I work with biological knowledge graphs, machine learning, and artificial intelligence to identify active molecules and to deconvolute their mechanisms of action.

🧰 My Projects

• 📮Bioregistry: an integrative registry of biological databases, ontologies, and nomenclatures.
• 🧬Biological Expression Language (BEL): a domain specific language for representing molecular biology
• 🌶️PyBEL: the computational ecosystem for compiling, querying, and analyzing knowledge graphs encoded in BEL
• 📛PyOBO: making ontologies and semantics accessible
• 🤖PyKEEN: knowledge graph embedding models for humans

⚖️ My Core Scientific Values

• ♻️ Reproducibility: code is part of the scientific process. It should be documented and re-usable by anyone.
• 🔓 Openness: science is best when people can build on each others' work. Sharing data, code, and ideas has benefitted everyone, and is also the responsiblity of a scientist to pay forward.
• 🎯 Thoroughness: quality is dependent on taking great care throughout all steps

📫 My Interblag

Besides my email and blog (on the left), I'm also in the internet in the following places:

• ORCID
• Wikidata
• Google Scholar
• DBLP
• https://scholar.social/@cthoyt

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1. biopragmatics/bioregistrybiopragmatics/bioregistryPublic

   📮 An integrative registry of biological databases, ontologies, and nomenclatures.

   Python 122 54

2. pykeen/pykeenpykeen/pykeenPublic

   🤖 A Python library for learning and evaluating knowledge graph embeddings

   Python 1.8k 195

3. pybel/pybelpybel/pybelPublic

   🌶️ An ecosystem in Python for working with the Biological Expression Language (BEL)

   Python 131 32

4. biopragmatics/pyobobiopragmatics/pyoboPublic

   📛 A Python package for using ontologies, terminologies, and biomedical nomenclatures

   Python 62 16