Integrative analyses of genes related to liver ischemia reperfusion injury.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:36253874", "kind": "science-record", "revision": 4, "content_hash": "sha256:3cb99cd85e24a6a7ba73c75cb291b3a294f4d07c55619f8b3521757a12bf22d9", "created_at": "2026-11-01T18:15:39Z", "updated_at": "2026-11-01T22:07:53Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Integrative analyses of genes related to liver ischemia reperfusion injury.", "doi": "10.1186/s41065-022-00255-8", "pmid": "36253874", "authors": ["Hang-Pin Wang", "Chu-Hong Chen", "Ben-Kai Wei", "Ying-Lei Miao", "Han-Fei Huang", "Zhong Zeng"], "journal": "Hereditas", "year": 2022, "abstract": "BACKGROUND: Liver ischemia reperfusion injury (LIRI) is not only a common injury during liver transplantation and major hepatic surgery, but also one of the primary factors that affect the outcome of postoperative diseases. However, there are still no reliable ways to tackle the problem. Our study aimed to find some characteristic genes associated with immune infiltration that affect LIRI, which can provide some insights for future research in the future. Therefore, it is essential for the treatment of LIRI, the elucidation of the mechanisms of LIRI, and exploring the potential biomarkers. Efficient microarray and bioinformatics analyses can promote the understanding of the molecular mechanisms of disease occurrence and development.\nMETHOD: Data from GSE151648 were downloaded from GEO data sets, and we performed a comprehensive analysis of the differential expression, biological functions and interactions of LIRI-associated genes. Then we performed Gene ontology (GO) analysis and Kyotoencydlopedia of genes and genomes (KEGG) enrichment analysis of DEGs. At last, we performed a protein-protein interaction network to screen out hub genes.\nRESULTS: A total of 161 differentially expressed genes (DEGs) were identified. GO analysis results revealed that the changes in the modules were mostly enriched in the neutrophil degranulation, neutrophil activation involved in immune response, and neutrophil mediated immunity. KEGG enrichment analysis of DEGs demonstrated that LIRI mainly involved the cytokine-cytokine receptor interaction. Our data indicated that macrophages and neutrophils are closely related to LIRI. 9 hub genes were screened out in the protein-protein interaction network.\nCONCLUSIONS: In summary, our data indicated that neutrophil degranulation, neutrophil activation involved in immune response, neutrophil mediated immunity and cytokine-cytokine receptor interaction may play a key role in LIRI, HRH1, LRP2, P2RY6, PKD1L1, SLC8A3 and TNFRSF8, which were identified as potential biomarkers in the occurrence and development of LIRI. However, further studies are needed to validate these findings and explore the molecular mechanism of these biomarkers in LIRI.", "claims": [{"id": "claim-method", "statement": "To identify the relevant immune cell regulation situations and impacts of genes in IRI, we performed Spearman correlation analysis on the expression level (TPM) of the 14 characteristic genes and ssGSEA scores of IRI+ and IRI- samples.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:36253874", "locator": "sections[7] \"Correlation analysis of characteristic genes and ssGSEA scores\" paragraph 2", "quote": "To identify the relevant immune cell regulation situations and impacts of genes in IRI, we performed Spearman correlation analysis on the expression level (TPM) of the 14 characteristic genes and ssGSEA scores of IRI+ and IRI- samples."}], "state": "complete"}, {"id": "claim-target-result", "statement": "In our study, we obtained 14 genes related to liver ischemia reperfusion injury, including HRH1, LRP2, P2RY6, PKD1L1, SLC8A3, TNFRSF8, CYP3A7, COL5A3, AGBL4, ACTG2, HKDC1, SGO1,ASTL and IL20RB.", "kind": "qualitative", "target": null, "evidence": [{"asset": "source:pmid:36253874", "locator": "sections[18] \"Conclusion\" paragraph 2", "quote": "In our study, we obtained 14 genes related to liver ischemia reperfusion injury, including HRH1, LRP2, P2RY6, PKD1L1, SLC8A3, TNFRSF8, CYP3A7, COL5A3, AGBL4, ACTG2, HKDC1, SGO1,ASTL and IL20RB."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "partial", "objective": "In our study, we obtained 14 genes related to liver ischemia reperfusion injury, including HRH1, LRP2, P2RY6, PKD1L1, SLC8A3, TNFRSF8, CYP3A7, COL5A3, AGBL4, ACTG2, HKDC1, SGO1,ASTL and IL20RB.", "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:36253874"], "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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