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Molecular epidemiology of hepatitis C virus in Cambodia during 2016–2017

Janin Nouhin, Momoko Iwamoto, Sophearot Prak, Jean-Philippe Dousset, Kerya Phon, Seiha Heng, Alexandra Kerleguer, Mickaël Le Paih, Philippe Dussart, David Maman, François Rouet
2019 Scientific Reports  
In Cambodia, little epidemiological data of hepatitis C virus (HCV) is available. All previous studies were limited to only small or specific populations. In the present study, we performed a characterization of HCV genetic diversity based on demography, clinical data, and phylogenetic analysis of HCV non-structural 5B (NS5B) sequences belonging to a large cohort of patients (n = 3,133) coming from majority part of Cambodia between September 2016 and December 2017. The phylogenetic analysis
more » ... aled that HCV genotype 1 and 6 were the most predominant and sharing equal proportions (46%). The remaining genotypes were genotype 2 (4.3%) and unclassified variants (3.6%). Among genotype 1, subtype 1b was the most prevalent subtype accounting for 94%. Within genotype 6, we observed a high degree of diversity and the most common viral subtypes were 6e (44%) and 6r (23%). This characteristic points to the longstanding history of HCV in Cambodia. Geographic specificity of viral genotype was not observed. Risks of HCV infection were mainly associated with experience of an invasive medical procedure (64.7%), having partner with HCV (19.5%), and blood transfusion (9.9%). In addition, all of these factors were comparable among different HCV genotypes. All these features define the specificity of HCV epidemiology in Cambodia.
doi:10.1038/s41598-019-43785-4 pmid:31086236 pmcid:PMC6514207 fatcat:jm4qsthg3fcodhkirgpdtd3jyy

High throughput single cell counting in droplet-based microfluidics

Heng Lu, Ouriel Caen, Jeremy Vrignon, Eleonora Zonta, Zakaria El Harrak, Philippe Nizard, Jean-Christophe Baret, Valérie Taly
2017 Scientific Reports  
Heng Lu and Ouriel Caen contributed equally to this work. Correspondence and requests for materials should be addressed to J.-C.B. (email: jeanchristophe.baret@u-bordeaux.fr) or V.T.  ... 
doi:10.1038/s41598-017-01454-4 pmid:28465615 pmcid:PMC5431057 fatcat:3ko42aqizzgzbddheo2jr6g35u

Nontuberculous Mycobacteria Infections at a Provincial Reference Hospital, Cambodia

Maryline Bonnet, Kim Chamroeun San, Yati Pho, Chandara Sok, Jean-Philippe Dousset, William Brant, Northan Hurtado, Khun Kim Eam, Elisa Ardizzoni, Seiha Heng, Sylvain Godreuil, Wing-Wai Yew (+1 others)
2017 Emerging Infectious Diseases  
Prevalence of nontuberculous mycobacteria (NTM) disease is poorly documented in countries with high prevalence of tuberculosis (TB). We describe prevalence, risk factors, and TB program implications for NTM isolates and disease in Cambodia. A prospective cohort of 1,183 patients with presumptive TB underwent epidemiologic, clinical, radiologic, and microbiologic evaluation, including >12-months of follow-up for patients with NTM isolates. Prevalence of NTM isolates was 10.8% and of disease was
more » ... .9%; 217 (18.3%) patients had TB. Of 197 smear-positive patients, 171 (86.8%) had TB confirmed (167 by culture and 4 by Xpert MTB/RIF assay only) and 11 (5.6%) had NTM isolates. HIV infection and past TB were independently associated with having NTM isolates. Improved detection of NTM isolates in Cambodia might require more systematic use of mycobacterial culture and the use of Xpert MTB/RIF to confirm smear-positive TB cases, especially in patients with HIV infection or a history of TB.
doi:10.3201/eid2307.170060 pmid:28628437 pmcid:PMC5512507 fatcat:ezu5hxjjdraq3m5nuil2ujstii

Can metronomic maintenance with weekly vinblastine prevent early relapse/progression after bevacizumab-irinotecan in children with low-grade glioma?

