Lumican is a potential predictor on the efficacy of concurrent chemoradiotherapy in cervical squamous cell carcinoma.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:37483824", "kind": "science-record", "revision": 5, "content_hash": "sha256:ab3f9793a798d78dad89f5aa9ec76996edc63e09e940dc6a6681892edcc42a08", "created_at": "2026-11-01T19:02:15Z", "updated_at": "2026-11-01T22:52:22Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Lumican is a potential predictor on the efficacy of concurrent chemoradiotherapy in cervical squamous cell carcinoma.", "doi": "10.1016/j.heliyon.2023.e18011", "pmid": "37483824", "authors": ["Ge Hu", "Ying Xiao", "Chanchan Ma", "Jinyun Wang", "Xiaotao Qian", "Xiaowei Wu", "Fengqin Zhu", "Shiying Sun", "Junchao Qian"], "journal": "Heliyon", "year": 2023, "abstract": "Purpose: To identify new novel biomarkers for predicting the efficacy of concurrent chemoradiotherapy(CCRT) in cervical squamous cell carcinoma(CESC).\nMethods: Gene expression datasets GSE56363, GSE5787, and GSE168009 were analyzed to identify candidate genes to predict the efficacy of CCRT in CESC. Single-cell RNA sequencing (scRNA-seq) data from GSE168652 and CESC patients in The Cancer Genome Atlas(TCGA) were systematically analyzed to explore possible molecular mechanisms. Kaplan-Meier evaluated the correlation between LUM (Lumican) and prognostic significance. The expression of LUM protein in biopsy tissues before CCRT was detected by immunohistochemistry in 15 CESC patients.\nResults: LUM mRNA levels were significantly upregulated in nonresponders of CESC.patients receiving CCRT and positively correlated with poor therapeutic effect. Furthermore, high expression of LUM influenced the immune microenvironment in CESC patient-derived organoids treated with CCRT. LUM overexpression in CESC cells induced resistance to CCRT, potentially via immune landscape modulation. Gene Set Enrichment Analysis (GSEA) revealed that possible mechanisms underlying resistance to CCRT might involve the PARs and IL1 signaling pathway affecting the immune landscape.\nConclusions: High LUM expression is correlated with poor efficacy in CESC patients receiving CCRT, possibly through the PARs and IL1 signaling pathway affecting the immune landscape.", "claims": [{"id": "claim-method", "statement": "The DEGs were analyzed using the limma package in R. False discovery rate (FDR) < 0.05 and |log2foldchange (Log2FC)| ≥ 1 were considered the cut-off criterion.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:37483824", "locator": "sections[3] \"Data source and differential genes (DEGs) analysis\" paragraph 2", "quote": "The DEGs were analyzed using the limma package in R. False discovery rate (FDR) < 0.05 and |log2foldchange (Log2FC)| ≥ 1 were considered the cut-off criterion."}], "state": "complete"}, {"id": "claim-data-access", "statement": "Data included in article/supp. material/referenced in article.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:37483824", "locator": "sections[22] \"Data availability statement\" paragraph 2", "quote": "Data included in article/supp. material/referenced in article."}], "state": "complete"}, {"id": "claim-target-result", "statement": "High LUM expression is correlated with poor efficacy in CESC patients receiving CCRT, possibly through the PARs and IL1 signaling pathway affecting the immune landscape.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:37483824", "locator": "sections[0] \"Abstract\" paragraph 5", "quote": "High LUM expression is correlated with poor efficacy in CESC patients receiving CCRT, possibly through the PARs and IL1 signaling pathway affecting the immune landscape."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "High LUM expression is correlated with poor efficacy in CESC patients receiving CCRT, possibly through the PARs and IL1 signaling pathway affecting the immune landscape.", "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:37483824"], "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:GSE168009"], "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:GSE168009"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:37483824", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.1016/j.heliyon.2023.e18011", "sha256": 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activation of the FA/BRCA pathway in advanced squamous cervical cancer with intrinsic resistance and therapy failure", "resolution_checked_at": "2026-11-01T15:39:54Z", "resolution_check": "identifier_resolution_only_no_download_no_licence_read", "downloaded": false, "licence_read": false}}, {"id": "data:geo:GSE5787", "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=GSE5787", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE5787", "version": null, "note": "Data included in article/supp. material/referenced in article.", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "Data included in article/supp. material/referenced in article.", "access_statement_kind": "data_availability_statement", "sample_accessions": ["GSM135229", "GSM135230", 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Single-cell RNA sequencing (scRNA-seq) data from GSE168652 and CESC pat", "of CCRT in CESC. Single-cell RNA sequencing (scRNA-seq) data from GSE168652 and CESC patients in Th"], "order_basis": "paper_text_order:374", "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": ["ct the efficacy of CCRT in CESC. Single-cell RNA sequencing (scRNA-seq) data from GSE168652 and CESC pat", "g the Kaplan-Meier plotter. According to the RNA-seq expression of tumor tissues of patients in t"], "order_basis": "paper_text_order:386", "id": "assay:2"}, {"role": "data_generation", "definition_id": "ihc", "definition_version": "99e1195c7d6f", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"assay_lexicon": "99e1195c7d6f"}, "confidence": 0.99, "evidence": ["n biopsy tissues before CCRT was detected by immunohistochemistry in 15 CESC patients. Results: LUM mRNA level", "nse to CCRT in CESC patients. Representative immunohistochemical staining of LUM in CR and NCR CESC tissues.", "f LUM in decreased macrophages cells cohort. Immunostaining of LUM in CESC tissue samples The immunostai", "nostaining of LUM in CESC tissue samples The immunostaining of LUM in CESC tissue samples further suppor"], "order_basis": "paper_text_order:721", "id": "assay:3"}, {"role": "data_generation", "definition_id": "clinical_cohort", "definition_version": "99e1195c7d6f", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"assay_lexicon": "99e1195c7d6f"}, "confidence": 0.93, "evidence": ["fluenced the immune microenvironment in CESC patient-derived organoids treated with CCRT. 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