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This study delves into the emergence of collective behaviors within a network comprising interacting cells. Each cell integrates a fixed number of neurons governed by an activation gradient based on Hopfield's model. The intra-cell…
Iron-sulfur clusters conduct a wide variety of biochemical reactions that are conserved across all domains of life. The hyperfine structure of reactive ligands of these clusters can be studied experimentally and theoretically by means of…
We study energy transport in the paradigmatic Hamiltonian mean-field (HMF) model and other related long-range interacting models using molecular dynamics simulations. We show that energy diffusion in the HMF model is subdiffusive in nature,…
Histopathological analysis is a cornerstone of cancer diagnosis, with Hematoxylin and Eosin (H&E) staining routinely acquired for every patient to visualize cell morphology and tissue architecture. On the other hand, multiplex…
Modern time series gene expression and other omics data sets have enabled unprecedented resolution of the dynamics of cellular processes such as cell cycle and response to pharmaceutical compounds. In anticipation of the proliferation of…
Theoretical and computational tools that can be used in the clinic to predict neoplastic progression and propose individualized optimal treatment strategies to control cancer growth is desired. To develop such a predictive model, one must…
An important challenge in cancer systems biology is to uncover the complex network of interactions between genes (tumor suppressor genes and oncogenes) implicated in cancer. Next generation sequencing provides unparalleled ability to probe…
While criticality is widely observed in neural networks, its underlying neural mechanism is not known well. We consider a network of $N$ excitatory leaky integrated and fire (LIF) neurons that reside on a regular lattice with periodic…
This paper introduces a way of modeling the epidemic transmission rate using a stochastic process of the form $(\beta_t = \varphi(t)P_t : t \ge 0)$, where the positive deterministic function $\varphi(t)$ models the impact of a public health…
Uncontrolled wildfires can lead to loss of life and property and destruction of natural resources. At the same time, fire plays a vital role in restoring ecological balance in many ecosystems. Fuel management, or treatment planning by way…
The acid-mediated tumor invasion hypothesis proposes that altered glucose metabolism exhibited by the vast majority of tumors leads to increased acid (H+ ion) production which subsequently facilitates tumor invasion [1-3]. The…
The TGF-beta pathway plays a central role in tissue homeostasis and morphogenesis. It transduces a variety of extracellular signals into intracellular transcriptional responses that control a plethora of cellular processes, including cell…
Objective. Long-term potentiation (LTP) is a fundamental mechanism underlying learning and memory, yet its investigation at the network level in vitro remains challenging, particularly when optogenetic stimulation is used. The objective of…
This work proposes a two-dimensional electrophysiological model for describing neuronal responses to external electric stimuli under patch-clamped conditions. Our proposed model successfully captures the key features of the Hodgkin-Huxley…
Machine learning models of cellular interaction dynamics hold promise for understanding cell behavior. Natural killer (NK) cell cytotoxicity is a prominent example of such interaction dynamics and is commonly studied using time-resolved…
Nonlinear Noisy Leaky Integrate and Fire (NNLIF) models for neurons networks can be written as Fokker-Planck-Kolmogorov equations on the probability density of neurons, the main parameters in the model being the connectivity of the network…
The sensitivity analysis of biological system models can significantly contribute to identifying and explaining influences of internal or external changes on model and its elements. We propose here a comprehensive framework to study…
While most existing epidemic models focus on the influence of isolated factors, infectious disease transmission is inherently shaped by the complex interplay of multiple interacting elements. To better capture real-world dynamics, it is…
Genomic alterations lead to cancer complexity and form a major hurdle for a comprehensive understanding of the molecular mechanisms underlying oncogenesis. In this review, we describe the recent advances in studying cancer-associated genes…
The inositol-phosphate messenger inositol(1,3,4,5)tetrakisphosphate (IP4) is essential for thymocyte positive selection by regulating plasma-membrane association of the protein tyrosine kinase Itk downstream of the T cell receptor (TCR).…