molepro

is an Aggregator.

It is part of the Translator collection.

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

License

MIT License

Homepage

molepro

Repository

GitHub

External IDs
  • Infores: infores:molepro

Product Summary

Products

From this Resource
ID Name URL Category Format Description
molepro.api MolePro API api Programming Interface http MolePro API providing access to the k...
molepro.trapi MolePro TRAPI Interface ui Programming Interface http TRAPI-compliant interface for MolePro...
molepro.catalog MolePro Knowledge Sources Catalog transformers (2.0 MB) Product json Catalog of MolePro knowledge sources ...
molepro.graph.nodes Nodes for Molecular Data KP nodes.tsv (3.4 GB) Graph kgx KGX nodes for Molecular Data KP
molepro.graph.edges Edges for Molecular Data KP edges.tsv (18.8 GB) Graph kgx KGX edges for Molecular Data KP
From other Resources
ID Name URL Category Format Relation Description
automat.molepro MolePro_Automat MolePro_Automat Graph kgx-jsonl had primary source MolePro Automat: per-source KGX knowl...
ars.portal ARS Production Portal ars-prod.transltr.io Graphical Interface http was informed by JSON index of the ARS production rela...
ars.api ARS API api Programming Interface http was informed by TRAPI-compatible ARS endpoint for asy...
cqs.code ⚠ CQS Source Repository CQS Process http was informed by Source code and templates implementin...

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: October 04, 2026