CrossTalkeR: analysis and visualization of ligand-receptorne tworks.
Bioinformatics
; 37(22): 4263-4265, 2021 11 18.
Article
em En
| MEDLINE
| ID: mdl-35032393
ABSTRACT
MOTIVATION Ligand-receptor (LR) network analysis allows the characterization of cellular crosstalk based on single cell RNA-seq data. However, current methods typically provide a list of inferred LR interactions and do not allow the researcher to focus on specific cell types, ligands or receptors. In addition, most of these methods cannot quantify changes in crosstalk between two biological phenotypes. RESULTS:
CrossTalkeR is a framework for network analysis and visualization of LR interactions. CrossTalkeR identifies relevant ligands, receptors and cell types contributing to changes in cell communication when contrasting two biological phenotypes, i.e. disease versus homeostasis. A case study on scRNA-seq of human myeloproliferative neoplasms reinforces the strengths of CrossTalkeR for characterization of changes in cellular crosstalk in disease. AVAILABILITY AND IMPLEMENTATION CrosstalkeR is an R package available at Github https//github.com/CostaLab/CrossTalkeR. SUPPLEMENTARY INFORMATION Supplementary data are available at Bioinformatics online.
Texto completo:
1
Base de dados:
MEDLINE
Assunto principal:
Software
/
Análise de Célula Única
Idioma:
En
Ano de publicação:
2021
Tipo de documento:
Article
País de afiliação:
Alemanha