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Updated: Jan 31, 2026

High-Throughput Transcriptome Analysis for Investigating Host-Pathogen Interactions
Published on: March 5, 2022
Pathogen-Host Analysis Tool (PHAT): an integrative platform to analyze next-generation sequencing data.
Christopher M Gibb1,2, Robert Jackson1,3, Sabah Mohammed2
1Probe Development and Biomarker Exploration, Thunder Bay Regional Health Research Institute.
The Pathogen-Host Analysis Tool (PHAT) simplifies next-generation sequencing (NGS) analysis for pathogen-host interactions. This user-friendly application integrates multiple data types and analysis steps for life scientists.
Area of Science:
- Bioinformatics
- Genomics
- Computational Biology
Background:
- Analyzing pathogen-host relationships using next-generation sequencing (NGS) data is complex.
- Existing methods often require custom scripting and extensive pipeline programming.
- A unified, user-friendly platform is needed for efficient analysis of pathogen-host interactions.
Purpose of the Study:
- To introduce the Pathogen-Host Analysis Tool (PHAT), an integrated application for processing and analyzing NGS data.
- To provide a user-friendly solution for life scientists studying pathogen-host relationships.
- To streamline the analysis workflow from raw sequence data to actionable insights.
Main Methods:
- PHAT integrates raw and aligned sequence and reference file input.
- The tool includes quality control (QC) reporting, alignment, and variant calling functionalities.
- It offers linear and circular alignment viewing with graphical and tabular output options.
Main Results:
- PHAT provides a comprehensive platform for pathogen-host interaction analysis.
- The application supports diverse input formats and analysis steps.
- It generates both visual and tabular data outputs for interpretation.
Conclusions:
- PHAT offers a novel, integrative, and user-friendly approach to NGS data analysis in pathogen-host studies.
- The tool simplifies complex analyses, making it accessible to a broader range of life scientists.
- PHAT aims to enhance the efficiency and effectiveness of research into pathogen-host dynamics.
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