Immune infiltration-related genes regulate the progression of AML by invading the bone marrow microenvironment.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:39072320", "kind": "science-record", "revision": 3, "content_hash": "sha256:590fc363533dab67287db6a0216152de0c0d326ec69755b668318ad8ea7d521b", "created_at": "2026-11-01T20:29:09Z", "updated_at": "2026-11-01T22:12:20Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Immune infiltration-related genes regulate the progression of AML by invading the bone marrow microenvironment.", "doi": "10.3389/fimmu.2024.1409945", "pmid": "39072320", "authors": ["Shuangmei Yu", "Jiquan Jiang"], "journal": "Frontiers in immunology", "year": 2024, "abstract": "In this study, we try to find the pathogenic role of immune-related genes in the bone marrow microenvironment of AML. Through WGCNA, seven modules were obtained, among which the turquoise module containing 1793 genes was highly correlated with the immune infiltration score. By unsupervised clustering, the turquoise module was divided into two clusters: the intersection of clinically significant genes in the TCGA and DEGs to obtain 178 genes for mutation analysis, followed by obtaining 17 genes with high mutation frequency. Subsequently, these 17 genes were subjected to LASSO regression analysis to construct a riskscore model of 8 hub genes. The TIMER database, ImmuCellAI portal website, and ssGSEA elucidate that the hub genes and risk scores are closely related to immune cell infiltration into the bone marrow microenvironment. In addition, we also validated the relative expression levels of hub genes using the TCGA database and GSE114868, and additional expression levels of hub genes in AML cell lines in vitro. Therefore, we constructed an immune infiltration-related gene model that identify 8 hub genes with good risk stratification and predictive prognosis for AML.", "claims": [{"id": "claim-method", "statement": "We employed the least absolute shrinkage and selection operator (LASSO) method to construct a refined and simplified COX model for predicting patient risk and prognosis to mitigate the risk of overfitting prognostic risk models.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:39072320", "locator": "sections[8] \"Univariate and multivariate COX and LASSO regression analysis\" paragraph 2", "quote": "We employed the least absolute shrinkage and selection operator (LASSO) method to construct a refined and simplified COX model for predicting patient risk and prognosis to mitigate the risk of overfitting prognostic risk models."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The raw data supporting the conclusions of this article will be made available by the authors, without undue reservation.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:39072320", "locator": "sections[24] \"Data availability statement\" paragraph 2", "quote": "The raw data supporting the conclusions of this article will be made available by the authors, without undue reservation."}], "state": "complete"}, {"id": "claim-target-result", "statement": "A prognostic model identifying eight immune infiltration-related hub genes with good risk stratification and predictive prognosis for AML was constructed.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:39072320", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "Therefore, we constructed an immune infiltration-related gene model that identify 8 hub genes with good risk stratification and predictive prognosis for AML."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "A prognostic model identifying eight immune infiltration-related hub genes with good risk stratification and predictive prognosis for AML was constructed.", "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:39072320"], "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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