Our objective is to provide a centralized, publicly available resource with comprehensive, well-annotated data and analysis tools that informs design and interpretation of environmental health studies and promotes novel insights into the etiologies of environmentally influenced diseases. Most human diseases involve interactions between genetic and environmental factors;however, the basis of these complex interactions are not well understood and limit improvements in toxicity prediction, risk assessment, research prioritization and therapeutic interventions. We developed the Comparative Toxicogenomics Database (CTD;://ctd.mdibl.org) to enhance understanding about environment-disease connections by providing manually curated data describing chemical-gene/protein interactions and chemical- and gene/protein-disease relationships from the peer-reviewed literature and integrating these data with select external data sets (e.g., pathways and biological process data) and novel data analysis tools. In this application, we propose to leverage our expertise and CTD infrastructure to: 1) enhance the capacity to identify environment-disease connections by curating and integrating exposure data into CTD;and 2) expand the capacity for prediction, analysis and interpretation of environment-disease networks by developing novel analysis and visualization tools that include exposure data. This proposal responds to the needs expressed by the NIEHS and partner agencies for inclusion of exposure data when prioritizing research and performing toxicity testing, it addresses the need for centralization of exposure data in a broader biological context and it will provide "real-world" exposure context for existing data in CTD. The resulting resource will enable new opportunities for understanding and prioritizing human health effects from exposure and their underlying etiologies and coordinate data key to enhancing the capacity for toxicity prediction and risk assessment.

Public Health Relevance

Most human diseases involve interactions between genetic and environmental factors;however, the basis of these complex interactions is not well understood. Despite the importance of real-world exposure information for understanding connections between the environment and human health and prioritizing environmental health research, to date there has been no effort to centralize these data within a broader biological framework and their full value remains unexploited. This proposal will leverage our established database development expertise and infrastructure for the publicly available Comparative Toxicogenomics Database (CTD), which aims to promote understanding about environment-disease relationships, to curate and integrate exposure data into CTD and enhance the capacity for prediction, analysis and interpretation of environment-disease networks by developing novel analysis and visualization tools that include exposure data.

Agency
National Institute of Health (NIH)
Institute
National Institute of Environmental Health Sciences (NIEHS)
Type
Research Project (R01)
Project #
3R01ES019604-04S1
Application #
8927708
Study Section
Biodata Management and Analysis Study Section (BDMA)
Program Officer
Balshaw, David M
Project Start
2011-01-01
Project End
2015-12-31
Budget Start
2014-09-29
Budget End
2014-12-31
Support Year
4
Fiscal Year
2014
Total Cost
$159,953
Indirect Cost
$52,602
Name
North Carolina State University Raleigh
Department
Biology
Type
Schools of Earth Sciences/Natur
DUNS #
042092122
City
Raleigh
State
NC
Country
United States
Zip Code
27695
Zhang, Guozhu; Marvel, Skylar; Truong, Lisa et al. (2016) Aggregate entropy scoring for quantifying activity across endpoints with irregular correlation structure. Reprod Toxicol 62:92-9
Reif, David M; Truong, Lisa; Mandrell, David et al. (2016) High-throughput characterization of chemical-associated embryonic behavioral changes predicts teratogenic outcomes. Arch Toxicol 90:1459-70
Grondin, Cynthia J; Davis, Allan Peter; Wiegers, Thomas C et al. (2016) Advancing Exposure Science through Chemical Data Curation and Integration in the Comparative Toxicogenomics Database. Environ Health Perspect 124:1592-1599
Wei, Chih-Hsuan; Peng, Yifan; Leaman, Robert et al. (2016) Assessing the state of the art in biomedical relation extraction: overview of the BioCreative V chemical-disease relation (CDR) task. Database (Oxford) 2016:
Davis, Allan Peter; Wiegers, Thomas C; King, Benjamin L et al. (2016) Generating Gene Ontology-Disease Inferences to Explore Mechanisms of Human Disease at the Comparative Toxicogenomics Database. PLoS One 11:e0155530
Li, Jiao; Sun, Yueping; Johnson, Robin J et al. (2016) BioCreative V CDR task corpus: a resource for chemical disease relation extraction. Database (Oxford) 2016:
Mattingly, Carolyn J; Boyles, Rebecca; Lawler, Cindy P et al. (2016) Laying a Community-Based Foundation for Data-Driven Semantic Standards in Environmental Health Sciences. Environ Health Perspect 124:1136-40
Davis, Allan Peter; Grondin, Cynthia J; Lennon-Hopkins, Kelley et al. (2015) The Comparative Toxicogenomics Database's 10th year anniversary: update 2015. Nucleic Acids Res 43:D914-20
Rebuli, Meghan E; Camacho, Luísa; Adonay, Maria E et al. (2015) Impact of Low-Dose Oral Exposure to Bisphenol A (BPA) on Juvenile and Adult Rat Exploratory and Anxiety Behavior: A CLARITY-BPA Consortium Study. Toxicol Sci 148:341-54
Wiegers, Thomas C; Davis, Allan Peter; Mattingly, Carolyn J (2014) Web services-based text-mining demonstrates broad impacts for interoperability and process simplification. Database (Oxford) 2014:

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