Your browser doesn't support javascript.
Identification of hub genes and molecular subtypes in COVID-19 based on WGCNA.
Hu, R-W; Liu, C; Yan, Y-Y; Li, D.
  • Hu RW; Department of Gastrointestinal Surgery, Henan Provincial People's Hospital, Zhengzhou, Henan, China. sry_lidan@sina.com.
Eur Rev Med Pharmacol Sci ; 25(20): 6411-6424, 2021 Oct.
Article in English | MEDLINE | ID: covidwho-1503073
ABSTRACT

OBJECTIVE:

The heterogeneity of clinical manifestations and mortality rates in Coronavirus disease 2019 (COVID-19) patients may be related to the existence of molecular subtypes in COVID-19. To improve current management, it is essential to find the hub genes and pathways associated with different COVID-19 subtypes. MATERIALS AND

METHODS:

The whole-genome sequencing information (GSE156063, GSE163151) of nasopharyngeal swabs from normal subjects and COVID-19 patients were downloaded from the Gene Expression Omnibus (GEO) database. The molecular subtypes of patients with COVID-19 were classified using the "consistent clustering" method, and the specific genes associated with each subtype were found. Differentially expressed genes (DEGs) were screened between normal subjects and COVID-19 patients; the Weighted gene co-expression network analysis (WGCNA) method was used to find the key module genes of COVID-19 patients. Subtype-specific, differentially expressed and module-related genes were collected and intersected. Gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analysis were carried out and protein-protein interaction (PPI) networks were generated. The pathways enriched in COVID-19 subtypes were analyzed by gene set variation analysis (GSVA).

RESULTS:

Patients with COVID-19 were divided into three subtypes, and there was no significant difference in gender and age distribution between subtypes. 82 differential gene pathways were screened between Subtypes I and II, 131 differential gene pathways were screened between Subtypes I and III, and 107 differential gene pathways were screened between Subtypes II and III. Finally, 44 differentially expressed key genes were screened, including 11 hub genes (RSAD2, IFIT1, MX1, OAS1, OAS2, BST2, IFI27, IFI35, IFI6, IFITM3, STAT2).

CONCLUSIONS:

There are significant differences in gene activation and pathway enrichment among different molecular subtypes of COVID-19, which may account for the heterogeneity in clinical presentation and the prognosis of patients.
Subject(s)

Full text: Available Collection: International databases Database: MEDLINE Main subject: Biomarkers, Tumor / Oligonucleotide Array Sequence Analysis / COVID-19 Type of study: Diagnostic study / Prognostic study Limits: Humans Language: English Journal: Eur Rev Med Pharmacol Sci Journal subject: Pharmacology / Toxicology Year: 2021 Document Type: Article Affiliation country: Eurrev_202110_27015

Similar

MEDLINE

...
LILACS

LIS


Full text: Available Collection: International databases Database: MEDLINE Main subject: Biomarkers, Tumor / Oligonucleotide Array Sequence Analysis / COVID-19 Type of study: Diagnostic study / Prognostic study Limits: Humans Language: English Journal: Eur Rev Med Pharmacol Sci Journal subject: Pharmacology / Toxicology Year: 2021 Document Type: Article Affiliation country: Eurrev_202110_27015