Gene expression data from acetaminophen-induced toxicity in human hepatic in vitro systems and clinical liver samples.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:27761495", "kind": "science-record", "revision": 8, "content_hash": "sha256:44e07e84d2e0a8428747c4870cf680f1f4e9164174fedfab927efb3a1fc398af", "created_at": "2026-11-01T15:40:21Z", "updated_at": "2026-11-01T22:42:48Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Gene expression data from acetaminophen-induced toxicity in human hepatic in vitro systems and clinical liver samples.", "doi": "10.1016/j.dib.2016.03.069", "pmid": "27761495", "authors": ["Robim M Rodrigues", "Olivier Govaere", "Tania Roskams", "Tamara Vanhaecke", "Vera Rogiers", "Joery De Kock"], "journal": "Data in brief", "year": 2016, "abstract": "This data set is composed of transcriptomics analyses of (i) liver samples from patients suffering from acetaminophen-induced acute liver failure (ALF) and (ii) hepatic cell systems exposed to acetaminophen and their respective controls. The in vitro systems include widely employed cell lines i.e. HepaRG and HepG2 cells as well as a novel stem cell-derived model i.e. human skin-precursors-derived hepatocyte-like cells (hSKP-HPC). Data from primary human hepatocytes was also added to the data set \"Open TG-GATEs: a large-scale toxicogenomics database\" (Igarashi et al., 2015) [1]. Changes in gene expression due to acetaminophen intoxication as well as comparative information between human in vivo and in vitro samples are provided. The microarray data have been deposited in NCBI׳s Gene Expression Omnibus and are accessible through GEO Series accession number GEO: GSE74000. The provided data is used to evaluate the predictive capacity of each hepatic in vitro system and can be directly compared with large-scale publically available toxicogenomics databases. Further interpretation and discussion of these data feature in the corresponding research article \"Toxicogenomics-based prediction of acetaminophen-induced liver injury using human hepatic cell systems\" (Rodrigues et al., 2016) [2].", "claims": [{"id": "claim-method", "statement": "The cut-off was set at minimum 2-fold expression divergence and statistical significance with p-value <0.05 (Fisher׳s exact).", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:27761495", "locator": "sections[6] \"Experimental design, materials and methods\" paragraph 8", "quote": "The cut-off was set at minimum 2-fold expression divergence and statistical significance with p-value <0.05 (Fisher׳s exact)."}], "state": "complete"}, {"id": "claim-data-access", "statement": "Data is within this article. 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RAW microarray data have been deposited in NCBI׳s Gene Expression Omnibus and are accessible through GEO Series accession number GEO: GSE74000."}], "state": "complete"}, {"id": "claim-target-result", "statement": "The “Necrosis of Liver” function was activated for hHEP, HepaRG and hSKP-HPC, but not for HepG2; differential expression was assessed using Fisher’s exact test with p < 0.05, and the raw microarray source data are accessible through GEO Series accession GEO: GSE74000.", "kind": "quantitative", "target": {"value": 2.0, "unit": "fold change", "tolerance": null, "source": "The cut-off was set at minimum 2-fold expression divergence and statistical significance with p-value <0.05 (Fisher׳s exact)."}, "evidence": [{"asset": "source:pmid:27761495", "locator": "sections[6] \"Experimental design, materials and methods\" paragraph 9", "quote": "For this selection of genes, the “Necrosis of Liver” function was activated for hHEP, HepaRG and hSKP-HPC, but not for HepG2."}, {"asset": "source:pmid:27761495", "locator": "sections[6] \"Experimental design, materials and methods\" paragraph 8", "quote": "The cut-off was set at minimum 2-fold expression divergence and statistical significance with p-value <0.05 (Fisher׳s exact)."}, {"asset": "source:pmid:27761495", "locator": "sections[2] \"table-wrap\" paragraph 1", "quote": "RAW microarray data have been deposited in NCBI׳s Gene Expression Omnibus and are accessible through GEO Series accession number GEO: GSE74000."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "partial", "objective": "The “Necrosis of Liver” function was activated for hHEP, HepaRG and hSKP-HPC, but not for HepG2; differential expression was assessed using Fisher’s exact test with p < 0.05, and the raw microarray source data are accessible through GEO Series accession GEO: GSE74000.", "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:27761495"], "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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