Single-cell signatures identify microenvironment factors in tumors associated with patient outcomes.
Cell Rep Methods
; 4(6): 100799, 2024 Jun 17.
Article
en En
| MEDLINE
| ID: mdl-38889686
ABSTRACT
The cellular components of tumors and their microenvironment play pivotal roles in tumor progression, patient survival, and the response to cancer treatments. Unveiling a comprehensive cellular profile within bulk tumors via single-cell RNA sequencing (scRNA-seq) data is crucial, as it unveils intrinsic tumor cellular traits that elude identification through conventional cancer subtyping methods. Our contribution, scBeacon, is a tool that derives cell-type signatures by integrating and clustering multiple scRNA-seq datasets to extract signatures for deconvolving unrelated tumor datasets on bulk samples. Through the employment of scBeacon on the The Cancer Genome Atlas (TCGA) cohort, we find cellular and molecular attributes within specific tumor categories, many with patient outcome relevance. We developed a tumor cell-type map to visually depict the relationships among TCGA samples based on the cell-type inferences.
Palabras clave
Texto completo:
1
Colección:
01-internacional
Banco de datos:
MEDLINE
Asunto principal:
Análisis de la Célula Individual
/
Microambiente Tumoral
/
Neoplasias
Límite:
Humans
Idioma:
En
Revista:
Cell Rep Methods
Año:
2024
Tipo del documento:
Article
País de afiliación:
Estados Unidos