A Novel Pyroptosis-Related Gene Signature for Predicting the Prognosis and the Associated Immune Infiltration in Colon Adenocarcinoma.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:35912258", "kind": "science-record", "revision": 3, "content_hash": "sha256:aeb569f9f602b3246da47e0b5339504150fd6f4da469faba5273be776e5fd21d", "created_at": "2026-11-01T18:15:00Z", "updated_at": "2026-11-01T21:28:31Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "A Novel Pyroptosis-Related Gene Signature for Predicting the Prognosis and the Associated Immune Infiltration in Colon Adenocarcinoma.", "doi": "10.3389/fonc.2022.904464", "pmid": "35912258", "authors": ["Zhiyuan Chen", "Zheng Han", "Han Nan", "Jianing Fan", "Jingfei Zhan", "Yu Zhang", "He Zhu", "Yu Cao", "Xian Shen", "Xiangyang Xue", "Kezhi Lin"], "journal": "Frontiers in oncology", "year": 2022, "abstract": "Background: Pyroptosis has been demonstrated to be an inflammatory form of programmed cell death recently. However, the expression of pyroptosis-related genes (PRGs) in colon adenocarcinoma (COAD) and their correlations with prognosis remain unclear.\nMethods: Data of COAD patients were obtained from The Cancer Genome Atlas (TCGA) database to screen differentially expressed genes (DEGs). Univariate Cox regression analysis and the LASSO Cox regression analysis were applied to construct a gene signature. All COAD patients in TCGA cohort were separated into low-risk subgroup or high-risk subgroup via the risk score. Kaplan-Meier survival analysis and receiver operator characteristic (ROC) curves were adopted to assess its prognostic efficiency. COAD data from the GSE17537 datasets was used for validation. A prognostic nomogram was established to predict individual survival. The correlation between PRGs and immune cell infiltration in COAD was verified based on TIMER database. CIBERSORT analysis was utilized on risk subgroup as defined by model. The protein and mRNA expression level of PRGs were verified by HPA database and qPCR.\nResults: A total of 51 differentially expressed PRGs were identified in TCGA cohort. Through univariate Cox regression analysis and LASSO Cox regression analysis, a prognostic model containing 7 PRGs was constructed. Kaplan-Meier survival analysis indicated that patients in the low-risk subgroup exhibited better prognosis compared to those in the high-risk subgroup. Additionally, the area under the curve (AUC) of ROC is 0.60, 0.63, and 0.73 for 1-, 3-, and 5-year survival in TCGA cohort and 0.63, 0.65, and 0.64 in validation set. TIMER database showed a strong correlation between 7 PRGs and tumor microenvironment in COAD. Moreover, CIBERSORT showed significant differences in the infiltration of plasma cells, M0 macrophages, resting dendritic cells, and eosinophils between low-risk subgroup and high-risk subgroup. HPA database showed that protein expression level of SDHB, GZMA, BTK, EEF2K, and NR1H2 was higher in normal tissues. And the transcriptional level of CASP5, BTK, SDHB, GZMA, and RIPK3 was high in normal tissues.\nConclusions: Our study identified a novel PRGs signature that could be used to predict the prognosis of COAD patients, which might provide a new therapeutic target for the treatment of COAD patients.", "claims": [{"id": "claim-method", "statement": "Then, using R package “glmnet”, least absolute shrinkage and selection operator (LASSO) Cox regression analysis was performed in order to select candidate PRGs and develop a pyroptosis-related prognostic gene model.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:35912258", "locator": "sections[7] \"Development of a Pyroptosis-Related Prognostic Gene Model\" paragraph 2", "quote": "Then, using R package “glmnet”, least absolute shrinkage and selection operator (LASSO) Cox regression analysis was performed in order to select candidate PRGs and develop a pyroptosis-related prognostic gene model."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The datasets presented in this study can be found in online repositories. The names of the repository/repositories and accession number(s) can be found in the article/ Supplementary Material .", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:35912258", "locator": "sections[26] \"Data Availability Statement\" paragraph 2", "quote": "The datasets presented in this study can be found in online repositories. The names of the repository/repositories and accession number(s) can be found in the article/ Supplementary Material ."}], "state": "complete"}, {"id": "claim-target-result", "statement": "The 7-gene pyroptosis-related prognostic model had TCGA AUCs of 0.60, 0.63, and 0.73 for 1-, 3-, and 5-year survival and validation-set AUCs of 0.63, 0.65, and 0.64.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:35912258", "locator": "sections[0] \"Abstract\" paragraph 3", "quote": "Additionally, the area under the curve (AUC) of ROC is 0.60, 0.63, and 0.73 for 1-, 3-, and 5-year survival in TCGA cohort and 0.63, 0.65, and 0.64 in validation set."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "The 7-gene pyroptosis-related prognostic model had TCGA AUCs of 0.60, 0.63, and 0.73 for 1-, 3-, and 5-year survival and validation-set AUCs of 0.63, 0.65, and 0.64.", "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:35912258"], "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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