2021年12月
PCA-based unsupervised feature extraction for gene expression analysis of COVID-19 patients
Scientific Reports
- ,
- ,
- ,
- ,
- 巻
- 11
- 号
- 1
- 記述言語
- 英語
- 掲載種別
- 研究論文(学術雑誌)
- DOI
- 10.1038/s41598-021-95698-w
- 出版者・発行元
- Springer Science and Business Media LLC
<title>Abstract</title>Coronavirus disease 2019 (COVID-19) is raging worldwide. This potentially fatal infectious disease is caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). However, the complete mechanism of COVID-19 is not well understood. Therefore, we analyzed gene expression profiles of COVID-19 patients to identify disease-related genes through an innovative machine learning method that enables a data-driven strategy for gene selection from a data set with a small number of samples and many candidates. Principal-component-analysis-based unsupervised feature extraction (PCAUFE) was applied to the RNA expression profiles of 16 COVID-19 patients and 18 healthy control subjects. The results identified 123 genes as critical for COVID-19 progression from 60,683 candidate probes, including immune-related genes. The 123 genes were enriched in binding sites for transcription factors NFKB1 and RELA, which are involved in various biological phenomena such as immune response and cell survival: the primary mediator of canonical nuclear
factor-kappa B (NF-<italic>κ</italic>B) activity is the heterodimer RelA-p50. The genes were also enriched in histone modification H3K36me3, and they largely overlapped the target genes of NFKB1 and RELA. We found that the overlapping genes were downregulated in COVID-19 patients. These results suggest that canonical NF-<italic>κ</italic>B activity was suppressed by H3K36me3 in COVID-19 patient blood.
factor-kappa B (NF-<italic>κ</italic>B) activity is the heterodimer RelA-p50. The genes were also enriched in histone modification H3K36me3, and they largely overlapped the target genes of NFKB1 and RELA. We found that the overlapping genes were downregulated in COVID-19 patients. These results suggest that canonical NF-<italic>κ</italic>B activity was suppressed by H3K36me3 in COVID-19 patient blood.
- リンク情報
- ID情報
-
- DOI : 10.1038/s41598-021-95698-w
- eISSN : 2045-2322