Clonal interactions in cancer: Integrating quantitative models with experimental and clinical data
Tumors consist of different genotypically distinct subpopulations—or subclones—of cells.
These subclones can influence neighboring clones in a process called “clonal interaction.” …
These subclones can influence neighboring clones in a process called “clonal interaction.” …
Unraveling the Drivers of Tumorigenesis in the Context of Evolution: Theoretical Models and Bioinformatics Tools
X Zhu, W Zhao, Z Zhou, X Gu - Journal of Molecular Evolution, 2023 - Springer
Cancer originates from somatic cells that have accumulated mutations. These mutations
alter the phenotype of the cells, allowing them to escape homeostatic regulation that …
alter the phenotype of the cells, allowing them to escape homeostatic regulation that …
Joint inference of exclusivity patterns and recurrent trajectories from tumor mutation trees
Cancer progression is an evolutionary process shaped by both deterministic and stochastic
forces. Multi-region and single-cell sequencing of tumors enable high-resolution …
forces. Multi-region and single-cell sequencing of tumors enable high-resolution …
Modeling and predicting cancer clonal evolution with reinforcement learning
S Ivanovic, M El-Kebir - Genome Research, 2023 - genome.cshlp.org
Cancer results from an evolutionary process that typically yields multiple clones with varying
sets of mutations within the same tumor. Accurately modeling this process is key to …
sets of mutations within the same tumor. Accurately modeling this process is key to …
Discovering significant evolutionary trajectories in cancer phylogenies
L Pellegrina, F Vandin - Bioinformatics, 2022 - academic.oup.com
Motivation Tumors are the result of a somatic evolutionary process leading to substantial
intra-tumor heterogeneity. Single-cell and multi-region sequencing enable the detailed …
intra-tumor heterogeneity. Single-cell and multi-region sequencing enable the detailed …
Oncotree2vec—a method for embedding and clustering of tumor mutation trees
MA Baciu-Drăgan, N Beerenwinkel - Bioinformatics, 2024 - academic.oup.com
Motivation Understanding the genomic heterogeneity of tumors is an important task in
computational oncology, especially in the context of finding personalized treatments based …
computational oncology, especially in the context of finding personalized treatments based …
Harnessing machine learning and multi-omics to explore tumor evolutionary characteristics and the role of AMOTL1 in prostate cancer
W Zhu, J Wu, W Lai, F Li, H Zeng, X Li, H Su… - International Journal of …, 2025 - Elsevier
Although recent advancements have shed light on the crucial role of coordinated evolution
among cell subpopulations in influencing disease progression, the full potential of these …
among cell subpopulations in influencing disease progression, the full potential of these …
Targeting the deterministic evolutionary trajectories of clear cell renal cell carcinoma
Simple Summary In contrast to organismal evolution, human cancers are subjected to
similar initial conditions and follow a limited range of possible evolutionary trajectories …
similar initial conditions and follow a limited range of possible evolutionary trajectories …
Joint inference of repeated evolutionary trajectories and patterns of clonal exclusivity or co-occurrence from tumor mutation trees
Cancer progression is an evolutionary process shaped by both deterministic and stochastic
forces. Recent advances in multi-region sequencing, single-cell sequencing, and …
forces. Recent advances in multi-region sequencing, single-cell sequencing, and …
Clonal reconstruction from time course genomic sequencing data
Background Bacterial cells during many replication cycles accumulate spontaneous
mutations, which result in the birth of novel clones. As a result of this clonal expansion, an …
mutations, which result in the birth of novel clones. As a result of this clonal expansion, an …