Marie Amélie Heng, Laetitia Padovani, Philippe Dory-Lautrec, Jean Claude Gentet, Arnaud Verschuur, Eddy Pasquier, Dominique Figarella-Branger, Didier Scavarda, Nicolas André
2016 Cancer Medicine  
Marie Amélie Heng 1 , Laetitia Padovani 2 , Philippe Dory-Lautrec 3 , Jean Claude Gentet 1 , Arnaud Verschuur 1,4 , Eddy Pasquier 4,5 , Dominique Figarella-Branger 5,6 , Didier Scavarda 7 & Nicolas André  ... 
doi:10.1002/cam4.699 pmid:27037940 pmcid:PMC4944881 fatcat:fn234bvne5b6zhefxyblgefdka

Isolation and full-genome sequences of Japanese encephalitis virus genotype I strains from Cambodian human patients, mosquitoes and pigs

Veasna Duong, Rithy Choeung, Christopher Gorman, Denis Laurent, Yoann Crabol, Channa Mey, Borin Peng, Juliette Di Francesco, Vibol Hul, Heng Sothy, Ky Santy, Beat Richner (+8 others)
2017 Journal of General Virology  
Conflicts of interest Philippe Buchy is currently an employee of GSK Vaccines but this position has no link with the work presented here.  ... 
doi:10.1099/jgv.0.000892 pmid:28840803 fatcat:uufg6l2ugbamrkcoydy5zeieda

End-Stage Renal Disease-Associated Gut Bacterial Translocation: Evolution and Impact on Chronic Inflammation and Acute Rejection After Renal Transplantation

Clémence Carron, Jean-Paul Pais de Barros, Emilie Gaiffe, Valérie Deckert, Hanane Adda-Rezig, Caroline Roubiou, Caroline Laheurte, David Masson, Dominique Simula-Faivre, Pascale Louvat, Bruno Moulin, Luc Frimat (+8 others)
2019 Frontiers in Immunology  
Chronic inflammation in end-stage renal disease (ESRD) is partly attributed to gut bacterial translocation (GBT) due to loss of intestinal epithelium integrity. Increased levels of circulating lipopolysaccharide (LPS) -a surrogate marker of GBT- contribute to maintain a chronic inflammatory state. However, circulating LPS can be neutralized by lipoproteins and transported to the liver for elimination. While ESRD-associated GBT has been widely described, less is known about its changes and
more » ... on clinical outcome after kidney transplantation (KT). One hundred and forty-six renal transplant recipients with serum samples obtained immediately before and 1 year after transplantation (1-Year post KT) were included. Intestinal epithelium integrity (iFABP), total LPS (by measuring 3-hydroxymyristate), LPS activity (biologically active LPS measured by the LAL assay), inflammatory biomarkers (sCD14 and cytokines), lipoproteins and LPS-binding proteins (LBP and phospholipid transfer protein [PLTP] activity) were simultaneously measured. At 1-Year post KT, iFABP decreased but remained higher than in normal volunteers. Total LPS concentration remained stable while LPS activity decreased. Inflammation biomarkers decreased 1-Year post KT. We concomitantly observed an increase in lipoproteins. Higher sCD14 levels before transplantation was associated with lower incidence of acute rejection. Although GBT remained stable after KT, the contemporary increase in lipoproteins could bind circulating LPS and contribute concomitantly to neutralization of LPS activity, as well as improvement in ESRD-associated chronic inflammation. Chronic exposure to LPS in ESRD could promote endotoxin tolerance and explain why patients with higher pre-transplant sCD14 are less prompt to develop acute rejection after transplantation.
doi:10.3389/fimmu.2019.01630 pmid:31474974 pmcid:PMC6706794 fatcat:v3gauqivevgcvmkotykkwaopji

Identification of a Major Locus, TNF1, That Controls BCG-Triggered Tumor Necrosis Factor Production by Leukocytes in an Area Hyperendemic for Tuberculosis

