[HTML][HTML] Integration of transcriptomics data into agent-based models of solid tumor metastasis

J Retzlaff, X Lai, C Berking, J Vera - Computational and structural …, 2023 - Elsevier
Recent progress in our understanding of cancer mostly relies on the systematic profiling of
patient samples with high-throughput techniques like transcriptomics. With this approach …

[HTML][HTML] Navigating multi-scale cancer systems biology towards model-driven clinical oncology and its applications in personalized therapeutics

MN Gondal, SU Chaudhary - Frontiers in Oncology, 2021 - frontiersin.org
Rapid advancements in high-throughput omics technologies and experimental protocols
have led to the generation of vast amounts of scale-specific biomolecular data on cancer …

Article commentary: Predictive modeling of drug treatment in the area of personalized medicine

LA Ogilvie, C Wierling, T Kessler… - Cancer …, 2015 - journals.sagepub.com
Despite a growing body of knowledge on the mechanisms underlying the onset and
progression of cancer, treatment success rates in oncology are at best modest. Current …

Cancer systems biology: embracing complexity to develop better anticancer therapeutic strategies

W Du, O Elemento - Oncogene, 2015 - nature.com
The transformation of normal cells into cancer cells and maintenance of the malignant state
and phenotypes are associated with genetic and epigenetic deregulations, altered cellular …

Systems biology and personalized medicine in cancer

K Mani - Current Pharmacogenomics and Personalized …, 2010 - ingentaconnect.com
Cancer is a heterogeneous disease, originating in different tissues and involving a number
of distinct molecular pathways. With the growing availability of high-throughput biological …

[PDF][PDF] Efficient parameter estimation enables the prediction of drug response using a mechanistic pan-cancer pathway model

F Fröhlich, T Kessler, D Weindl, A Shadrin… - Cell systems, 2018 - cell.com
Mechanistic models are essential to deepen the understanding of complex diseases at the
molecular level. Nowadays, high-throughput molecular and phenotypic characterizations …

Navigating the challenge of tumor heterogeneity in cancer therapy

C Fedele, RW Tothill, GA McArthur - Cancer discovery, 2014 - AACR
The future of cancer treatment lies in personalized strategies designed to specifically target
tumorigenic cell populations present in an individual. Although recent advances in directed …

Efficient parameterization of large-scale mechanistic models enables drug response prediction for cancer cell lines

F Fröhlich, T Kessler, D Weindl, A Shadrin… - bioRxiv, 2017 - biorxiv.org
The response of cancer cells to drugs is determined by various factors, including the cells'
mutations and gene expression levels. These factors can be assessed using next …

[PDF][PDF] Integrating quantitative assays with biologically based mathematical modeling for predictive oncology

AS Kazerouni, M Gadde, A Gardner, DA Hormuth… - Iscience, 2020 - cell.com
We provide an overview on the use of biological assays to calibrate and initialize
mechanism-based models of cancer phenomena. Although artificial intelligence methods …

Integrating transcriptomics and bulk time course data into a mathematical framework to describe and predict therapeutic resistance in cancer

KE Johnson, GR Howard, D Morgan… - Physical …, 2020 - iopscience.iop.org
A significant challenge in the field of biomedicine is the development of methods to integrate
the multitude of dispersed data sets into comprehensive frameworks to be used to generate …