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Related Concept Videos

RNA-seq03:21

RNA-seq

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RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases. 
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while...
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In Silico Identification and Characterization of circRNAs During Host-Pathogen Interactions
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Identification of Radiation-Induced Injury Pathways and Hub Genes from RNA-Seq Data Based on Integrative

Khalish Arsy Al Khairy Siregar1, Chi-Ho Lee1, Jong-Jin Kim2

  • 1College of Pharmacy, Sunchon National University, 255 Jungang-ro, Suncheon-si 57922, Jeollanam-do, Republic of Korea.

Genes
|May 4, 2026
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Summary

Ionizing radiation causes bone marrow injury by disrupting hematopoietic stem cells. This study identified key genes like Il6 and Cd34 involved in inflammatory and hematopoietic responses to radiation damage.

Keywords:
RNA sequencingbone marrow injuryhub genesintegrative bioinformatics analysisionizing radiation

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Area of Science:

  • Hematology
  • Radiation Biology
  • Bioinformatics

Background:

  • Ionizing radiation (IR) severely damages bone marrow (BM) by disrupting hematopoietic stem cell (HSC) function, leading to myelosuppression and long-term hematopoietic issues.
  • While transcriptomic studies have improved understanding of radiation responses, the precise molecular networks and critical genes in post-irradiation BM injury remain unclear.

Purpose of the Study:

  • To systematically identify radiation-responsive pathways and central genes in mouse bone marrow (BM) following irradiation.
  • To utilize an integrative bioinformatics approach combining RNA sequencing (RNA-seq) data analysis.

Main Methods:

  • Analyzed public RNA-seq data from mouse BM HSCs 3 days post-whole-body irradiation.
  • Identified differentially expressed genes (DEGs) using two statistical frameworks for robust results.
  • Performed functional enrichment analysis (GO, KEGG, GSEA) and constructed protein-protein interaction (PPI) networks to identify hub genes.

Main Results:

  • Confirmed extensive transcriptome reprogramming post-irradiation, with DEGs enriched in cytokine signaling, hematopoietic regulation, immune response, and ECM remodeling.
  • KEGG analysis revealed key pathways including cytokine-cytokine receptor interaction, hematopoietic cell lineage, JAK-STAT, and PI3K-Akt signaling.
  • Identified four consensus hub genes: Il6, Cd34, Gypa, and Pdgfrb, linked to inflammation, hematopoiesis, erythropoiesis, and microenvironment remodeling.

Conclusions:

  • Radiation-induced BM injury involves coordinated activation of inflammatory cytokine networks, altered hematopoietic programs, and microenvironmental changes.
  • The identified hub genes (Il6, Cd34, Gypa, Pdgfrb) are potential regulatory targets or biomarkers for radiation-induced hematopoietic damage.