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Cheikh LOUCOUBAR

Responsable du Département "Epidémiologie, Recherche Clinique & Data Science"(PhD)

 

Formation

  • 2009-2012 : Doctorat en génétique statistique : ED 420 (Université Paris Descartes, France), ED-SEV, (Université Cheikh Anta Diop de Dakar, Sénégal) et le Réseau doctoral EHESP (France)
  • 2007-2008 : DEA (Research Master2) en Mathématiques Appliquées, Biostatistique (Université Gaston Berger, St-Louis, Sénégal)
  • 2002-2003 : DESS (Professional Master2) en Mathématiques Appliquées, Statistiques, Informatique (Toulouse II, France)
  • 2001-2002 : Maîtrise (Master1) en Ingénierie Mathématiques (Toulouse III, France)
  • 2000-2001 :  Licence (Bachelor degree) en Ingénierie Mathématiques (Toulouse III, France)
  • 1998-2000 :  DEUG (Firt 2 years university degree) en Mathématiques Appliquées aux Sciences Sociales (Toulouse I, France)
  • 1996-1997 : Baccalaureate C, spécialité "Mathématiques et Physique" (Dakar, Senegal)

 

Parcours professionnel

  • Depuis Jan-2020 Responsable du Département "Epidémiologie, Recherche Clinique & Data Science", Institut Pasteur Dakar
  • Depuis Oct-2019 Responsable du Centre National Sénégalais de la Plateforme des Systèmes et Politiques de Santé, Observatoire Africain de la Santé de l'OMS
  • 2015 - 2019 Responsable du groupe "Biostatistique, bioinformatique et modélisation", Institut Pasteur de Dakar, Sénégal.

 

Activités de Recherche

  • 2013 – 2015: Post-Doctorat en Biomathématiques, Unité Arbovirus et Fièvres Hémorragiques Virales, (Directeur : Dr. Amadou A SALL), Institut Pasteur de Dakar, Sénégal
  • 2012 – 2013: Post-Doctorat Génétique statistique appliquée aux maladies multifactorielles, Institut National pour la Santé et la Recherche Médicale (INSERM), UMR-9461(Directrice : Dr. Florence DEMENAIS), Paris, France
  • 2009 – 2012: Ingénieur en biostatistique, Unité de génétique fonctionnelle des maladies infectieuses (Directeur : Dr. Anavaj SAKUNTABHAI), Institut Pasteur, Paris, France
  • 2008 – 2009: Ingénieur en Biostatistique, Unité d'Epidémiologie des Maladies Infectieuses (Directeur : Dr. Laurence BARIL), Institut Pasteur de Dakar, Sénégal
  • 2007 – 2008: Ingénieur en statistiques, à la Société nationale SAED2, pour le suivi de la production rizicole et de l'agriculture au nord du Sénégal, Saint-Louis, Sénégal.

 

Activités de Santé Publique

 

Activités de formation

Supervision de 2 post-docs

  • 2016 - 2020, Dr. Maryam Diarra, Post-doc en mathématiques appliquées et biostatistique
  • 2017 - 2018, Dr. Seydou Nourou Sylla, post-doc en apprentissage automatique, Co-clustering de données binaires en utilisant des covariables. Co-supervision de 2 thèses
  • 2018 - Maintenant, Aboubacry GAYE, Thèse en statistique multidimensionnelle, Université Gaston Berger [en cours].
  • 2014 - 2018, Mor Absa LOUM, Thèse en probabilités et statistiques, Université Paris Sud Orsay, [soutenue].

Mor Absa LOUM a obtenu un poste à l'Université de THIES au Sénégal en tant que professeur assistant à partir de décembre 2020.

  • Supervision de:

- 14 masters entre 2013 et 2020

- 11 en mathématiques appliquées ou en probabilités et statistiques

- 7 de l'Institut africain de science mathématique, Mbour, Sénégal.

