Construction of a solid Cox model for AML patients based on multiomics bioinformatic analysis.

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In this study, we aimed to identify reliable immune-related biomarkers for AML prognosis by multiomics analysis. We obtained expression profiles from The Cancer Genome Atlas (TCGA) database and constructed a LASSO-Cox regression model to predict the prognosis of AML using multiomics bioinformatic analysis data. This was followed by independent validation of the model in the GSE106291 (n=251) data set and mutated genes in clinical samples for predicting overall survival (OS). Molecular docking was performed to predict the most optimal ligands to the genes in prognostic model. The single-cell RNA sequence dataset GSE116256 was used to clarify the expression of the hub genes in different immune cell types. According to their significant differences in immune gene signatures and survival trends, we concluded that the immune infiltration-lacking subtype (IL type) is associated with better prognosis than the immune infiltration-rich subtype (IR type). Using the LASSO model, we built a classifier based on 5 hub genes to predict the prognosis of AML (risk score = -0.086×ADAMTS3 + 0.180×CD52 + 0.472×CLCN5 - 0.356×HAL + 0.368×ICAM3). In summary, we constructed a prognostic model of AML using integrated multiomics bioinformatic analysis that could serve as a therapeutic classifier.", "claims": [{"id": "claim-method", "statement": "Least absolute shrinkage selection operator (LASSO)-penalized Cox regression analysis (29, 30) was applied to distinguish the most important SIGs and to construct a prognostic model for AML based on a linear combination of the regression coefficients.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:36033493", "locator": "sections[7] \"Survival analysis and prognostic model construction\" paragraph 2", "quote": "Least absolute shrinkage selection operator (LASSO)-penalized Cox regression analysis (29, 30) was applied to distinguish the most important SIGs and to construct a prognostic model for AML based on a linear combination of the regression coefficients."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The original contributions presented in the study are included in the article/ Supplementary Material . 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Further inquiries can be directed to the corresponding authors."}], "state": "complete"}, {"id": "claim-target-result", "statement": "The study constructed and validated a LASSO-Cox prognostic model for AML based on five hub genes, with an AUC of 0.82, 0.83, and 0.99 for predicting 1-, 3-, and 5-year prognosis, respectively.", "kind": "quantitative", "target": {"value": 0.82, "unit": "auc", "tolerance": null, "source": "Kaplan-Meier plots displayed OS differences between patients in various subtypes (P=3.931×10-06) ( Figure 5C ), and the ROC curve suggested that the model can effectively predict the 1-, 3- and 5-year prognosis of AML (AUC=0.82, 0.83, 0.99, respectively) ( Figure 5D )."}, "evidence": [{"asset": "source:pmid:36033493", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "Using the LASSO model, we built a classifier based on 5 hub genes to predict the prognosis of AML (risk score = -0.086×ADAMTS3 + 0.180×CD52 + 0.472×CLCN5 - 0.356×HAL + 0.368×ICAM3)."}, {"asset": "source:pmid:36033493", "locator": "sections[16] \"A prognostic model based on 5 hub genes was constructed\" paragraph 2", "quote": "Kaplan-Meier plots displayed OS differences between patients in various subtypes (P=3.931×10-06) ( Figure 5C ), and the ROC curve suggested that the model can effectively predict the 1-, 3- and 5-year prognosis of AML (AUC=0.82, 0.83, 0.99, respectively) ( Figure 5D )."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "partial", "objective": "The study constructed and validated a LASSO-Cox prognostic model for AML based on five hub genes, with an AUC of 0.82, 0.83, and 0.99 for predicting 1-, 3-, and 5-year prognosis, 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:36033493"], "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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