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Bbosa FF, Nabukenya J, Nabende P, Wesonga R. On the goodness of fit of parametric and non-parametric data mining techniques: the case of malaria incidence thresholds in Uganda. HEALTH AND TECHNOLOGY 2021. [DOI: 10.1007/s12553-021-00551-9] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
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Federating and Integrating What We Know About the Brain at All Scales: Computer Science Meets the Clinical Neurosciences. RESEARCH AND PERSPECTIVES IN NEUROSCIENCES 2016. [DOI: 10.1007/978-3-319-28802-4_10] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/09/2023]
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Laneri K, Paul RE, Tall A, Faye J, Diene-Sarr F, Sokhna C, Trape JF, Rodó X. Dynamical malaria models reveal how immunity buffers effect of climate variability. Proc Natl Acad Sci U S A 2015; 112:8786-91. [PMID: 26124134 PMCID: PMC4507245 DOI: 10.1073/pnas.1419047112] [Citation(s) in RCA: 38] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Assessing the influence of climate on the incidence of Plasmodium falciparum malaria worldwide and how it might impact local malaria dynamics is complex and extrapolation to other settings or future times is controversial. This is especially true in the light of the particularities of the short- and long-term immune responses to infection. In sites of epidemic malaria transmission, it is widely accepted that climate plays an important role in driving malaria outbreaks. However, little is known about the role of climate in endemic settings where clinical immunity develops early in life. To disentangle these differences among high- and low-transmission settings we applied a dynamical model to two unique adjacent cohorts of mesoendemic seasonal and holoendemic perennial malaria transmission in Senegal followed for two decades, recording daily P. falciparum cases. As both cohorts are subject to similar meteorological conditions, we were able to analyze the relevance of different immunological mechanisms compared with climatic forcing in malaria transmission. Transmission was first modeled by using similarly unique datasets of entomological inoculation rate. A stochastic nonlinear human-mosquito model that includes rainfall and temperature covariates, drug treatment periods, and population variability is capable of simulating the complete dynamics of reported malaria cases for both villages. We found that under moderate transmission intensity climate is crucial; however, under high endemicity the development of clinical immunity buffers any effect of climate. Our models open the possibility of forecasting malaria from climate in endemic regions but only after accounting for the interaction between climate and immunity.
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Affiliation(s)
- Karina Laneri
- Institut Català de Ciències del Clima, Climate Dynamics and Impacts Unit, 08005 Barcelona, Catalonia, Spain; Centro Atómico Bariloche, Consejo Nacional Investigaciones Científicas y Técnicas, Grupo de Física Estadística e Interdisciplinaria, 8400 S. C. de Bariloche, Rio Negro, Argentina;
| | - Richard E Paul
- Institut Pasteur, Unité de la Génétique Fonctionnelle des Maladies Infectieuses, Department of Genomes and Genetics, F-75724 Paris cedex 15, France; Centre National de la Recherche Scientifique, Unité de Recherche Associée 3012, F-75015 Paris, France
| | - Adama Tall
- Institut Pasteur de Dakar, Unité d'Epidémiologie des Maladies Infectieuses (UR 172), BP 220 Dakar, Senegal
| | - Joseph Faye
- Institut Pasteur de Dakar, Unité d'Epidémiologie des Maladies Infectieuses (UR 172), BP 220 Dakar, Senegal
| | - Fatoumata Diene-Sarr
- Institut Pasteur de Dakar, Unité d'Epidémiologie des Maladies Infectieuses (UR 172), BP 220 Dakar, Senegal
| | - Cheikh Sokhna
- Institut de Recherche pour le Développement, Unité de Pathogénie Afro-Tropicale (Unité Mixte de Recherche 198), Département Santé, BP 1386, CP 18524, Dakar, Senegal
| | - Jean-François Trape
- Institut de Recherche pour le Développement, Unité de Pathogénie Afro-Tropicale (Unité Mixte de Recherche 198), Département Santé, BP 1386, CP 18524, Dakar, Senegal
| | - Xavier Rodó
- Institut Català de Ciències del Clima, Climate Dynamics and Impacts Unit, 08005 Barcelona, Catalonia, Spain; Institució Catalana de Recerca i Estudis Avançats, 08010 Barcelona, Catalonia, Spain
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Amaddeo G, Cao Q, Ladeiro Y, Imbeaud S, Nault JC, Jaoui D, Gaston Mathe Y, Laurent C, Laurent A, Bioulac-Sage P, Calderaro J, Zucman-Rossi J. Integration of tumour and viral genomic characterizations in HBV-related hepatocellular carcinomas. Gut 2015; 64:820-9. [PMID: 25021421 PMCID: PMC4392232 DOI: 10.1136/gutjnl-2013-306228] [Citation(s) in RCA: 111] [Impact Index Per Article: 12.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 10/10/2013] [Accepted: 05/14/2014] [Indexed: 12/12/2022]
Abstract
