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Simulation framework for generating intratumor heterogeneity patterns in a cancer cell population

https://doi.org/10.1371/journal.pone.0184229
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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1007/s00285-008-0210-2openalex-snapshot
Microenvironment driven invasion: a multiscale multimodel investigation
inferredcites →https://doi.org/10.1016/j.ccell.2014.12.001openalex-snapshot
Biological and Therapeutic Impact of Intratumor Heterogeneity in Cancer Evolution
inferredcites →https://doi.org/10.1016/j.cell.2006.09.042openalex-snapshot
Tumor Morphology and Phenotypic Evolution Driven by Selective Pressure from the Microenvironment
inferredcites →https://doi.org/10.1016/j.cell.2017.01.018openalex-snapshot
Clonal Heterogeneity and Tumor Evolution: Past, Present, and the Future
inferredcites →https://doi.org/10.1016/j.jtbi.2007.02.019openalex-snapshot
An immersed boundary framework for modelling the growth of individual cells: An application to the early tumour development
inferredcites →https://doi.org/10.1016/j.jtbi.2014.05.027openalex-snapshot
Ancestral inference in tumors: How much can we know?
inferredcites →https://doi.org/10.1016/j.tig.2015.07.003openalex-snapshot
Single-Cell Analysis in Cancer Genomics
inferredcites →https://doi.org/10.1038/cdd.2011.96openalex-snapshot
Molecular definitions of cell death subroutines: recommendations of the Nomenclature Committee on Cell Death 2012
inferredcites →https://doi.org/10.1038/nature12625openalex-snapshot
The causes and consequences of genetic heterogeneity in cancer evolution
inferredcites →https://doi.org/10.1038/nature14971openalex-snapshot
A spatial model predicts that dispersal and cell turnover limit intratumour heterogeneity
inferredcites →https://doi.org/10.1038/ng.3214openalex-snapshot
A Big Bang model of human colorectal tumor growth
inferredcites →https://doi.org/10.1038/nm.3984openalex-snapshot
Pan-cancer analysis of the extent and consequences of intratumor heterogeneity
inferredcites →https://doi.org/10.1038/nrc3261openalex-snapshot
Intra-tumour heterogeneity: a looking glass for cancer?
inferredcites →https://doi.org/10.1038/nrg3317openalex-snapshot
Evolution of the cancer genome
inferredcites →https://doi.org/10.1038/sj.bjc.6605071openalex-snapshot
Migration rules: tumours are conglomerates of self-metastases
inferredcites →https://doi.org/10.1073/pnas.0306899100openalex-snapshot
Markov chain Monte Carlo without likelihoods
inferredcites →https://doi.org/10.1073/pnas.0505903103openalex-snapshot
Mitochondrial DNA mutations are established in human colonic stem cells, and mutated clones expand by crypt fission
inferredcites →https://doi.org/10.1073/pnas.0810276106openalex-snapshot
Inferring clonal expansion and cancer stem cell dynamics from DNA methylation patterns in colorectal cancers
inferredcites →https://doi.org/10.1088/1478-3975/2/3/001openalex-snapshot
A single-cell-based model of tumor growth in vitro : monolayers and spheroids
inferredcites →https://doi.org/10.1093/imammb/dqi005openalex-snapshot
A hybrid mathematical model of solid tumour invasion: the importance of cell adhesion
inferredcites →https://doi.org/10.1093/sysbio/syu081openalex-snapshot
Cancer Evolution: Mathematical Models and Computational Inference
inferredcites →https://doi.org/10.1101/gr.191098.115openalex-snapshot
The first five years of single-cell cancer genomics and beyond
inferredcites →https://doi.org/10.1103/physreve.47.2128openalex-snapshot
Simulation of the differential adhesion driven rearrangement of biological cells
inferredcites →https://doi.org/10.1103/physrevlett.69.2013openalex-snapshot
Simulation of biological cell sorting using a two-dimensional extended Potts model
inferredcites →https://doi.org/10.1126/science.1235122openalex-snapshot
Cancer Genome Landscapes
inferredcites →https://doi.org/10.1158/0008-5472.can-09-3663openalex-snapshot
Cancer Stem Cell Tumor Model Reveals Invasive Morphology and Increased Phenotypical Heterogeneity
inferredcites →https://doi.org/10.1158/0008-5472.can-12-2273openalex-snapshot
Single-Molecule Genomic Data Delineate Patient-Specific Tumor Profiles and Cancer Stem Cell Organization
inferredcites →https://doi.org/10.1158/0008-5472.can-16-0585openalex-snapshot
The Greater Genomic Landscape: The Heterogeneous Evolution of Cancer
inferredcites →https://doi.org/10.1186/s13059-016-0929-9openalex-snapshot
OncoNEM: inferring tumor evolution from single-cell sequencing data
inferredcites →https://doi.org/10.1371/journal.pcbi.1004025openalex-snapshot
Evolution and Phenotypic Selection of Cancer Stem Cells
inferredcites →https://doi.org/10.1371/journal.pcbi.1004416openalex-snapshot
SubClonal Hierarchy Inference from Somatic Mutations: Automatic Reconstruction of Cancer Evolutionary Trees from Multi-region Next Generation Sequencing
inferredcites →https://doi.org/10.1371/journal.pcbi.1004717openalex-snapshot
Computational Cancer Biology: An Evolutionary Perspective
inferredcites →https://doi.org/10.1371/journal.pgen.1005778openalex-snapshot
Integrated Multiregional Analysis Proposing a New Model of Colorectal Cancer Evolution
inferredcites →https://doi.org/10.1371/journal.pmed.1001789openalex-snapshot
