ArticleThe AAPS journal2005
Pharmacogenomic responses of rat liver to methylprednisolone: an approach to mining a rich microarray time series.
Article in The AAPS journal, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
22 citing papers in PubMed.
- Transitioning from Basic toward Systems Pharmacodynamic Models: Lessons from Corticosteroids.Pharmacological reviews · 2020Review
- Pathway-Based Analysis of the Liver Response to Intravenous Methylprednisolone Administration in Rats: Acute Versus Chronic Dosing.Gene regulation and systems biology · 2019Article
- Mechanistic Multi-Tissue Modeling of Glucocorticoid-Induced Leucine Zipper Regulation: Integrating Circadian Gene Expression with Receptor-Mediated Corticosteroid Pharmacodynamics.The Journal of pharmacology and experimental therapeutics · 2017Article
- Functional proteomic analysis of corticosteroid pharmacodynamics in rat liver: Relationship to hepatic stress, signaling, energy regulation, and drug metabolism.Journal of proteomics · 2017Article
- Quantitative tissue-specific dynamics of in vivo GILZ mRNA expression and regulation by endogenous and exogenous glucocorticoids.Physiological reports · 2015Article
- Tissue-specific gene expression and regulation in liver and muscle following chronic corticosteroid administration.Gene regulation and systems biology · 2014Article
- Modeling autonomic regulation of cardiac function and heart rate variability in human endotoxemia.Physiological genomics · 2011Article
- Comparative analysis of acute and chronic corticosteroid pharmacogenomic effects in rat liver: transcriptional dynamics and regulatory structures.BMC bioinformatics · 2010Article
- Sexually dimorphic actions of glucocorticoids provide a link to inflammatory diseases with gender differences in prevalence.Science signaling · 2010Article
- NETWORKS, BIOLOGY AND SYSTEMS ENGINEERING: A CASE STUDY IN INFLAMMATION.Computers & chemical engineering · 2009Article
- In silico simulation of corticosteroids effect on an NFkB- dependent physicochemical model of systemic inflammation.PloS one · 2009Article
- Circadian variations in rat liver gene expression: relationships to drug actions.The Journal of pharmacology and experimental therapeutics · 2008Article
- Pharmacodynamic/pharmacogenomic modeling of insulin resistance genes in rat muscle after methylprednisolone treatment: exploring regulatory signaling cascades.Gene regulation and systems biology · 2008Article
- Tissue-specific induction of ADAMTS2 in monocytes and macrophages by glucocorticoids.Journal of molecular medicine (Berlin, Germany) · 2008Article
- Pharmacodynamic modeling of acute and chronic effects of methylprednisolone on hepatic urea cycle genes in rats.Gene regulation and systems biology · 2008Article
- Pharmacokinetics of methylprednisolone after intravenous and intramuscular administration in rats.Biopharmaceutics & drug disposition · 2007Article
- Microarray analysis of the temporal response of skeletal muscle to methylprednisolone: comparative analysis of two dosing regimens.Physiological genomics · 2007Article
- A microarray analysis of the temporal response of liver to methylprednisolone: a comparative analysis of two dosing regimens.Endocrinology · 2007Article
- Application of scaling factors in simultaneous modeling of microarray data from diverse chips.Pharmaceutical research · 2007Article
- Corticosteroid-regulated genes in rat kidney: mining time series array data.American journal of physiology. Endocrinology and metabolism · 2005Article
Corrections and comments
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Authors and funding
4 authors.
Funding
Abstract
A data set was generated to examine global changes in gene expression in rat liver over time in response to a single bolus dose of methylprednisolone. Four control animals and 43 drug-treated animals were humanely killed at 16 different time points following drug administration. Total RNA preparations from the livers of these animals were hybridized to 47 individual Affymetrix RU34A gene chips, generating data for 8799 different probe sets for each chip. Data mining techniques that are applicable to gene array time series data sets in order to identify drug-regulated changes in gene expression were applied to this data set. A series of 4 sequentially applied filters were developed that were designed to eliminate probe sets that were not expressed in the tissue, were not regulated by the drug treatment, or did not meet defined quality control standards. These filters eliminated 7287 probe sets of the 8799 total (82%) from further consideration. Application of judiciously chosen filters is an effective tool for data mining of time series data sets. The remaining data can then be further analyzed by clustering and mathematical modeling techniques.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.