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List of works by Elodie Ghedin

100-year-old pandemic flu viruses yield new genomes

scientific article published in 2022

A deep sequencing approach to comparatively analyze the transcriptome of lifecycle stages of the filarial worm, Brugia malayi

scientific article

A gene family of cathepsin L-like proteases of filarial nematodes are associated with larval molting and cuticle and eggshell remodeling

scientific article published in August 2004

A large-scale immuno-epidemiological simulation of influenza A epidemics

scientific article

A multi-reservoir model of influenza evolution

scientific article published on September 2009

A potential role for the interaction of Wolbachia surface proteins with the Brugia malayi glycolytic enzymes and cytoskeleton in maintenance of endosymbiosis

scientific article

A rapid and label-free platform for virus capture and identification from clinical samples

scientific article published on 27 December 2019

A virus with big ambitions

scientific article

Analysis of transcriptional regulation of tetracycline responsive genes in Brugia malayi

scientific article

Antibody response against a Leishmania donovani amastigote-stage-specific protein in patients with visceral leishmaniasis ⬇️

scientific article published on September 1, 1997

Arboretum and Puerto Almendras viruses: two novel rhabdoviruses isolated from mosquitoes in Peru

scientific article published on 13 January 2014

Biologic, antigenic, and full-length genomic characterization of a bovine-like coronavirus isolated from a giraffe

scientific article published on 7 March 2007

Bovine-like coronaviruses isolated from four species of captive wild ruminants are homologous to bovine coronaviruses, based on complete genomic sequences.

scientific article published on 8 October 2008

Brugia malayi gene expression in response to the targeting of the Wolbachia endosymbiont by tetracycline treatment

scientific article

Characterization of five unclassified orthobunyaviruses (Bunyaviridae) from Africa and the Americas

scientific article published on September 2017

Comparative analysis of the complete genome sequence of the California MSW strain of myxoma virus reveals potential host adaptations

scientific article published in November 2013

Comparative genomics of trypanosomatid parasitic protozoa

scientific article (publication date: 15 July 2005)

Comparison of the respiratory microbiome in healthy nonsmokers and smokers

scientific article published on May 2013

Complete genomic sequences, a key residue in the spike protein and deletions in nonstructural protein 3b of US strains of the virulent and attenuated coronaviruses, transmissible gastroenteritis virus and porcine respiratory coronavirus

scientific article published on 4 October 2006

Correction: Molecular Epidemiology of A/H3N2 and A/H1N1 Influenza Virus during a Single Epidemic Season in the United States.

scientific article published on 15 December 2008

Correction: Stochastic Processes Are Key Determinants of Short-Term Evolution in Influenza A Virus

Correlation of the lung microbiota with metabolic profiles in bronchoalveolar lavage fluid in HIV infection

scientific article published on 20 January 2016

Cyclic avian mass mortality in the northeastern United States is associated with a novel orthomyxovirus.

scientific article

Deep sequencing reveals mixed infection with 2009 pandemic influenza A (H1N1) virus strains and the emergence of oseltamivir resistance

scientific article

Defining Brugia malayi and Wolbachia symbiosis by stage-specific dual RNA-seq

scientific article

Defining the risk of SARS-CoV-2 variants on immune protection

scientific article published on 31 March 2022

Deliberate attenuation of chikungunya virus by adaptation to heparan sulfate-dependent infectivity: a model for rational arboviral vaccine design

scientific article

Detection of HHV-6B in post-mortem central nervous system tissue of a post-bone marrow transplant recipient: a multi-virus array analysis

scientific article published in December 2006

Development of high-yield influenza A virus vaccine viruses

scientific article

Differential HHV-6A gene expression in T cells and primary human astrocytes based on multi-virus array analysis

scientific article published on June 2006

Draft genome of the filarial nematode parasite Brugia malayi

scientific article

Emerging and resistant infections

scientific article

Evolution and Cryo-electron Microscopy Capsid Structure of a North American Bat Adenovirus and Its Relationship to Other Mastadenoviruses

scientific article

Evolution of Influenza B Virus in Kuala Lumpur, Malaysia, between 1995 and 2008.

scientific article

Evolution of non-LTR retrotransposons in the trypanosomatid genomes: Leishmania major has lost the active elements

scientific article published on 10 October 2005

Evolutionary history and attenuation of myxoma virus on two continents

scientific article published in 2012

Extensive geographical mixing of 2009 human H1N1 influenza A virus in a single university community

scientific article

Filarial and Wolbachia genomics ⬇️

scientific article published on February 1, 2012

First sequenced genome of a parasitic nematode

scientific article published on April 2004

Functional analysis of microRNA activity in Brugia malayi

scientific article published on 22 May 2015

Functional analysis of putative operons in Brugia malayi

scientific article

Fungi stabilize connectivity in the lung and skin microbial ecosystems

scientific article published on 15 January 2018

GeMInA, Genomic Metadata for Infectious Agents, a geospatial surveillance pathogen database

scientific article

Gene synteny and evolution of genome architecture in trypanosomatids

article

Genes encoding putative biogenic amine receptors in the parasitic nematode Brugia malayi

scientific article

Genetic diversity of the 2013-14 human isolates of influenza H7N9 in China.

