Cargando…
PHINDaccess Hackathons for COVID-19 and Host-Pathogen Interaction: Lessons Learned and Recommendations for Low- and Middle-Income Countries
Hackathons are collaborative events that bring together diverse groups to solve predefined challenges. The COVID-19 pandemic caused by SARS-CoV-2 has emphasized the need for portable and reproducible genomics analysis pipelines to study the genetic susceptibility of the human host and investigate hu...
Autores principales: | , , , , , , , , , , , , , , , , , , , , , , , , , , |
---|---|
Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Hindawi
2023
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10581832/ https://www.ncbi.nlm.nih.gov/pubmed/37854792 http://dx.doi.org/10.1155/2023/6638714 |
_version_ | 1785122203425046528 |
---|---|
author | Ghedira, Kais Dallali, Hamza Ardhaoui, Monia Bouslema, Zied Hamdi, Yosr Feki Ben-Salah, Salma Chelbi, Hanen Atri, Chiraz Chaouch, Melek Dekhil, Naira Rais, Afef Azouz, Saifeddine Gharbi, Manel Guerfali, Fatma Hkimi, Chaima Kamoun, Selim Ksouri, Ayoub Moumni, Imen Ouragini, Houyem Bsibes, Raghda Afifi, Zeineb Youssfi, Khouloud Ben Hassine, Hichem Hadhri, Najet Mardassi, Helmi Othman, Houcemeddine Khamessi, Oussema |
author_facet | Ghedira, Kais Dallali, Hamza Ardhaoui, Monia Bouslema, Zied Hamdi, Yosr Feki Ben-Salah, Salma Chelbi, Hanen Atri, Chiraz Chaouch, Melek Dekhil, Naira Rais, Afef Azouz, Saifeddine Gharbi, Manel Guerfali, Fatma Hkimi, Chaima Kamoun, Selim Ksouri, Ayoub Moumni, Imen Ouragini, Houyem Bsibes, Raghda Afifi, Zeineb Youssfi, Khouloud Ben Hassine, Hichem Hadhri, Najet Mardassi, Helmi Othman, Houcemeddine Khamessi, Oussema |
author_sort | Ghedira, Kais |
collection | PubMed |
description | Hackathons are collaborative events that bring together diverse groups to solve predefined challenges. The COVID-19 pandemic caused by SARS-CoV-2 has emphasized the need for portable and reproducible genomics analysis pipelines to study the genetic susceptibility of the human host and investigate human-SARS-CoV-2 protein interactions. To build and strengthen institutional capacities in OMICS data analysis applied to host-pathogen interaction (HPI), the PHINDaccess project organized two hackathons in 2020 and 2021. These hackathons are aimed at developing bioinformatics pipelines related to the SARS-CoV-2 viral genome, its phylodynamic transmission, and the identification of human genome host variants, with a focus on addressing global health challenges, particularly in low- and middle-income countries (LMIC). This paper outlines the preparation, proceedings, and lessons learned from these hackathons, including the challenges faced by participants and our recommendations based on our experience for organizing hackathons in LMIC and beyond. |
format | Online Article Text |
id | pubmed-10581832 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | Hindawi |
record_format | MEDLINE/PubMed |
spelling | pubmed-105818322023-10-18 PHINDaccess Hackathons for COVID-19 and Host-Pathogen Interaction: Lessons Learned and Recommendations for Low- and Middle-Income Countries Ghedira, Kais Dallali, Hamza Ardhaoui, Monia Bouslema, Zied Hamdi, Yosr Feki Ben-Salah, Salma Chelbi, Hanen Atri, Chiraz Chaouch, Melek Dekhil, Naira Rais, Afef Azouz, Saifeddine Gharbi, Manel Guerfali, Fatma Hkimi, Chaima Kamoun, Selim Ksouri, Ayoub Moumni, Imen Ouragini, Houyem Bsibes, Raghda Afifi, Zeineb Youssfi, Khouloud Ben Hassine, Hichem Hadhri, Najet Mardassi, Helmi Othman, Houcemeddine Khamessi, Oussema Biomed Res Int Research Article Hackathons are collaborative events that bring together diverse groups to solve predefined challenges. The COVID-19 pandemic caused by SARS-CoV-2 has emphasized the need for portable and reproducible genomics analysis pipelines to study the genetic susceptibility of the human host and investigate human-SARS-CoV-2 protein interactions. To build and strengthen institutional capacities in OMICS data analysis applied to host-pathogen interaction (HPI), the PHINDaccess project organized two hackathons in 2020 and 2021. These hackathons are aimed at developing bioinformatics pipelines related to the SARS-CoV-2 viral genome, its phylodynamic transmission, and the identification of human genome host variants, with a focus on addressing global health challenges, particularly in low- and middle-income countries (LMIC). This paper outlines the preparation, proceedings, and lessons learned from these hackathons, including the challenges faced by participants and our recommendations based on our experience for organizing hackathons in LMIC and beyond. Hindawi 2023-10-10 /pmc/articles/PMC10581832/ /pubmed/37854792 http://dx.doi.org/10.1155/2023/6638714 Text en Copyright © 2023 Kais Ghedira et al. https://creativecommons.org/licenses/by/4.0/This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Research Article Ghedira, Kais Dallali, Hamza Ardhaoui, Monia Bouslema, Zied Hamdi, Yosr Feki Ben-Salah, Salma Chelbi, Hanen Atri, Chiraz Chaouch, Melek Dekhil, Naira Rais, Afef Azouz, Saifeddine Gharbi, Manel Guerfali, Fatma Hkimi, Chaima Kamoun, Selim Ksouri, Ayoub Moumni, Imen Ouragini, Houyem Bsibes, Raghda Afifi, Zeineb Youssfi, Khouloud Ben Hassine, Hichem Hadhri, Najet Mardassi, Helmi Othman, Houcemeddine Khamessi, Oussema PHINDaccess Hackathons for COVID-19 and Host-Pathogen Interaction: Lessons Learned and Recommendations for Low- and Middle-Income Countries |
