期刊
FRONTIERS IN GENETICS
卷 14, 期 -, 页码 -出版社
FRONTIERS MEDIA SA
DOI: 10.3389/fgene.2023.1204909
关键词
glaucoma; RNA-seq; DEG; NMF; BXD strains; pathway analysis
The discovery of glaucoma biomarkers based on gene expression data could provide new insights for early diagnosis and treatment options. Our study applied Non-negative Matrix Factorization (NMF) to extract latent representations of RNA-seq data and identified marker genes for glaucoma using a novel gene scoring method. The NMF method significantly improved the enrichment detection of glaucoma genes and showed promise in glaucoma biomarker identification.
Early diagnosis and treatment of glaucoma are challenging. The discovery of glaucoma biomarkers based on gene expression data could potentially provide new insights for early diagnosis, monitoring, and treatment options of glaucoma. Non-negative Matrix Factorization (NMF) has been widely used in numerous transcriptome data analyses in order to identify subtypes and biomarkers of different diseases; however, its application in glaucoma biomarker discovery has not been previously reported. Our study applied NMF to extract latent representations of RNA-seq data from BXD mouse strains and sorted the genes based on a novel gene scoring method. The enrichment ratio of the glaucoma-reference genes, extracted from multiple relevant resources, was compared using both the classical differentially expressed gene (DEG) analysis and NMF methods. The complete pipeline was validated using an independent RNA-seq dataset. Findings showed our NMF method significantly improved the enrichment detection of glaucoma genes. The application of NMF with the scoring method showed great promise in the identification of marker genes for glaucoma.
作者
我是这篇论文的作者
点击您的名字以认领此论文并将其添加到您的个人资料中。
推荐
暂无数据