SurfaceGenie

SurfaceGenie prioritizes cell-type-specific marker candidates by computing the GenieScore that integrates consensus-based cell surface localization predictions with proteomic and transcriptomic data.

Key Features:

• GenieScore metric: Integrates consensus-based predictions of cell surface localization with user-provided proteomic and transcriptomic data to rank-order marker candidates.
• SPC scores: Uses consensus-based surface prediction (SPC) values as inputs or lookup values for surface localization evidence.
• IsoGenieScore: A modified GenieScore variant tailored to prioritize co-expressed surface marker combinations.
• OmniGenieScore: A modified GenieScore variant tailored to prioritize intracellular cell-type-specific markers.
• Cross-species data support: Applicable to both human and rodent datasets derived from proteomic and transcriptomic experiments.

Scientific Applications:

• Immunophenotyping: Prioritizes surface proteins suitable as markers for immunophenotyping live cells.
• Targeted drug delivery: Identifies candidate surface proteins for targeted drug delivery strategies.
• In vivo imaging: Ranks surface markers for potential use in in vivo imaging applications.
• Cancer research: Supports selection of cell-type-specific surface markers relevant to cancer biology.
• Stem cell research: Aids identification of markers for stem cell characterization and sorting.
• Islet biology: Facilitates prioritization of surface markers pertinent to islet biology studies.

Methodology:

Combines consensus-based cell surface localization predictions (SPC) with user-provided proteomic and transcriptomic data to compute GenieScore and its variants (IsoGenieScore and OmniGenieScore) and provides SPC score lookup.