Transcriptomics data of a human in vitro model of non-alcoholic steatohepatitis exposed to elafibranor.

{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:31294056", "kind": "science-record", "revision": 8, "content_hash": "sha256:9ae0000db431048bee786bb64baa4a9d5df169b3c1aeeed343531b772c8d1bc5", "created_at": "2026-11-01T15:40:47Z", "updated_at": "2026-11-01T22:44:04Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Transcriptomics data of a human in vitro model of non-alcoholic steatohepatitis exposed to elafibranor.", "doi": "10.1016/j.dib.2019.104093", "pmid": "31294056", "authors": ["Joost Boeckmans", "Karolien Buyl", "Alessandra Natale", "Valerie Vandenbempt", "Steven Branson", "Veerle De Boe", "Vera Rogiers", "Joery De Kock", "Robim M Rodrigues", "Tamara Vanhaecke"], "journal": "Data in brief", "year": 2019, "abstract": "The present dataset contains the transcriptomic characterization of a novel in vitro model of non-alcoholic steatohepatitis (NASH) as well as its transcriptomics read-outs for the evaluation of elafibranor, a potential anti-NASH compound. We report whole genome microarray data (Affymetrix HG U133 plus 2.0) of human multipotent stem cell-derived hepatic cells (hSKP-HPC) exposed to mediators of NASH. These cells were exposed to lipogenic inducers (insulin, glucose, fatty acids) and pro-inflammatory factors (IL-1β, TNF-α, TGF-β) to trigger hepatocellular responses characteristic of NASH. In addition, to evaluate the anti-NASH features of elafibranor, a dual peroxisome proliferator-activated receptor (PPAR) agonist that currently is under investigation as a potential anti-NASH therapeutic, was tested this in vitro set-up. This paper provides a detailed description of the microarray data as well as an indication of their value for evaluating cell signaling pathways (e.g. NFκB network) during the in vitro evaluation of anti-NASH compounds. Raw microarray data of different testing conditions were deposited as.CEL files in the Gene Expression Omnibus of NCBI with GEO Series accession number GSE126484. Further interpretation and discussion of these data can be found in the corresponding research article (DOI: 10.1016/j.phrs.2019.04.016) Boeckmans et al., 2019.", "claims": [{"id": "claim-method", "statement": "[Analysis cut-off: fold change [-2; +2], p < 0.05 (eBayes ANOVA)]", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:31294056", "locator": "sections[2] \"Data\" paragraph 2", "quote": "[Analysis cut-off: fold change [-2; +2], p < 0.05 (eBayes ANOVA)]"}], "state": "complete"}, {"id": "claim-data-access", "statement": "Raw data is available at the Gene Expression Omnibus (GEO) from NCBI (GSE126484, www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE126484).", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:31294056", "locator": "sections[1] \"p\" paragraph 1", "quote": "Raw data is available at the Gene Expression Omnibus (GEO) from NCBI (GSE126484, www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE126484)."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": null, "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:31294056"], "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 cells were exposed for 24h to a cocktail of insulin (100 nM), glucose (4,5 mg/mL), sodium oleate (65 μM), palmitic acid (45 μM), tumor necrosis factor alpha (TNF-α) (50 ng/mL), interleukin-1 beta (IL-1β) (25 ng/mL) and transforming growth factor beta 1 (TGF-β1) (8 ng/mL). The obtained in vitro model was termed ‘hSKP-HPC NASH’ and was evaluated in the presence or absence of elafibranor (10 μM or 30 μM). Bovine serum albumin (BSA) and dimethyl sulfoxide (DMSO)-treated samples served as controls."], ["Experimental features", "Total RNA was extracted from ‘hSKP-HPC’ control samples (n = 3), ‘hSKP-HPC NASH’ (n = 3), ‘hSKP-HPC NASH’ + elafibranor 10 μM (n = 3) and ‘hSKP-HPC NASH’ + elafibranor 30 μM (n = 3). Analyses were conducted using Robust Multichip Average (RMA) Express, Transcriptome Analysis Console (TAC) (version 4.0.025, Applied Biosystems) and Ingenuity Pathway Analysis (IPA) (version 43605602, Qiagen)."], ["Data source location", "Department of In Vitro Toxicology and Dermato-Cosmetology (IVTD), Vrije Universiteit Brussel (VUB), Brussels, Belgium."], ["Data accessibility", "Raw data is available at the Gene Expression Omnibus (GEO) from NCBI (GSE126484, www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE126484)."], ["Related research article", "J. Boeckmans, K. Buyl, A. Natale, V. Vandenbempt, S. Branson, V. De Boe, V. Rogiers, J. De Kock, R.M. Rodrigues, T. Vanhaecke, Elafibranor restricts lipogenic and inflammatory responses in a human skin stem cell-derived model of NASH, Pharmacol. Res., 2019, In Press [1]."]], "row_count": 10, "column_count": 2, "numeric_cells": 5, "header_rows": 0, "locator": "section[1]/table-wrap[1]#undtbl1"}}, {"id": "asset:table:pmid:31294056:2", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": "sha256:f6eadab7f88b1a03ec8729a0b0dc92c97e88afb2cc7d9bb1dd1b8bd65dd58588", "bytes": 683, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[1]/table-wrap[2]#undtbl2", "version": null, "note": null, "structure": {"pmcid": "PMC6595416", "section_index": 1, "section_title": "p", "row_count": 1, "column_count": 1}, "table": {"label": null, "caption": null, "rows": [["Value of the data•Human-based in vitro models can contribute to the pharmacological investigation of NASH and the development of potential anti-NASH drugs [3].•These transcriptomics data of a human skin stem cell-derived in vitro model for NASH, can be used for data mining when investigating NASH in vitro. They can also be utilized in comparative transcriptomics studies using other human-based datasets.•This is the first publicly available microarray dataset evaluating elafibranor using stem cell-derived hepatic cells."]], "row_count": 1, "column_count": 1, "numeric_cells": 1, "header_rows": 0, "locator": "section[1]/table-wrap[2]#undtbl2"}}, {"id": "asset:table:pmid:31294056:3", "role": "table", "format": "jats-table", "media_type": "application/vnd.jats.table+json", "uri": null, "sha256": "sha256:f79bdd3b1c87022a42a4cb65d9fb9eafe6482d8ea3fcce616b889a630d6cbf2f", "bytes": 1787, "access": "open", "state": "verified", "reader": "read_table", "reader_status": "available", "identifier": "section[2]/table-wrap[1]#tbl1", "version": null, "note": "Top-10 highest up- and down-regulated genes between ‘hSKP-HPC NASH’ vs control samples, ‘hSKP-HPC NASH’ + elafibranor 10 μM vs ‘hSKP-HPC NASH’ and ‘hSKP-HPC NASH’ + elafibranor 30 μM vs ‘hSKP-HPC NASH’. 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