- 1 de l'Université d'État de Minot, Dakota du Nord, USA

- 1 de l'Université Paris Sud Orsay, France o 1 de l'Université Polytech Paris-Sorbone, France

- 1 de l'Ecole Nationale de la Statistique et de l'Administration Economique (ENSAE), ParisTech, France

- 2 en biostatistique et santé publique

- 1 de l'Université de Columbia, New York, USA

- 1 de l'Université de Rochester, New York, USA

- 1 en Informatique et Santé Publique, de l'Université Gaston Berger, Saint-Louis, Sénégal

 

Publications majeures

PAPERS ( % : co-1st authorship )

  • Taieb F, Mbaye KD, Tall B, Lakhe NA, Talla C, Thioub D, Ndoye AM, Ka D, Gaye A, Cissé Diallo VM, Dia N, Ba PS, Cissé M, Diop M, Diagne CT, Fortes L, Diop M, Fall NM, Sarr FD, Diatta M, Barry MA, Badiane AS, Seck A, Dubrous P, Faye O, Vigan-Womas I, Loucoubar C, Sall AA, Seydi M. Hydroxychloroquine and Azithromycin Treatment of Hospitalized Patients Infected with SARS-CoV-2 in Senegal from March to October 2020. J Clin Med. (2021)
  • Dieng I, Diarra M, Diagne MM, Faye M, Dior Ndione MH, Ba Y, Diop M, Ndiaye EH, Marinho de Andrade Zanotto P, Diop B, Ndiaye M, Bousso A, Dia N, Diallo M, Barry A, Fall G, Loucoubar C, Sall AA, Faye O, Faye O. Field Deployment of a Mobile Biosafety Laboratory Reveals the Co-Circulation of Dengue Viruses Serotype 1 and Serotype 2 in Louga City, Senegal, 2017. J Trop Med. (2021)
  • Fall G, Diallo D, Soumaila H, Ndiaye EH, Lagare A, Sadio BD, Ndione MHD, Wiley M, Dia M, Diop M, Ba A, Sidikou F, Ngoy BB, Faye O, Testa J, Loucoubar C, Sall AA, Diallo M, Faye O. First Detection of the West Nile Virus Koutango Lineage in Sandflies in Niger. Pathogens (2021)
  • Faye M, Zein N, Loucoubar C, Weidmann M, Faye O, Cunha MDP, Zanotto PMA, Alpha Sall A, Faye O. Biological Characteristics and Patterns of Codon Usage Evolution for the African Genotype Zika Virus. Viruses (2020)
  • Dieng I, Barry MA, Diagne MM, Diop B, Ndiaye M, Faye M, Ndione MHD, Dieng MM, Bousso A, Fall G, Loucoubar C, Sall AA, Faye O, Faye O. Detection of Crimean Congo haemorrhagic fever virus in North-eastern Senegal, Bokidiawé 2019. Emerg Microbes Infect (2020)
  • Dia N, Lakh NA, Diagne MM, Mbaye KD, Taieb F, Fall NM, Barry MA, Ka D, Fall A, Diallo VMPC, Faye O, Jallow MM, Dieng I, Ndiaye M, Diop M, Bousso A, Loucoubar C, Ndiaye MKN, Peyreffite C, Fortes L, Sall AA, Faye O, Seydi M. COVID-19 Outbreak, Senegal, 2020. Emerg Infect Dis (2020)
  • Faye O, de Lourdes Monteiro M, Vrancken B, Prot M, Lequime S, Diarra M, Ndiaye O, Valdez T, Tavarez S, Ramos J, da Veiga Leal S, Pires C, Moreira A, Tavares MF, Fernandes L, Barreto JN, do Céu Teixeira M, de Lima Mendonça MDL, Gomes CCDSL, Castellon MS, Ma L, Lemoine F, Gámbaro-Roglia F, Delaune D, Fall G, Fall IS, Diop M, Sakuntabhai A, Loucoubar C, Lemey P, Holmes EC, Faye O, Sall AA, Simon-Loriere E. Genomic Epidemiology of 2015-2016 Zika Virus Outbreak in Cape Verde. Emerg Infect Dis (2020)
