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Prediction of gene expression in human using rat in vivo gene expression in Japanese Toxicogenomics Project

Otava, M.; Shkedy, Z.; Kasim, A.

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Authors

M. Otava

Z. Shkedy

A. Kasim



Abstract

The Japanese Toxicogenomics Project (TGP) provides large amount of data for the toxicology and safety framework. We focus on gene expression data of rat in vivo and human in vitro. We consider two different analyses for the TGP data. The first analysis is based on two-way analysis of variance model and the goal is to detect genes with significant dose-response relationship in both humans and rats. The second analysis consists of a trend analysis at each time point and the goal is to detect genes in the rat in order to predict gene expression in humans. The first analysis leads us to conclusions about the heterogeneity of the compound set and will suggest how to address this issue to improve future analyses. In the second part, we identify, for particular compounds, groups of genes that are translatable from rats to humans, so they can be used for prediction of human in vitro data based on rat in vivo data.

Citation

Otava, M., Shkedy, Z., & Kasim, A. (2014). Prediction of gene expression in human using rat in vivo gene expression in Japanese Toxicogenomics Project. Systems biomedicine, 2(1), 8-15. https://doi.org/10.4161/sysb.29412

Journal Article Type Article
Online Publication Date Oct 31, 2014
Publication Date Oct 31, 2014
Deposit Date Feb 9, 2015
Publicly Available Date Jun 13, 2018
Journal Systems Biomedicine
Electronic ISSN 2162-8149
Publisher Taylor and Francis
Peer Reviewed Peer Reviewed
Volume 2
Issue 1
Pages 8-15
DOI https://doi.org/10.4161/sysb.29412

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Publisher Licence URL
http://creativecommons.org/licenses/by-nc/3.0/

Copyright Statement
© 2014 The Author(s). Published with license by Taylor & Francis Group, LLC© Martin Otava, Ziv Shkedy, and Adetayo Kasim This is an Open Access article distributed under the terms of the Creative Commons Attribution-Non-Commercial License (http://creativecommons.org/licenses/by-nc/3.0/), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited. The moral rights of the named author(s) have been asserted.





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