Development of a Prognostic Risk Model for Esophageal Cancer Based on M0 Macrophage-Related Genes.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:39735788", "kind": "science-record", "revision": 2, "content_hash": "sha256:63934f650cf0abf2c3db50ff8b0af4c670adc434eda7b6e3f87034f710d8e18a", "created_at": "2026-11-01T20:30:03Z", "updated_at": "2026-11-01T21:34:37Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Development of a Prognostic Risk Model for Esophageal Cancer Based on M0 Macrophage-Related Genes.", "doi": "10.2147/OTT.S483536", "pmid": "39735788", "authors": ["Xiaoping Zuo", "Fuqiang Wang", "Guofeng Liu", "Shenglong Xie", "Senyi Deng", "Yun Wang"], "journal": "OncoTargets and therapy", "year": 2024, "abstract": "Background: This study investigates the prognostic value of M0 macrophage-related genes (M0MRGs) in esophageal cancer (ESCA) and identifies novel targets for immunotherapy.\nMethods: Differentially expressed genes (DEGs) were screened with ESCA-related expression profile data (GSE5364 and GSE17351) from the GEO database, followed by GO and KEGG pathway enrichment analyses. Then, immune cell infiltration was examined with the CIBERSORT algorithm and multiplex fluorescence-based immunohistochemistry (MP-IHC). ESCA-related gene expression data and relevant clinical information were retrieved from TCGA. M0MRGs were identified with TCGA-ESCA based on Spearman's correlation coefficient. Additionally, LASSO and Cox regression analyses were conducted to further construct an M0MRG-related prognostic model. ATP6V0D2 and MMP12 expression in ESCA was analyzed with tissue microarray. Finally, the half maximal inhibitory concentrations (IC50) of commonly used chemotherapeutics in TCGA-ESCA were calculated with the \"oncoPredict\" R package.\nConclusion: In summary, ATP6V0D2 and MMP12 were crucial components in a prognostic risk model for ESCA and were associated with poor prognoses, implicating the involvement of elevated M0 macrophages in disease progression and providing potential therapeutic targets and strategies for ESCA.", "claims": [{"id": "claim-method", "statement": "LASSO and Cox regression analyses were conducted to further construct the prognostic model of M0MRGs in the TCGA-ESCA dataset.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:39735788", "locator": "sections[5] \"Establishment of an M0MRG Signature\" paragraph 2", "quote": "LASSO and Cox regression analyses were conducted to further construct the prognostic model of M0MRGs in the TCGA-ESCA dataset."}], "state": "complete"}, {"id": "claim-data-access", "statement": "In this study, the transcriptomic, somatic mutation, and clinical data of the ESCA cohort were obtained from TCGA data portal (https://cancergenome.nih.gov/) and GEO datasets (GSE5364 and GSE17351) (http://www.ncbi.nlm.nih.gov/geo/). All data were publicly available.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:39735788", "locator": "sections[21] \"Data Availability Statement\" paragraph 2", "quote": "In this study, the transcriptomic, somatic mutation, and clinical data of the ESCA cohort were obtained from TCGA data portal (https://cancergenome.nih.gov/) and GEO datasets (GSE5364 and GSE17351) (http://www.ncbi.nlm.nih.gov/geo/). All data were publicly available."}], "state": "complete"}, {"id": "claim-target-result", "statement": "The ATP6V0D2- and MMP12-based risk score stratified ESCA patients by prognosis, with three-year survival rates of 36.8% in the high-risk group and 43.7% in the low-risk group.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:39735788", "locator": "sections[14] \"Construction of a Prognostic Signature of M0MRGs\" paragraph 2", "quote": "High-risk patients exhibited a significantly poorer prognosis, with a three-year survival rate of only 36.8%, indicating that high-risk patients had shorter overall survival than low-risk patients, who had a three-year survival rate of 43.7% (Figure 3D)."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "The ATP6V0D2- and MMP12-based risk score stratified ESCA patients by prognosis, with three-year survival rates of 36.8% in the high-risk group and 43.7% in the low-risk group.", "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:39735788"], "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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