  • Diagne CT, Faye M, Lopez-Jimena B, Abd El Wahed A, Loucoubar C, Fall C, Mencatelli G, Faye O, Faye O, Weidmann M, Sall AA. Comparative Analysis of Zika Virus Detection by RT-qPCR, RT-LAMP, and RT-RPA. Methods Mol Biol (2020)
  • Ndiaye NF, Idohou-Dossou N, Bürkli S, Diouf A, Loucoubar C, Guiro AT, Zimmermann MB, Wade S, Moretti D. Polyphenol-rich tea decreases iron absorption from fortified wheat bread in Senegalese mother-child pairs and bioavailability of ferrous fumarate is sharply lower in children. Eur J Clin Nutr (2020)
  • Ndione MHD, Ndiaye EH, Thiam MS, Weidmann M, Faye M, Ba Y, Benkaroun J, Faye O, Loucoubar C, Sembène PM, Diallo M, Sall AA, Faye O, Fall G. Impact of genetic diversity on biological characteristics of Usutu virus strains in Africa. Virus Res (2019)
  • Mbengue B, Fall MM, Varela ML, Loucoubar C, Joos C, Fall B, Niang MS, Niang B, Mbow M, Dieye A, Perraut R. Analysis of antibody responses to selected Plasmodium falciparum merozoite surface antigens in mild and cerebral malaria and associations with clinical outcomes. Clin Exp Immunol (2019)
  • Diouf B, Diop F, Dieye Y, Loucoubar C, Dia I, Faye J, Sembène M, Perraut R, Niang M, Toure-Balde A. Association of high Plasmodium falciparum parasite densities with polyclonal microscopic infections in asymptomatic children from Toubacouta, Senegal. Malar Journal (2019)
  • Varela ML, Mbengue B, Basse A, Loucoubar C, Vigan-Womas I, Dièye A, Toure A, Perraut R. Optimization of a magnetic bead-based assay (MAGPIX®-Luminex) for immune surveillance of exposure to malaria using multiple Plasmodium antigens and sera from different endemic settings. Malar Journal (2018)
  • Ghouila A, Siwo GH, Entfellner JBD, Panji S, Button-Simons KA, Davis SZ, Fadlelmola FM, The DREAM of Malaria Hackathon Participants (..., Loucoubar C, ...), Ferdig MT and Mulder N. Hackathons as a means of accelerating scientific discoveries and knowledge transfer. Genome Research (2018)
  • Ba F, Loucoubar C, Faye O, Fall G, Mbaye RNPN, Sembene M, Toure-Balde A, Sall AA and Faye O. Retrospective analysis of febrile patients reveals unnoticed epidemic of Zika fever in Dielmo, Senegal, 2000. Clinical Microbiology and Infectious Diseases (2018)
  • Dieng A, Camara M, Diop A, Fall A, Boiro D, Diop A, Diouf Jbn, Diop A, Loucoubar C, Dia N, Niang M, Fall L And Boye CS. Viral and bacterial etiology of acute respiratory infections among children under 5 years in Senegal, Microbiology Insights (2018)
  • Diop G, Derbois C, Loucoubar C, Mbengue B, Ndao BN, Thiam F, Thiam A, Ndiaye R, Dieye Y, Olaso R, Deleuze Jf, Dieye A. Genetic variants of RNASE3 (ECP) and susceptibility to severe malaria in Senegalese population. Malaria Journal (2018)
  • Loum MA, Poursat MA, Sow A, Sall AA, Loucoubar C, Gassiat E. Multinomial logistic model for coinfection diagnosis between arbovirus and malaria in Kedougou. International Journal of Biostatistics (2017)
