NCTR Bioinformatic Tools: Tools created at NCTR with the goal of developing methods for the analysis and integration of complex omics (genomics, transcriptomics, proteomics, and metabolomics) datasets
The National Center for Toxicological Research conducts research in both bioinformatics and chemoinformatics. The Center also develops and coordinates bioinformatics capabilities within NCTR, across FDA Centers, and in the larger toxicology community. These Bioinformatics Tools were created at NCTR with the goal of developing methods for the analysis and integration of complex omics (genomics, transcriptomics, proteomics, and metabolomics) datasets. The list of Bioinformatics Tools are listed below:
For best results, use the Firefox browser with Java 8 under Windows 7 or 10 when using the bioinformatics tools.
- ArrayTrack™ HCA-PCA Standalone Package
Hierarchical Cluster Analysis (HCA) and Principal Component Analysis (PCA) – powerful data-exploring tools extracted from ArrayTrack™.
- Database of Pharmacogenomic Information in Ethnic Minority Populations (dbPGxEMP)
Integrative database linking drugs, pharmacogenomic biomarkers, and genetic variations in minority populations.
- The de novo Assembly Quality Evaluation Tool (dnAQET)
Framework designed to evaluate the contigs of a de novo assembly against a trusted reference genome.
- Decision Forest
Novel pattern-recognition method for analysis of data from microarray experiments, proteomics research, and predictive toxicology.
- Drug-Induced Liver Injury Rank (DILIrank) Dataset
A large reference list of drugs ranked by their risk for developing DILI in humans. This is an updated list from the LTKB Benchmark dataset.
- Estrogenic Activity Database (EADB)
Comprehensive set of estrogenic activity data from a variety of data sources and a component of the enhanced Endocrine Disruptors Knowledge Base (EDKB).
- Endocrine Disruptor Knowledge Base (EDKB)
Scientific resources for estrogen and androgen activity of potential endocrine disruptor chemicals.
Tool to conduct full-text search of drug labeling.
- Liver Toxicity Knowledge Base (LTKB)
Collection of diverse drug-induced liver injury data associated with individual drugs and development of predictive models to assess risk of drug-induced liver injury.
- MicroArray/Sequencing Quality Control (MAQC/SEQC)
Project to develop microarray quality control metrics and thresholds.
Software that generates molecular descriptors from two-dimensional structures.
- NCTR Liver Cancer Database (NCTRlcdb)
Database of 999 chemicals with assigned liver-toxicity classifications to facilitate the construction of cleaner and better carcinogenicity models by FDA and other organizations.
Resources For You
Contact NCTR Bioinformatics Support
Food and Drug Administration
3900 NCTR Rd
Jefferson, AR 72079