SurfR

SurfR provides a streamlined end-to-end workflow for computationally identifying surface protein-coding genes from expression data.

Key Features:

• Data Retrieval: Performs systematic expression data retrieval from public databases.
• Differential Gene Expression: Performs differential gene expression analysis across conditions.
• Dataset Integration: Integrates multiple datasets.
• Enrichment Analysis: Performs enrichment analysis on surface protein-coding genes.
• Targetable Protein Identification: Identifies targetable proteins for a condition of interest.
• Data Visualization: Generates visualizations of analysis results.

Scientific Applications:

• Biomarker Discovery: Identifies cell-surface proteins that may act as biomarkers for detecting cells of interest in tissues or body fluids.
• Pharmaceutical Target Identification: Identifies cell-surface proteins that are often targets of pharmaceutical agents.
• Clinical Diagnostics and Prognostics: Supports diagnosis, prognosis, treatment development, and evaluation of therapy response through identification of condition-specific cell-surface proteins.

Methodology:

SurfR implements a workflow incorporating data retrieval, differential expression analysis, and enrichment analysis to identify surface protein-coding genes from expression data.