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Computational modelling is helpful for elucidating the cellular mechanisms driving biological morphogenesis. Previous simulation studies of blood vessel growth based on the Cellular Potts model (CPM) proposed that elongated, adhesive or…
The aim of this chapter is to provide a brief introduction into the basics of a top-down multilevel tumor dynamics modeling method primarily based on discrete entity consideration and manipulation. The method is clinically oriented, one of…
Integrating experimental data into ecological models plays a central role in understanding biological mechanisms that drive tumor progression where such knowledge can be used to develop new therapeutic strategies. While the current studies…
Known as one of the hallmarks of cancer [30], cancer cell invasion of human body tissue is a complicated spatio-temporal multiscale process which enables a localised solid tumour to transform into a systemic, metastatic and fatal disease.…
Cancer is viewed as a multistep process whereby a normal cell is transformed into a cancer cell through the acquisition of mutations. We reduce the complexities of cancer progression to a simple set of underlying rules that govern the…
An endogenous molecular-cellular network for both normal and abnormal functions is assumed to exist. This endogenous network forms a nonlinear stochastic dynamical system, with many stable attractors in its functional landscape. Normal or…
Accurate tumor staging in lung cancer is crucial for prognosis and treatment planning and is governed by explicit anatomical criteria under fixed guidelines. However, most existing deep learning approaches treat this spatially structured…
Breast cancer is one of the most challenging global health problems among women. This study investigates the intricate breast tumor microenvironment (TME) dynamics utilizing data from Mammary-specific Polyomavirus Middle T Antigen…
Recently, there has been a resurgence of interest in rigorous algorithms for the inference of cancer progression from genomic data. The motivations are manifold: (i) growing NGS and single cell data from cancer patients, (ii) need for novel…
It has been shown experimentally that contact interactions may influence the migration of cancer cells. Previous works have modelized this thanks to stochastic, discrete models (cellular automata) at the cell level. However, for the study…
Tumor organoid-on-a-chip platforms represent a cutting-edge fusion of patient-derived organoids with microfluidic technologies, offering unprecedented capabilities for personalized cancer research. These systems overcome limitations of…
This paper describes a stand-alone, no-frills tool supporting the analysis of (labelled) place/transition Petri nets and the synthesis of labelled transition systems into Petri nets. It is implemented as a collection of independent,…
With the advance of imaging technology, digital pathology imaging of tumor tissue slides is becoming a routine clinical procedure for cancer diagnosis. This process produces massive imaging data that capture histological details in high…
Endothelial cells form the linchpin of vascular and lymphatic systems, creating intricate networks that are pivotal for angiogenesis, controlling vessel permeability, and maintaining tissue homeostasis. Despite their critical roles, there…
Inflammatory breast cancer (IBC), a rare form of breast cancer associated with increased angiogenesis and metastasis, is largely driven by tumor-stromal interactions with the vasculature and the extracellular matrix (ECM). However, there is…
Angiogenesis recapitulates the growth of blood vessels that progressively expand and remodel into a highly organized and stereotyped vascular network. During adulthood, endothelial cells that formed the vascular wall retain their plasticity…
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…
Tumor angiogenesis involves a collection of tumor cells moving towards blood vessels for nutrients to grow. Angiogenesis, and in general chemotaxis systems have been modeled using partial differential equations (PDEs) and as such require…
The inverse geometric approach to the modeling of the growth of circular objects revealing required features, such as the velocity of the growth and fractal behavior of their contours, is presented. It enables to reproduce some of the…
Pore network modelling has traditionally been used to study displacement processes in idealized porous media related to geological flows, with applications ranging from groundwater hydrology to enhanced oil recovery. Very recently, pore…