The murine Microenvironment Cell Population counter method to estimate abundance of tissue-infiltrating immune and stromal cell populations in murine samples using gene expression
The murine Microenvironment Cell Population counter method to estimate abundance of tissue-infiltrating immune and stromal cell populations in murine samples using gene expression
Abstract Quantifying tissue-infiltrating immune and stromal cells provides clinically relevant information for various diseases, notably cancer. While numerous methods allow to quantify immune or stromal cells in human tissue samples based on transcriptomic data, very few are available for mouse studies. Here, we introduce murine Microenvironment Cell Population counter (mMCP-counter), a method based on highly specific transcriptomic markers that allow to accurately quantify 12 immune and 4 stromal murine cell populations. We validated mMCP-counter with flow cytometry data. We also showed that mMCP-counter outperforms existing methods. We showed in mouse models of mesothelioma and kidney cancer that mMCP-counter quantification scores are predictive of response to immune checkpoint blockade Finally, we illustrated mMCP-counter’s potential to analyze immune impacts of Alzheimer’s disease. mMCP-counter is available as an R package from GitHub: https://github.com/cit-bioinfo/mMCP-counter.
Meylan Maxime、Saut¨¨s-Fridman Catherine、Becht Etienne、Roumenina Lubka T.、Ayadi Mira、Elarouci Nabila、L¨|vy Sacha、Fridman Wolf H.、Petitprez Florent、de Reyni¨¨s Aur¨|lien、Linhard Christophe、Sun Cheng-Ming
Centre de Recherche des Cordeliers, INSERM, Sorbonne Universit¨|, Universit¨| de Paris, Team inflammation, complement and cancer||Programme Cartes d?ˉIdentit¨| des Tumeurs, Ligue Nationale contre le CancerCentre de Recherche des Cordeliers, INSERM, Sorbonne Universit¨|, Universit¨| de Paris, Team inflammation, complement and cancerFred Hutchinson Cancer Research CenterCentre de Recherche des Cordeliers, INSERM, Sorbonne Universit¨|, Universit¨| de Paris, Team inflammation, complement and cancerProgramme Cartes d?ˉIdentit¨| des Tumeurs, Ligue Nationale contre le CancerProgramme Cartes d?ˉIdentit¨| des Tumeurs, Ligue Nationale contre le CancerCentre de Recherche des Cordeliers, INSERM, Sorbonne Universit¨|, Universit¨| de Paris, Team inflammation, complement and cancerCentre de Recherche des Cordeliers, INSERM, Sorbonne Universit¨|, Universit¨| de Paris, Team inflammation, complement and cancerCentre de Recherche des Cordeliers, INSERM, Sorbonne Universit¨|, Universit¨| de Paris, Team inflammation, complement and cancer||Programme Cartes d?ˉIdentit¨| des Tumeurs, Ligue Nationale contre le CancerProgramme Cartes d?ˉIdentit¨| des Tumeurs, Ligue Nationale contre le CancerCentre de Recherche des Cordeliers, INSERM, Sorbonne Universit¨|, Universit¨| de Paris, Team inflammation, complement and cancerCentre de Recherche des Cordeliers, INSERM, Sorbonne Universit¨|, Universit¨| de Paris, Team inflammation, complement and cancer
医学研究方法基础医学生物科学研究方法、生物科学研究技术
Meylan Maxime,Saut¨¨s-Fridman Catherine,Becht Etienne,Roumenina Lubka T.,Ayadi Mira,Elarouci Nabila,L¨|vy Sacha,Fridman Wolf H.,Petitprez Florent,de Reyni¨¨s Aur¨|lien,Linhard Christophe,Sun Cheng-Ming.The murine Microenvironment Cell Population counter method to estimate abundance of tissue-infiltrating immune and stromal cell populations in murine samples using gene expression[EB/OL].(2025-03-28)[2025-05-16].https://www.biorxiv.org/content/10.1101/2020.03.10.985176.点此复制
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