Bioinformatics Tools

The National Center for Toxicological Research conducts research in bioinformatics and chemoinformatics and develops and coordinates bioinformatics capabilities within NCTR, across FDA Centers, and in the larger toxicology community. Bioinformatic tools created at NCTR with the goal to develop methods for the analysis and integration of omics (genomics, transcriptomics, proteomics, and metabolomics) datasets include:

 

• ArrayTrack™
  DNA microarray data management, mining, analysis, and interpretation software
• atBioNet
  An Integrated PPI (protein-protein interaction) Network Analysis Tool for Systems Biology and Biomarker Discovery
• Decision Forest
  Novel pattern-recognition method for analysis of data from microarray experiments, proteomics research, and predictive toxicology
• Endocrine Disruptor Knowledge Base (EDKB)
  Scientific resources to predict estrogen and androgen activity
• FDALabel — Full-Text Search of Drug Label Database
• Gene Ontology for Functional Analysis (GOFFA)
  ArrayTrack™ tool to identify terms in Gene Ontology associated with a list of genes
• Liver Toxicity Knowledge Base (LTKB)
  Project to study drug-induced liver injury
• MicroArray Quality Control (MAQC)
  Project to develop microarray quality control metrics and thresholds
• Mold2 
  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  
• SNPTrack
  An integrated solution for the management, analysis, and interpretation of genetic association study data