. These models provide a means to analyze the dynamics of the …
A multiscale mechanistic model of human dendritic cells for in-silico investigation of immune responses and novel therapeutics discovery
Dendritic cells (DCs) are professional antigen-presenting cells (APCs) with the unique ability
to mediate inflammatory responses of the immune system. Given the critical role of DCs in …
to mediate inflammatory responses of the immune system. Given the critical role of DCs in …
An integrated in silico-in vitro approach for identifying therapeutic targets against osteoarthritis
Background Without the availability of disease-modifying drugs, there is an unmet
therapeutic need for osteoarthritic patients. During osteoarthritis, the homeostasis of articular …
therapeutic need for osteoarthritic patients. During osteoarthritis, the homeostasis of articular …
Identification of cross-pathway connections via protein-protein interactions linked to altered states of metabolic enzymes in cervical cancer
Metabolic reprogramming is one of the emerging hallmarks of cancer cells. Various factors,
such as signaling proteins (S), miRNA, and transcription factors (TFs), may play important …
such as signaling proteins (S), miRNA, and transcription factors (TFs), may play important …
Connecting signaling and metabolic pathways in EGF receptor-mediated oncogenesis of glioblastoma
As malignant transformation requires synchronization of growth-driving signaling (S) and
metabolic (M) pathways, defining cancer-specific SM interconnected networks (SMINs) …
metabolic (M) pathways, defining cancer-specific SM interconnected networks (SMINs) …
Strategies to enhance logic modeling-based cell line-specific drug synergy prediction
Discrete dynamical modeling shows promise in prioritizing drug combinations for screening
efforts by reducing the experimental workload inherent to the vast numbers of possible drug …
efforts by reducing the experimental workload inherent to the vast numbers of possible drug …
General method to find the attractors of discrete dynamic models of biological systems
Analyzing the long-term behaviors (attractors) of dynamic models of biological networks can
provide valuable insight. We propose a general method that can find the attractors of …
provide valuable insight. We propose a general method that can find the attractors of …