Construction and validation of a pyroptosis-related gene signature associated with the tumor microenvironment in uveal melanoma.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:35102195", "kind": "science-record", "revision": 3, "content_hash": "sha256:ee8d05f724109af45502972a1b596847a09bbfad7c0c337c70e5954e3eae078a", "created_at": "2026-11-01T17:36:50Z", "updated_at": "2026-11-01T21:27:06Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Construction and validation of a pyroptosis-related gene signature associated with the tumor microenvironment in uveal melanoma.", "doi": "10.1038/s41598-022-05599-9", "pmid": "35102195", "authors": ["Feng Zhang", "Yan Deng", "Dong Wang", "Shuai Wang"], "journal": "Scientific reports", "year": 2022, "abstract": "The present study aimed to construct a pyroptosis-related gene signature in uveal melanoma (UM) patients. Patients from The Cancer Genome Atlas (TCGA) served as the training cohort, whereas patients (GSE22138) from Gene Expression Omnibus (GEO) served as the validation cohort. Using the Kaplan-Meier (KM) method, univariate analysis, and least absolute shrinkage and selection operator (LASSO) Cox regression, A five pyroptosis-related gene signature was constructed in the training cohort. Patients were divided into high- and low-risk groups. Survival analysis showed that patients in the high-risk group had a shorter survival time. Risk and survival analysis, time-independent receiver operating characteristic (ROC) curve analysis and principal component analysis (PCA) validated that the prognostic signature had greater predictive value in both cohorts. Multivariate analysis proved that the risk score was an independent prognostic factor. Functional analysis showed that the expressed genes in the high-risk group were most abundant in immunological repose-related and tumor-related signaling pathways. Single-sample gene-set enrichment analysis (ssGSEA) revealed that the different risk groups were associated with the tumor microenvironment. Moreover, the predictive signature could help patients be better matched to immunotherapy and targeted treatments. In conclusion, the pyroptosis-related gene signature associated with the tumor microenvironment maybe a reliable tool for predicting the prognosis of UM patients.", "claims": [{"id": "claim-method", "statement": "Using the Kaplan–Meier (KM) method, univariate analysis, and least absolute shrinkage and selection operator (LASSO) Cox regression, A five pyroptosis-related gene signature was constructed in the training cohort.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:35102195", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "Using the Kaplan–Meier (KM) method, univariate analysis, and least absolute shrinkage and selection operator (LASSO) Cox regression, A five pyroptosis-related gene signature was constructed in the training cohort."}], "state": "complete"}, {"id": "claim-data-access", "statement": "Publicly available datasets from the Cancer Genome Atlas (https://portal.gdc.cancer.Gov/) and International Cancer Genome Consortium (https://icgc.org/) were analyzed in this study. All data supporting the findings of the study are available from the corresponding author on reasonable request. All data in our study are available upon request.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:35102195", "locator": "sections[31] \"notes\" paragraph 1", "quote": "Publicly available datasets from the Cancer Genome Atlas (https://portal.gdc.cancer.Gov/) and International Cancer Genome Consortium (https://icgc.org/) were analyzed in this study. All data supporting the findings of the study are available from the corresponding author on reasonable request. All data in our study are available upon request."}], "state": "complete"}, {"id": "claim-target-result", "statement": "A five-gene pyroptosis-related prognostic signature separated UM patients into high- and low-risk groups, with the high-risk group having shorter survival, and the signature was independently prognostic in both cohorts.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:35102195", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "Using the Kaplan–Meier (KM) method, univariate analysis, and least absolute shrinkage and selection operator (LASSO) Cox regression, A five pyroptosis-related gene signature was constructed in the training cohort. Patients were divided into high- and low-risk groups. Survival analysis showed that patients in the high-risk group had a shorter survival time."}, {"asset": "source:pmid:35102195", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "Multivariate analysis proved that the risk score was an independent prognostic factor."}, {"asset": "source:pmid:35102195", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "In conclusion, the pyroptosis-related gene signature associated with the tumor microenvironment maybe a reliable tool for predicting the prognosis of UM patients."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "A five-gene pyroptosis-related prognostic signature separated UM patients into high- and low-risk groups, with the high-risk group having shorter survival, and the signature was independently prognostic in both cohorts.", "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:35102195"], "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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