Evidence map›Paper›PMID 37854792›Full record

ArticleBioMed research international2023

PHINDaccess Hackathons for COVID-19 and Host-Pathogen Interaction: Lessons Learned and Recommendations for Low- and Middle-Income Countries.

Kais Ghedira, Hamza Dallali, Monia Ardhaoui, Zied Bouslema, Yosr Hamdi, Salma Feki Ben-Salah, Hanen Chelbi, Chiraz Atri, Melek Chaouch, Naira Dekhil and 17 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in BioMed research international, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

1 citing paper in PubMed.

  1. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

27 authors.

Kais GhediraLaboratory of Bioinformatics, Biomathematics and Biostatistics LR20IPT09, Pasteur Institute of Tunis, University of Tunis El Manar, Tunis 1002, Tunisia.ORCID https://orcid.org/0000-0002-3387-6493
Hamza DallaliLaboratory of Biomedical Genomics and Oncogenetics (LR20IPT05), Pasteur Institute of Tunis, University of Tunis El Manar, Tunis 1002, Tunisia.ORCID https://orcid.org/0000-0002-3186-697X
Monia ArdhaouiDepartment of Human and Experimentally Anatomic Pathology, Laboratory of Molecular Epidemiology and Experimental Pathology, Institut Pasteur de Tunis, University of Tunis El Manar, Tunis, Tunisia.ORCID https://orcid.org/0000-0002-9016-8987
Zied BouslemaLaboratory for Rabies Diagnostics, Institute Pasteur of Tunis, Belvedere, Tunis 1002, Tunisia.ORCID https://orcid.org/0000-0002-9424-0704
Yosr HamdiLaboratory of Biomedical Genomics and Oncogenetics (LR20IPT05), Pasteur Institute of Tunis, University of Tunis El Manar, Tunis 1002, Tunisia.ORCID https://orcid.org/0000-0002-2815-1834
Salma Feki Ben-SalahLaboratory of Virus, Vector and Hosts (LR20IPT02), Institut Pasteur de Tunis, Université Tunis El Manar, Tunis 1068, Tunisia.ORCID https://orcid.org/0000-0003-3640-2098
Hanen ChelbiLaboratory of Medical Parasitology, Biotechnology and Biomolecules, LR16IPT06, Institut Pasteur de Tunis, Université Tunis El Manar, Tunis Belvédère 1002, Tunisia.ORCID https://orcid.org/0000-0002-8678-8307
Chiraz AtriLaboratory of Transmission, Control and Immunobiology of Infections (LTCII), LR16IPT02, Institut Pasteur de Tunis, Université Tunis El Manar, Tunis Belvédère 1002, Tunisia.ORCID https://orcid.org/0000-0002-0930-5762
Melek ChaouchLaboratory of Bioinformatics, Biomathematics and Biostatistics LR20IPT09, Pasteur Institute of Tunis, University of Tunis El Manar, Tunis 1002, Tunisia.ORCID https://orcid.org/0000-0001-5868-4204
Naira DekhilLaboratory of Molecular Microbiology, Vaccinology, And Biotechnology Development, Institut Pasteur de Tunis, Université Tunis El Manar, Tunis, Tunisia.ORCID https://orcid.org/0000-0001-7881-9348
Afef RaisLaboratory of Transmission, Control and Immunobiology of Infections (LTCII), LR16IPT02, Institut Pasteur de Tunis, Université Tunis El Manar, Tunis Belvédère 1002, Tunisia.ORCID https://orcid.org/0000-0003-1688-5037
Saifeddine AzouzGenomics Platform, Institut Pasteur de Tunis, Université Tunis El Manar, Tunis 1068, Tunisia.ORCID https://orcid.org/0000-0003-0037-0725
Manel GharbiLaboratory of Epidemiology and Veterinary Microbiology. Group of Bacteriology and Biotechnology Institut Pasteur of Tunisia, University of Tunis El Manar (UTM), Tunis 1002, Tunisia.ORCID https://orcid.org/0000-0002-8773-5389
Fatma GuerfaliLaboratory of Transmission, Control and Immunobiology of Infections (LTCII), LR16IPT02, Institut Pasteur de Tunis, Université Tunis El Manar, Tunis Belvédère 1002, Tunisia.ORCID https://orcid.org/0000-0002-6973-2870
Chaima HkimiLaboratory of Bioinformatics, Biomathematics and Biostatistics LR20IPT09, Pasteur Institute of Tunis, University of Tunis El Manar, Tunis 1002, Tunisia.ORCID https://orcid.org/0000-0002-9167-2480
Selim KamounLaboratory of Bioinformatics, Biomathematics and Biostatistics LR20IPT09, Pasteur Institute of Tunis, University of Tunis El Manar, Tunis 1002, Tunisia.ORCID https://orcid.org/0000-0001-5891-3206
Ayoub KsouriLaboratory of Venom, Toxins and Therapeutic Molecules, Institut Pasteur Tunis, University Tunis El Manar, Tunis, Tunisia.ORCID https://orcid.org/0009-0008-2117-8154
Imen MoumniLaboratory of Molecular and Cellular Hematology, LR16IPT07, Pasteur Institute of Tunis, University of Tunis El Manar, Tunisia.ORCID https://orcid.org/0000-0003-0914-3916
Houyem OuraginiLaboratory of Molecular and Cellular Hematology, LR16IPT07, Pasteur Institute of Tunis, University of Tunis El Manar, Tunisia.ORCID https://orcid.org/0000-0003-2427-2804
Raghda BsibesGrant Office, Institut Pasteur de Tunis, Tunis, Tunisia.ORCID https://orcid.org/0009-0004-9398-9088
Zeineb AfifiGrant Office, Institut Pasteur de Tunis, Tunis, Tunisia.
Khouloud YoussfiSpecialized Unit "Communication, Science and Society", Institut Pasteur de Tunis, Tunis, Tunisia.
Hichem Ben HassineSpecialized Unit "Communication, Science and Society", Institut Pasteur de Tunis, Tunis, Tunisia.ORCID https://orcid.org/0000-0002-9067-3318
Najet HadhriGrant Office, Institut Pasteur de Tunis, Tunis, Tunisia.
Helmi MardassiLaboratory of Molecular Microbiology, Vaccinology, And Biotechnology Development, Institut Pasteur de Tunis, Université Tunis El Manar, Tunis, Tunisia.ORCID https://orcid.org/0000-0001-9194-0070
Houcemeddine OthmanSydney Brenner Institute for Molecular Bioscience, Faculty of Health Sciences, University of the Witwatersrand, Johannesburg, South Africa.ORCID https://orcid.org/0000-0002-1159-6482
Oussema KhamessiLaboratory of Venoms and Therapeutic Molecules LR11IPT08, Institut Pasteur de Tunis, University of Tunis El Manar, 13 Place Pasteur BP74Belvédère, Tunis Belvédère, Tunisia.ORCID https://orcid.org/0000-0002-3617-5705

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

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.

Indexed as

COVID-19Developing CountriesHost-Pathogen InteractionsHumansPandemicsSARS-CoV-2

Identifiers

PMID37854792
PMCPMC10581832

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.