Aurelie Cobat, Eileen G. Hoal, Caroline J. Gallant, Leah Simkin, Gillian F. Black, Kim Stanley, Jean-Philippe Jaïs, Ting-Heng Yu, Anne Boland-Auge, Ghislain Grange, Christophe Delacourt, Paul van Helden (+4 others)
2013 Clinical Infectious Diseases  
Background. Tumor necrosis factor (TNF) is a key immune regulator of tuberculosis resistance, as exemplified by the highly increased risk of tuberculosis disease among individuals receiving TNF-blocker therapy. Methods. We determined the extent of TNF production after stimulation with BCG or BCG plus interferon gamma (IFN-γ) using a whole blood assay in 392 children belonging to 135 nuclear families from an area hyperendemic for tuberculosis in South Africa. We conducted classical univariate
more » ... bivariate genome-wide linkage analysis of TNF production using the data from both stimulation protocols by means of an extension of the maximum-likelihoodbinomial method for quantitative trait loci to multivariate analysis. Results. Stimulation of whole blood by either BCG or BCG plus IFN-γ resulted in a range of TNF release across subjects. Extent of TNF production following both stimulation protocols was highly correlated (r = 0.81). We failed to identify genetic linkage of TNF release when considering each stimulus separately. However, using a multivariate approach, we detected a major pleiotropic locus (P < 10 −5 ) on chromosome region 11p15, termed TNF locus 1 (TNF1), that controlled TNF production after stimulation by both BCG alone and BCG plus IFN-γ. Conclusions. The TNF1 locus was mapped in the vicinity of the TST1 locus, previously identified in the same family sample, that controls tuberculin skin test (TST) negativity per se, that is, T-cell-independent resistance to Mycobacterium tuberculosis infection. This suggested that there is a connection between TST negativity per se and TNF production.
doi:10.1093/cid/cit438 pmid:23800941 pmcid:PMC3765013 fatcat:ujixxgesczfnja6nj5ie67cqg4

Childhood encephalitis in the Greater Mekong region (the SouthEast Asia Encephalitis Project): a multicentre prospective study

Jean David Pommier, Chris Gorman, Yoann Crabol, Kevin Bleakley, Heng Sothy, Ky Santy, Huong Thi Thu Tran, Lam Van Nguyen, Em Bunnakea, Chaw Su Hlaing, Aye Mya Min Aye, Julien Cappelle (+111 others)
2022 Lancet Global Health  
Encephalitis is a worldwide public health issue, with a substantially high burden among children in southeast Asia. We aimed to determine the causes of encephalitis in children admitted to hospitals across the Greater Mekong region by implementing a comprehensive state-of-the-art diagnostic procedure harmonised across all centres, and identifying clinical characteristics related to patients' conditions. In this multicentre, observational, prospective study of childhood encephalitis, four
more » ... l hospitals in Cambodia, Vietnam, Laos, and Myanmar recruited children (aged 28 days to 16 years) who presented with altered mental status lasting more than 24 h and two of the following minor criteria: fever (within the 72 h before or after presentation), one or more generalised or partial seizures (excluding febrile seizures), a new-onset focal neurological deficit, cerebrospinal fluid (CSF) white blood cell count of 5 per mL or higher, or brain imaging (CT or MRI) suggestive of lesions of encephalitis. Comprehensive diagnostic procedures were harmonised across all centres, with first-line testing was done on samples taken at inclusion and results delivered within 24 h of inclusion for main treatable causes of disease and second-line testing was done thereafter for mostly non-treatable causes. An independent expert medical panel reviewed the charts and attribution of causes of all the included children. Using multivariate analyses, we assessed risk factors associated with unfavourable outcomes (ie, severe neurological sequelae and death) at discharge using data from baseline and day 2 after inclusion. This study is registered with ClinicalTrials.gov, NCT04089436, and is now complete. Between July 28, 2014, and Dec 31, 2017, 664 children with encephalitis were enrolled. Median age was 4·3 years (1·8-8·8), 295 (44%) children were female, and 369 (56%) were male. A confirmed or probable cause of encephalitis was identified in 425 (64%) patients: 216 (33%) of 664 cases were due to Japanese encephalitis virus, 27 (4%) were due to dengue virus, 26 (4%) were due to influenza virus, 24 (4%) were due to herpes simplex virus 1, 18 (3%) were due to Mycobacterium tuberculosis, 17 (3%) were due to Streptococcus pneumoniae, 17 (3%) were due to enterovirus A71, 74 (9%) were due to other pathogens, and six (1%) were due to autoimmune encephalitis. Diagnosis was made within 24 h of admission to hospital for 83 (13%) of 664 children. 119 (18%) children had treatable conditions and 276 (42%) had conditions that could have been preventable by vaccination. At time of discharge, 153 (23%) of 664 children had severe neurological sequelae and 83 (13%) had died. In multivariate analyses, risk factors for unfavourable outcome were diagnosis of M tuberculosis infection upon admission (odds ratio 3·23 [95% CI 1·04-10·03]), coma on day 2 (2·90 [1·78-4·72]), supplementary oxygen requirement (1·89 [1·25-2·86]), and more than 1 week duration between symptom onset and admission to hospital (3·03 [1·68-5·48]). At 1 year after inclusion, of 432 children who were discharged alive from hospital with follow-up data, 24 (5%) had died, 129 (30%) had neurological sequelae, and 279 (65%) had completely recovered. In southeast Asia, most causes of childhood encephalitis are either preventable or treatable, with Japanese encephalitis virus being the most common cause. We provide crucial information that could guide public health policy to improve diagnostic, vaccination, and early therapeutic guidelines on childhood encephalitis in the Greater Mekong region. Institut Pasteur, Institut Pasteur International Network, Fondation Merieux, Aviesan Sud, INSERM, Wellcome Trust, Institut de Recherche pour le Développement (IRD), and Fondation Total.
doi:10.1016/s2214-109x(22)00174-7 pmid:35714649 pmcid:PMC9210261 fatcat:kldit4jpene6rny5txx4bol3p4

