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200 papers

Phenotype variations define heterogeneity of biological and molecular systems, which play a crucial role in several mechanisms. Heterogeneity has been demonstrated in tumor cells. Here, samples from blood of patients affected from colon…

Biological Physics · Physics 2015-11-09 Giuseppina Simone

The ongoing explosion of genome sequence data is transforming how we reconstruct and understand the histories of biological systems. Across biological scales, from individual cells to populations and species, trees-based models provide a…

Populations and Evolution · Quantitative Biology 2025-12-08 Yun Deng , Shing H. Zhan , Yulin Zhang , Chao Zhang , Bingjie Chen

Natural selection acts on traits at different scales, often with opposing consequences. This article identifies the particular forces that act at each scale and how those forces combine to determine the overall evolutionary outcome. A…

Populations and Evolution · Quantitative Biology 2025-10-30 Steven A. Frank

In this review, we discuss recent advances on the plasticity of cancer stem cells and highlight their relevance to understand the metastatic process and to guide therapeutic interventions. Recent results suggest that the strict hierarchical…

Populations and Evolution · Quantitative Biology 2017-05-16 Caterina A. M. La Porta , Stefano Zapperi

Recurrence and metastasis have been regarded as two of the greatest obstacles for curing cancer. Cancer stem cell (CSC) have been found. They contribute to cancer development with the distinct feature of recurrence and resistance to the…

Cell Behavior · Quantitative Biology 2018-08-20 Chong Yu , Qiong Liu , Cong Chen , Jin Wang

The uncontrolled proliferation of cancer cells and their interaction with healthy tissue poses a major challenge in oncology. This manuscript develops and analyzes mathematical models that describe tumor response to radiotherapy by…

The phenotypic equilibrium, i.e. heterogeneous population of cancer cells tending to a fixed equilibrium of phenotypic proportions, has received much attention in cancer biology very recently. In previous literature, some theoretical models…

Cell Behavior · Quantitative Biology 2015-09-24 Yuanling Niu , Yue Wang , Da Zhou

Cell competition is recognized to be instrumental to the dynamics and structure of the tumor-host interface in invasive cancers. In mild competition scenarios, the healthy tissue and cancer cells can coexist. When the competition is…

Populations and Evolution · Quantitative Biology 2022-04-19 Heyrim Cho , Doron Levy

We investigate the catalytic reactions model used in cell modeling. The reaction kinetic is defined through the energies of different species of molecules following random independent distribution. The related statistical physics model has…

Other Quantitative Biology · Quantitative Biology 2015-06-12 David B. Saakian , Laurent Schwartz

Cancers follow a clonal Darwinian evolution, with fitter subclones replacing more quiescent cells, ultimately giving rise to macroscopic disease. High-throughput genomics provides the opportunity to investigate these processes and determine…

Quantitative Methods · Quantitative Biology 2014-10-07 Sakellarios Zairis , Hossein Khiabanian , Andrew J. Blumberg , Raul Rabadan

Cancer cells evolve through random somatic mutations. "Beneficial" mutations which disrupt key pathways (e.g. cell cycle regulation) are subject to natural selection. Multiple mutations may lead to the same "beneficial" effect, in which…

Methodology · Statistics 2016-09-20 Paul Ginzberg , Federico Giorgi , Andrea Califano

The problem of unicellular-multicellular transition is one of the main issues that is discussing in evolutionary biology. In [1] the fitness of a colony of cells is considered in terms of its two basic components, viability and fecundity.…

Populations and Evolution · Quantitative Biology 2015-06-08 Fuad Aleskerov , Denis Tverskoy

With the advancement of high-throughput biotechnologies, we increasingly accumulate biomedical data about diseases, especially cancer. There is a need for computational models and methods to sift through, integrate, and extract new…

Quantitative Methods · Quantitative Biology 2020-07-03 Thomas Gaudelet , Noel Malod-Dognin , Natasa Przulj

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…

Cell Behavior · Quantitative Biology 2015-05-20 Salvatore Torquato

A tumor can be thought of as an ecosystem, which critically means that we cannot just consider it as a collection of mutated cells but more as a complex system of many interacting cellular and microenvironmental elements. At its simplest, a…

Populations and Evolution · Quantitative Biology 2013-05-03 Jill Gallaher , Alexander R. A. Anderson

Since the discovery of a cancer initiating side population in solid tumours, studies focussing on the role of so-called cancer stem cells in cancer initiation and progression have abounded. The biological interrogation of these cells has…

Tissues and Organs · Quantitative Biology 2013-08-22 Jacob G. Scott , Prakash Chinnaiyan , Alexander R. A. Anderson , Anita Hjelmeland , David Basanta

In the current technological era, the medical profession has emerged as one of the researchers' favorite subject areas, and cancer is one of them. Because there is now no effective treatment for this illness, it is a matter of concern. Only…

Machine Learning · Computer Science 2024-10-23 Praneeth Kumar T , Nidhi Srivastava , Rakshith Mahishi , Chayadevi M L

Multicellular self-organization drives development in biological organisms, yet a comprehensive theory is lacking as basic properties of cells can complicate common approaches. Framing such properties by dynamic graphs led to new…

Molecular Networks · Quantitative Biology 2026-05-26 Kyle R. Allison

Prostate cancer is a disease which poses an interesting clinical question: should it be treated? A small subset of prostate cancers are aggressive and require removal and treatment to prevent metastatic spread. However, conventional…

Quantitative Methods · Quantitative Biology 2024-03-14 Daniel West , Susan Stepney , Y. Hancock

The emergence of acquired drug resistance in cancer represents a major barrier to treatment success. While research has traditionally focused on genetic sources of resistance, recent findings suggest that cancer cells can acquire transient…

Populations and Evolution · Quantitative Biology 2020-02-25 Einar Bjarki Gunnarsson , Subhajyoti De , Kevin Leder , Jasmine Foo