Systematic identification of potential key microRNAs and circRNAs in the dorsal root ganglia of mice with sciatic nerve injury.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:36998510", "kind": "science-record", "revision": 4, "content_hash": "sha256:7e474c774aa1fcb615a5fb8e79fb1cd94e049e759e02300c7bf664e8d2b8f186", "created_at": "2026-11-01T19:01:39Z", "updated_at": "2026-11-01T22:51:36Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Systematic identification of potential key microRNAs and circRNAs in the dorsal root ganglia of mice with sciatic nerve injury.", "doi": "10.3389/fnmol.2023.1119164", "pmid": "36998510", "authors": ["Youfen Yu", "Xueru Xu", "Chun Lin", "Rongguo Liu"], "journal": "Frontiers in molecular neuroscience", "year": 2023, "abstract": "Background: Neuropathic pain (NeP) is a pathological condition arising from a lesion or disease affecting the somatosensory system. Accumulating evidence has shown that circular RNAs (circRNAs) exert critical functions in neurodegenerative diseases by sponging microRNAs (miRNAs). However, the functions and regulatory mechanisms of circRNAs as competitive endogenous RNAs (ceRNAs) in NeP remain to be determined.\nMethods: The sequencing dataset GSE96051 was obtained from the public Gene Expression Omnibus (GEO) database. First, we conducted a comparison of gene expression profiles in the L3/L4 dorsal root ganglion (DRG) of sciatic nerve transection (SNT) mice (n = 5) and uninjured mice (Control) (n = 4) to define the differentially expressed genes (DEGs). Then, critical hub genes were screened by exploring protein-protein interaction (PPI) networks with Cytoscape software, and the miRNAs bound to them were predicted and selected and then validated by qRT-PCR. Furthermore, key circRNAs were predicted and filtered, and the network of circRNA-miRNA-mRNA in NeP was constructed.\nResults: A total of 421 DEGs were identified, including 332 upregulated genes and 89 downregulated genes. Ten hub genes, including IL6, Jun, Cd44, Timp1, and Csf1, were identified. Two miRNAs, mmu-miR-181a-5p and mmu-miR-223-3p, were preliminarily verified as key regulators of NeP development. In addition, circARHGAP5 and circLPHN3 were identified as key circRNAs. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis demonstrated that these differentially expressed mRNAs and targeting miRNAs were involved in signal transduction, positive regulation of receptor-mediated endocytosis and regulation of neuronal synaptic plasticity. These findings have useful implications for the exploration of new mechanisms and therapeutic targets for NeP.\nConclusion: These newly identified miRNAs and circRNAs in networks reveal potential diagnostic or therapeutic targets for NeP.", "claims": [{"id": "claim-method", "statement": "Then, differential expression genes (DEGs) analysis was performed for the “SNT” group versus the “Control” group with the use of the limma R package.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:36998510", "locator": "sections[3] \"Data source and DEGs definition\" paragraph 2", "quote": "Then, differential expression genes (DEGs) analysis was performed for the “SNT” group versus the “Control” group with the use of the limma R package."}], "state": "complete"}, {"id": "claim-data-access", "statement": "Publicly available datasets were analyzed in this study. This data can be found at: https://www.ncbi.nlm.nih.gov/gds, and accession number is GSE96051.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:36998510", "locator": "sections[26] \"Data availability statement\" paragraph 2", "quote": "Publicly available datasets were analyzed in this study. This data can be found at: https://www.ncbi.nlm.nih.gov/gds, and accession number is GSE96051."}], "state": "complete"}, {"id": "claim-target-result", "statement": "The study identified 421 differentially expressed genes, 10 hub genes, 2 key miRNAs, and 2 key circRNAs, and constructed a circRNA-miRNA-mRNA ceRNA network for neuropathic pain.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:36998510", "locator": "sections[0] \"Abstract\" paragraph 3", "quote": "A total of 421 DEGs were identified, including 332 upregulated genes and 89 downregulated genes."}, {"asset": "source:pmid:36998510", "locator": "sections[0] \"Abstract\" paragraph 3", "quote": "Ten hub genes, including IL6, Jun, Cd44, Timp1, and Csf1, were identified."}, {"asset": "source:pmid:36998510", "locator": "sections[0] \"Abstract\" paragraph 3", "quote": "Two miRNAs, mmu-miR-181a-5p and mmu-miR-223-3p, were preliminarily verified as key regulators of NeP development."}, {"asset": "source:pmid:36998510", "locator": "sections[0] \"Abstract\" paragraph 3", "quote": "In addition, circARHGAP5 and circLPHN3 were identified as key circRNAs."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "The study identified 421 differentially expressed genes, 10 hub genes, 2 key miRNAs, and 2 key circRNAs, and constructed a circRNA-miRNA-mRNA ceRNA network for neuropathic pain.", "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:36998510"], "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:GSE96051"], "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:GSE96051"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:36998510", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.3389/fnmol.2023.1119164", "sha256": "sha256:593af0a132bec7652734660034cef10575a1d536479c92010c8892955471ef72", "bytes": 52301, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "10.3389/fnmol.2023.1119164", "version": null, "note": "Full article fetched from PMC; the checksum covers the rendered section body, not the original XML bytes.", "structure": {"pmcid": "PMC10043392", "source": "europe_pmc_fulltext", "coverage": "whole_body", "text_hash_scope": "rendered_section_body"}}, {"id": "data:geo:GSE96051", "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=GSE96051", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE96051", "version": null, "note": "Publicly available datasets were analyzed in this study. 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