title | PHINDaccess Hackathons for COVID-19 and Host-Pathogen Interaction: Lessons Learned and Recommendations for Low- and Middle-Income Countries |
title_full | PHINDaccess Hackathons for COVID-19 and Host-Pathogen Interaction: Lessons Learned and Recommendations for Low- and Middle-Income Countries |
title_fullStr | PHINDaccess Hackathons for COVID-19 and Host-Pathogen Interaction: Lessons Learned and Recommendations for Low- and Middle-Income Countries |
title_full_unstemmed | PHINDaccess Hackathons for COVID-19 and Host-Pathogen Interaction: Lessons Learned and Recommendations for Low- and Middle-Income Countries |
title_short | PHINDaccess Hackathons for COVID-19 and Host-Pathogen Interaction: Lessons Learned and Recommendations for Low- and Middle-Income Countries |
title_sort | phindaccess hackathons for covid-19 and host-pathogen interaction: lessons learned and recommendations for low- and middle-income countries |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10581832/ https://www.ncbi.nlm.nih.gov/pubmed/37854792 http://dx.doi.org/10.1155/2023/6638714 |
work_keys_str_mv | AT ghedirakais phindaccesshackathonsforcovid19andhostpathogeninteractionlessonslearnedandrecommendationsforlowandmiddleincomecountries AT dallalihamza phindaccesshackathonsforcovid19andhostpathogeninteractionlessonslearnedandrecommendationsforlowandmiddleincomecountries AT ardhaouimonia phindaccesshackathonsforcovid19andhostpathogeninteractionlessonslearnedandrecommendationsforlowandmiddleincomecountries AT bouslemazied phindaccesshackathonsforcovid19andhostpathogeninteractionlessonslearnedandrecommendationsforlowandmiddleincomecountries AT hamdiyosr phindaccesshackathonsforcovid19andhostpathogeninteractionlessonslearnedandrecommendationsforlowandmiddleincomecountries AT fekibensalahsalma phindaccesshackathonsforcovid19andhostpathogeninteractionlessonslearnedandrecommendationsforlowandmiddleincomecountries AT chelbihanen phindaccesshackathonsforcovid19andhostpathogeninteractionlessonslearnedandrecommendationsforlowandmiddleincomecountries AT atrichiraz phindaccesshackathonsforcovid19andhostpathogeninteractionlessonslearnedandrecommendationsforlowandmiddleincomecountries AT chaouchmelek phindaccesshackathonsforcovid19andhostpathogeninteractionlessonslearnedandrecommendationsforlowandmiddleincomecountries AT dekhilnaira phindaccesshackathonsforcovid19andhostpathogeninteractionlessonslearnedandrecommendationsforlowandmiddleincomecountries AT raisafef phindaccesshackathonsforcovid19andhostpathogeninteractionlessonslearnedandrecommendationsforlowandmiddleincomecountries AT azouzsaifeddine phindaccesshackathonsforcovid19andhostpathogeninteractionlessonslearnedandrecommendationsforlowandmiddleincomecountries AT gharbimanel phindaccesshackathonsforcovid19andhostpathogeninteractionlessonslearnedandrecommendationsforlowandmiddleincomecountries AT guerfalifatma phindaccesshackathonsforcovid19andhostpathogeninteractionlessonslearnedandrecommendationsforlowandmiddleincomecountries AT hkimichaima phindaccesshackathonsforcovid19andhostpathogeninteractionlessonslearnedandrecommendationsforlowandmiddleincomecountries AT kamounselim phindaccesshackathonsforcovid19andhostpathogeninteractionlessonslearnedandrecommendationsforlowandmiddleincomecountries AT ksouriayoub phindaccesshackathonsforcovid19andhostpathogeninteractionlessonslearnedandrecommendationsforlowandmiddleincomecountries AT moumniimen phindaccesshackathonsforcovid19andhostpathogeninteractionlessonslearnedandrecommendationsforlowandmiddleincomecountries AT ouraginihouyem phindaccesshackathonsforcovid19andhostpathogeninteractionlessonslearnedandrecommendationsforlowandmiddleincomecountries AT bsibesraghda phindaccesshackathonsforcovid19andhostpathogeninteractionlessonslearnedandrecommendationsforlowandmiddleincomecountries AT afifizeineb phindaccesshackathonsforcovid19andhostpathogeninteractionlessonslearnedandrecommendationsforlowandmiddleincomecountries AT youssfikhouloud phindaccesshackathonsforcovid19andhostpathogeninteractionlessonslearnedandrecommendationsforlowandmiddleincomecountries AT benhassinehichem phindaccesshackathonsforcovid19andhostpathogeninteractionlessonslearnedandrecommendationsforlowandmiddleincomecountries AT hadhrinajet phindaccesshackathonsforcovid19andhostpathogeninteractionlessonslearnedandrecommendationsforlowandmiddleincomecountries AT mardassihelmi phindaccesshackathonsforcovid19andhostpathogeninteractionlessonslearnedandrecommendationsforlowandmiddleincomecountries AT othmanhoucemeddine phindaccesshackathonsforcovid19andhostpathogeninteractionlessonslearnedandrecommendationsforlowandmiddleincomecountries AT khamessioussema phindaccesshackathonsforcovid19andhostpathogeninteractionlessonslearnedandrecommendationsforlowandmiddleincomecountries |