Gene function and cell surface protein association analysis based on single-cell multiomics data.
Comput Biol Med
; 157: 106733, 2023 05.
Article
in English
| MEDLINE | ID: covidwho-2263368
ABSTRACT
Single-cell transcriptomics provides researchers with a powerful tool to resolve the transcriptome heterogeneity of individual cells. However, this method falls short in revealing cellular heterogeneity at the protein level. Previous single-cell multiomics studies have focused on data integration rather than exploiting the full potential of multiomics data. Here we introduce a new analysis framework, gene function and protein association (GFPA), that mines reliable associations between gene function and cell surface protein from single-cell multimodal data. Applying GFPA to human peripheral blood mononuclear cells (PBMCs), we observe an association of epithelial mesenchymal transition (EMT) with the CD99 protein in CD4 T cells, which is consistent with previous findings. Our results show that GFPA is reliable across multiple cell subtypes and PBMC samples. The GFPA python packages and detailed tutorials are freely available at https//github.com/studentiz/GFPA.
Keywords
Full text:
Available
Collection:
International databases
Database:
MEDLINE
Main subject:
Leukocytes, Mononuclear
/
Multiomics
Type of study:
Risk_factors_studies
Limits:
Humans
Language:
English
Journal:
Comput Biol Med
Year:
2023
Document Type:
Article
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