The murine Microenvironment Cell Population counter method to estimate abundance of tissue-infiltrating immune and stromal cell populations in murine samples using gene expression.
Alzheimer Disease
/ etiology
Animals
Biomarkers
Cellular Microenvironment
/ drug effects
Computational Biology
/ methods
Databases, Genetic
Female
Gene Expression Profiling
High-Throughput Nucleotide Sequencing
Immune Checkpoint Inhibitors
/ pharmacology
Immune Checkpoint Proteins
/ metabolism
Leukocytes
/ drug effects
Mice
ROC Curve
Single-Cell Analysis
Stromal Cells
/ drug effects
Transcriptome
Alzheimer’s disease
Heterogeneous tissue
Immune checkpoint blockade
Immune composition
Tumor microenvironment
Journal
Genome medicine
ISSN: 1756-994X
Titre abrégé: Genome Med
Pays: England
ID NLM: 101475844
Informations de publication
Date de publication:
06 10 2020
06 10 2020
Historique:
received:
30
03
2020
accepted:
14
09
2020
entrez:
7
10
2020
pubmed:
8
10
2020
medline:
4
8
2021
Statut:
epublish
Résumé
Quantifying tissue-infiltrating immune and stromal cells provides clinically relevant information for various diseases. While numerous methods can quantify immune or stromal cells in human tissue samples from transcriptomic data, few are available for mouse studies. We introduce murine Microenvironment Cell Population counter (mMCP-counter), a method based on highly specific transcriptomic markers that accurately quantify 16 immune and stromal murine cell populations. We validated mMCP-counter with flow cytometry data and showed that mMCP-counter outperforms existing methods. We showed that mMCP-counter scores are predictive of response to immune checkpoint blockade in cancer mouse models and identify early immune impacts of Alzheimer's disease.
Identifiants
pubmed: 33023656
doi: 10.1186/s13073-020-00783-w
pii: 10.1186/s13073-020-00783-w
pmc: PMC7541325
doi:
Substances chimiques
Biomarkers
0
Immune Checkpoint Inhibitors
0
Immune Checkpoint Proteins
0
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
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