  • Perraut R, Varela ML, Joos C, Diouf B, Sokhna C, Mbengue B, Tall A, Loucoubar C, Touré A, Mercereau-Puijalon O. Association of antibodies to Plasmodium falciparum merozoite surface protein-4 with protection against clinical malaria. Vaccine (2017)
  • Fall G, Di Paola N, Faye M, Freire CC, Loucoubar C, Dia M, Zanotto PM, Faye O, Sall AA. Biological and phylogenetic characteristics of West African lineages of West Nile virus. Plos NTD (2017)
  • Perraut R, Varela ML, Loucoubar C, Niass O, Sidibe A, Tall A, Trape JF, Wotodjo AN, Mbengue B, Sokhna C, Vigan-Womas I, Richard V & Mercereau-Puijalon O. Serological signatures of declining exposure following intensification of integrated malaria control in two rural Senegalese communities. Plos ONE (2017)
  • Faye M, Dacheux L, Weidmann M, Diop SA, Loucoubar C, Bourhy H, Sall AA, Faye O. Development and validation of sensitive real-time RT-PCR assay for broad detection of rabies virus. J Virol Methods (2017)
  • Koffi D, Varela ML, Loucoubar C, Beourou S, Vigan-Womas I, Touré A, Djaman JA, Touré A, Perraut R. Longitudinal analysis of antibody responses in symptomatic malaria cases do not mirror parasite transmission in peri-urban area of Cote d'Ivoire between 2010 and 2013. Plos ONE (2017)
  • Niang M, Thiam LG, Loucoubar C, Sow A, Sadio BD, Diallo M, Sall AA, Toure-Balde A. Spatio-temporal analysis of the genetic diversity and complexity of Plasmodium falciparum infections in Kedougou, southeastern Senegal. Parasites & Vectors (2017)
  • Sow A, Faye O, Ba Y, Diallo D, Fall G, Faye O, Bob NS, Loucoubar C, Richard V, Dia AT, Diallo M, Malvy D, Sall AA. Widespread Rift Valley Fever Emergence in Senegal in 2013-2014. Open Forum Infect Dis (2016)
  • Loucoubar C %, Grant AV %, Bureau JF, Casademont I, Bar NA, Bar-Hen A, Diop M, Faye J, Sarr FD, Badiane A, Tall A, Trape JF, Cliquet F, Schwikowski B, Lathrop M, Paul R, Sakuntabhai A. Detecting multi-way epistasis in family-based association studies. Briefings in Bioinformatics (2016)
  • Niang M, Loucoubar C, Sow A, Diagne MM, Faye O, Faye O, Diallo M, Toure-Balde A, Sall AA. Genetic diversity of Plasmodium falciparum isolates from concurrent malaria and arbovirus co-infections in Kedougou, southeastern Senegal. Malaria Journal (2016)
  • Sow A %, Loucoubar C %, Diallo D, Faye O, Ndiaye Y, Senghor CS, Dia AT, Faye O, Weaver SC, Diallo M, Malvy D, Sall AA. Concurrent malaria and arbovirus infections in Kedougou, southeastern Senegal. Malaria Journal (2016)
  • Faye O, Faye O, Soropogui B, Patel P, El Wahed AA, Loucoubar C, Fall G, Kiory D, Magassouba N, Keita S, Kondé MK, Diallo AA, Koivogui L, Karlberg H, Mirazimi A, Nentwich O, Piepenburg O, Niedrig M, Weidmann M, Sall AA. Development and deployment of a rapid recombinase polymerase amplification Ebola virus detection assay in Guinea in 2015. Euro Surveillance (2015)
