NMI Institute of Natural and Medical science

Reutlingen, Germany

NMI Institute of Natural and Medical science

Reutlingen, Germany

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Keller R.,University of Tübingen | Klein M.,Robert Bosch GmbH | Klein M.,University of Tübingen | Thomas M.,Robert Bosch GmbH | And 10 more authors.
PLoS Computational Biology | Year: 2016

During various inflammatory processes circulating cytokines including IL-6, IL-1β, and TNFα elicit a broad and clinically relevant impairment of hepatic detoxification that is based on the simultaneous downregulation of many drug metabolizing enzymes and transporter genes. To address the question whether a common mechanism is involved we treated human primary hepatocytes with IL-6, the major mediator of the acute phase response in liver, and characterized acute phase and detoxification responses in quantitative gene expression and (phospho-)proteomics data sets. Selective inhibitors were used to disentangle the roles of JAK/STAT, MAPK, and PI3K signaling pathways. A prior knowledge-based fuzzy logic model comprising signal transduction and gene regulation was established and trained with perturbation-derived gene expression data from five hepatocyte donors. Our model suggests a greater role of MAPK/PI3K compared to JAK/STAT with the orphan nuclear receptor RXRα playing a central role in mediating transcriptional downregulation. Validation experiments revealed a striking similarity of RXRα gene silencing versus IL-6 induced negative gene regulation (rs= 0.79; P<0.0001). These results concur with RXRα functioning as obligatory heterodimerization partner for several nuclear receptors that regulate drug and lipid metabolism. © 2016 Keller et al.


PubMed | University of Tübingen, Robert Bosch GmbH, Ludwig Maximilians University of Munich and NMI Institute of Natural and Medical science
Type: Journal Article | Journal: PLoS computational biology | Year: 2016

During various inflammatory processes circulating cytokines including IL-6, IL-1, and TNF elicit a broad and clinically relevant impairment of hepatic detoxification that is based on the simultaneous downregulation of many drug metabolizing enzymes and transporter genes. To address the question whether a common mechanism is involved we treated human primary hepatocytes with IL-6, the major mediator of the acute phase response in liver, and characterized acute phase and detoxification responses in quantitative gene expression and (phospho-)proteomics data sets. Selective inhibitors were used to disentangle the roles of JAK/STAT, MAPK, and PI3K signaling pathways. A prior knowledge-based fuzzy logic model comprising signal transduction and gene regulation was established and trained with perturbation-derived gene expression data from five hepatocyte donors. Our model suggests a greater role of MAPK/PI3K compared to JAK/STAT with the orphan nuclear receptor RXR playing a central role in mediating transcriptional downregulation. Validation experiments revealed a striking similarity of RXR gene silencing versus IL-6 induced negative gene regulation (rs = 0.79; P<0.0001). These results concur with RXR functioning as obligatory heterodimerization partner for several nuclear receptors that regulate drug and lipid metabolism.

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