T3DB: the toxic exposome database.
The exposome is defined as the totality of all human environmental exposures from conception to death. It is often regarded as the complement to the genome, with the interaction between the exposome and the genome ultimately determining one's phenotype. The 'toxic exposome' is the complete collection of chronically or acutely toxic compounds to which humans can be exposed. Considerable interest in defining the toxic exposome has been spurred on by the realization that most human injuries, deaths and diseases are directly or indirectly caused by toxic substances found in the air, water, food, home or workplace. The Toxin-Toxin-Target Database (T3DB--www.t3db.ca) is a resource that was specifically designed to capture information about the toxic exposome. Originally released in 2010, the first version of T3DB contained data on nearly 2900 common toxic substances along with detailed information on their chemical properties, descriptions, targets, toxic effects, toxicity thresholds, sequences (for both targets and toxins), mechanisms and references. To more closely align itself with the needs of epidemiologists, toxicologists and exposome scientists, the latest release of T3DB has been substantially upgraded to include many more compounds (>3600), targets (>2000) and gene expression datasets (>15,000 genes). It now includes extensive data on 'normal' toxic compound concentrations in human biofluids as well as detailed chemical taxonomies, informative chemical ontologies and a large number of referential NMR, MS/MS and GC-MS spectra. This manuscript describes the most recent update to the T3DB, which was previously featured in the 2010 NAR Database Issue.
Department of Computing Science, University of Alberta, Edmonton, AB T6G 2E8, Canada Department of Biological Sciences, University of Alberta, Edmonton, AB T6G 2E9, Canada National Institute for Nanotechnology, 11421 Saskatchewan Drive, Edmonton, AB T6G 2M9, Canada david.wishart@ualberta.ca.
David
D
Wishart
Department of Computing Science, University of Alberta, Edmonton, AB T6G 2E8, Canada.
David
D
Arndt
Department of Computing Science, University of Alberta, Edmonton, AB T6G 2E8, Canada.
Allison
A
Pon
Department of Computing Science, University of Alberta, Edmonton, AB T6G 2E8, Canada.
Tanvir
T
Sajed
Department of Computing Science, University of Alberta, Edmonton, AB T6G 2E8, Canada.
An Chi
AC
Guo
Department of Biological Sciences, University of Alberta, Edmonton, AB T6G 2E9, Canada.
Yannick
Y
Djoumbou
Department of Computing Science, University of Alberta, Edmonton, AB T6G 2E8, Canada.
Craig
C
Knox
Department of Computing Science, University of Alberta, Edmonton, AB T6G 2E8, Canada.
Michael
M
Wilson
Department of Computing Science, University of Alberta, Edmonton, AB T6G 2E8, Canada.
Yongjie
Y
Liang
Department of Computing Science, University of Alberta, Edmonton, AB T6G 2E8, Canada.
Jason
J
Grant
Department of Computing Science, University of Alberta, Edmonton, AB T6G 2E8, Canada.
Yifeng
Y
Liu
Department of Biological Sciences, University of Alberta, Edmonton, AB T6G 2E9, Canada.
Seyed Ali
SA
Goldansaz
Center for Exposure Biology, School of Public Health, University of California, Berkeley, CA 94720-7360, USA.
Stephen M
SM
Rappaport
D062126:Databases, Chemical; D004781:Environmental Exposure; D015386:Hazardous Substances / Q000737:chemistry / Q000633:toxicity; D006801:Humans; D020407:Internet
D015386:Hazardous Substances