Related papers: Signaling activations through G-protein-coupled-re…
Systems composed of distinct complex networks are present in many real-world environments, from society to ecological systems. In the present paper, we propose a network model obtained as a consequence of interactions between two species…
Numerous transcription factors self-assemble into different order oligomeric species in a way that is actively regulated by the cell. Until now, no general functional role has been identified for this widespread process. Here we capture the…
We continue our study of a field formalism for large sets of interacting neurons, together with their connectivity functions. Expanding upon the foundation laid in ([9]), we formulate an effective formalism for the connectivity field in the…
Molecular biology features numerous complexes of proteins that coordinate in an interlocking fashion to fulfill different functions. Adaptive evolution explains some of this complexity, but needn't be the default when neutral explanations…
We provide a series of generic results regarding the structure of nodes in the retarded Green's function G of an interacting system, as exemplified by the extended Hubbard model. In particular: (1) due to an incompatibility between…
This paper studies the wireless spectrum sharing between a pair of distributed primary radio (PR) and cognitive radio (CR) links. Assuming that the PR link adapts its transmit power and/or rate upon receiving an interference signal from the…
Federated learning over graph-structured data exposes a fundamental mismatch between standard aggregation mechanisms and the operator nature of graph neural networks (GNNs). While federated optimization treats model parameters as elements…
Receptor-induced apoptosis is a complex signal transduction pathway involving numerous protein/protein interactions and post-transcriptional modifications. The response to death receptor stimulation varies significantly from one cell line…
Multivariate relations are general in various types of networks, such as biological networks, social networks, transportation networks, and academic networks. Due to the principle of ternary closures and the trend of group formation, the…
Bacteria communicate using secreted chemical signaling molecules called autoinducers in a process known as quorum sensing. The quorum-sensing network of the marine bacterium {\it Vibrio harveyi} employs three autoinducers, each known to…
The Hubbard model, despite its simplicity, is remarkably successful at describing numerous many-body phenomena. However, due to the small class of problems which can be solved exactly, there has been substantial interest in quantum…
Despite the extreme diversity of T cell repertoires, many identical T-cell receptor (TCR) sequences are found in a large number of individual mice and humans. These widely-shared sequences, often referred to as `public', have been suggested…
Formulating quantitative and predictive models for tissue development requires consideration of the complex, stochastic gene expression dynamics, its regulation via cell-to-cell interactions, and cell proliferation. Including all of these…
This paper considers a system where one transmitter broadcasts a single common message to two receivers linked by a bidirectional cooperation channel, which is assumed to be orthogonal to the downlink channel. Assuming a simplified setup…
The structure of a stochastic nonlinear gene regulatory network is uncovered by studying its response to input signal generators. Four applications are studied in detail: a nonlinear connection of two linear systems, the design of a logic…
T cell receptors (TCRs) bind foreign or self-peptides attached to major histocompatibility complex (MHC) molecules, and the strength of this interaction determines T cell activation. Optimizing the ability of T cells to recognize a…
Inferring synaptic connectivity from neural population activity is a fundamental challenge in computational neuroscience, complicated by partial observability and mismatches between inference models and true circuit dynamics. In this study,…
In this work, we present a paradigm bridging electromagnetic (EM) and molecular communication through a stimuli-responsive intra-body model. It has been established that protein molecules, which play a key role in governing cell behavior,…
Follicle-stimulating hormone (FSH) and luteinizing hormone (LH) play essential roles in animal reproduction. They exert their function through binding to their cognate receptors, which belong to the large family of G protein-coupled…
We propose a neural network model of multi-neuron interacting system that simulates neurons to interact each other through the surroundings of neuronal cell bodies. We physically model the neuronal cell surroundings, include the dendrites,…