molepro

is an Aggregator.

The Molecular Data Provider (MolePro) is part of the NCATS Biomedical Data Translator project, integrating diverse chemical biology data sources into a curated framework for chemical entities and their effects on biological targets. MolePro consolidates information from over two dozen public chemical biology datasets, portals, and tools, providing comprehensive insights into compounds, protein targets, and similarity-based connections through both a custom API and TRAPI interface.

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Domains

drug discovery, chemistry and biochemistry, biomedical, pharmacology, translational

License

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Homepage

molepro

Repository

GitHub

Infores ID

infores:molepro

FAIRsharing ID

Unknown

Product Summary

Products

From this Resource
ID Name URL Category Format Description
molepro.api MolePro API api ProgrammingInterface http MolePro API providing access to the k...
molepro.trapi MolePro TRAPI Interface ui ProgrammingInterface http TRAPI-compliant interface for MolePro...
molepro.catalog MolePro Knowledge Sources Catalog transformers (2.0 MB) Product json Catalog of MolePro knowledge sources ...

Details

Molecular Data Provider

Overview

The Molecular Data Provider (MolePro) is part of the NCATS Biomedical Data Translator project, serving as a Knowledge Provider that integrates diverse chemical biology data sources into a unified framework. MolePro enhances understanding of chemical entities and their effects on biological targets through comprehensive data integration and curation.

Key Features

  • Data Integration: Consolidates information from over two dozen public chemical biology datasets, portals, and tools
  • Unbiased Approach: Adheres to stringent policies to avoid expert bias, ensuring impartial data scouting and meticulous data provenance
  • Unified Framework: Provides a cohesive framework for compounds and targets, facilitating “guilt-by-association” inferences
  • Chemical Biology Expertise: Contributes expertise in drug discovery, probe development, toxicity flagging, and small-molecule mechanism of action elucidation
  • Similarity-Based Connections: Includes connections based on chemical and biological similarity

Interfaces

MolePro provides the same molecular data knowledge through two APIs:

MolePro API

  • NCATS Translator server: https://molepro.transltr.io/molecular_data_provider/api
  • Broad Institute server: https://translator.broadinstitute.org/molecular_data_provider/api

Translator Reasoner API (TRAPI)

MolePro implements the standardized Translator Reasoner API, integrating query graphs, knowledge graphs, and results into a single HTTP message:

  • NCATS Translator server: https://molepro-trapi.transltr.io/molepro/trapi/v1.5/ui/
  • Broad Institute server: https://translator.broadinstitute.org/molepro/trapi/v1.5/ui/

Knowledge Sources

MolePro’s knowledge graph integrates information from over two dozen sources, including:

  • BiGG Models, BigGIM, BindingDB
  • ChEBI, ChemBank, ChEMBL, CMAP
  • CTD, CTRP, DepMap
  • DGIdb, DrugBank, DrugCentral, Drug Repurposing Hub
  • DSSTox, Gelinea, GtoPdb
  • HGNC, HMDB, Inxight:Drugs
  • Kinomescan, MSigDB, PharmGKB
  • Pharos, ProbeMiner, PubChem
  • Reactome, RxNorm, SIDER
  • STITCH, STRING

For complete details, see the Catalog of MolePro knowledge sources.

Source Code

MolePro is open source and available on GitHub: https://github.com/broadinstitute/molecular-data-provider

Team Contact

  • Email: translator@broadinstitute.org
  • Team Lead: Vlado Dancik (@vdancik)

Is this information incorrect or incomplete? Request an update.

Created: October 30, 2025 | Last modified: November 17, 2025