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 …

Enhancers in disease: molecular basis and emerging treatment strategies

A Claringbould, JB Zaugg - Trends in molecular medicine, 2021 - cell.com
Enhancers are genomic sequences that play a key role in regulating tissue-specific gene
expression levels. An increasing number of diseases are linked to impaired enhancer …

Pan-cancer analysis of whole genomes

Nature, 2020 - nature.com
Cancer is driven by genetic change, and the advent of massively parallel sequencing has
enabled systematic documentation of this variation at the whole-genome scale,–. Here we …

The genomic and transcriptional landscape of primary central nervous system lymphoma

J Radke, N Ishaque, R Koll, Z Gu, E Schumann… - Nature …, 2022 - nature.com
Primary lymphomas of the central nervous system (PCNSL) are mainly diffuse large B-cell
lymphomas (DLBCLs) confined to the central nervous system (CNS). Molecular drivers of …

Enhancer–promoter specificity in gene transcription: molecular mechanisms and disease associations

MJ Friedman, T Wagner, H Lee… - … & Molecular Medicine, 2024 - nature.com
Although often located at a distance from their target gene promoters, enhancers are the
primary genomic determinants of temporal and spatial transcriptional specificity in …

Whole-genome sequencing of acral melanoma reveals genomic complexity and diversity

F Newell, JS Wilmott, PA Johansson, K Nones… - Nature …, 2020 - nature.com
To increase understanding of the genomic landscape of acral melanoma, a rare form of
melanoma occurring on palms, soles or nail beds, whole genome sequencing of 87 tumors …

Global impact of somatic structural variation on the cancer proteome

F Chen, Y Zhang, DS Chandrashekar… - Nature …, 2023 - nature.com
Both proteome and transcriptome data can help assess the relevance of non-coding somatic
mutations in cancer. Here, we combine mass spectrometry-based proteomics data with …

Global map** of cancers: The Cancer Genome Atlas and beyond

C Ganini, I Amelio, R Bertolo, P Bove… - Molecular …, 2021 - Wiley Online Library
Cancer genomes have been explored from the early 2000s through massive exome
sequencing efforts, leading to the publication of The Cancer Genome Atlas in 2013 …

Structural variant detection in cancer genomes: computational challenges and perspectives for precision oncology

IAEM van Belzen, A Schönhuth, P Kemmeren… - NPJ Precision …, 2021 - nature.com
Cancer is generally characterized by acquired genomic aberrations in a broad spectrum of
types and sizes, ranging from single nucleotide variants to structural variants (SVs). At least …

[HTML][HTML] Cooperation between melanoma cell states promotes metastasis through heterotypic cluster formation

NR Campbell, A Rao, MV Hunter, MK Sznurkowska… - Developmental cell, 2021 - cell.com
Melanomas can have multiple coexisting cell states, including proliferative (PRO) versus
invasive (INV) subpopulations that represent a" go or grow" trade-off; however, how these …