Bioinformatics Approach for Identifying Novel Biomarkers and Their Signaling Pathways Involved in Interstitial Cystitis/Bladder Pain Syndrome with Hunner Lesion
Autor: | Soo Bin Jang, Tak-il Jeon, Aram Kim, Subbroto Kumar Saha, Ssang-Goo Cho, Se Jong Kim, Yujin Choi, Kyung Min Lim, Hyeong Gon Kim |
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Rok vydání: | 2020 |
Předmět: |
signaling pathway
diagnosis T cell 030232 urology & nephrology lcsh:Medicine CD38 urologic and male genital diseases Article 03 medical and health sciences 0302 clinical medicine interstitial cystitis medicine Receptor Interleukin-7 receptor Gene 030304 developmental biology 0303 health sciences business.industry lcsh:R biomarkers Interstitial cystitis bioinformatics General Medicine medicine.disease KLRB1 medicine.anatomical_structure Cancer research bladder pain syndrome Signal transduction business hormones hormone substitutes and hormone antagonists |
Zdroj: | Journal of Clinical Medicine, Vol 9, Iss 1935, p 1935 (2020) Journal of Clinical Medicine Volume 9 Issue 6 |
ISSN: | 2077-0383 |
Popis: | The complexity of interstitial cystitis/bladder pain syndrome (IC/BPS) has led to considerable uncertainty in terms of diagnosis and prevalence of the condition. Here, we try to identify the IC/BPS-associated genes through an integrated analysis of Gene Expression Omnibus (GEO) datasets and confirm experimentally to predict the pathologic diagnosis of IC/BPS. Data mining analysis of GEO datasets (GSE621, GSE11783, GSE28242, and GSE57560) revealed a total of 53 (51 upregulated and two downregulated) common differentially expressed genes (DEGs) in IC/BPS. A protein&ndash protein interaction (PPI) network was then constructed with the 53 common DEGs using Cytoscape v3.7.2, and subsequently, six hub genes (CD5, CD38, ITGAL, IL7R, KLRB1, and IL7R) were identified using cytoHubba v0.1 that were upregulated in IC/BPS. Enrichment analysis of common DEGs revealed that hematopoietic cell lineage, immune system, and T-cell receptor (TCR) signaling in naï ve CD4+ T cell signaling pathways were prominently involved with the common 51 upregulated DEGs. The two common downregulated DEGs may enrich linoleic acid metabolism and synthesis of epoxy (EET) and dihydroxyeicosatrienoic acid (DHET) signaling pathways in IC/BPS. Moreover, our RT-PCR data confirmed that the expression of the five hub genes (CD38, ITGAL, IL7R, KLRB1, and IL7R) was significantly augmented in IC/BPS patients&rsquo samples when compared with their normal counterparts. In this study, we systematically predict the significant biomarkers and possible signaling pathways involved in IC/BPS, confirming the differential expression of the hub genes in tissue samples from patients with IC/BPS. Thus, the hub genes might be used as potential diagnostic biomarkers of IC/BPS. |
Databáze: | OpenAIRE |
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