TrypTag: Genome-Wide Protein Localisation in Trypanosoma Brucei

TrypTag is a genome-wide protein localisation project for the pathogen Trypanosoma brucei, created by researchers including Karen Billington at the University of Oxford. The master deposition includes a summary of localisations, scripts, code, primer sequences, and an index linking gene IDs to microscopy data hosted on Zenodo. Data can be browsed at TrypTag.org and mined via TriTrypDB.org.

Use Cases

• Predict protein function based on subcellular localisation patterns described in the project.
• Train computer vision models for cellular component classification using the referenced widefield epifluorescence microscope images.
• Conduct comparative genomics studies by integrating localisation data with the TriTrypDB genome database mentioned.
• Validate gene annotation and ontology assignment using the provided localisation ontology.

Strengths

• Project is genome-wide, covering protein localisation for the entire Trypanosoma brucei proteome.
• Data is linked to a published study in Nature Microbiology (Billington et al. 2023) and other informative papers.
• Provides an index linking gene IDs to specific Zenodo DOIs for accessing raw and processed microscopy data.

Limitations

• Row count and dataset size are unknown, which may limit suitability assessment.
• Column-level documentation is absent; field semantics must be inferred after download.
• The master deposition does not include the microscopy image data itself, which is hosted separately.

Provenance

Source

University of Oxford, TrypTag project

Collection Method

Endogenous tagging with mNeonGreen (mNG) and widefield epifluorescence microscopy.