Identification of key biomarkers associated with necroptosis and immune infiltration in hepatitis B virus-related acute-on-chronic liver failure.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:41145553", "kind": "science-record", "revision": 4, "content_hash": "sha256:69e23a884e8dab281944990478f7f8934bb8ca68a91d3ca4b4fcce3864114538", "created_at": "2026-11-01T20:31:11Z", "updated_at": "2026-11-01T22:57:22Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Identification of key biomarkers associated with necroptosis and immune infiltration in hepatitis B virus-related acute-on-chronic liver failure.", "doi": "10.1038/s41598-025-21273-2", "pmid": "41145553", "authors": ["Chuangjie Cao", "Dan Luo", "Xia Xie", "Chengyun Dou"], "journal": "Scientific reports", "year": 2025, "abstract": "Hepatitis B virus-related acute-on-chronic liver failure (ACHBLF) is a severe condition associated with short-term mortality without liver transplantation. Substantial evidence indicates that necroptosis and immune infiltration play critical roles in ACHBLF development. Therefore, the identification of necroptosis-related biomarkers may be beneficial for prognostic evaluations and may shed light on potential therapeutic targets for ACHBLF. In this study, we used integrated bioinformatics analysis and machine learning algorithms to investigate the correlation between necroptosis and immune infiltration using peripheral blood mononuclear cells from ACHBLF patients. First, after GSE168048 and GSE248217 were obtained from the Gene Expression Omnibus (GEO) database, differentially expressed genes (DEGs) between ACHBLF patients and normal controls were identified. With the help of the weighted gene coexpression network, 211 necroptosis-related DEGs were identified by intersecting the DEGs with necroptosis-related genes (NRGs). The functional characterization of these NRG-related DEGs was subsequently performed using GO, KEGG, and gene set enrichment analysis. Hub genes were identified through the integration of LASSO regression, support vector machines recursive feature elimination, and random forest. Immune-related functions were explored by analyzing the correlations between hub gene expression and immune cells infiltration. Furthermore, mRNA-miRNA-lncRNA interaction network, RNA-binding proteins (RBPs) and transcription factors were predicted using the miRDB, starBase and hTFtarget databases. Finally, target drugs were predicted using a connectivity map. A total of 7461 DEGs were identified between the ACHBLF and normal groups; 3123 genes were upregulated and 4338 genes were downregulated. A total of 211 NRG-related DEGs and 5 hub genes (FCRL3, CDC14A, KLHL22, RALY, and MAP4K1) were obtained. The hub genes were enriched in the T cell receptor signaling pathway, ubiquitin-mediated proteolysis, and the MAPK signaling pathway and were correlated with immune cell infiltration. A lncRNA XIST-miR-424-5p-CDC14A regulatory network was constructed, and 20RBPs and 2 transcription factors (GATA1 and CEBPB) were identified. In addition, 10 candidate drugs were predicted to target MAP4K1. The 5 hub genes could serve as biomarkers for predicting the prognosis of ACHBLF patients and provide clues for new potential therapeutic targets.", "claims": [{"id": "claim-method", "statement": "The R package Limma (version 3.50.0) was used to identify differentially expressed genes (DEGs) between the ACHBLF and normal groups.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:41145553", "locator": "sections[16] \"Identification of differentially expressed genes\" paragraph 2", "quote": "The R package Limma (version 3.50.0) was used to identify differentially expressed genes (DEGs) between the ACHBLF and normal groups."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The GEO summary statistics used in this study were publicly accessed from GEO database (https://www.ncbi.nlm.nih.gov/geo/): GSE168048: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE168048;GSE248217: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE248217.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:41145553", "locator": "sections[29] \"notes\" paragraph 1", "quote": "The GEO summary statistics used in this study were publicly accessed from GEO database (https://www.ncbi.nlm.nih.gov/geo/): GSE168048: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE168048;GSE248217: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE248217."}], "state": "complete"}, {"id": "claim-target-result", "statement": "A total of 7461 DEGs were found between the ACHBLF and normal groups; 3123 genes were upregulated and 4338 genes were downregulated.", "kind": "quantitative", "target": {"value": 2.0, "unit": "fold change", "tolerance": null, "source": "A total of 7461 DEGs were found between the ACHBLF and normal groups when |log2Fold Change|> 0.5 and P Value < 0.05 were used as cutoff values; 3123 genes were upregulated and 4338 genes were downregulated (Fig. 1 A, Table S2)."}, "evidence": [{"asset": "source:pmid:41145553", "locator": "sections[3] \"Identification of DEGs between the ACHBLF and normal groups\" paragraph 2", "quote": "A total of 7461 DEGs were found between the ACHBLF and normal groups when |log2Fold Change|> 0.5 and P Value < 0.05 were used as cutoff values; 3123 genes were upregulated and 4338 genes were downregulated (Fig. 1 A, Table S2)."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "A total of 7461 DEGs were found between the ACHBLF and normal groups; 3123 genes were upregulated and 4338 genes were downregulated.", "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:41145553"], "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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