Synchronized high-resolution bed-level change and biophysical data from 10 marsh–mudflat sites in northwestern Europe

Zhan Hu, Pim W. J. M. Willemsen, Bas W. Borsje, Chen Wang, Heng Wang, Daphne van der Wal, Zhenchang Zhu, Bas Oteman, Vincent Vuik, Ben Evans, Iris Möller, Jean-Philippe Belliard (+3 others)
2021 Earth System Science Data  
Abstract. Tidal flats provide valuable ecosystem services such as flood protection and carbon sequestration. Erosion and accretion processes govern the ecogeomorphic evolution of intertidal ecosystems (marshes and bare flats) and, hence, substantially affect their valuable ecosystem services. To understand the intertidal ecosystem development, high-frequency bed-level change data are thus needed. However, such datasets are scarce due to the lack of suitable methods that do not involve excessive
more » ... labour and/or costly instruments. By applying newly developed surface elevation dynamics (SED) sensors, we obtained unique high-resolution daily bed-level change datasets in the period 2013–2017 from 10 marsh–mudflat sites situated in the Netherlands, Belgium, and the United Kingdom in contrasting physical and biological settings. At each site, multiple sensors were deployed for 9–20 months to ensure sufficient spatial and temporal coverage of highly variable bed-level change processes. The bed-level change data are provided with synchronized hydrodynamic data, i.e. water level, wave height, tidal current velocity, medium sediment grain size (D50), and chlorophyll a level at four sites. This dataset has revealed diverse spatial morphodynamics patterns over daily to seasonal scales, which are valuable to theoretical and model development. On the daily scale, this dataset is particularly instructive, as it includes a number of storm events, the response to which can be detected in the bed-level change observations. Such data are rare but useful to study tidal flat response to highly energetic conditions. The dataset is available from 4TU.ResearchData (https://doi.org/10.4121/12693254.v4; Hu et al., 2020), which is expected to expand with additional SED sensor data from ongoing and planned surveys.
doi:10.5194/essd-13-405-2021 fatcat:gu6bae6zzrakjnclle5fson3dy

Metronomic Four-Drug Regimen Has Anti-tumor Activity in Pediatric Low-Grade Glioma; The Results of a Phase II Clinical Trial

Arnauld Verschuur, Marie-Amélie Heng-Maillard, Philippe Dory-Lautrec, Romain Truillet, Elisabeth Jouve, Pascal Chastagner, Pierre Leblond, Isabelle Aerts, Stéphane Honoré, Natasha Entz-Werle, Nicolas Sirvent, Jean-Claude Gentet (+2 others)
2018 Frontiers in Pharmacology  
., 2016) and was integrated in metronomic regimens (Heng et al., 2016) , where the pharmacokinetics of combinations of vinblastine, cyclophosphamide, and celecoxib were previously studied.  ...  Vinblastine was also part of this regimen since this drug has limited hematological toxicity and anti-tubulin agents are known to have potent antiangiogenic properties (Pasquier et al., 2007; Heng et  ... 
doi:10.3389/fphar.2018.00950 pmid:30319400 pmcid:PMC6171442 fatcat:tp2xymbuwfdbvielv5fkhlutpq

Molecular epidemiology of human enterovirus 71 at the origin of an epidemic of fatal hand, foot and mouth disease cases in Cambodia