  • Herrant M %, Loucoubar C %, Boufkhed S, Bassène H, Sarr FD, Baril L, Mercereau-Puijalon O, Mécheri S, Sakuntabhai A, Paul R. Risk factors associated with asthma, atopic dermatitis and rhinoconjunctivitis in a rural Senegalese cohort. Allergy Asthma & Clinical Immunology (2015)
  • Niang M, Thiam LG, Sow A, Loucoubar C, Bob NS, Diop F, Diouf B, Niass O, Mansourou A, Varela ML, Perraut R, Sall AA, Toure-Balde A. A molecular survey of acute febrile illnesses reveals Plasmodium vivax infections in Kedougou, southeastern Senegal. Malaria Journal (2015)
  • Grange L, Loucoubar C, Telle O, Tall A, Faye J, Sokhna C, Trape JF, Sakuntabhai A, Bureau JF, Paul R. Risk factors for Plasmodium falciparum gametocyte positivity in a longitudinal cohort. PLoS One (2015)
  • Faye O, Boëlle PY, Heleze E, Faye O, Loucoubar C, Magassouba N, Soropogui B, Keita S, Gakou T, Bah el HI, Koivogui L, Sall AA, Cauchemez S. Chains of transmission and control of Ebola virus disease in Conakry, Guinea, in 2014: an observational study. Lancet Infectious Disease (2015)
  • Fall G, Diallo M, Loucoubar C, Faye O, Sall AA: Vector Competence of Culex neavei and Culex quinquefasciatus (Diptera: Culicidae) from Senegal for lineages 1, 2, 8, and Koutango of West Nile Virus, American Journal of Tropical Medicine and Hygiene (2014)
  • Sow A, Faye O, Ba Y, Ba H, Diallo D, Faye O, Loucoubar C, Boushab M, Barry Y, Diallo M, and Sall AA. Rift Valley fever outbreak, southern Mauritania, 2012. Emerging Infectious Disease (2014)
  • Herrant M, Loucoubar C, Bassène H, Gonçalves B, Boufkhed S, Diène Sarr F, Fontanet A, Tall A, Baril L, Mercereau-Puijalon O, Mécheri S, Sakuntabhai A, Paul R: Asthma and atopic dermatitis are associated with increased risk of clinical Plasmodium falciparum malaria. British Medical Journal Open (2013)
  • Loucoubar C, Grange L, Paul R, Huret A, Tall A, Telle O, Roussilhon C, Faye J, Diene-Sarr F, Trape JF, Mercereau-Puijalon O, Sakuntabhai A, Bureau JF: High number of previous Plasmodium falciparum clinical episodes increases risk of future episodes in a sub-group of individuals, Plos ONE (2013)
  • Loucoubar C, Goncalves B, Tall A, Sokhna C, Trape JF, Diène Sarr F, Faye J, Badiane A, Ly AB, Diop A, Bar-Hen A, Bureau JF, Sakuntabhai A, Paul R: Impact of changing drug treatment and malaria endemicity on the heritability of malaria phenotypes in a longitudinal family-based cohort study. Plos ONE (2011)
  • Loucoubar C, Paul R, Bar-Hen A, Huret A, Tall A, Sokhna C, Trape JF, Ly AB, Faye J, Badiane A, Diakhaby G, Sarr FD, Diop A, Sakuntabhai A, Bureau JF: An Exhaustive, Non-Euclidean, Non-Parametric Data Mining Tool for Unraveling the Complexity of Biological Systems –Novel Insights into Malaria. Plos ONE (2011)
  • Berghout J, Higgins S, Loucoubar C, Sakuntabhai A, Kain KC and Gros P: Genetic diversity in human erythrocyte pyruvate kinase. Genes and Immunity (2011)

