Related papers: (Tissue) P Systems with Vesicles of Multisets
Current high-performance computer systems used for scientific computing typically combine shared memory computational nodes in a distributed memory environment. Extracting high performance from these complex systems requires tailored…
A continuum model of epithelial tissue mechanics was formulated using cellular-level mechanical ingredients and cell morphogenetic processes, including cellular shape changes and cellular rearrangements. This model can include finite…
In transmission networks, power flows and network topology are deeply intertwined due to power flow physics. Recent literature shows that a specific more hierarchical network structure can effectively inhibit the propagation of line…
A distinguishing feature of a multicellular living system is that it operates at various scales, from the intracellular to organismal. Very little is known at present on how tissue level properties are related to cell and subcellular…
Mathematical modeling has broad applications in neuroscience whether modeling the dynamics of a single synapse or an entire network of neurons. In Part I, we model vesicle replenishment and release at the photoreceptor synapse to better…
Multisite protein phosphorylation plays a pivotal role in regulating cellular signaling and decision-making processes. In this study, we focus on the mathematical underpinnings and informational aspects of sequential, distributive…
The real-world is inherently multi-modal at its core. Our tools observe and take snapshots of it, in digital form, such as videos or sounds, however much of it is lost. Similarly for actions and information passing between humans, languages…
Cell segmentation is a critical step for quantitative single-cell analysis in microscopy images. Existing cell segmentation methods are often tailored to specific modalities or require manual interventions to specify hyper-parameters in…
In this work, we prove the NP-completeness of two variants of tokenisation, defined as the problem of compressing a dataset to at most $\delta$ symbols by either finding a vocabulary directly (direct tokenisation), or selecting a sequence…
Topology optimization enables the design of highly efficient and complex structures, but conventional iterative methods, such as SIMP-based approaches, often suffer from high computational costs and sensitivity to initial conditions.…
In the present monograph we formulate a simple model for heat transfer in living tissue with self - regulation. The initial point of the model is the governing equations describing heat transfer in living tissue at the mesoscopic level,…
We study the dynamics of a model of membrane vesicle transport into dendritic spines, which are bulbous intracellular compartments in neurons driven by molecular motors. We reduce the lubrication model proposed in [Fai et al., Active…
A number of machine learning models have been proposed with the goal of achieving systematic generalization: the ability to reason about new situations by combining aspects of previous experiences. These models leverage compositional…
This article summarizes principles and ideas from the emerging area of applying \textit{conditional computation} methods to the design of neural networks. In particular, we focus on neural networks that can dynamically activate or…
In the present monograph we formulate a simple model for heat transfer in living tissue with self - regulation. The initial point of the model is the governing equations describing heat transfer in living tissue at the mesoscopic level,…
Molecular dynamics simulations play an increasingly important role in the rational design of (nano)-materials and in the study of biomacromolecules. However, generating input files and realistic starting coordinates for these simulations is…
We present a new framework for expressing finite element methods on multiple intersecting meshes: multimesh finite element methods. The framework enables the use of separate meshes to discretize parts of a computational domain that are…
Multisite phosphorylation plays an important role in intracellular signaling. There has been much recent work aimed at understanding the dynamics of such systems when the phosphorylation/dephosphorylation mechanism is distributive, that is,…
Spikes are the currency in central nervous systems for information transmission and processing. They are also believed to play an essential role in low-power consumption of the biological systems, whose efficiency attracts increasing…
The formation of biomolecular materials via dynamical interfacial processes such as self-assembly and fusion, for diverse compositions and external conditions, can be efficiently probed using ensemble Molecular Dynamics. However, this…