Estimating the population abundance of tissue-infiltrating immune and stromal cell populations using gene expression - CNRS - Centre national de la recherche scientifique Accéder directement au contenu
Article Dans Une Revue Genome Biology Année : 2016

Estimating the population abundance of tissue-infiltrating immune and stromal cell populations using gene expression

Résumé

We introduce the Microenvironment Cell Populations-counter (MCP-counter) method, which allows the robust quantification of the absolute abundance of eight immune and two stromal cell populations in heterogeneous tissues from transcriptomic data. We present in vitro mRNA mixture and ex vivo immunohistochemical data that quantitatively support the validity of our method's estimates. Additionally, we demonstrate that MCP-counter overcomes several limitations or weaknesses of previously proposed computational approaches. MCP-counter is applied to draw a global picture of immune infiltrates across human healthy tissues and non-hematopoietic human tumors and recapitulates microenvironment-based patient stratifications associated with overall survival in lung adenocarcinoma and colorectal and breast cancer.
Fichier principal
Vignette du fichier
estimating.pdf (2.88 Mo) Télécharger le fichier
Origine : Publication financée par une institution
Loading...

Dates et versions

hal-01398093 , version 1 (16-11-2016)

Licence

Paternité

Identifiants

Citer

Etienne Becht, Nicolas A. Giraldo, Laetitia Lacroix, Bénédicte Buttard, Nabila Elarouci, et al.. Estimating the population abundance of tissue-infiltrating immune and stromal cell populations using gene expression. Genome Biology, 2016, 17, pp.218. ⟨10.1186/s13059-016-1070-5⟩. ⟨hal-01398093⟩
344 Consultations
277 Téléchargements

Altmetric

Partager

Gmail Facebook X LinkedIn More