TrypTag: Genome-Wide Protein Localization in Trypanosoma Brucei

TrypTag provides genome-wide subcellular protein localization data for the eukaryotic pathogen Trypanosoma brucei. The master deposition includes a localization summary, scripts, code, primer sequences, and an index linking gene IDs to microscopy data hosted on Zenodo. This resource was created by researchers at the University of Oxford and is associated with a 2023 publication in Nature Microbiology.

Use Cases

• Predicting protein function based on subcellular localization patterns described in the summary.
• Training computer vision models for automated cell component annotation using the linked microscopy images.
• Integrating localization data with genomic databases like TriTrypDB for systems biology analysis.
• Validating gene ontology (GO) term assignments for cellular components using the experimental localization evidence.

Strengths

• Data is genome-wide, covering the proteome of Trypanosoma brucei.
• Includes an index linking gene IDs to raw and processed microscopy data on Zenodo.
• Provides associated scripts, code, and primer sequences for reproducibility.

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 contain the microscopy images themselves, requiring navigation to external Zenodo DOIs.

Provenance

Source

University of Oxford, TrypTag project.

Collection Method

Endogenous tagging of proteins with mNeonGreen (mNG) and imaging via widefield epifluorescence microscopy.