From genes to modules, from cells to ecosystems

Article Biochemistry & Molecular Biology

Discovering dominant tumor immune archetypes in a pan-cancer census

Alexis J. Combes et al.

Summary: This study identifies common patterns of the immune system in different types of cancer and proposes strategies to modulate tumor immunity for improved therapy. The findings provide new insights into cancer immunity and offer a rational approach to enhance treatment.

CELL (2022)

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Review Immunology

A decade of checkpoint blockade immunotherapy in melanoma: understanding the molecular basis for immune sensitivity and resistance

Alexander C. Huang et al.

Summary: Enormous progress has been made in the treatment of melanoma using immune checkpoint blockade in the past ten years. This review discusses the current understanding of the melanoma immune microenvironment and explores novel approaches to enhance the efficacy of immunotherapies. It also highlights the negative impact of melanoma metabolic adaptation on anti-tumor immunity and proposes ways to counteract these mechanisms for more effective use of immunotherapy.

NATURE IMMUNOLOGY (2022)

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Article Oncology

Single-cell analysis of human non-small cell lung cancer lesions refines tumor classification and patient stratification

Andrew M. Leader et al.

Summary: This study identified a cellular module called lung cancer activation module (LCAM(hi)) in early-stage NSCLC lesions, which consists of activated T cells, plasma cells, and macrophages, and is associated with enhanced response to immunotherapy. LCAM presence was found to be independent of overall immune cell content and correlated with TMB, cancer testis antigens, and TP53 mutations, suggesting it may serve as a nonredundant biomarker for immunotherapy response in NSCLC patients.

CANCER CELL (2021)

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Article Biochemistry & Molecular Biology

Atlas of clinically distinct cell states and ecosystems across human solid tumors

Bogdan A. Luca et al.

Summary: This study introduced EcoTyper, a machine learning framework for identifying cell states and multicellular communities from gene expression data, and identified 69 transcriptionally defined cell states in 12 major cell lineages across 16 types of human carcinoma. By analyzing cell-state co-occurrence patterns, it discovered ten clinically distinct multicellular communities, including those linked to adverse survival.

CELL (2021)

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Article Multidisciplinary Sciences