[HTML][HTML] Spatial biology of cancer evolution

Z Seferbekova, A Lomakin, LR Yates… - Nature Reviews …, 2023 - nature.com
The natural history of cancers can be understood through the lens of evolution given that the
driving forces of cancer development are mutation and selection of fitter clones. Cancer …

Profiling cell identity and tissue architecture with single-cell and spatial transcriptomics

GS Gulati, JP D'Silva, Y Liu, L Wang… - … Reviews Molecular Cell …, 2024 - nature.com
Single-cell transcriptomics has broadened our understanding of cellular diversity and gene
expression dynamics in healthy and diseased tissues. Recently, spatial transcriptomics has …

The co-evolution of the genome and epigenome in colorectal cancer

T Heide, J Househam, GD Cresswell, I Spiteri, C Lynn… - Nature, 2022 - nature.com
Colorectal malignancies are a leading cause of cancer-related death and have undergone
extensive genomic study,. However, DNA mutations alone do not fully explain malignant …

[HTML][HTML] Trellis tree-based analysis reveals stromal regulation of patient-derived organoid drug responses

MR Zapatero, A Tong, JW Opzoomer, R O'Sullivan… - Cell, 2023 - cell.com
Patient-derived organoids (PDOs) can model personalized therapy responses; however,
current screening technologies cannot reveal drug response mechanisms or how tumor …

[HTML][HTML] Spatial transcriptomics: Technologies, applications and experimental considerations

Y Wang, B Liu, G Zhao, YJ Lee, A Buzdin, X Mu, J Zhao… - Genomics, 2023 - Elsevier
The diverse cell types of an organ have a highly structured organization to enable their
efficient and correct function. To fully appreciate gene functions in a given cell type, one …

The evolutionary theory of cancer: challenges and potential solutions

L Laplane, CC Maley - Nature Reviews Cancer, 2024 - nature.com
The clonal evolution model of cancer was developed in the 1950s–1970s and became
central to cancer biology in the twenty-first century, largely through studies of cancer …

Defining heritability, plasticity, and transition dynamics of cellular phenotypes in somatic evolution

JS Schiffman, AR D'Avino, T Prieto, Y Pang, Y Fan… - Nature Genetics, 2024 - nature.com
Single-cell sequencing has characterized cell state heterogeneity across diverse healthy
and malignant tissues. However, the plasticity or heritability of these cell states remains …

[HTML][HTML] Reactivation of embryonic genetic programs in tissue regeneration and disease

H Fazilaty, K Basler - Nature Genetics, 2023 - nature.com
Embryonic genetic programs are reactivated in response to various types of tissue damage,
providing cell plasticity for tissue regeneration or disease progression. In acute conditions …

State-dependent evolutionary models reveal modes of solid tumour growth

MA Lewinsohn, T Bedford, NF Müller… - Nature Ecology & …, 2023 - nature.com
Spatial properties of tumour growth have profound implications for cancer progression,
therapeutic resistance and metastasis. Yet, how spatial position governs tumour cell division …

Contribution of pks+E. coli mutations to colorectal carcinogenesis

B Chen, D Ramazzotti, T Heide, I Spiteri… - Nature …, 2023 - nature.com
The dominant mutational signature in colorectal cancer genomes is C> T deamination
(COSMIC Signature 1) and, in a small subgroup, mismatch repair signature (COSMIC …