MiR-595 and Cldnd1: Potential related factors for bone loss in postmenopausal women with hip osteoporotic fracture.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:39739707", "kind": "science-record", "revision": 2, "content_hash": "sha256:e7860dac3ef158d9bea52d04b899d380545fb37f976d7509a9399ac7be051b52", "created_at": "2026-11-01T20:30:04Z", "updated_at": "2026-11-01T21:34:38Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "MiR-595 and Cldnd1: Potential related factors for bone loss in postmenopausal women with hip osteoporotic fracture.", "doi": "10.1371/journal.pone.0313106", "pmid": "39739707", "authors": ["Sun Jingyue", "Liu Peixin", "Wang Xiao"], "journal": "PloS one", "year": 2024, "abstract": "BACKGROUND: Recently researches have reported that miRNA and its target genes are associated with osteoporosis. MiRNA and mRNA might be potential diagnostic markers for osteoporosis.\nPURPOSES: The aim of this study is to explore the potential miRNA and mRNA markers by bioinformatics method and clinical analysis.\nPATIENTS AND METHODS: The miRNA expression profiles were obtained from GSE74209, GSE64433 and GSE115773 in Gene expression Omnibus (GEO). The mRNA expression profiles were obtained from GSE100609. Wayne intersection were used to explore the different expressed miRNAs (DE-miRs). Select the miRNA with the highest Fold Change for subsequent research. Screening of miRNA target genes using TargetScan and miRDB tools. GO and KEGG analyses of target genes (TGs) function were performed. Validate the selected TGs in the GSE100609. We collected female patients with femural intertrochanteric fractures from July 1, 2023 to October 31, 2023. Patient's bone marrow and clinical data were collected. MiRNA and the target mRNA differentially expressed in bone marrow were verified through RT-qPCR. All data were subjected to Shapiro-Wilk test. Using Pearson or Spearman test to detect the correlation between various indicators, and then incorporating indicators related to bone density into multiple linear regression equations. Partial correlation analysis was used to analyze the correlation between the final indicators and bone density.\nRESULTS: A total of 140 DE-miRs were identified. Set the fold change to \">1\" and ultimately include 5 miRNAs. Using miR-595 (highest |log2 FC|) as the subject of subsequent research. 3542 targeted mRNAs were predicted from TargetScan and 362 were from miRDB. 337 TGs were intersected, which were mainly enriched in nucleus. Only Cldnd1 were identified using the GSE100609 dataset. We found that miR-595 was highly expressed in patients with high bone mass, while Cldnd1 was downregulated. There was a strong collinearity between miR-595 and Cldnd1. Further multiple linear regression analysis showed a high correlation between miR-595 and bone density.\nCONCLUSIONS: These data suggest that miR-595 and Cldnd1 might be related factors for decreased bone mass.", "claims": [{"id": "claim-method", "statement": "Finally, partial correlation analysis was used to detect the correlation between miRNA and BMD.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:39739707", "locator": "sections[10] \"Statistical analysis\" paragraph 2", "quote": "Finally, partial correlation analysis was used to detect the correlation between miRNA and BMD."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The relevant PMO datasets, GSE74209, GSE64433, GSE115773 and GSE100609, were downloaded from the GEO database (detailed information in S1–S4 Files). GSE74209, consists of miRNAs data corresponding to Homo sapiens, with 6 femoral neck trabecular bone obtained from postmenopausal women undergoing hip replacement due to osteoporotic fracture, and 6 form osteoarthritis in the absence of PMO.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:39739707", "locator": "sections[3] \"Data collection\" paragraph 2", "quote": "The relevant PMO datasets, GSE74209, GSE64433, GSE115773 and GSE100609, were downloaded from the GEO database (detailed information in S1–S4 Files). GSE74209, consists of miRNAs data corresponding to Homo sapiens, with 6 femoral neck trabecular bone obtained from postmenopausal women undergoing hip replacement due to osteoporotic fracture, and 6 form osteoarthritis in the absence of PMO."}], "state": "complete"}, {"id": "claim-target-result", "statement": "After adjustment for age, miR-595 was strongly and positively correlated with bone mineral density, with a correlation coefficient of 0.953 (p<0.001).", "kind": "quantitative", "target": {"value": 0.001, "unit": "p-value", "tolerance": null, "source": "The correlation coefficient was 0.953, p<0.001, indicating that miR-595 might be a related factor for BMD decline."}, "evidence": [{"asset": "source:pmid:39739707", "locator": "sections[15] \"Correlation analysis\" paragraph 2", "quote": "The correlation coefficient was 0.953, p<0.001, indicating that miR-595 might be a related factor for BMD decline."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "After adjustment for age, miR-595 was strongly and positively correlated with bone mineral density, with a correlation coefficient of 0.953 (p<0.001).", "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:39739707"], "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. This lane did not download the dataset or read its licence.", "duration_hours": null, "parameters": {}, "inputs": ["data:geo:GSE100609"], "outputs": ["the source data with its repository provenance"], "instruments": [], "reagents": []}, {"id": "run_analysis", "order": 3, "name": "Run the published analysis", "kind": "analysis", "state": "complete", "blocked_on": null, "description": "Apply the paper's statistical method to the resolved series and compare the result with the published target.", "duration_hours": null, "parameters": {}, "inputs": ["data:geo:GSE100609"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:39739707", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.1371/journal.pone.0313106", "sha256": "sha256:b2a9df0a4a2aaaa55e65308cf5e3e169b2bec691d9f1c182641eeff944fd3889", "bytes": 26283, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "10.1371/journal.pone.0313106", "version": null, "note": "Full article fetched from PMC; the checksum covers the rendered section body, not the original XML bytes.", "structure": {"pmcid": "PMC11687715", "source": "europe_pmc_fulltext", "coverage": "whole_body_without_references", "text_hash_scope": "rendered_section_body"}}, {"id": "data:geo:GSE100609", "role": "raw", "format": "geo-series", "media_type": "application/vnd.ncbi.geo-series+json", "uri": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE100609", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE100609", "version": null, "note": "The relevant PMO datasets, GSE74209, GSE64433, GSE115773 and GSE100609, were downloaded from the GEO database (detailed information in S1–S4 Files). 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GSE74209, consists of miRNAs data corresponding to Homo sapiens, with 6 femoral neck trabecular bone obtained from postmenopausal women undergoing hip replacement due to osteoporotic fracture, and 6 form osteoarthritis in the absence of PMO.", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "The relevant PMO datasets, GSE74209, GSE64433, GSE115773 and GSE100609, were downloaded from the GEO database (detailed information in S1–S4 Files). 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