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Open TG-GATEs: a large-scale toxicogenomics database

Toxicogenomics focuses on assessing the safety of compounds using gene expression profiles. Gene expression signatures from large toxicogenomics databases are expected to perform better than small databases in identifying biomarkers for the prediction and evaluation of drug safety based on a compoun...

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Autores principales: Igarashi, Yoshinobu, Nakatsu, Noriyuki, Yamashita, Tomoya, Ono, Atsushi, Ohno, Yasuo, Urushidani, Tetsuro, Yamada, Hiroshi
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2015
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4384023/
https://www.ncbi.nlm.nih.gov/pubmed/25313160
http://dx.doi.org/10.1093/nar/gku955
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author Igarashi, Yoshinobu
Nakatsu, Noriyuki
Yamashita, Tomoya
Ono, Atsushi
Ohno, Yasuo
Urushidani, Tetsuro
Yamada, Hiroshi
author_facet Igarashi, Yoshinobu
Nakatsu, Noriyuki
Yamashita, Tomoya
Ono, Atsushi
Ohno, Yasuo
Urushidani, Tetsuro
Yamada, Hiroshi
author_sort Igarashi, Yoshinobu
collection PubMed
description Toxicogenomics focuses on assessing the safety of compounds using gene expression profiles. Gene expression signatures from large toxicogenomics databases are expected to perform better than small databases in identifying biomarkers for the prediction and evaluation of drug safety based on a compound's toxicological mechanisms in animal target organs. Over the past 10 years, the Japanese Toxicogenomics Project consortium (TGP) has been developing a large-scale toxicogenomics database consisting of data from 170 compounds (mostly drugs) with the aim of improving and enhancing drug safety assessment. Most of the data generated by the project (e.g. gene expression, pathology, lot number) are freely available to the public via Open TG-GATEs (Toxicogenomics Project-Genomics Assisted Toxicity Evaluation System). Here, we provide a comprehensive overview of the database, including both gene expression data and metadata, with a description of experimental conditions and procedures used to generate the database. Open TG-GATEs is available from https://toxico.nibiohn.go.jp/english/index.html.
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spelling pubmed-43840232015-04-08 Open TG-GATEs: a large-scale toxicogenomics database Igarashi, Yoshinobu Nakatsu, Noriyuki Yamashita, Tomoya Ono, Atsushi Ohno, Yasuo Urushidani, Tetsuro Yamada, Hiroshi Nucleic Acids Res Database Issue Toxicogenomics focuses on assessing the safety of compounds using gene expression profiles. Gene expression signatures from large toxicogenomics databases are expected to perform better than small databases in identifying biomarkers for the prediction and evaluation of drug safety based on a compound's toxicological mechanisms in animal target organs. Over the past 10 years, the Japanese Toxicogenomics Project consortium (TGP) has been developing a large-scale toxicogenomics database consisting of data from 170 compounds (mostly drugs) with the aim of improving and enhancing drug safety assessment. Most of the data generated by the project (e.g. gene expression, pathology, lot number) are freely available to the public via Open TG-GATEs (Toxicogenomics Project-Genomics Assisted Toxicity Evaluation System). Here, we provide a comprehensive overview of the database, including both gene expression data and metadata, with a description of experimental conditions and procedures used to generate the database. Open TG-GATEs is available from https://toxico.nibiohn.go.jp/english/index.html. Oxford University Press 2015-01-28 2014-10-13 /pmc/articles/PMC4384023/ /pubmed/25313160 http://dx.doi.org/10.1093/nar/gku955 Text en © The Author(s) 2014. Published by Oxford University Press on behalf of Nucleic Acids Research. https://creativecommons.org/licenses/by/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) ), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Database Issue
Igarashi, Yoshinobu
Nakatsu, Noriyuki
Yamashita, Tomoya
Ono, Atsushi
Ohno, Yasuo
Urushidani, Tetsuro
Yamada, Hiroshi
Open TG-GATEs: a large-scale toxicogenomics database
title Open TG-GATEs: a large-scale toxicogenomics database
title_full Open TG-GATEs: a large-scale toxicogenomics database
title_fullStr Open TG-GATEs: a large-scale toxicogenomics database
title_full_unstemmed Open TG-GATEs: a large-scale toxicogenomics database
title_short Open TG-GATEs: a large-scale toxicogenomics database
title_sort open tg-gates: a large-scale toxicogenomics database
topic Database Issue
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4384023/
https://www.ncbi.nlm.nih.gov/pubmed/25313160
http://dx.doi.org/10.1093/nar/gku955
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