Clonal heterogeneity and tumor evolution: past, present, and the future

N McGranahan, C Swanton - Cell, 2017 - cell.com
Intratumor heterogeneity, which fosters tumor evolution, is a key challenge in cancer
medicine. Here, we review data and technologies that have revealed intra-tumor …

Challenges in neoantigen-directed therapeutics

L Lybaert, S Lefever, B Fant, E Smits, B De Geest… - Cancer Cell, 2023 - cell.com
A fundamental prerequisite for the efficacy of cancer immunotherapy is the presence of
functional, antigen-specific T cells within the tumor. Neoantigen-directed therapy is a …

Clonal replacement of tumor-specific T cells following PD-1 blockade

KE Yost, AT Satpathy, DK Wells, Y Qi, C Wang… - Nature medicine, 2019 - nature.com
Immunotherapies that block inhibitory checkpoint receptors on T cells have transformed the
clinical care of patients with cancer. However, whether the T cell response to checkpoint …

Glioma progression is shaped by genetic evolution and microenvironment interactions

FS Varn, KC Johnson, J Martinek, JT Huse… - Cell, 2022 - cell.com
The factors driving therapy resistance in diffuse glioma remain poorly understood. To identify
treatment-associated cellular and genetic changes, we analyzed RNA and/or DNA …

[HTML][HTML] Allele-specific HLA loss and immune escape in lung cancer evolution

N McGranahan, R Rosenthal, CT Hiley, AJ Rowan… - Cell, 2017 - cell.com
Immune evasion is a hallmark of cancer. Losing the ability to present neoantigens through
human leukocyte antigen (HLA) loss may facilitate immune evasion. However, the …

Whole-genome landscapes of major melanoma subtypes

NK Hayward, JS Wilmott, N Waddell, PA Johansson… - Nature, 2017 - nature.com
Melanoma of the skin is a common cancer only in Europeans, whereas it arises in internal
body surfaces (mucosal sites) and on the hands and feet (acral sites) in people throughout …

Organoid profiling identifies common responders to chemotherapy in pancreatic cancer

H Tiriac, P Belleau, DD Engle, D Plenker, A Deschênes… - Cancer discovery, 2018 - AACR
Pancreatic cancer is the most lethal common solid malignancy. Systemic therapies are often
ineffective, and predictive biomarkers to guide treatment are urgently needed. We generated …

Scalable whole-exome sequencing of cell-free DNA reveals high concordance with metastatic tumors

VA Adalsteinsson, G Ha, SS Freeman… - Nature …, 2017 - nature.com
Whole-exome sequencing of cell-free DNA (cfDNA) could enable comprehensive profiling of
tumors from blood but the genome-wide concordance between cfDNA and tumor biopsies is …

[HTML][HTML] Ovarian cancer mutational processes drive site-specific immune evasion

I Vázquez-García, F Uhlitz, N Ceglia, JLP Lim, M Wu… - Nature, 2022 - nature.com
High-grade serous ovarian cancer (HGSOC) is an archetypal cancer of genomic instability,,–
patterned by distinct mutational processes,, tumour heterogeneity,–and intraperitoneal …

Molecular landmarks of tumor hypoxia across cancer types

V Bhandari, C Hoey, LY Liu, E Lalonde, J Ray… - Nature …, 2019 - nature.com
Many primary-tumor subregions have low levels of molecular oxygen, termed hypoxia.
Hypoxic tumors are at elevated risk for local failure and distant metastasis, but the molecular …