SCN4B inhibits the progression of lung adenocarcinoma and is associated with better prognosis.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:37826914", "kind": "science-record", "revision": 3, "content_hash": "sha256:15b4f01d874b980016dd07fea4daca8d46b0afdc25a19246a91c8feab315fa79", "created_at": "2026-11-01T19:02:41Z", "updated_at": "2026-11-01T22:10:27Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "SCN4B inhibits the progression of lung adenocarcinoma and is associated with better prognosis.", "doi": "10.1111/crj.13709", "pmid": "37826914", "authors": ["Minting Ma", "Bin Guo", "Hongwei Lu", "Lei Hong"], "journal": "The clinical respiratory journal", "year": 2023, "abstract": "INTRODUCTION: Lung adenocarcinoma (LUAD) is the major type of non-small cell lung cancer with low a survival rate caused by metastasis. SCN4B encoding voltage-gated sodium channel β subunit is regarded as a metastasis-suppressor gene. We aim to explore how SCN4B influences the progression and prognosis of LUAD.\nMETHODS: The gene expression profiles of 585 LUAD samples in TCGA and GSE31210, GSE116959, and GSE72094 datasets from the GEO database were downloaded for analysis. Differentially expressed genes were obtained through the \"limma\" package. The \"clusterProfiler\" package was used to conduct GSEA. Survival analysis was conducted via \"survival\" and \"survminer\" packages. Transcription factors regulating SCN4B expression were screened by correlation analysis and further predicted by FIMO. Infiltration of immune cells was analyzed by CIBERSORT. ESTIMATE algorithm was used to evaluate the immune-related scores.\nRESULTS: SCN4B expressed higher in normal samples than in LUAD samples and higher in female samples than male samples. One hundred and twenty-six pathways were significantly enriched between high and low SCN4B expression groups. Six transcription factors' expressions were positively related to SCN4B expression, and ChIP-seq data from \"Cistrome\" verified that TAL1 and ERG might bind to the upstream sequence of SCN4B. SCN4B expression was significantly correlated with activated memory CD4 T cells, resting mast cells, and monocytes. TMB status, three scores based on ESTIMATE algorithm, and expression of three immune checkpoints showed significant differences between SCN4B high- and low-expression groups. SCN4B could be considered as an independent prognostic signature of LUAD patients that higher expression represents a better prognosis.\nCONCLUSION: SCN4B expresses higher in normal samples, and SCN4B is able to be an independent prognostic signature for LUAD patients. TAL1 and ERG may regulate the expression of SCN4B by binding its upstream sequences. Our research is valuable in improving the effectiveness of treatment in LUAD.", "claims": [{"id": "claim-method", "statement": "A multivariate Cox regression model was used to analyze whether the target gene could predict the survival of LUAD patients independently of other factors.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:37826914", "locator": "sections[6] \"Survival analysis\" paragraph 2", "quote": "A multivariate Cox regression model was used to analyze whether the target gene could predict the survival of LUAD patients independently of other factors."}], "state": "complete"}, {"id": "claim-data-access", "statement": "We downloaded gene expression microarray data of 585 LUAD in The Cancer Genome Atlas (TCGA; https://tcga-data.nci.nih.gov/tcga/) database, including 60 normal samples and 525 tumor samples.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:37826914", "locator": "sections[3] \"Datasets collection\" paragraph 2", "quote": "We downloaded gene expression microarray data of 585 LUAD in The Cancer Genome Atlas (TCGA; https://tcga-data.nci.nih.gov/tcga/) database, including 60 normal samples and 525 tumor samples."}], "state": "complete"}, {"id": "claim-target-result", "statement": "SCN4B could be considered as an independent prognostic signature of LUAD patients that higher expression represents a better prognosis.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:37826914", "locator": "sections[0] \"Abstract\" paragraph 3", "quote": "SCN4B could be considered as an independent prognostic signature of LUAD patients that higher expression represents a better prognosis."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "SCN4B could be considered as an independent prognostic signature of LUAD patients that higher expression represents a better prognosis.", "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:37826914"], "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:GSE116959"], "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:GSE116959"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:37826914", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.1111/crj.13709", "sha256": 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"title": "Gene expression data for pathological stage I-II lung adenocarcinomas", "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:GSE72094", "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=GSE72094", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE72094", "version": null, "note": "We downloaded gene expression microarray data of 585 LUAD in The Cancer Genome Atlas (TCGA; https://tcga-data.nci.nih.gov/tcga/) database, including 60 normal samples and 525 tumor samples.", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "We downloaded gene expression microarray data of 585 LUAD in The Cancer Genome Atlas 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