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<p>This study explored the molecular basis of insomnia and sleep deprivation through comprehensive genomic and network analyses. We retrieved microarray expression data from 26 Homo sapiens datasets in the Gene Expression Omnibus (GEO). Differential gene expression analysis in R identified 14,275 DEGs in insomnia (12,960 upregulated, 1,490 downregulated) and 8,096 DEGs in sleep deprivation (3,577 upregulated, 4,851 downregulated). Venny analysis found 20 common DEGs, with 7,806 unique to each condition. Using ShinyGO for functional enrichment, we analysed these DEGs across Gene Ontology categories (BP, CC, MF) and KEGG pathways, pinpointing top-enriched terms. PPI networks were constructed using STRING, and hub genes were identified in Cytoscape using cytoHubba, employing EPC, Degree, MNC, and MCC algorithms. This led to the discovery of 18 core hub genes, including IL6, IL1B, CD8A, IL10, CCL2, HIF1A, MAPK3, CASP3, HSP90AA1, PTEN, GSK3B, and CREB1, highlighting their key roles in sleep disorder mechanisms. For the identification of a molecular signature, LASSO regression was used, where HIF1A was identified as the key signature gene. Further validation across the brain dataset using ROC analysis suggested HIF1A as a potential biomarker and therapeutic target for sleep issues. This integrated study offers valuable insights into the molecular complexity of insomnia and sleep deprivation.</p>

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HIFIA: A Key Molecular Signature and Biomarker Identified by Integrated Genomic Analysis of Insomnia and Sleep Deprivation

  • 期刊论文

  • 发表日期：

    2026年3月30日

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  • B. Tejaswini,
  • S. Gopika,
  • Vino Sundararajan,
  • S. Sajitha Lulu

摘要

This study explored the molecular basis of insomnia and sleep deprivation through comprehensive genomic and network analyses. We retrieved microarray expression data from 26 Homo sapiens datasets in the Gene Expression Omnibus (GEO). Differential gene expression analysis in R identified 14,275 DEGs in insomnia (12,960 upregulated, 1,490 downregulated) and 8,096 DEGs in sleep deprivation (3,577 upregulated, 4,851 downregulated). Venny analysis found 20 common DEGs, with 7,806 unique to each condition. Using ShinyGO for functional enrichment, we analysed these DEGs across Gene Ontology categories (BP, CC, MF) and KEGG pathways, pinpointing top-enriched terms. PPI networks were constructed using STRING, and hub genes were identified in Cytoscape using cytoHubba, employing EPC, Degree, MNC, and MCC algorithms. This led to the discovery of 18 core hub genes, including IL6, IL1B, CD8A, IL10, CCL2, HIF1A, MAPK3, CASP3, HSP90AA1, PTEN, GSK3B, and CREB1, highlighting their key roles in sleep disorder mechanisms. For the identification of a molecular signature, LASSO regression was used, where HIF1A was identified as the key signature gene. Further validation across the brain dataset using ROC analysis suggested HIF1A as a potential biomarker and therapeutic target for sleep issues. This integrated study offers valuable insights into the molecular complexity of insomnia and sleep deprivation.