MSIsensor-RNA: Microsatellite Instability Detection for Bulk and Single-cell Gene Expression Data.
Genomics Proteomics Bioinformatics
; 22(3)2024 Sep 13.
Article
em En
| MEDLINE
| ID: mdl-39341794
ABSTRACT
Microsatellite instability (MSI) is an indispensable biomarker in cancer immunotherapy. Currently, MSI scoring methods by high-throughput omics methods have gained popularity and demonstrated better performance than the gold standard method for MSI detection. However, the MSI detection method on expression data, especially single-cell expression data, is still lacking, limiting the scope of clinical application and prohibiting the investigation of MSI at a single-cell level. Herein, we developed MSIsensor-RNA, an accurate, robust, adaptable, and standalone software to detect MSI status based on expression values of MSI-associated genes. We demonstrated the favorable performance and promise of MSIsensor-RNA in both bulk and single-cell gene expression data in multiplatform technologies including RNA sequencing (RNA-seq), microarray, and single-cell RNA-seq. MSIsensor-RNA is a versatile, efficient, and robust method for MSI status detection from both bulk and single-cell gene expression data in clinical studies and applications. MSIsensor-RNA is available at https//github.com/xjtu-omics/msisensor-rna.
Palavras-chave
Texto completo:
1
Coleções:
01-internacional
Base de dados:
MEDLINE
Assunto principal:
Software
/
Instabilidade de Microssatélites
/
Análise de Célula Única
Limite:
Humans
Idioma:
En
Revista:
Genomics Proteomics Bioinformatics
/
Genomics, Proteomics & Bioinformatics
Assunto da revista:
BIOQUIMICA
/
GENETICA
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INFORMATICA MEDICA
Ano de publicação:
2024
Tipo de documento:
Article
País de afiliação:
China
País de publicação:
Reino Unido