Identification of primary genes in glomeruli compartment of immunoglobulin A nephropathy by bioinformatic analysis
The current study is aimed to explore the specific genes which are responsible for the manifestation of Immunoglobulin A nephropathy (IgAN). Gene expression profiles GSE37460, GSE93798 and GSE104948 were analyzed using biological informatics methods to identify differentially expressed genes (DEGs)...
| Main Authors: | , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
PeerJ Inc.
2019-07-01
|
| Series: | PeerJ |
| Subjects: | |
| Online Access: | https://peerj.com/articles/7067.pdf |
| _version_ | 1827611239377797120 |
|---|---|
| author | Mohammed Khamis Miraji Yichun Cheng Shuwang Ge Gang Xu |
| author_facet | Mohammed Khamis Miraji Yichun Cheng Shuwang Ge Gang Xu |
| author_sort | Mohammed Khamis Miraji |
| collection | DOAJ |
| description | The current study is aimed to explore the specific genes which are responsible for the manifestation of Immunoglobulin A nephropathy (IgAN). Gene expression profiles GSE37460, GSE93798 and GSE104948 were analyzed using biological informatics methods to identify differentially expressed genes (DEGs) in IgAN glomeruli samples which were then compared to normal control samples. Subsequently, the DEGs were overlapped to explore genes with significant expression in at least two profiles. Finally, the enrichment analysis was conducted and the protein-protein interaction (PPI) network was constructed for the overlapping DEGs. A total of 28 genes were up-regulated and 10 genes were down-regulated. The up-regulated genes including CD44 and FN1 were chiefly involved in extracellular matrix receptors interaction pathway. In addition, CX3CR1 and CCL4 were associated with chemokine signaling pathway. ITGB2, PTPRC, FN1, and FCER1G were hub genes with a high degree of interaction in the PPI network. Therefore, this study identified many significant genes associated with extracellular matrix expansion and inflammatory mechanism which may be the novel biomarker and target candidates in IgAN. |
| first_indexed | 2024-03-09T08:04:09Z |
| format | Article |
| id | doaj.art-17354213801847c580cd385baee3e870 |
| institution | Directory Open Access Journal |
| issn | 2167-8359 |
| language | English |
| last_indexed | 2024-03-09T08:04:09Z |
| publishDate | 2019-07-01 |
| publisher | PeerJ Inc. |
| record_format | Article |
| series | PeerJ |
| spelling | doaj.art-17354213801847c580cd385baee3e8702023-12-03T00:25:14ZengPeerJ Inc.PeerJ2167-83592019-07-017e706710.7717/peerj.7067Identification of primary genes in glomeruli compartment of immunoglobulin A nephropathy by bioinformatic analysisMohammed Khamis MirajiYichun ChengShuwang GeGang XuThe current study is aimed to explore the specific genes which are responsible for the manifestation of Immunoglobulin A nephropathy (IgAN). Gene expression profiles GSE37460, GSE93798 and GSE104948 were analyzed using biological informatics methods to identify differentially expressed genes (DEGs) in IgAN glomeruli samples which were then compared to normal control samples. Subsequently, the DEGs were overlapped to explore genes with significant expression in at least two profiles. Finally, the enrichment analysis was conducted and the protein-protein interaction (PPI) network was constructed for the overlapping DEGs. A total of 28 genes were up-regulated and 10 genes were down-regulated. The up-regulated genes including CD44 and FN1 were chiefly involved in extracellular matrix receptors interaction pathway. In addition, CX3CR1 and CCL4 were associated with chemokine signaling pathway. ITGB2, PTPRC, FN1, and FCER1G were hub genes with a high degree of interaction in the PPI network. Therefore, this study identified many significant genes associated with extracellular matrix expansion and inflammatory mechanism which may be the novel biomarker and target candidates in IgAN.https://peerj.com/articles/7067.pdfGene expression profilingImmunoglobulin A NephropathyProtein–protein interactionDown-regulationUp-regulation |
| spellingShingle | Mohammed Khamis Miraji Yichun Cheng Shuwang Ge Gang Xu Identification of primary genes in glomeruli compartment of immunoglobulin A nephropathy by bioinformatic analysis PeerJ Gene expression profiling Immunoglobulin A Nephropathy Protein–protein interaction Down-regulation Up-regulation |
| title | Identification of primary genes in glomeruli compartment of immunoglobulin A nephropathy by bioinformatic analysis |
| title_full | Identification of primary genes in glomeruli compartment of immunoglobulin A nephropathy by bioinformatic analysis |
| title_fullStr | Identification of primary genes in glomeruli compartment of immunoglobulin A nephropathy by bioinformatic analysis |
| title_full_unstemmed | Identification of primary genes in glomeruli compartment of immunoglobulin A nephropathy by bioinformatic analysis |
| title_short | Identification of primary genes in glomeruli compartment of immunoglobulin A nephropathy by bioinformatic analysis |
| title_sort | identification of primary genes in glomeruli compartment of immunoglobulin a nephropathy by bioinformatic analysis |
| topic | Gene expression profiling Immunoglobulin A Nephropathy Protein–protein interaction Down-regulation Up-regulation |
| url | https://peerj.com/articles/7067.pdf |
| work_keys_str_mv | AT mohammedkhamismiraji identificationofprimarygenesinglomerulicompartmentofimmunoglobulinanephropathybybioinformaticanalysis AT yichuncheng identificationofprimarygenesinglomerulicompartmentofimmunoglobulinanephropathybybioinformaticanalysis AT shuwangge identificationofprimarygenesinglomerulicompartmentofimmunoglobulinanephropathybybioinformaticanalysis AT gangxu identificationofprimarygenesinglomerulicompartmentofimmunoglobulinanephropathybybioinformaticanalysis |