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CEBS: A Comprehensive Annotated Database of Toxicological Data

Lea IA, Gong H, Paleja A, Rashid A, Fostel J.
Nucleic Acids Res (2017). DOI: https://doi.org/10.1093/nar/gkw1077 PMID: 27899660


Publication


Abstract

The Chemical Effects in Biological Systems database (CEBS) is a comprehensive and unique toxicology resource that compiles individual and summary animal data from the National Toxicology Program (NTP) testing program and other depositors into a single electronic repository. CEBS has undergone significant updates in recent years and currently contains over 11 000 test articles (exposure agents) and over 8000 studies including all available NTP carcinogenicity, short-term toxicity and genetic toxicity studies. Study data provided to CEBS are manually curated, accessioned and subject to quality assurance review prior to release to ensure high quality. The CEBS database has two main components: data collection and data delivery. To accommodate the breadth of data produced by NTP, the CEBS data collection component is an integrated relational design that allows the flexibility to capture any type of electronic data (to date). The data delivery component of the database comprises a series of dedicated user interface tables containing pre-processed data that support each component of the user interface. The user interface has been updated to include a series of nine Guided Search tools that allow access to NTP summary and conclusion data and larger non-NTP datasets. The CEBS database can be accessed online at http://www.niehs.nih.gov/research/resources/databases/cebs/.

Figures


Figure 1. CEBS Data Collection Database.

Data in the CEBS database are grouped into three categories: (i) Study Metadata which describe experimental design, (ii) Study Data which describe the data domains for which descriptive or measurable endpoints are collected and 3) Conclusions which describe the summary endpoints.

Figure 2. CEBS Content.

(A) Number of studies and relative proportion of NTP study types in CEBS (July 2016). All NTP data currently available for these study types can be accessed from the CEBS interface. On-going studies are added as they become available. (B) Number of studies for each data type (NTP and non-NTP; July 2016). One study may contain multiple data types (e.g. histopathology, hematology and organ weight) and is counted in each data domain. Graph illustrates the range of data types that are available in CEBS.

Figure 3. Guided Search Functionality in CEBS.

Guided searched accessible from the CEBS home page allow users to access and search NTP summary and conclusion data (Treatment-Related Findings and Organ Sites and Neoplasia), review pre-calculated benchmark dose values for NTP carcinogenicity studies (Look Up BMD Values) and access DrugMatrix toxicogenomic profiles (Look Up Gene Signatures).

Supplemental Materials


Supplemental Data