BOOK CHAPTER

  • Machado A, Loucoubar C, Grange L, Bureau JF, Sakuntabhai A, Paul R: “Human genetic contribution to the outcome of infection with malaria parasites”, in MALARIA PARASITES, ISBN: 979-953-307-072-7, Editor: Pr. Omolade Okwa, Publisher: INTECH (2012)

SELECTED ABSTRACTS AT INTERNATIONAL MEETINGS

  • Loucoubar C., Host genetic association with complex diseases traits in family data, Google AI Ghana, Inaugural Research Workshop, May 2019, Accra, Ghana. (How Artificial Intelligence can contribute to human genetic association analysis). Speaker
  • Loucoubar C., Closing the genomics research gap, a symposium about inequalities in genomics research and health (and what to do about them), The Gairdner Foundation and McGill University, Juin 2018, Montreal, Canada. Keynote Speaker
  • Loucoubar C., Diop M., FAMx (Fondation de l’Académie de Médecine), 1er Forum Afrique de l’Ouest - France de la Santé Publique et de l’Innovation Médicale, Mai 2017, Dakar, Sénégal. Keynote Speaker
  • Loucoubar C. “Statistical methods for genetic association studies in complex disease traits (Network and pathway-based association tests, multi-locus association tests)”. H3ABioNet / IBM Research Africa Dialogues in Reverse Engineering Assessments and Methods (DREAM) challenges Drug Resistance Hackathon, Sept. 06-10, 2016, Johannesburg (South Africa). Keynote Speaker
  • Loucoubar C, Diop M., Diarra M. “Computational Complexity and Resource needs in Genomic Data Analysis”. Workshop WACREN-TANDEM, mars 2016, Dakar (Senegal). Keynote Speaker, and at Université de Bambey, avril 2016, Bambey (Senegal). Keynote Speaker
  • Loucoubar C. “Repeated measurements from a longitudinal survey unable to classify individuals into susceptible/resistant to malaria using mixed models”. Workshop on Modeling and data analysis for the Healthy Human Global project - Deep phenotyping of the world’s population, Dec. 14-17, 2015, Punta del Este (Uruguay). Keynote Speaker
  • Loucoubar C. “Detecting multi-way epistasis in family-based association studies”. INDA Workshop, March 17, 2015, Paris (France). Keynote Speaker
  • Loucoubar C, Faye Oum, Ba F, Telle O, Sow A, Fall G, Paul R, Faye Ous, Sakuntabhai A, Sall AA. “Human genetics and flaviviruses infection in Africa”. International Congress of Microbiology, Jul. 27 - Aug. 1, 2014, Montreal (Canada)., Grant Award, Poster
  • Sow A, Loucoubar C, Faye Oumar, Fall G, Faye Ousmane, Sall AA. “Co-infection aux Arboviroses et au Paludisme à Kedougou, Sud-Est du Sénégal”. 9ème congrès international de la Société de Pathologie Exotique, Nov. 12-14, 2013, Dakar (Sénégal). Oral communication
  • Loucoubar C, Sakuntabhai A. “Multi-locus Transmission Disequilibrium Test (ML-TDT) for malaria phenotypes from a longitudinal study in family-based design”. SADA’13 (Statistique Appliquée pour le Développement en Afrique), Mar. 04-08, 2013, Cotonou (Bénin). Oral communication
  • Loucoubar C, Brossard M, Sugier PE, Vaysse A, Jeannin P, Dizier MH, Lavielle N, Lathrop M, Bouzigon E, Laprise C, Demenais F. Performances of single-SNP and pathway-based analyses of genome-wide data to detect genetic factors involved in white blood cell (WBC) counts in asthma ascertained families. American Society of Human Genetics (ASHG) 2012 Annual Meeting. Nov. 2012, San Francisco (USA). Poster
  • Loucoubar C, Grange L., Paul R., Huret A., Tall A., Trape J.-F., Sakuntabhai S., and Bureau J.-F. Evidence of gene­ environmental interaction on the risk of Plasmodium falciparum attacks in a highly endemic area of Senegal. EMBO Conference on Host Genetic Control of Infectious diseases, Sept. 28-30, 2011, Paris (France). Poster
  • Loucoubar C, Bar-Hen A., Faye J., Diène-Sarr F., Trape J.-F., Rogier C., Sokhna C., Mercereau-Puijalon O., Tall A., Diop A., Sakuntabhai A., Paul R. Evolution of heritability of Plasmodium falciparum gametocytes carriage and Plasmodium falciparum density with changes in treatment protocols. “2eme rencontres de l’Hôtel Dieu”, May 12-13, 2011, Paris, (France). Oral communication
  • Loucoubar C., Coutherut J., Faye J., Kouevidjin E., Tall A., Sokhna C., Ly A.-B., Bassene H., Trape J.-F., Sakuntabhai A., Diop A., Mercereau-Puijalon O., Paul R., Baril L. Heritability of Plasmodium falciparum malaria in two villages of rural Senegal (West Africa) in the ACT era. 5th MIM (Multilateral Initiative on Malaria) Conference. Nov. 2-7, 2009. Nairobi (Kenya). Poster
  • Loucoubar C, Baril L. “Analyse de la morbidité attribuable au paludisme dans les villages de Dielmo et Ndiop, Quelle est la contribution génétique humaine?” ; Dec. 18, 2008. Seminar Institut Pasteur, Paris (France). Oral communication

 

Cheikh Loucoubar

Responsable du Département "Epidémiologie, Recherche Clinique & Data Science"(PhD)
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