PHINDaccess Hackathons for COVID-19 and Host-Pathogen Interaction: Lessons Learned and Recommendations for Low- and
Kais Ghedira1, Hamza Dallali2, Monia Ardhaoui3,4
1Laboratory of Bioinformatics, Biomathematics and Biostatistics LR20IPT09, Pasteur Institute of Tunis, University of Tunis El Manar, Tunis 1002, Tunisia.
Biomed Research International
|October 19, 2023
Summary
Two hackathons developed bioinformatics pipelines for SARS-CoV-2 genomics and host-pathogen interactions (HPI), strengthening OMICS data analysis capacity, especially in low- and middle-income countries (LMIC). Lessons learned offer recommendations for future global health bioinformatics events.
Area of Science:
- Bioinformatics
- Genomics
- Computational Biology
Background:
- The COVID-19 pandemic highlighted the need for robust genomics analysis for host susceptibility and human-SARS-CoV-2 interactions.
- Developing portable and reproducible bioinformatics pipelines is crucial for studying host-pathogen interactions (HPI).
Purpose of the Study:
- To build and strengthen institutional capacities in OMICS data analysis for HPI research.
- To develop bioinformatics pipelines for SARS-CoV-2 genomics, phylodynamics, and host genetic variants.
- To address global health challenges, particularly in low- and middle-income countries (LMIC).
Main Methods:
- Organized two hackathons in 2020 and 2021 under the PHINDaccess project.
- Focused on collaborative development of bioinformatics pipelines for viral genomics and host-pathogen interactions.
- Documented preparation, proceedings, challenges, and lessons learned.
Main Results:
- Successfully initiated the development of bioinformatics pipelines for SARS-CoV-2 analysis.
- Fostered capacity building in OMICS data analysis within participating institutions.
- Identified key challenges and practical considerations for conducting hackathons in LMIC settings.
Conclusions:
- Hackathons are effective for collaborative development of bioinformatics tools for infectious disease research.
- Capacity building in bioinformatics is essential for LMIC to address global health threats.
- Experience provides valuable insights for organizing similar events in diverse settings.