BACKGROUND AND AIM Hepatocellular carcinoma (HCC) is the most common liver cancer. We characterised HCC associated with infection compared with non-HBV-related HCC to understand interactions between viral and hepatocyte genomic alterations and their relationships with clinical features. METHODS Frozen HBV (n=86) or non-HBV-related (n=90) HCC were collected in two French surgical departments. Viral characterisation was performed by sequencing HBS and HBX genes and quantifying HBV DNA and cccDNA. Nine genes were screened for somatic mutations and expression profiling of 37 genes involved in hepatocarcinogenesis was studied. RESULTS HBX revealed frequent non-sense, frameshift and deletions in tumours, suggesting an HBX inactivation selected in HCC. The number of viral copies was frequently lower in tumour than in non-tumour tissues (p=0.0005) and patients with low HBV copies in the non-tumour liver tissues presented additional risk factor (HCV, alcohol or non-alcoholic steato-hepatitis, p=0.006). P53 was the most frequently altered pathway in HBV-related HCC (47%, p=0.001). Furthermore, TP53 mutations were associated with shorter survival only in HBV-related HCC (p=0.02) whereas R249S mutations were identified exclusively in migrants. Compared with other aetiologies, HBV-HCC were more frequently classified in tumours subgroups with upregulation of genes involved in cell-cycle regulation and a progenitor phenotype. Finally, in HBV-related HCC, transcriptomic profiles were associated with specific gene mutations (HBX, TP53, IRF2, AXIN1 and CTNNB1). CONCLUSIONS Integrated genomic characterisation of HBV and non-HBV-related HCC emphasised the immense molecular diversity of HCC closely related to aetiologies that could impact clinical care of HCC patients.
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Affiliation(s)
- Giuliana Amaddeo
- Inserm, UMR-674, Génomique fonctionnelle des tumeurs solides, IUH, Paris, France,Université Paris Descartes, Labex Immuno-oncology, Sorbonne Paris Cité, Faculté de Médecine, Paris, France
| | - Qian Cao
- Inserm, UMR-674, Génomique fonctionnelle des tumeurs solides, IUH, Paris, France,Université Paris Descartes, Labex Immuno-oncology, Sorbonne Paris Cité, Faculté de Médecine, Paris, France
| | - Yannick Ladeiro
- Inserm, UMR-674, Génomique fonctionnelle des tumeurs solides, IUH, Paris, France,Université Paris Descartes, Labex Immuno-oncology, Sorbonne Paris Cité, Faculté de Médecine, Paris, France
| | - Sandrine Imbeaud
- Inserm, UMR-674, Génomique fonctionnelle des tumeurs solides, IUH, Paris, France,Université Paris Descartes, Labex Immuno-oncology, Sorbonne Paris Cité, Faculté de Médecine, Paris, France
| | - Jean-Charles Nault
- Inserm, UMR-674, Génomique fonctionnelle des tumeurs solides, IUH, Paris, France,Université Paris Descartes, Labex Immuno-oncology, Sorbonne Paris Cité, Faculté de Médecine, Paris, France
| | | | | | | | - Alexis Laurent
- Assistance Publique-Hôpitaux de Paris, digestive, hepatobiliary and liver transplantation, CHU Henri Mondor, Créteil, France,IMRB—Inserm U955 Equipe n. 18 “Virologie moleculaire et immunologie –Physiopathologie et therapeutique des Hépatites virales chroniques”, Créteil, France
| | - Paulette Bioulac-Sage
- Inserm, UMR-1053; Université Victor Segalen Bordeaux 2, Bordeaux, France,Department of Pathology, CHU de Bordeaux, Pellegrin Hospital, Bordeaux, France
| | - Julien Calderaro
- Inserm, UMR-674, Génomique fonctionnelle des tumeurs solides, IUH, Paris, France,Université Paris Descartes, Labex Immuno-oncology, Sorbonne Paris Cité, Faculté de Médecine, Paris, France,Department of Pathology, CHU Henri Mondor, Créteil, France
| | - Jessica Zucman-Rossi
- Inserm, UMR-674, Génomique fonctionnelle des tumeurs solides, IUH, Paris, France,Université Paris Descartes, Labex Immuno-oncology, Sorbonne Paris Cité, Faculté de Médecine, Paris, France,Hopital Europeen Georges Pompidou, Paris, France
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Boraschi D, Aguado MT, Dutel C, Goronzy J, Louis J, Grubeck-Loebenstein B, Rappuoli R, Del Giudice G. The gracefully aging immune system. Sci Transl Med 2014; 5:185ps8. [PMID: 23677590 DOI: 10.1126/scitranslmed.3005624] [Citation(s) in RCA: 96] [Impact Index Per Article: 9.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Abstract
Prolonged life expectancy in the 20th century has been one of humankind's greatest triumphs. However, the substantial increase in the human life span has ushered in a new concern: healthy aging. Because infectious diseases prominently contribute to morbidity in the particularly vulnerable elderly population, strategies for preventing these diseases would have a clear impact on improving healthy aging. Thus, vaccines and immunization strategies tailored for the elderly population are needed, and vaccines should be developed to take into consideration the peculiar age-induced variations of immune responsiveness. The conference "Ageing and Immunity" recently held in Siena, Italy, has reviewed and discussed several possible causes of immune senescence, as well as strategies for counteracting this waning of immune responsiveness and for restoring immunocompetence. In addition, examples of diseases that should be targeted by vaccination in the senior population were considered.