Veasna Duong, Channa Mey, Marc Eloit, Huachen Zhu, Lucie Danet, Zhong Huang, Gang Zou, Arnaud Tarantola, Justine Cheval, Philippe Perot, Denis Laurent, Beat Richner (+15 others)
2016 Emerging Microbes and Infections  
doi:10.1038/emi.2016.101 pmid:27651091 pmcid:PMC5113052 fatcat:bjxfwlcidvemjfgvnk6pzgpgne

Impact of targeted hypothermia in expanded-criteria organ donors on recipient kidney-graft function: study protocol for a multicentre randomised controlled trial (HYPOREME)

Noëlle Brulé, Emmanuel Canet, Morgane Péré, Fanny Feuillet, Maryvonne Hourmant, Karim Asehnoune, Bertrand Rozec, Agnes Duveau, Laurent Dube, Marc Pierrot, Stanislas Humbert, Patrice Tirot (+62 others)
2022 BMJ Open  
ORCID iDs Emmanuel Canet http://orcid.org/0000-0002-2143-8082 René Robert http://orcid.org/0000-0001-5989-5409 Thierry Boulain http://orcid.org/0000-0003-4664-3661 Jean Reignier http://orcid.org/0000-0002  ... 
doi:10.1136/bmjopen-2021-052845 pmid:35351701 pmcid:PMC8961135 fatcat:4sznjfzzgrfwpm6xyz5unsz5la

Canadian guideline on genetic screening for hereditary renal cell cancers

M. Neil Reaume, Gail E. Graham, Eva Tomiak, Suzanne Kamel-Reid, Michael A.S. Jewett, Georg A Bjarnason, Normand Blais, Melanie Care, Darryl Drachenberg, Craig Gedye, Ronald Grant, Daniel Y.C. Heng (+13 others)
2013 Canadian Urological Association Journal  
Heng, MD, FRCPC; 11 Anil Kapoor, MD, FRCSC; 12 Christian Kollmannsberger, MD, FRCPC; 13 Jean-Baptiste Lattouf, MD, FRCSC; 14 Canadian guideline on genetic screening for hereditary renal cell cancers  ...  Maher, MBChB, MD, MA, FRCP, FMedSci; 15 Arnim Pause, PhD; 16 Dean Ruether, MD, FRCPC; 11 Denis Soulieres, MD, FRCPC; 6 Simon Tanguay, MD, FRCSC; 17 Sandra Turcotte, PhD; 18 Philippe D.  ... 
doi:10.5489/cuaj.1496 pmid:24319509 pmcid:PMC3854468 fatcat:ua3uszhsijdeliguohl3jv54n4

Page 2306 of Mathematical Reviews Vol. , Issue 2002C [page]

2002 Mathematical Reviews  
65237 Chen, Tuhao 60028 33016 Chen, Wan Ji Cholak, Peter A Chomaz, Jean-Marc Chong, C.  ...  See Clément, Philippe Clément, Philippe 47036 15006 93078 11060 90011 26026 ARRARAAAARADRADRAN Climent, Joan-Josep Clotet, Josep Coates, John Cobeli, Cristian Cochran, Tim D Coclici, Cristian A 76084 Coelho  ... 

Theano: A Python framework for fast computation of mathematical expressions [article]

The Theano Development Team: Rami Al-Rfou, Guillaume Alain, Amjad Almahairi, Christof Angermueller, Dzmitry Bahdanau, Nicolas Ballas, Frédéric Bastien, Justin Bayer, Anatoly Belikov, Alexander Belopolsky, Yoshua Bengio, Arnaud Bergeron, James Bergstra, Valentin Bisson (+90 others)
2016 arXiv   pre-print
Theano is a Python library that allows to define, optimize, and evaluate mathematical expressions involving multi-dimensional arrays efficiently. Since its introduction, it has been one of the most used CPU and GPU mathematical compilers - especially in the machine learning community - and has shown steady performance improvements. Theano is being actively and continuously developed since 2008, multiple frameworks have been built on top of it and it has been used to produce many
more » ... machine learning models. The present article is structured as follows. Section I provides an overview of the Theano software and its community. Section II presents the principal features of Theano and how to use them, and compares them with other similar projects. Section III focuses on recently-introduced functionalities and improvements. Section IV compares the performance of Theano against Torch7 and TensorFlow on several machine learning models. Section V discusses current limitations of Theano and potential ways of improving it.
arXiv:1605.02688v1 fatcat:2lcqwrk2zrbt5dyjmcofn6shhu
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