Building Standards, Knowledge Sources and Software
Learn about our private and public databases, knowledge sources and tools.
Disease-Related Knowledge Sources and Applications
Contact
COVID-19 Open Data Portal
https://opendata.ncats.nih.gov/covid19
The COVID-19 Open Data Portal provides open access to screening data, animal model data and multi-omics data. Informatics scientists at NCATS are contributing to back-end and front-end development of the website and are helping coordinate the data ingestion into the site. This resource enables a variety of drug repurposing activities and allows researchers to formulate hypotheses, prioritize research opportunities and speed the search for effective therapies against SARS-CoV-2 and COVID-19.
CURE ID
CURE ID, a website and mobile app, is a collaboration between the U.S. Food and Drug Administration (FDA) and NCATS that gives the global clinical community the opportunity to report novel uses of existing drugs for patients with difficult-to-treat infectious diseases through a website or a smartphone or other mobile device. It was developed with support from the Infectious Diseases Society of America, the Centers for Disease Control and Prevention and the World Health Organization.
Genetic and Rare Diseases (GARD) Information Center
https://rarediseases.info.nih.gov
The Genetic and Rare Diseases (GARD) Information Center provides the public with access to current, reliable and easy-to-understand information about rare or genetic diseases. Informatics scientists organize, synthesize and update the backbone database for GARD. The program is funded by NCATS and the National Human Genome Research Institute.
Rare Disease Alert System (RDAS)
https://rdas.ncats.nih.gov/browser/ (neo4j)
To fulfill the need for integrating biomedical data in a structured, standardized and semantic way for advancing research in rare diseases, the latest research findings in the rare disease field, mined from PubMed articles, grant funding and clinical trials, have been complied to develop NCATS Rare Disease Alert System (RDAS). With RDAS, we can create alerts on research finding updates, thereby providing an up-to-date resource of information to support the rare disease clinical/research community.
Drug and Chemical Annotations and Applications
Global Substance Registration System (GSRS)
GSRS provides a common identifier for all of the substances regulated by the FDA that are used in medicinal products. GSRS is the only system that enables ISO 11238 standard compliance, allowing consistent definitions of substances globally, including active substances under clinical investigation. GSRS is a collaborative effort between NCATS and the FDA. NCATS publishes the FDA GSRS data, enabling collaborators to leverage FDA curated data.
NCATS Inxight Drugs
Inxight Drugs incorporates and unifies manually curated data supplied by the FDA and private companies, and it provides marketing and regulatory status, rigorous drug ingredient definitions, information about biological activity and clinical use, and more. We have developed Inxight data resources to facilitate translational research.
Tox21 Gateway
The Tox21 Gateway is a web-based interface for the analysis of and access to Tox21 screening data. The Tox21 10K compound library has been screened against approximately 70 cell-based assays in qHTS format, generating approximately 100 million data points. The Gateway contains a suite of tools, including a public website for browsing and downloading Tox21 assay data and compound library annotations, such as analytical quality control results; an assay tracking system that stores assay metadata and detailed experimental conditions; a structure-activity analysis tool; and links to Tox21 publications and presentations. Informatics and the Toxicology in the 21st Century (Tox21) program work together to develop tools, such as the Tox21 Gateway.
Biological and Molecular Knowledge Sources and Applications
Pharos
Pharos is a comprehensive, integrated knowledge base for drug discovery and target validation. It was created to help illuminate the uncharacterized or poorly annotated portion of the genome. Pharos is the user interface to the Knowledge Management Center for the Illuminating the Druggable Genome (IDG) program funded by the NIH Common Fund.
Learn more: Pharos: Collating Protein Information to Shed Light on the Druggable Genome.
Relational Database of Metabolic Pathways
Code: https://github.com/ncats/RaMP-DB
Interface: https://rampdb.nih.gov/
The Relational Database of Metabolic Pathways (RaMP-DB) is a publicly available relational database that integrates multiple sources of biological, chemical and analyte (metabolite, protein, gene) annotations. The source code for building the database is available, and a user-friendly application to query the database is provided. RaMP-DB also supports pathway enrichment analysis for multi-omics data input.
BioPlanet
https://tripod.nih.gov/bioplanet/
BioPlanet is a comprehensive, publicly accessible informatics resource that catalogues annotations and relationships between pathways, healthy and disease states, and targets. BioPlanet integrates pathway annotations from publicly available, manually curated sources that have been subjected to thorough redundancy and consistency cross-evaluation via extensive manual curation. The browser supports interactive browsing; retrieval and analysis of pathways; exploration of pathway connections; and pathway search by gene targets, category and availability of bioactivity assays.
SmartGraph
SmartGraph is a predictive network-pharmacology platform that integrates drug–target and protein–protein interactions. Investigators can analyze the perturbation of the protein interaction network caused by single or multiple (small-molecule) agents. SmartGraph enables researchers without an in-depth informatics background to perform analyses by providing powerful network visualization and user-friendly “single click” options to perform complex workflows.