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Affiliation(s)
- Diana Boraschi
- Institute of Biomedical Technologies, National Research Council, Pisa 56124, Italy
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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; 8:e55666. [PMID: 23405191 PMCID: PMC3566008 DOI: 10.1371/journal.pone.0055666] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/22/2012] [Accepted: 12/29/2012] [Indexed: 11/18/2022] Open
Abstract
There exists great disparity in the number of clinical P. falciparum episodes among children of the same age and living in similar conditions. The epidemiological determinants of such disparity are unclear. We used a data-mining approach to explore a nineteen-year longitudinal malaria cohort study dataset from Senegal and identify variables associated with increased risk of malaria episodes. These were then verified using classical statistics and replicated in a second cohort. In addition to age, we identified a novel high-risk group of children in whom the history of P. falciparum clinical episodes greatly increased risk of further episodes. Age and a high number of previous falciparum clinical episodes not only play major roles in explaining the risk of P. falciparum episodes but also are risk factors for different groups of people. Combined, they explain the majority of falciparum clinical attacks. Contrary to what is widely believed, clinical immunity to P. falciparum does not de facto occur following many P. falciparum clinical episodes. There exist a sub-group of children who suffer repeated clinical episodes. In addition to posing an important challenge for population stratification during clinical trials, this sub-group disproportionally contributes to the disease burden and may necessitate specific prevention and control measures.
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Affiliation(s)
- Cheikh Loucoubar
- Institut Pasteur, Department Genome and Genetics, Unité de Génétique Fonctionnelle des Maladies Infectieuses, Paris, France
- Centre National de la Recherche Scientifique, Unité Recherche Associée 3012, Paris, France
- Institut Pasteur de Dakar, Unité d’Epidémiologie des Maladies Infectieuses, Dakar, Senegal
- Université Paris Descartes, Mathématiques Appliquées Paris 5- Unité Mixte de Recherche Centre National de la Recherche Scientifique 8145, Paris, France
- Ecole des Hautes Etudes en Santé Publique, Rennes, France
| | - Laura Grange
- Institut Pasteur, Department Genome and Genetics, Unité de Génétique Fonctionnelle des Maladies Infectieuses, Paris, France
- Centre National de la Recherche Scientifique, Unité Recherche Associée 3012, Paris, France
| | - Richard Paul
- Institut Pasteur, Department Genome and Genetics, Unité de Génétique Fonctionnelle des Maladies Infectieuses, Paris, France
- Centre National de la Recherche Scientifique, Unité Recherche Associée 3012, Paris, France
| | | | - Adama Tall
- Institut Pasteur de Dakar, Unité d’Epidémiologie des Maladies Infectieuses, Dakar, Senegal
| | - Olivier Telle
- Institut Pasteur, Department Genome and Genetics, Unité de Génétique Fonctionnelle des Maladies Infectieuses, Paris, France
- Centre National de la Recherche Scientifique, Unité Recherche Associée 3012, Paris, France
| | - Christian Roussilhon
- Institut Pasteur, Department Genome and Genetics, Unité de Génétique Fonctionnelle des Maladies Infectieuses, Paris, France
- Centre National de la Recherche Scientifique, Unité Recherche Associée 3012, Paris, France
| | - Joseph Faye
- Institut Pasteur de Dakar, Unité d’Epidémiologie des Maladies Infectieuses, Dakar, Senegal
| | - Fatoumata Diene-Sarr
- Institut Pasteur de Dakar, Unité d’Epidémiologie des Maladies Infectieuses, Dakar, Senegal
| | - Jean-François Trape
- Institut de Recherche pour le Développement, Dakar, Unité de Pathogénie Afro-Tropicale (Unité Mixte de Recherche 198), Dakar, Senegal
| | - Odile Mercereau-Puijalon
- Institut Pasteur, Department of Parasitology, Unité d’Immunologie Moléculaire des Parasites, Paris, France
| | - Anavaj Sakuntabhai
- Institut Pasteur, Department Genome and Genetics, Unité de Génétique Fonctionnelle des Maladies Infectieuses, Paris, France
- Centre National de la Recherche Scientifique, Unité Recherche Associée 3012, Paris, France
- Mahidol University, Systems Biology of Diseases Unit, Faculty of Science, Bangkok, Thailand
- * E-mail:
| | - Jean-François Bureau
- Institut Pasteur, Department Genome and Genetics, Unité de Génétique Fonctionnelle des Maladies Infectieuses, Paris, France
- Centre National de la Recherche Scientifique, Unité Recherche Associée 3012, Paris, France
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Llorca PM. Les effets précoces des antidépresseurs. Encephale 2012; 38 Suppl 2:S49-53. [DOI: 10.1016/s0013-7006(12)70076-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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