diXa: a data infrastructure for chemical safety assessment

Diana Hendrickx; Hugo Aerts; Florian Caiment; D. Clark; T.M. Ebbels; C.T. Evelo; H. Gmuender; D.G. Hebels; R. Herwig; J. Hescheler; D.G. Jennen; M.J. Jetten; S. Kanterakis; H.C. Keun; V. Matser; J.P. Overington; E. Pilicheva; U. Sarkans; M.P. Segura-Lepe; I. Sotiriadou; T. Wittenberger; C. Wittwehr; A. Zanzi; J.C. Kleinjans

doi:10.1093/bioinformatics/btu827

diXa: a data infrastructure for chemical safety assessment

Diana Hendrickx^*, Hugo Aerts, Florian Caiment, D. Clark, T.M. Ebbels, C.T. Evelo, H. Gmuender, D.G. Hebels, R. Herwig, J. Hescheler, D.G. Jennen, M.J. Jetten, S. Kanterakis, H.C. Keun, V. Matser, J.P. Overington, E. Pilicheva, U. Sarkans, M.P. Segura-Lepe, I. SotiriadouT. Wittenberger, C. Wittwehr, A. Zanzi, J.C. Kleinjans

^*Corresponding author for this work

Research output: Contribution to journal › Article › Academic › peer-review

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Abstract

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. Availability: http://www.dixa-fp7.eu CONTACT: d.hendrickx@maastrichtuniversity.nl ; info@dixa-fp7.eu SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.

Original language	English
Pages (from-to)	1505-1507
Number of pages	3
Journal	Bioinformatics
Volume	31
Issue number	9
DOIs	https://doi.org/10.1093/bioinformatics/btu827
Publication status	Published - 1 May 2015

Keywords

TOXICOLOGY

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

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abstract = "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. Availability: http://www.dixa-fp7.eu CONTACT: d.hendrickx@maastrichtuniversity.nl ; info@dixa-fp7.eu SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.",

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Hendrickx, D, Aerts, H , Caiment, F, Clark, D, Ebbels, TM, Evelo, CT, Gmuender, H, Hebels, DG, Herwig, R, Hescheler, J, Jennen, DG , Jetten, MJ, Kanterakis, S, Keun, HC, Matser, V, Overington, JP, Pilicheva, E, Sarkans, U, Segura-Lepe, MP, Sotiriadou, I, Wittenberger, T, Wittwehr, C, Zanzi, A & Kleinjans, JC 2015, 'diXa: a data infrastructure for chemical safety assessment', Bioinformatics, vol. 31, no. 9, pp. 1505-1507. https://doi.org/10.1093/bioinformatics/btu827

TY - JOUR

T1 - diXa: a data infrastructure for chemical safety assessment

AU - Hendrickx, Diana

AU - Aerts, Hugo

AU - Caiment, Florian

AU - Clark, D.

AU - Ebbels, T.M.

AU - Evelo, C.T.

AU - Gmuender, H.

AU - Hebels, D.G.

AU - Herwig, R.

AU - Hescheler, J.

AU - Jennen, D.G.

AU - Jetten, M.J.

AU - Kanterakis, S.

AU - Keun, H.C.

AU - Matser, V.

AU - Overington, J.P.

AU - Pilicheva, E.

AU - Sarkans, U.

AU - Segura-Lepe, M.P.

AU - Sotiriadou, I.

AU - Wittenberger, T.

AU - Wittwehr, C.

AU - Zanzi, A.

AU - Kleinjans, J.C.

PY - 2015/5/1

Y1 - 2015/5/1

N2 - 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. Availability: http://www.dixa-fp7.eu CONTACT: d.hendrickx@maastrichtuniversity.nl ; info@dixa-fp7.eu SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.

AB - 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. Availability: http://www.dixa-fp7.eu CONTACT: d.hendrickx@maastrichtuniversity.nl ; info@dixa-fp7.eu SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.

KW - TOXICOLOGY

U2 - 10.1093/bioinformatics/btu827

DO - 10.1093/bioinformatics/btu827

M3 - Article

C2 - 25505093

SN - 1367-4803

VL - 31

SP - 1505

EP - 1507

JO - Bioinformatics

JF - Bioinformatics

IS - 9

ER -