A novel m6A-related prognostic signature for predicting the overall survival of hepatocellular carcinoma patients.

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Thus, the present research was aimed to determine biomarkers of m6A regulators that could effectively predict the prognosis of LIHC patients. Based on the data collected from the Cancer Genome Atlas (TCGA) database, the correlation between the mRNA expression levels and copy number variation (CNV) patterns were determined. Higher mRNA expression resulted from the increasing number of 9 genes. Using the univariate Cox regression analysis, 11 m6A regulators that had close correlations with the LIHC prognosis were identified. In addition, under the support of the multivariate Cox regression models and the least absolute shrinkage and selection operator, a 4-gene (YTHDF2, IGF2BP3, KIAA1429, and ALKBH5) signature of m6A regulators was constructed. This signature was expected to present a prognostic value in LIHC (log-rank test p value < 0.0001). The GSE76427 (n = 94) and ICGC-LIRI-JP (n = 212) datasets were used to validate the prognostic signature, suggesting strong power to predict patients' prognosis for LIHC. To sum up, genetic alterations in m6A regulatory genes were identified as reliable and effective biomarkers for predicting the prognosis of LIHC patients.", "claims": [{"id": "claim-data-access", "statement": "All data generated or analysed have been included in this study and the supplementary documents.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:34647424", "locator": "sections[32] \"DATA AVAILABILITY STATEMENT\" paragraph 2", "quote": "All data generated or analysed have been included in this study and the supplementary documents."}], "state": "complete"}, {"id": "claim-target-result", "statement": "This signature was expected to present a prognostic value in LIHC (log‐rank test p value < 0.0001).", "kind": "quantitative", "target": {"value": 0.0001, "unit": "p-value", "tolerance": null, "source": "This signature was expected to present a prognostic value in LIHC (log‐rank test p value < 0.0001)."}, "evidence": [{"asset": "source:pmid:34647424", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "This signature was expected to present a prognostic value in LIHC (log‐rank test p value < 0.0001)."}, {"asset": "source:pmid:34647424", "locator": "sections[0] \"Abstract\" paragraph 1", "quote": "The GSE76427 (n = 94) and ICGC‐LIRI‐JP (n = 212) datasets were used to validate the prognostic signature, suggesting strong power to predict patients' prognosis for LIHC."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "partial", "objective": "This signature was expected to present a prognostic value in LIHC (log‐rank test p value < 0.0001).", "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:34647424"], "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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These cell lines were cultured in RPMI‐1640 (Hyclone, LA, USA) supplemented", "e Academy of Sciences. These cell lines were cultured in RPMI‐1640 (Hyclone, LA, USA) supplemented wi", "The human hepatocellular carcinoma cell line HepG2 was purchased from the Cell Bank of Type Cul"], "order_basis": "paper_text_order:1516", "id": "assay:1"}, {"role": "analysis", "definition_id": "group_comparison", "definition_version": "f2132e96ae6c7a4e", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"dsl_catalogue": "f2132e96ae6c7a4e"}, "confidence": 0.8, "evidence": ["Wilcoxon"], "order_basis": "consumes_earlier_output", "id": "assay:2"}]}