Development and validation of a novel model for predicting the survival of bladder cancer based on ferroptosis-related genes.

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This study aimed to establish a prognostic prediction model for BC patients based on the expression profile of ferroptosis-related genes (FRG). The expression profiles of BC samples with clinical information were obtained from The Cancer Genome Atlas (TCGA) and Gene Expression Omnibus (GEO). A total of 80 differentially expressed genes (DEGs) related to FRG were identified among which 37 DEGs were found to have a prognostic value. Eleven genetic markers including SLC2A12, CDO1, JDP2, MAFG, CAPG, RRM2, SLC2A3, SLC3A2, VDAC2, GCH1, and ANGPTL7 were identified through the LASSO regression analysis. The ROC curve analysis showed that the AUC was 0.702, 0.664, and 0.655 for the 1-year, 3-year, and 5-year survival outcomes, respectively. The prediction performance was verified in the TCGA-testing set and external set GSE13507. Multivariate Cox proportional hazards analysis showed that the risk score was an independent prognostic predictor. Moreover, we found differences in gene mutation, gene expression, and immune cell infiltration between the high and low-risk groups of BC patients. Finally, a nomogram was constructed by integrating clinical features and FRG signatures to predict the survival outcomes of BC patients. In addition, the differential expression of FRG mRNA and protein was verified through PCR and HPA online site. The characteristics of 11 FRG genes were examined and a prognostic nomogram for predicting the overall survival of BC was established.", "claims": [{"id": "claim-method", "statement": "The Cox proportional hazards regression model and survival analysis (Log-Rank test) were used to screen out 37 FRG genes related to the prognosis of BC patients (Figure 1C).", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:36399105", "locator": "sections[14] \"Screening of prognostic FRG genes\" paragraph 4", "quote": "The Cox proportional hazards regression model and survival analysis (Log-Rank test) were used to screen out 37 FRG genes related to the prognosis of BC patients (Figure 1C)."}], "state": "complete"}, {"id": "claim-data-access", "statement": "Fragments per Kilobase of transcript per Million mapped reads (FPKM) standardized RNA sequencing datasets and clinical data were downloaded from the TCGA database. 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The TCGA-BLCA cohort included 411 and 19 bladder cancer tissues and non-tumor tissues, respectively."}], "state": "complete"}, {"id": "claim-target-result", "statement": "The ROC curve analysis showed that the AUC was 0.702, 0.664, and 0.655 for the 1-year, 3-year, and 5-year survival outcomes, respectively.", "kind": "quantitative", "target": {"value": 0.702, "unit": "auc", "tolerance": null, "source": "The ROC curve analysis showed that the AUC was 0.702, 0.664, and 0.655 for the 1-year, 3-year, and 5-year survival outcomes, respectively."}, "evidence": [{"asset": "source:pmid:36399105", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "The ROC curve analysis showed that the AUC was 0.702, 0.664, and 0.655 for the 1-year, 3-year, and 5-year survival outcomes, respectively."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "The ROC curve analysis showed that the AUC was 0.702, 0.664, and 0.655 for the 1-year, 3-year, and 5-year survival outcomes, respectively.", "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:36399105"], "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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