Analysis of key lncRNA related to Parkinson's disease based on gene co-expression weight networks.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:39800420", "kind": "science-record", "revision": 3, "content_hash": "sha256:e05d7e726e76aef8a221aaa8b3ba4b22445b275893f2809da9cc71c6748a759a", "created_at": "2026-11-01T20:30:06Z", "updated_at": "2026-11-01T22:13:31Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Analysis of key lncRNA related to Parkinson's disease based on gene co-expression weight networks.", "doi": "10.17712/nsj.2025.1.20230112", "pmid": "39800420", "authors": ["Wenwen Liang", "Wei Zhao", "Binghan Li", "Jiaying Luo", "Xuemei Li", "Weihua Jia"], "journal": "Neurosciences (Riyadh, Saudi Arabia)", "year": 2025, "abstract": "OBJECTIVES: To identify a key Long chain non-coding RNAs (lncRNAs) related to PD and provide a new perspective on the role of LncRNAs in Parkinson's disease (PD) pathophysiology.\nMETHODS: Our study involved analyzing gene chips from the substantia nigra and white blood cells, both normal and PD-inclusive, in the Gene Expression Omnibus (GEO) database, utilizing a weighted gene co-expression network analysis (WGCNA). The technique of WGCNA facilitated the examination of differentially expressed genes (DEGs) in the substantia nigra and the white blood cells of individuals with PD. When merged with clinical data, gene modules containing crucial clinical details were chosen for network integration in GO and KEGG enrichment analysis.\nRESULTS: A pair of LncRNA modules were identified. The crucial component in GSE7621 was the turquoise module. The DEGs were acquired using GSE133347. GO functions focused on phosphatidylinositol phosphate binding, inflammatory responses, and the regulation of nerves and synapses. KEGG analyses were largely enriched within the P13K-Akt, FaxO, mTOR, Oxytocin, and cGMP-PKG signaling pathways. A Venn diagram revealed that the two key LncRNA were CH17-189H20.1 and RP11-168O16.1.\nCONCLUSION: Using the WGCNA method, we obtained PD-related modules, identified biologically significant gene modules, obtained core LncRNAs, and found potential target genes for enrichment analysis. The objective of our research was to advance more detailed and efficient treatment methods for lncRNAs associated with PD.", "claims": [{"id": "claim-method", "statement": "The GSE7621 data set was analyzed using the WGCNA algorithm.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:39800420", "locator": "sections[16] \"Construction of weighted gene co-expression networks\" paragraph 2", "quote": "The GSE7621 data set was analyzed using the WGCNA algorithm."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The GSE7621 dataset represented post-morbid substantia nigra tissue information from patients with PD.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:39800420", "locator": "sections[7] \"Data Sources\" paragraph 2", "quote": "The GSE7621 dataset represented post-morbid substantia nigra tissue information from patients with PD."}], "state": "complete"}, {"id": "claim-target-result", "statement": "WGCNA and intersection with differentially expressed genes identified CH17-189H20.1 and RP11-168O16.1 as two key lncRNAs associated with Parkinson's disease.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:39800420", "locator": "sections[0] \"Abstract\" paragraph 3", "quote": "A Venn diagram revealed that the two key LncRNA were CH17-189H20.1 and RP11-168O16.1."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "WGCNA and intersection with differentially expressed genes identified CH17-189H20.1 and RP11-168O16.1 as two key lncRNAs associated with Parkinson's disease.", "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:39800420"], "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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