Genome Research · 2021 · 41 citations · 82 references
MedicineCancer BiologyOncologyMolecular OncologyTumor HeterogeneityTumor ProgressionCancer EpigeneticsCancer GenomicsCancer ProgressionCancer TranscriptomicsEpigenetic Regulation In CancerMalignant NeoplasmsCancer Cell PlasticityCancer Cell-state HeterogeneityEmergent PropertiesIntra-tumor Phenotypic VariationIntratumor HeterogeneityMalignant ProgressionTumor Cell Population DynamicsTumor Evolutionary Dynamics
Phenotypic heterogeneity within malignant cells of a tumor is emerging as a key property of tumorigenesis. Recent work using single-cell transcriptomics has led to the identification of distinct cancer cell states across a range of cancer types, but their functional relevance and the advantage that they provide to the tumor as a system remain elusive. We present here a definition of cancer cell states in terms of coherently and differentially expressed gene modules and review the origins, dynamics, and impact of states on the tumor system as a whole. The spectrum of cell states taken on by a malignant population may depend on cellular lineage, epigenetic history, genetic mutations, or environmental cues, which has implications for the relative stability or plasticity of individual states. Finally, evidence has emerged that malignant cells in different states may cooperate or compete within a tumor niche, thereby providing an evolutionary advantage to the tumor through increased immune evasion, drug resistance, or invasiveness. Uncovering the mechanisms that govern the origin and dynamics of cancer cell states in tumorigenesis may shed light on how heterogeneity contributes to tumor fitness and highlight vulnerabilities that can be exploited for therapy.
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Comprehensive molecular portraits of human breast tumours
Integrative analysis of 111 reference human epigenomes
Anshul Kundaje, Wouter Meuleman, Jason Ernst et al. · Nature · 2015 · 7.1K citations · Full text
SCENIC: single-cell regulatory network inference and clustering
Sara Aibar, Carmen Bravo González‐Blas, Thomas Moerman et al. · Nature Methods · 2017 · 6.9K citations · Full text