SPOT

SPOT enables rapid comparative analysis and ranking of genes by matching user-defined expression profiles across single-cell and bulk RNA sequencing datasets.

Key Features:

• User-Defined Expression Profiles: Defines specific gene expression profiles as query signatures for targeted analysis.
• Rapid Gene Ranking and Analysis: Employs a heuristic algorithm to rank genes based on their proximity to the user-defined expression profiles.
• Visualization Tools: Presents best-matching genes using tables, bar charts, and dot plots for result interpretation.
• Data Export Options: Exports results as Excel files for downstream analysis.

Scientific Applications:

• Malaria Parasites: Applied to RNA sequencing datasets from malaria parasites to analyze stage-specific transcriptional changes.
• Human Organ Development: Used to analyze gene expression dynamics across various human organs during development.
• SARS-CoV-2 Infections: Applied to cell line datasets infected with SARS-CoV-2 to identify infection-associated expression patterns.

Methodology:

SPOT uses a heuristic approach that evaluates the proximity of genes to user-defined expression profiles to rank candidate genes and generates outputs as tables, bar charts, dot plots, and Excel files.