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| Project Title | Work Group | Status | Project Overview |
|---|---|---|---|
| Proteome-scale protein-protein interaction networks from the BioPlex project | Genetics / Genomics | Ongoing |
Implement programmatic access to BioPlex from within R/Bioconductor and from within Python, along with a series of downstream applications of BioPlex, See project details |
| Ontology Phenotype Mapping | Knowledge Representation | Ongoing |
Standardization of the phenotypes in 23andMe’s GWAS metadata with suitable symbols from ontologies See project details |
| OpenGWAS Ontology Mapping | Knowledge Representation | Ongoing |
Mapping the traits in Open GWAS to ontologies See project details |
| Multiplexed Error Robust Fluorescence in Situ Hybridization(MERFISH) | Genetics / Genomics | Ongoing |
Make MERFISH datasets accessible to the wider R/Bioconductor community. See project details |
| AlphaFold & ColabFold | Genetics / Genomics | Ongoing |
Developing a pair of modules on the O2 HPC cluster to facilitate protein structure prediction See project details |
| C elegans Database | Data & Analytics Platforms | Complete |
Build a relational database to catalog and track ~5000 transgenic or mutant C. elegans strains. See project details |
| RNA sequencing atlas of vascular endothelial cells | Genetics / Genomics | Complete |
Developed an O2-based RNA-seq pipeline that enabled efficient processing of raw sequencing output for 500 samples. See project details |
| Harvey Mudd College Computer Science Clinic | Knowledge Representation | Complete |
Developing a tool that relies on NLP techniques, ontology semantics and automated reasoning to semi-automatically map concepts in bulk See project details |