scientific article

Genome analysis linking recent European and African influenza (H5N1) viruses

scientific article

Genome scale evolution of myxoma virus reveals host-pathogen adaptation and rapid geographic spread

scientific article published on 25 September 2013

Genomic and protein structural maps of adaptive evolution of human influenza A virus to increased virulence in the mouse

scientific article

Genomic and proteomic approaches for Chagas' disease: critical analysis of diagnostic methods

scientific article

Getting the flu: 5 key facts about influenza virus evolution

scientific article

Global phylogeography and ancient evolution of the widespread human gut virus crAssphage

scientific article published on 08 July 2019

Glucose and Glycogen Metabolism in Brugia malayi Is Associated with Wolbachia Symbiont Fitness

scientific article

Glycomic analysis of host response reveals high mannose as a key mediator of influenza severity

scientific article published on 12 October 2020

Helminth genomics: The implications for human health

scientific article

Host response: Pregnancy impairs flu defences

scientific article published on 28 April 2017

ICTV Virus Taxonomy Profile: Nyamiviridae

scientific article published on 9 November 2017

Identification and analysis of ingi-related retroposons in the trypanosomatid genomes

scientific article

Identification of mammalian-adapting mutations in the polymerase complex of an avian H5N1 influenza virus

scientific article

Identification of non-autonomous non-LTR retrotransposons in the genome of Trypanosoma cruzi

scientific article published on 01 September 2002

In vivo transfection of developmentally competent Brugia malayi infective larvae

scientific article

Inducible Expression of Suicide Genes in Leishmania donovani Amastigotes ⬇️

scientific article published on September 4, 1998

Initial Mapping of the New York City Wastewater Virome

scientific article published on 16 June 2020

Interaction of a Wolbachia WSP-like protein with a nuclear-encoded protein of Brugia malayi

scientific article

Intrahost dynamics of antiviral resistance in influenza A virus reflect complex patterns of segment linkage, reassortment, and natural selection

scientific article published on 7 April 2015

It's a small world after all—viral genomics and the global dominance of viruses

scientific article published on 08 September 2011

Kolente virus, a rhabdovirus species isolated from ticks and bats in the Republic of Guinea

scientific article published on 23 September 2013

Large-scale sequencing and the natural history of model human RNA viruses

scientific article published on June 2012

Large-scale sequencing of human influenza reveals the dynamic nature of viral genome evolution

scientific article

LdARF1 in trafficking and structural maintenance of the trans-Golgi cisternal network in the protozoan pathogen Leishmania donovani

scientific article

Lessons from the genomes and transcriptomes of filarial nematodes

scientific article published on 23 January 2017

Longitudinal analysis of the lung microbiota of cynomolgous macaques during long-term SHIV infection

scientific article published on 08 July 2016

Mammalian adaptation in the PB2 gene of avian H5N1 influenza virus

scientific article published on 17 July 2013

Measuring associations between the microbiota and repeated measures of continuous clinical variables using a lasso-penalized generalized linear mixed model.

scientific article published on 15 June 2018

Mechanisms of HTLV-1 transformation

scientific article published in September 2004

Members of a large retroposon family are determinants of post-transcriptional gene expression in Leishmania

scientific article (publication date: 7 September 2007)

Mesoniviruses are mosquito-specific viruses with extensive geographic distribution and host range

scientific article

Microbial Composition of the Human Nasopharynx Varies According to Influenza Virus Type and Vaccination Status

scientific article published on 02 July 2019

Mimivirus relatives in the Sargasso sea

scientific article

Mining predicted essential genes of Brugia malayi for nematode drug targets

scientific article

Mixed infection and the genesis of influenza virus diversity

scientific article

Modeling the metabolic interplay between a parasitic worm and its bacterial endosymbiont allows the identification of novel drug targets

scientific article published on 11 August 2020

Molecular characterization of a new species in the genus Alphacoronavirus associated with mink epizootic catarrhal gastroenteritis

scientific article

Molecular dissection of the functional domains of a unique, tartrate-resistant, surface membrane acid phosphatase in the primitive human pathogen Leishmania donovani

scientific article published on 6 March 2002

Molecular epidemiology of A/H3N2 and A/H1N1 influenza virus during a single epidemic season in the United States

scientific article

Multicenter Comparison of Lung and Oral Microbiomes of HIV-infected and HIV-uninfected Individuals

scientific article published on 6 August 2015

Multiple reassortment events in the evolutionary history of H1N1 influenza A virus since 1918

scientific article published on 15 February 2008

Multiplex Reverse Transcription-PCR for Simultaneous Surveillance of Influenza A and B Viruses

scientific article published on 4 October 2017

Myxoma virus and the Leporipoxviruses: an evolutionary paradigm

scientific article published on 6 March 2015

Network inference from multimodal data: A review of approaches from infectious disease transmission

scientific article

Niakha virus: a novel member of the family Rhabdoviridae isolated from phlebotomine sandflies in Senegal

scientific article published on 14 June 2013

Panning for molecular gold in whipworm genomes

scientific article published in July 2014

Phylogeography of the spring and fall waves of the H1N1/09 pandemic influenza virus in the United States

scientific article

Possibility and Challenges of Conversion of Current Virus Species Names to Linnaean Binomials

scientific article

Potential involvement of Brugia malayi cysteine proteases in the maintenance of the endosymbiotic relationship with Wolbachia

scientific article

Presence of oseltamivir-resistant pandemic A/H1N1 minor variants before drug therapy with subsequent selection and transmission.

