Genetic and non-genetic clonal diversity in cancer evolution

JRM Black, N McGranahan - Nature Reviews Cancer, 2021 - nature.com
The observation and analysis of intra-tumour heterogeneity (ITH), particularly in genomic
studies, has advanced our understanding of the evolutionary forces that shape cancer …

A practical guide to cancer subclonal reconstruction from DNA sequencing

M Tarabichi, A Salcedo, AG Deshwar… - Nature …, 2021 - nature.com
Subclonal reconstruction from bulk tumor DNA sequencing has become a pillar of cancer
evolution studies, providing insight into the clonality and relative ordering of mutations and …

Computational analysis of cancer genome sequencing data

I Cortés-Ciriano, DC Gulhan, JJK Lee… - Nature Reviews …, 2022 - nature.com
Distilling biologically meaningful information from cancer genome sequencing data requires
comprehensive identification of somatic alterations using rigorous computational methods …

[HTML][HTML] The spatio-temporal evolution of multiple myeloma from baseline to relapse-refractory states

L Rasche, C Schinke, F Maura, MA Bauer… - Nature …, 2022 - nature.com
Abstract Deciphering Multiple Myeloma evolution in the whole bone marrow is key to inform
curative strategies. Here, we perform spatial-longitudinal whole-exome sequencing …

[HTML][HTML] Genomic evolution and diverse models of systemic metastases in colorectal cancer

HN Chen, Y Shu, F Liao, X Liao, H Zhang, Y Qin… - Gut, 2022 - gut.bmj.com
Objective The systemic spread of colorectal cancer (CRC) is dominated by the portal system
and exhibits diverse patterns of metastasis without systematical genomic investigation. Here …

[HTML][HTML] Phenotypic plasticity and genetic control in colorectal cancer evolution

J Househam, T Heide, GD Cresswell, I Spiteri… - Nature, 2022 - nature.com
Genetic and epigenetic variation, together with transcriptional plasticity, contribute to
intratumour heterogeneity. The interplay of these biological processes and their respective …

[HTML][HTML] Immune selection determines tumor antigenicity and influences response to checkpoint inhibitors

L Zapata, G Caravagna, MJ Williams, E Lakatos… - Nature Genetics, 2023 - nature.com
In cancer, evolutionary forces select for clones that evade the immune system. Here we
analyzed> 10,000 primary tumors and 356 immune-checkpoint-treated metastases using …

Evolution via somatic genetic variation in modular species

TBH Reusch, IB Baums, B Werner - Trends in Ecology & Evolution, 2021 - cell.com
Somatic genetic variation (SoGV) may play a consequential yet underappreciated role in
long-lived, modular species among plants, animals, and fungi. Recent genomic data …

[HTML][HTML] Integrated analysis of whole genome and epigenome data using machine learning technology: toward the establishment of precision oncology

K Asada, S Kaneko, K Takasawa, H Machino… - Frontiers in …, 2021 - frontiersin.org
With the completion of the International Human Genome Project, we have entered what is
known as the post-genome era, and efforts to apply genomic information to medicine have …

[HTML][HTML] Integrative analysis reveals a clinicogenomic landscape associated with liver metastasis and poor prognosis in hepatoid adenocarcinoma of the stomach

J Jiang, Y Ding, J Lu, Y Chen, Y Chen… - … Journal of Biological …, 2022 - ncbi.nlm.nih.gov
Hepatoid adenocarcinoma of the stomach (HAS) is a rare subtype of gastric cancer (GC) that
histologically resembles hepatocellular carcinoma (HCC). Despite its low incidence, HAS …