Spatial and Temporal Heterogeneity in High-Grade Serous Ovarian Cancer: A Phylogenetic Analysis
inferredcites →https://doi.org/10.1371/journal.pone.0012002openalex-snapshot
Using DNA Methylation Patterns to Infer Tumor Ancestry
inferredcites →https://doi.org/10.3389/fonc.2013.00076openalex-snapshot
Cancer Stem Cells: A Minor Cancer Subpopulation that Redefines Global Cancer Features
inferredcites →https://doi.org/10.3389/fonc.2013.00087openalex-snapshot
Cellular Potts Modeling of Tumor Growth, Tumor Invasion, and Tumor Evolution
inferredcites →https://doi.org/10.3934/mbe.2005.2.613openalex-snapshot
Modeling Multicellular Systems Using Subcellular Elements

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.2139/ssrn.4179404openalex-extracted
Simulating Cancer Evolution and Intratumor Heterogeneity Reveals the Optimal Number of Biopsy Samples for NGS-Based Cancer Gene Testing
inferred← citeshttps://doi.org/10.2139/ssrn.4191903openalex-extracted
Simulating Cancer Evolution and Intratumor Heterogeneity Reveals the Optimal Number of Biopsy Samples for NGS-Based Cancer Gene Testing
inferred← citeshttps://doi.org/10.1002/advs.76764openalex-snapshot
Agent‐Based Simulations of Lung Tumor Evolution Suggest That Ongoing Cell Competition Drives Realistic Clonal Expansions
inferred← citeshttps://doi.org/10.1016/j.jtbi.2018.08.038openalex-snapshot
Selection for synchronized cell division in simple multicellular organisms
inferred← citeshttps://doi.org/10.1038/s41416-023-02395-8openalex-snapshot
Subclonal accumulation of immune escape mechanisms in microsatellite instability-high colorectal cancers
inferred← citeshttps://doi.org/10.1038/s41598-019-39636-xopenalex-snapshot
The impact of proliferation-migration tradeoffs on phenotypic evolution in cancer
inferred← citeshttps://doi.org/10.1038/s41598-020-59006-2openalex-snapshot
Power and pitfalls of computational methods for inferring clone phylogenies and mutation orders from bulk sequencing data
inferred← citeshttps://doi.org/10.1038/s42003-026-09653-4openalex-snapshot
Agent-based modeling of cellular dynamics in adoptive cell therapy
inferred← citeshttps://doi.org/10.1093/bioinformatics/btad102openalex-snapshot
SMITH: spatially constrained stochastic model for simulation of intra-tumour heterogeneity
inferred← citeshttps://doi.org/10.1093/molbev/msaa025openalex-snapshot
CellCoal: Coalescent Simulation of Single-Cell Sequencing Samples
inferred← citeshttps://doi.org/10.1093/molbev/msy091openalex-snapshot
Neutral Theory in Cancer Cell Population Genetics
inferred← citeshttps://doi.org/10.1098/rsos.192148openalex-snapshot
Unification of aggregate growth models by emergence from cellular and intracellular mechanisms
inferred← citeshttps://doi.org/10.1101/2020.08.24.264150openalex-snapshot
Emerging Tumor Development by Simulating Single-cell Events
inferred← citeshttps://doi.org/10.1101/270900openalex-snapshot
The dynamic tumor ecosystem: how cell turnover and trade-offs affect cancer evolution
inferred← citeshttps://doi.org/10.1186/s12645-025-00326-1openalex-snapshot
Current state-of-the-art in multi-scale modeling in nano-cancer drug delivery: role of AI and machine learning
inferred← citeshttps://doi.org/10.1186/s40658-023-00564-5openalex-snapshot
A GATE simulation study for dosimetry in cancer cell and micrometastasis from the 225Ac decay chain
inferred← citeshttps://doi.org/10.1371/journal.pcbi.1008838openalex-snapshot
Elements and evolutionary determinants of genomic divergence between paired primary and metastatic tumors
inferred← citeshttps://doi.org/10.21203/rs.3.rs-4323989/v1openalex-snapshot
CT study of radiomics features predicting Ki-67 expression level in peripheral lung cancer
inferred← citeshttps://doi.org/10.3389/fdgth.2022.838590openalex-snapshot
The Role of in silico Research in Developing Nanoparticle-Based Therapeutics
inferred← citeshttps://doi.org/10.5772/intechopen.100140openalex-snapshot
Agent-Based Modeling and Analysis of Cancer Evolution
inferred← citeshttps://doi.org/10.7287/peerj.8842v0.1/reviews/1openalex-snapshot
Peer Review #1 of "A unified simulation model for understanding the diversity of cancer evolution (v0.1)"
inferred← citeshttps://doi.org/10.7287/peerj.8842v0.1/reviews/2openalex-snapshot
Peer Review #2 of "A unified simulation model for understanding the diversity of cancer evolution (v0.1)"
inferred← citeshttps://doi.org/10.7287/peerj.8842v0.2/reviews/1openalex-snapshot
Peer Review #1 of "A unified simulation model for understanding the diversity of cancer evolution (v0.2)"
inferred← citeshttps://doi.org/10.7554/elife.95338openalex-snapshot
High-density sampling reveals volume growth in human tumours
inferred← citeshttps://doi.org/10.7554/elife.95338.1openalex-snapshot
High-density sampling reveals volume growth in human tumours
inferred← citeshttps://doi.org/10.7554/elife.95338.2openalex-snapshot
High-density sampling reveals volume growth in human tumours
inferred← citeshttps://doi.org/10.7554/elife.95338.3openalex-snapshot
High-density sampling reveals volume growth in human tumours
inferred← citeshttps://doi.org/10.7717/peerj.8842openalex-snapshot
A unified simulation model for understanding the diversity of cancer evolution
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