Integrative analysis reveals the potential prognostic roles and immunological values of unc-5 netrin receptor A (UNC5A) in glioma.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:39039366", "kind": "science-record", "revision": 2, "content_hash": "sha256:7cc75fc5189080218eded81db6610d4ce724287d581fcde27f6aeacead7f95c5", "created_at": "2026-11-01T20:29:06Z", "updated_at": "2026-11-01T21:33:30Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Integrative analysis reveals the potential prognostic roles and immunological values of unc-5 netrin receptor A (UNC5A) in glioma.", "doi": "10.1007/s12672-024-01174-y", "pmid": "39039366", "authors": ["Wenbo Qian", "Lei Zhang", "Fenglin Zhang", "Jingliang Ye", "Zhiping Wan", "Huairui Chen", "Chun Luo"], "journal": "Discover oncology", "year": 2024, "abstract": "BACKGROUND: UNC5A had been reported to play crucial roles in multiple cancers. However, little was known about the associations among UNC5A and glioma. Therefore, we first combined scRNA-seq, proteomics, as well as bulk RNA-seq in order to investigate UNC5A's functions in gliomas.\nMETHODS: Online databases provided scRNA-seq, proteomics, as well as bulk RNA-seq data on UNC5A in gliomas. The following procedures were conducted in order: QRT-PCR, Norman chart, gene set enrichment analysis (GSEA), and univariate/multifactor Cox regression analyses. We further explored the associations among UNC5A and tumor immunity.\nRESULTS: By comparing gliomas with normal tissues, the TCGA dataset showed a significantly reduced expression of UNC5A, which was also confirmed by GSE50161, GSE4290, and QRT-PCR findings (p < 0.05). In both the TCGA and CGGA datasets, gliomas patients with low-UNC5A expression would have poorer overall survival (OS) prognoses (p < 0.05). ScRNA-seq analysis by the CancerSEA online website presented that UNC5A had a low expression in various glioma clusters and significantly associated with six functional states. Moreover, UNC5A might be a reliable independent biomarker of OS in gliomas patients (p < 0.05). Based on the results of GSEA, UNC5A might be connected to three significant pathways in gliomas. We also successfully created a Norman chart to assess the OS prognoses of these patients. Additionally, in aspects of tumor immunity, the infiltration levels of immune cells in LGG, the immune cell pathways, tumor immune microenvironment, as well as immune checkpoints in both LGG and GBM were revealed to be significantly influenced by UNC5A (p < 0.05).\nCONCLUSIONS: UNC5A was found to have prognostic and immunological significance in gliomas, offering patients with gliomas new treatment options.", "claims": [{"id": "claim-method", "statement": "According to the expression of UNC5A and several clinicopathological factors, univariate and multivariate Cox risk analyses were conducted to identify independent biofactors for overall survival (OS) in gliomas, with a threshold of P value below 0.05 [17], and the Norman chart was also constructed to assess the OS prognosis in glioma patients, evaluating it by calibration plots, C-index, and ROC curves using the R “rms” package [18].", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:39039366", "locator": "sections[6] \"Univariate/multivariate analysis, Norman chart construction and Gene set enrichment analysis\" paragraph 2", "quote": "According to the expression of UNC5A and several clinicopathological factors, univariate and multivariate Cox risk analyses were conducted to identify independent biofactors for overall survival (OS) in gliomas, with a threshold of P value below 0.05 [17], and the Norman chart was also constructed to assess the OS prognosis in glioma patients, evaluating it by calibration plots, C-index, and ROC curves using the R “rms” package [18]."}], "state": "complete"}, {"id": "claim-data-access", "statement": "RNA-sequencing data were downloaded from Chinese Glioma Genome Atlas (CGGA, https://www.cgga.org.cn) and verified in The Cancer Genome Atlas (TCGA, https://cancergenome.nih.gov/). All data supporting the findings of this study were available from the corresponding author upon reasonable request.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:39039366", "locator": "sections[23] \"Availability of data and materials\" paragraph 2", "quote": "RNA-sequencing data were downloaded from Chinese Glioma Genome Atlas (CGGA, https://www.cgga.org.cn) and verified in The Cancer Genome Atlas (TCGA, https://cancergenome.nih.gov/). All data supporting the findings of this study were available from the corresponding author upon reasonable request."}], "state": "complete"}, {"id": "claim-target-result", "statement": "UNC5A was found to have prognostic and immunological significance in gliomas, offering patients with gliomas new treatment options.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:39039366", "locator": "sections[0] \"Abstract\" paragraph 4", "quote": "UNC5A was found to have prognostic and immunological significance in gliomas, offering patients with gliomas new treatment options."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "UNC5A was found to have prognostic and immunological significance in gliomas, offering patients with gliomas new treatment options.", "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:39039366"], "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:GSE4290"], "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:GSE4290"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:39039366", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.1007/s12672-024-01174-y", "sha256": "sha256:16140208c8ae2370571ab678b1657c19742caf055d91ce185db8e1e7b9d1678e", "bytes": 38728, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "10.1007/s12672-024-01174-y", "version": null, "note": "Full article fetched from PMC; the checksum covers the rendered section body, not the original XML bytes.", "structure": {"pmcid": "PMC11263319", "source": "europe_pmc_fulltext", "coverage": "whole_body", "text_hash_scope": "rendered_section_body"}}, {"id": "data:geo:GSE4290", "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=GSE4290", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE4290", "version": null, "note": "RNA-sequencing data were downloaded from Chinese Glioma Genome Atlas (CGGA, https://www.cgga.org.cn) and verified in The Cancer Genome Atlas (TCGA, https://cancergenome.nih.gov/). 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The physical bench the paper used is not, so a physical validation cannot be run here."}, "data": {"tier": "R1", "reachable": true, "accessions": ["GSE4290", "GSE50161"], "resolved_accessions": ["GSE4290", "GSE50161"], "statements": ["RNA-sequencing data were downloaded from Chinese Glioma Genome Atlas (CGGA, https://www.cgga.org.cn) and verified in The Cancer Genome Atlas (TCGA, https://cancergenome.nih.gov/). All data supporting the findings of this study were available from the corresponding author upon reasonable request."], "basis": "The paper names GSE4290, GSE50161 in Gene Expression Omnibus and the accession resolves in the repository. 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Therefore, we first combined scRNA-seq, proteomics, as well as bulk RNA-seq in orde", "gliomas. METHODS: Online databases provided scRNA-seq, proteomics, as well as bulk RNA-seq data on", "overall survival (OS) prognoses (p < 0.05). ScRNA-seq analysis by the CancerSEA online website pre"], "order_basis": "paper_text_order:267", "id": "assay:1"}, {"role": "data_generation", "definition_id": "rna_seq", "definition_version": "99e1195c7d6f", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"assay_lexicon": "99e1195c7d6f"}, "confidence": 0.99, "evidence": ["bined scRNA-seq, proteomics, as well as bulk RNA-seq in order to investigate UNC5A's functions in", "vided scRNA-seq, proteomics, as well as bulk RNA-seq data on UNC5A in gliomas. The following proc", "d methods Availability of data and materials RNA-sequencing data were downloaded from Chinese Glioma Gen"], "order_basis": "paper_text_order:306", "id": "assay:2"}, {"role": "analysis", "definition_id": "survival_analysis", "definition_version": "f2132e96ae6c7a4e", "definition_digest": null, "required_operations": ["cox_ph"], "support_state": "supported", "source_hashes": {"dsl_catalogue": "f2132e96ae6c7a4e"}, "confidence": 0.7, "evidence": ["Cox regression"], "order_basis": "consumes_earlier_output", "id": "assay:3"}]}