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CTD: a resource for predicting chemical-gene-disease networks Carolyn Mattingly North Carolina State University.

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Presentation on theme: "CTD: a resource for predicting chemical-gene-disease networks Carolyn Mattingly North Carolina State University."— Presentation transcript:

1 CTD: a resource for predicting chemical-gene-disease networks Carolyn Mattingly North Carolina State University

2 Chemical landscape > 60,000 ~2,000 added/year ~8,000 are carcinogens No toxicity data for ~40% of the 3,300high production volume chemicals Full toxicity data for only 25% of chemicals in consumer products

3 Crofton et al. Congenital Anomalies 2012; 52, 140–146

4 Many disorders are on the rise Leukemia Cancers (Brain, breast, childhood) Asthma Fertility and full term pregnancies Birth defects Autism

5 How does the environment affect our health?

6 Environment (chemicals) Genes Disease

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8 ABC Evans and Rzhetsky, Science, 329:399 (2010) AB + BC

9 C-G interactions C-D Relationships G-D Relationships

10 Breast Cancer 163 Genes 5,896 Genes 57 curated >1,000 inferred

11 http://ctdbase.org

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13 +

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17 PLoS One. 2012;7(11):e46524.

18 Chemical-disease pathways

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23 CTD Data (June 2013)Status Curated Chemicals12,985 Curated Genes32,464 Curated Diseases6,354 Chemical-Gene Interactions869,902 Unique Chemicals10,150 Unique Genes31,344 Unique Organisms492 Curated Gene-Disease Relationship27,397 Curated Chemical-Disease Relationships186,986 >300 manuscripts using CTD data >30 public databases incorporating CTD data

24 Exposure data Grounding CTD data in real-world exposure data Centralizing exposure data Integrating exposure information with other biological data

25 Exposure StressorExposure Receptor Interacts with Exposure Event via Exposure Outcome to result in ExO

26 Mattingly CJ, McKone TE, Callahan MA, Blake JA, Hubal EA. Environ Sci Technol. 2012. 46(6):3046. Status ~50 data points captured ~3,000 priority articles: 600 curated, 16,000 exposure statements, 300 unique chemicals, 100 diseases Exposure data

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28 Basics Exposure Studies bisphenol A Exposure Levels The following are measured exposure levels of bisphenol A or its descendants curated from various Exposure Studies. Click on DETAILS to find more information about the measurement and conditions of the study. displays the actual measurements curated from multiple papers, providing a view of the different ranges data displayed if chemical or its descendant is in the Stressor orBiomarker column

29 Phenotype-disease curation Hypertension Hypotension Arrhythmias, Cardiac Blood Pressure Heart Rate Vasoconstriction Disease Phenotype

30 Phenotype-disease analysis

31 Nagiza Samatova. NCSU Phenotype-disease analysis

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33 Scientific Curators Allan Peter Davis Cindy Murphy Cynthia Richards Kelley Lennon-Hopkins Daniela Sciaky Jean Lay Scientific Software Engineers Michael C. Rosenstein Thomas Wiegers Biostatistician Benjamin King, MS System Administrator Roy McMorran Funding Acknowledgements


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