Comparisons of gene expression between peripheral blood mononuclear cells and bone tissue in osteoporosis
Open accessAbstract
Osteoporosis (OP) is one of the major public health problems in the world. However, the biomarkers between the peripheral blood mononuclear cells (PBMs) and bone tissue for prognosis of OP have not been well characterized. This study aimed to explore the similarities and differences of the gene expression profiles between the PBMs and bone tissue and identify potential genes, transcription factors (TFs) and hub proteins involved in OP. The patients were enrolled as an experimental group, and healthy subjects served as normal controls. Human whole-genome expression chips were used to analyze gene expression profiles from PBMs and bone tissue. And the differentially expressed genes (DEGs) were subsequently studied using Gene Ontology and Kyoto Encyclopedia of Genes and Genomes enrichment analysis. The above DEGs were constructed into protein-protein interaction network. Finally, TF-DEGs regulation networks were constructed. Microarray analysis revealed that 226 DEGs were identified between OP and normal controls in the PBMs, while 2295 DEGs were identified in the bone tissue. And 13 common DEGs were obtained by comparing the 2 tissues. The Gene Ontology analysis indicated that DEGs in the PBMs were more involved in immune response, while DEGs in bone were more involved in renal response and urea transmembrane transport. And the Kyoto Encyclopedia of Genes and Genomes analysis indicated almost all of the pathways in the PBMs were overlapped with those in the bone tissue. Furthermore, protein-protein interaction network presented 6 hub proteins: PI3K1, APP, GNB5, FPR2, GNG13, and PLCG1. APP has been found to be associated with OP. Finally, 5 key TFs were identified by TF-DEGs regulation networks analysis (CREB1, RUNX1, STAT3, CREBBP, and GLI1) and were supposed to be associated with OP. This study enhanced our understanding of the pathogenesis of OP. PI3K1, GNB5, FPR2, GNG13, and PLCG1 might be the potential targets of OP.
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Crossing PMOP DEGs and osteoporosis genes with 298 homeobox genes found 11 potential target genes.
“we crossed differentially expressed genes from GSE230665 (RNA-Seq datasets compares PMOP bones with postmenopausal healthy bones, |logFC| > 0.8, p < 0.05)25 and osteoporosis-related genes from GeneCards database (score > 1) with 298 homeobox genes and found 11 potential target genes (Supplementary Fig. 1a).”
From Targeting Msx2 as a brake in the fusion fate of osteoclasts and an anabolic therapy in pre-clinical models of osteoporosis (2025) · cites this paper as [25]
The cited paper identifies GSE230665 as one of its publicly available datasets and reports bone-tissue DEGs between women with osteoporosis and healthy controls (Methods §§2.1–2.2; Results §3.1). But Methods §§2.2–2.3 describe microarray data, not RNA-seq, and use fold change >2.0 rather than the citing sentence’s |logFC| >0.8 cutoff. The crossing with homeobox genes and the 11 targets are presented as the citing authors’ own analysis, not as a finding attributed to this source. (LLM, conf=0.87)
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- Authors
- Xie, L., Feng, E., Li, S., Chai, H., Chen, J., Li, L., & Ge, J.
- Affiliations
- Fujian Academy of Chinese Medicine Sciences (CN)
- Fuzhou Second Hospital (CN)
- Fujian University of Traditional Chinese Medicine (CN)
- Corresponding author
- Ge, Jirong
- Venue
- Medicine
- Published
- 2023-05-19
- Volume
- 102
- Issue
- 20
- Pages
- e33829
- ISSN
- 0025-7974 (ISSN-L)
- PMC
- PMC10194530
- OpenAlex
- W4377046843
- Cited by
- 19
- References
- 45
- Citations by year
- 2026: 8 · 2025: 7 · 2024: 4
- FWCI
- 5.63
- Type
- journal article
- Language
- en
- Open access
- gold
- doi.org
- Licence
- Locations
- Medicine (publishedVersion, cc-by-nc)
- PubMed Central (publishedVersion, cc-by-nc)
- PubMed (publishedVersion)
- Funders
- National Natural Science Foundation of China (81873323, 81674007)
- Topics
- Health Sciences › Medicine › Orthopedics and Sports Medicine › Bone health and osteoporosis research
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Bone Metabolism and Diseases
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Bioinformatics and Genomic Networks
- Keywords
- osteoporosis, peripheral blood mononuclear cells, bone, gene expression profiling, differentially expressed genes, transcription factors, hub proteins, APP, formyl peptide receptor 2, phospholipase C-gamma1, CREB1, RUNX1, STAT3, CREB-binding protein, Gli1, biomarkers, protein-protein interaction network
- MeSH terms
- Bone and Bones, Genetic Markers, Humans, Leukocytes, Mononuclear, Osteoporosis, Gene Expression, Computational Biology, Gene Expression Profiling, Gene Regulatory Networks, Transcriptome
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