Analysis and Validation of Hub Genes in Blood Monocytes of Postmenopausal Osteoporosis Patients.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:35095774", "kind": "science-record", "revision": 5, "content_hash": "sha256:755563eb08c9ad5c34e6542a54899172886b9256924b9bcdfd0a4ad57ffc81b2", "created_at": "2026-11-01T17:36:49Z", "updated_at": "2026-11-01T22:05:42Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Analysis and Validation of Hub Genes in Blood Monocytes of Postmenopausal Osteoporosis Patients.", "doi": "10.3389/fendo.2021.815245", "pmid": "35095774", "authors": ["Yi-Xuan Deng", "Wen-Ge He", "Hai-Jun Cai", "Jin-Hai Jiang", "Yuan-Yuan Yang", "Yan-Rong Dan", "Hong-Hong Luo", "Yu Du", "Liang Chen", "Bai-Cheng He"], "journal": "Frontiers in endocrinology", "year": 2021, "abstract": "Osteoporosis is a common systemic bone disease caused by the imbalance between osteogenic activity and osteoclastic activity. Aged women are at higher risk of osteoporosis, partly because of estrogen deficiency. However, the underlying mechanism of how estrogen deficiency affects osteoclast activity has not yet been well elucidated. In this study, GSE2208 and GSE56815 datasets were downloaded from GEO database with 25 PreH BMD women and 25 PostL BMD women in total. The RRA algorithm determined 38 downregulated DEGs and 30 upregulated DEGs. Through GO analysis, we found that downregulated DEGs were mainly enriched in myeloid cell differentiation, cytokine-related functions while upregulated DEGs enriched in immune-related biological processes; pathways like Notch signaling and MAPK activation were found in KEGG/Rectome pathway database; a PPI network which contains 66 nodes and 91 edges was constructed and three Modules were obtained by Mcode; Correlation analysis helped us to find highly correlated genes in each module. Moreover, three hub genes FOS, PTPN6, and CTSD were captured by Cytohubba. Finally, the hub genes were further confirmed in blood monocytes of ovariectomy (OVX) rats by real-time PCR assay. In conclusion, the integrative bioinformatics analysis and real-time PCR analysis were utilized to offer fresh light into the role of monocytes in premenopausal osteoporosis and identified FOS, PTPN6, and CTSD as potential biomarkers for postmenopausal osteoporosis.", "claims": [{"id": "claim-method", "statement": "“Robust Rank Aggregation” package (24), which could effectively reduce the errors by integrating the DEGs of these two microarray datasets and correcting for multiple times, was used to screen the robust DEGs.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:35095774", "locator": "sections[5] \"RRA Analysis\" paragraph 2", "quote": "“Robust Rank Aggregation” package (24), which could effectively reduce the errors by integrating the DEGs of these two microarray datasets and correcting for multiple times, was used to screen the robust DEGs."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The datasets presented in this study can be found in online repositories. The names of the repository/repositories and accession number(s) can be found in the article/ Supplementary Material .", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:35095774", "locator": "sections[22] \"Data Availability Statement\" paragraph 2", "quote": "The datasets presented in this study can be found in online repositories. The names of the repository/repositories and accession number(s) can be found in the article/ Supplementary Material ."}], "state": "complete"}, {"id": "claim-target-result", "statement": "Finally, 38 DEGs that were downregulated and 30 DEGs that were upregulated were found.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:35095774", "locator": "sections[15] \"Identification of Robust DEGs Between Premenopausal High BMD and Postmenopausal Low BMD\" paragraph 2", "quote": "Finally, 38 DEGs that were downregulated and 30 DEGs that were upregulated were found."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "Finally, 38 DEGs that were downregulated and 30 DEGs that were upregulated were found.", "steps": [{"id": "read_published_estimate", "order": 1, "name": "Read the published estimate from the source", "kind": "other", "state": "complete", "blocked_on": null, "description": "The claim, method and evidence span published with the source article.", "duration_hours": null, "parameters": {}, "inputs": ["source:pmid:35095774"], "outputs": ["the published estimate and its evidence"], "instruments": [], "reagents": []}, {"id": "obtain_source_data", "order": 2, "name": "Obtain the source data from the named repository", "kind": "data-preparation", "state": "complete", "blocked_on": null, "description": "The GEO series accession resolves and its sample accessions are listed. 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