Skip to main content

Knowledge curated in BEL from full text during the Human Brain Pharmacome project

Project description

Curation of Neurodegeneration in BEL (CONIB) Travis CI DOI

This knowledge repository, developed during the Human Brain Pharmacome project, contains documents in Biological Expression Language (BEL) describing neurodegenerative disease phenomena such as tauopathies.



  • hbp_knowledge: This folder contains curated BEL documents. Most have been organized by category (protein of interest, biological process of interest, pathway, etc.). Almost BEL documents correspond to a single publication, but a select few contain content from several due to topic-based curation.
  • docs: This folder contains automatically generated HTML summaries of the content that can best be accesed through
  • notebooks: This folder contains various Jupyter notebooks associated with the repository. Since many of them use PyBEL-Jupyter, they may be best viewed using NBViewer.

Curation Planning

Here are a few links for navigating the GitHub issues and pull requests:


hbp_knowledge can be installed from PyPI with the following command:

$ pip install hbp_knowledge

or the latest version can be installed from GitHub with:

$ pip install git+


The graph can be loaded with:

import hbp_knowledge

# Get a dictionary of names to graphs
graphs = hbp_knowledge.get_graphs()

# Get all BEL documents as a single graph
graph = hbp_knowledge.get_graph()


Contributions are welcome! Please submit all pull requests to


  • BEL scripts in this repository are licensed under the CC BY 4.0 license.
  • Python source code in this repository is licensed under the MIT license.

Project details

Download files

Download the file for your platform. If you're not sure which to choose, learn more about installing packages.

Files for hbp-knowledge, version 0.0.7
Filename, size File type Python version Upload date Hashes
Filename, size hbp_knowledge-0.0.7-py3-none-any.whl (11.9 MB) File type Wheel Python version py3 Upload date Hashes View
Filename, size hbp_knowledge-0.0.7.tar.gz (9.2 MB) File type Source Python version None Upload date Hashes View

Supported by

Pingdom Pingdom Monitoring Google Google Object Storage and Download Analytics Sentry Sentry Error logging AWS AWS Cloud computing DataDog DataDog Monitoring Fastly Fastly CDN DigiCert DigiCert EV certificate StatusPage StatusPage Status page