DeltaProt

DeltaProt performs comparative analysis and visualization of protein sequences to study environmental adaptations of orthologous and extremophile proteins.

Key Features:

• Comparative protein analysis: Performs comparative genomics on protein sequences across different environments and orthologous groups.
• Multiple sequence alignment handling: Imports, analyzes, and visualizes data from multiple sequence alignments of proteins.
• Structural integration: Integrates predicted structural information from predictors such as SABLE and other structure predictors.
• Statistical computation: Calculates detailed statistics during analysis to quantify sequence differences.
• Visualization: Generates sequence plots and comparative visualizations to identify similarities and differences among proteins.
• Compact input format: Uses a compact input format for representing genome biology problems.
• MATLAB implementation: Implemented in MATLAB to perform numerical computations.

Scientific Applications:

• Environmental adaptation studies: Enables analysis of protein sequence changes associated with adaptations to diverse habitats.
• Orthologous protein comparison: Supports comparative studies of orthologous proteins across species and environments.
• Extremophile protein analysis: Facilitates screening and comparative analysis of extremophile proteins and protein classes.
• Sequence-structure comparative screening: Combines sequence data with predicted structural features (e.g., from SABLE) for comparative screening.
• Statistical bioinformatics: Provides quantitative analyses for bioinformatics and statistical studies of protein sequences.

Methodology:

Imports and processes multiple sequence alignments, integrates predicted structural information (e.g., from SABLE), computes detailed statistics, and generates sequence visualizations; implemented in MATLAB.