Bioinformatics analysis of gene expression profiles in B cells of postmenopausal osteoporosis patients
Objective: The aim of this study was to gain a better understanding of the molecular mechanisms and identify more critical genes associated with the pathogenesis of postmenopausal osteoporosis (PMOP). Materials and Methods: Microarray data of GSE13850 were download from the Gene Expression Omnibus d...
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| Format: | Article |
| Language: | English |
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Elsevier
2017-04-01
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| Series: | Taiwanese Journal of Obstetrics & Gynecology |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S1028455917300086 |
| _version_ | 1818906339680714752 |
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| author | Min Ma Shulin Luo Wei Zhou Liangyu Lu Junfeng Cai Feng Yuan Feng Yin |
| author_facet | Min Ma Shulin Luo Wei Zhou Liangyu Lu Junfeng Cai Feng Yuan Feng Yin |
| author_sort | Min Ma |
| collection | DOAJ |
| description | Objective: The aim of this study was to gain a better understanding of the molecular mechanisms and identify more critical genes associated with the pathogenesis of postmenopausal osteoporosis (PMOP).
Materials and Methods: Microarray data of GSE13850 were download from the Gene Expression Omnibus database. Differentially expressed genes (DEGs) were identified either in B cells from postmenopausal female nonsmokers with high bone mineral density (BMD) compared with those with low BMD (defined as DEG1 group) or in B cells from postmenopausal female smokers with high BMD compared with postmenopausal female nonsmokers with high BMD (defined as DEG2 group). Gene ontology and immune-related functional enrichment analysis of DEGs were performed. Additionally, the protein–protein interaction network of all DEGs was constructed and subnetworks of the hub genes were extracted.
Results: A total of 51 DEGs were identified in the DEG1 group, including 30 up- and 21 downregulated genes. Besides, 86 DEGs were identified in the DEG2 group, of which 46 were upregulated and 40 were downregulated. Immune enrichment analysis showed DEGs were mainly enriched in functions of CD molecules and chemokines and receptor, and the upregulated gene interleukin 4 receptor (IL-4R) was significantly enriched. Moreover, guanine nucleotide-binding protein G (GNAI2), filamin A alpha (FLNA), and transforming growth factor-β1 (TGFB1) were hub proteins in the protein–protein interaction network.
Conclusion: IL-4R, GNAI2, FLNA, and TGFB1 may be potential target genes associated with the pathogenesis of PMOP. In particular, FLNA, and TGFB1 may be affected by smoking, a risk factor of PMOP. |
| first_indexed | 2024-12-19T21:37:40Z |
| format | Article |
| id | doaj.art-0e5687838c16465d94b638856651eef0 |
| institution | Directory Open Access Journal |
| issn | 1028-4559 |
| language | English |
| last_indexed | 2024-12-19T21:37:40Z |
| publishDate | 2017-04-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Taiwanese Journal of Obstetrics & Gynecology |
| spelling | doaj.art-0e5687838c16465d94b638856651eef02022-12-21T20:04:44ZengElsevierTaiwanese Journal of Obstetrics & Gynecology1028-45592017-04-0156216517010.1016/j.tjog.2016.04.038Bioinformatics analysis of gene expression profiles in B cells of postmenopausal osteoporosis patientsMin MaShulin LuoWei ZhouLiangyu LuJunfeng CaiFeng YuanFeng YinObjective: The aim of this study was to gain a better understanding of the molecular mechanisms and identify more critical genes associated with the pathogenesis of postmenopausal osteoporosis (PMOP). Materials and Methods: Microarray data of GSE13850 were download from the Gene Expression Omnibus database. Differentially expressed genes (DEGs) were identified either in B cells from postmenopausal female nonsmokers with high bone mineral density (BMD) compared with those with low BMD (defined as DEG1 group) or in B cells from postmenopausal female smokers with high BMD compared with postmenopausal female nonsmokers with high BMD (defined as DEG2 group). Gene ontology and immune-related functional enrichment analysis of DEGs were performed. Additionally, the protein–protein interaction network of all DEGs was constructed and subnetworks of the hub genes were extracted. Results: A total of 51 DEGs were identified in the DEG1 group, including 30 up- and 21 downregulated genes. Besides, 86 DEGs were identified in the DEG2 group, of which 46 were upregulated and 40 were downregulated. Immune enrichment analysis showed DEGs were mainly enriched in functions of CD molecules and chemokines and receptor, and the upregulated gene interleukin 4 receptor (IL-4R) was significantly enriched. Moreover, guanine nucleotide-binding protein G (GNAI2), filamin A alpha (FLNA), and transforming growth factor-β1 (TGFB1) were hub proteins in the protein–protein interaction network. Conclusion: IL-4R, GNAI2, FLNA, and TGFB1 may be potential target genes associated with the pathogenesis of PMOP. In particular, FLNA, and TGFB1 may be affected by smoking, a risk factor of PMOP.http://www.sciencedirect.com/science/article/pii/S1028455917300086differentially expressed genesgene ontologypostmenopausal osteoporosissmoking |
| spellingShingle | Min Ma Shulin Luo Wei Zhou Liangyu Lu Junfeng Cai Feng Yuan Feng Yin Bioinformatics analysis of gene expression profiles in B cells of postmenopausal osteoporosis patients Taiwanese Journal of Obstetrics & Gynecology differentially expressed genes gene ontology postmenopausal osteoporosis smoking |
| title | Bioinformatics analysis of gene expression profiles in B cells of postmenopausal osteoporosis patients |
| title_full | Bioinformatics analysis of gene expression profiles in B cells of postmenopausal osteoporosis patients |
| title_fullStr | Bioinformatics analysis of gene expression profiles in B cells of postmenopausal osteoporosis patients |
| title_full_unstemmed | Bioinformatics analysis of gene expression profiles in B cells of postmenopausal osteoporosis patients |
| title_short | Bioinformatics analysis of gene expression profiles in B cells of postmenopausal osteoporosis patients |
| title_sort | bioinformatics analysis of gene expression profiles in b cells of postmenopausal osteoporosis patients |
| topic | differentially expressed genes gene ontology postmenopausal osteoporosis smoking |
| url | http://www.sciencedirect.com/science/article/pii/S1028455917300086 |
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