scientific article

Profiling the airway in the macaque model of tuberculosis reveals variable microbial dysbiosis and alteration of community structure

article

Pyruvate produced by Brugia spp. via glycolysis is essential for maintaining the mutualistic association between the parasite and its endosymbiont, Wolbachia

scientific article published on 30 September 2019

Quantifying influenza virus diversity and transmission in humans

scientific article

Quasispecies of bovine enteric and respiratory coronaviruses based on complete genome sequences and genetic changes after tissue culture adaptation

scientific article published on 16 April 2007

Reply to 'Reconciling disparate estimates of viral genetic diversity during human influenza infections'

scientific article published on 01 September 2019

Role of transposable elements in trypanosomatids.

scientific article published on 21 February 2008

Role of viral regulatory and accessory proteins in HIV-1 replication

scientific article

Sequence analysis of in vivo defective interfering-like RNA of influenza A H1N1 pandemic virus

scientific article

Sequences necessary for trans-splicing in transiently transfected Brugia malayi

scientific article

Sex chromosome evolution in parasitic nematodes of humans

scientific article published on 23 April 2020

Shared data are key to beating threat from flu.

scientific article published in March 2006

Stage-Specific Transcriptome and Proteome Analyses of the Filarial Parasite Onchocerca volvulus and Its Wolbachia Endosymbiont

scientific article

Stage-specific proteomic expression patterns of the human filarial parasiteBrugia malayiand its endosymbiontWolbachia ⬇️

scientific article published on May 23, 2011

Stochastic processes are key determinants of short-term evolution in influenza a virus

scientific article

Taxonomy of the order Mononegavirales: second update 2018

scientific article published on 01 April 2019

Taxonomy of the order Mononegavirales: update 2016

scientific article published in August 2016

Taxonomy of the order Mononegavirales: update 2017.

scientific article

Taxonomy of the order Mononegavirales: update 2018.

scientific article published on 11 April 2018

Temporally structured metapopulation dynamics and persistence of influenza A H3N2 virus in humans

scientific article

The Genome Sequence of Trypanosoma cruzi, Etiologic Agent of Chagas Disease

scientific article

The Genome of the African Trypanosome Trypanosoma brucei

scientific article

The Trypanosoma cruzi L1Tc and NARTc non-LTR retrotransposons show relative site specificity for insertion

scientific article published on 2 November 2005

The Wolbachia genome of Brugia malayi: endosymbiont evolution within a human pathogenic nematode

scientific article

The early diversification of influenza A/H1N1pdm. ⬇️

scientific article

The evolutionary genetics and emergence of avian influenza viruses in wild birds

scientific article

The genome of Brugia malayi - all worms are not created equal

scientific article

The genome of Onchocerca volvulus, agent of river blindness

scientific article published on 21 November 2016

The genome of the blood fluke Schistosoma mansoni

scientific article

The human mycobiome in health and disease

scientific article

The ingi and RIME non-LTR Retrotransposons Are Not Randomly Distributed in the Genome of Trypanosoma brucei

scientific article published on 23 December 2003

The lung mycobiome in the next-generation sequencing era.

scientific article

The microbiome and the lung

scientific article

The role of 'omics' in the quest to eliminate human filariasis

scientific article

The role of RNA folding free energy in the evolution of the polymerase genes of the influenza A virus

scientific article published on 12 February 2009

The sequence and analysis of Trypanosoma brucei chromosome II.

scientific article

Topographic diversity of the respiratory tract mycobiome and alteration in HIV and lung disease

scientific article published on April 2015

Transcriptomes and pathways associated with infectivity, survival and immunogenicity in Brugia malayi L3

scientific article published on 15 June 2009

Transmission Bottleneck Size Estimation from Pathogen Deep-Sequencing Data, with an Application to Human Influenza A Virus

scientific article

Unseasonal transmission of H3N2 influenza A virus during the swine-origin H1N1 pandemic.

scientific article

Use of a multi-virus array for the study of human viral and retroviral pathogens: gene expression studies and ChIP-chip analysis

scientific article

Use of bronchoalveolar lavage to assess the respiratory microbiome: signal in the noise

scientific article

Viral evolution: beyond drift and shift

scientific article published on 16 July 2015

Viral genome sequencing by random priming methods.

scientific article

Whole genome analysis of sierra nevada virus, a novel mononegavirus in the family nyamiviridae

scientific article

Whole-genome analysis of human influenza A virus reveals multiple persistent lineages and reassortment among recent H3N2 viruses

scientific article

Widespread colonization of the lung by Tropheryma whipplei in HIV infection

scientific article published on May 2013

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