diXa: a data infrastructure for chemical safety assessment

Hendrickx, Diana M.; Aerts, Hugo J. W. L.; Caiment, Florian; Clark, Dominic; Ebbels, Timothy M. D.; Evelo, Chris T.; Gmuender, Hans; Hebels, Dennie G. A. J.; Herwig, Ralf; Hescheler, Jürgen; Jennen, Danyel G. J.; Jetten, Marlon J. A.; Kanterakis, Stathis; Keun, Hector C.; Matser, Vera; Overington, John P.; Pilicheva, Ekaterina; Sarkans, Ugis; Segura-Lepe, Marcelo P.; Sotiriadou, Isaia; Wittenberger, Timo; Wittwehr, Clemens; Zanzi, Antonella; Kleinjans, Jos C. S.

doi:10.1093/bioinformatics/btu827

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diXa: a data infrastructure for chemical safety assessment

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Herwig, Ralf
Bioinformatics (Ralf Herwig), Dept. of Computational Molecular Biology (Head: Martin Vingron), Max Planck Institute for Molecular Genetics, Max Planck Society;

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引用

Hendrickx, D. M., Aerts, H. J. W. L., Caiment, F., Clark, D., Ebbels, T. M. D., Evelo, C. T., Gmuender, H., Hebels, D. G. A. J., Herwig, R., Hescheler, J., Jennen, D. G. J., Jetten, M. J. A., Kanterakis, S., Keun, H. C., Matser, V., Overington, J. P., Pilicheva, E., Sarkans, U., Segura-Lepe, M. P., Sotiriadou, I., Wittenberger, T., Wittwehr, C., Zanzi, A., & Kleinjans, J. C. S. (2015). diXa: a data infrastructure for chemical safety assessment. Bioinformatics, 31(9), 1505-1507. doi:10.1093/bioinformatics/btu827.

引用: https://hdl.handle.net/11858/00-001M-0000-0026-B067-9

要旨

Motivation: The field of toxicogenomics (the application of ‘-omics’ technologies to risk assessment of compound toxicities) has expanded in the last decade, partly driven by new legislation, aimed at reducing animal testing in chemical risk assessment but mainly as a result of a paradigm change in toxicology towards the use and integration of genome wide data. Many research groups worldwide have generated large amounts of such toxicogenomics data. However, there is no centralized repository for archiving and making these data and associated tools for their analysis easily available. Results: The Data Infrastructure for Chemical Safety Assessment (diXa) is a robust and sustainable infrastructure storing toxicogenomics data. A central data warehouse is connected to a portal with links to chemical information and molecular and phenotype data. diXa is publicly available through a user-friendly web interface. New data can be readily deposited into diXa using guidelines and templates available online. Analysis descriptions and tools for interrogating the data are available via the diXa portal.