Development and verification of a novel immunogenic cell death-related signature for predicting the prognosis and immune infiltration in triple-negative breast cancer.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:38425247", "kind": "science-record", "revision": 3, "content_hash": "sha256:2eddfeee657baec1bb27402bd8d3f072ff0060714530489688065e16c5674f41", "created_at": "2026-11-01T19:20:22Z", "updated_at": "2026-11-01T22:11:21Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Development and verification of a novel immunogenic cell death-related signature for predicting the prognosis and immune infiltration in triple-negative breast cancer.", "doi": "10.1002/cnr2.2007", "pmid": "38425247", "authors": ["Jiachen Li", "Zhengtian Li", "Wenkang Yang", "Jianmin Pan", "Huazong You", "Lixiang Yang", "Xiaodong Zhang"], "journal": "Cancer reports (Hoboken, N.J.)", "year": 2024, "abstract": "BACKGROUND: Insufficient understanding of the pathogenesis and tumor immunology of triple-negative breast cancer (TNBC) has limited the development of immunotherapy. The importance of tumor microenvironment (TME) in immunotyping, prognostic assessment and immunotherapy efficacy of cancer has been emphasized, however, potential immunogenic cell death (ICD) related genes function in TME of TNBC has been rarely investigated.\nAIMS: To initially explore the role and related mechanisms of ICD in TNBC, especially the role played in the TME of TNBC, and to identify different relevant subtypes based on ICD, and then develop an ICD-related risk score to predict each TNBC patient TME status, prognosis and immunotherapy response.\nMETHODS AND RESULTS: In this study, we identified distinct ICD-related modification patterns based on 158 TNBC cases in the TCGA-TNBC cohort. We then investigated the possible correlation between ICD-related modification patterns and TME cell infiltration characteristics in TNBC. By using univariate Cox and least absolute shrinkage and selection operator (LASSO) regression analysis, we created a risk scoring system (ICD score) to quantifiably evaluate the impact of ICD-related modification patterns in individual TNBC patient. Two different ICD-related modification patterns were found with significant differences in immune infiltration. Lower ICD score was correlated with higher immune infiltration, tumor mutational burden and significantly enriched in immune-related pathways, indicating a strong ability to activate immune response, which might account for relatively favorable prognosis of TNBC patients and could serve as a predictor to select suitable candidates for immunotherapy. We used two independent cohorts, GSE58812 cohort and Metabric cohort to validate prognosis and immunohistochemistry for preliminary in vitro validation.\nCONCLUSION: This study evidenced that the ICD-related modification patterns might exert pivotal roles in the immune infiltration landscape of TNBC and ICD score might act as potential predictors of prognostic assessment and immunotherapy response. This research provides unique insights for individualize immune treatment strategies and promising immunotherapy candidates screening.", "claims": [{"id": "claim-method", "statement": "By using univariate Cox and least absolute shrinkage and selection operator (LASSO) regression analysis, we created a risk scoring system (ICD score) to quantifiably evaluate the impact of ICD‐related modification patterns in individual TNBC patient.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:38425247", "locator": "sections[0] \"Abstract\" paragraph 3", "quote": "By using univariate Cox and least absolute shrinkage and selection operator (LASSO) regression analysis, we created a risk scoring system (ICD score) to quantifiably evaluate the impact of ICD‐related modification patterns in individual TNBC patient."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The raw data of this study are derived from the TCGA (https://portal.gdc.cancer.gov/) and GEO (https://www.ncbi.nlm.nih.gov/geo/), which are publicly available databases.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:38425247", "locator": "sections[34] \"DATA AVAILABILITY STATEMENT\" paragraph 2", "quote": "The raw data of this study are derived from the TCGA (https://portal.gdc.cancer.gov/) and GEO (https://www.ncbi.nlm.nih.gov/geo/), which are publicly available databases."}], "state": "complete"}, {"id": "claim-target-result", "statement": "Lower ICD score was correlated with higher immune infiltration, tumor mutational burden and significantly enriched in immune‐related pathways, indicating a strong ability to activate immune response, which might account for relatively favorable prognosis of TNBC patients and could serve as a predictor to select suitable candidates for immunotherapy.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:38425247", "locator": "sections[0] \"Abstract\" paragraph 3", "quote": "Lower ICD score was correlated with higher immune infiltration, tumor mutational burden and significantly enriched in immune‐related pathways, indicating a strong ability to activate immune response, which might account for relatively favorable prognosis of TNBC patients and could serve as a predictor to select suitable candidates for immunotherapy."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "partial", "objective": "Lower ICD score was correlated with higher immune infiltration, tumor mutational burden and significantly enriched in immune‐related pathways, indicating a strong ability to activate immune response, which might account for relatively favorable prognosis of TNBC patients and could serve as a predictor to select suitable candidates for immunotherapy.", "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:38425247"], "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": "blocked", "blocked_on": "data:accession_absent", "description": "The GEO series accession resolves and its sample accessions are listed. 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