Département de microbiologie et médecine moléculaire

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2020

Scientific Articles

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A divergent cyclin/cyclin-dependent kinase complex controls the atypical replication of a malaria parasite during gametogony and transmissionBalestra, Aurélia; Zeeshan, Mohammad; Rea, Edward; Pasquarello Mosimann, Carla; ... Brochet, Mathieu
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Auxiliary domains of the HrpB bacterial DExH-box helicase shape its RNA preferencesHausmann, Stéphane; Geiser, Johan; Vadas, Oscar; Ducret, Verena; ... Valentini, Martina
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Bacterial cell cycle control by citrate synthase independent of enzymatic activityBerge, Matthieu; Pezzatti, Julian; Gonzalez Ruiz, Victor; Degeorges, Laurence; ... Viollier, Patrick
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C-Mannosylation of Toxoplasma gondii proteins promotes attachment to host cells and parasite virulenceAlbuquerque-Wendt, Andreia; Jacot, Damien; Dos Santos Pacheco, Nicolas; Seegers, Carla; ... Routier, Françoise H.
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CLASTR : the cellosaurus STR similarity search tool ‐ A precious help for cell line authenticationRobin, Thibault; Capes‐Davis, Amanda; Bairoch, Amos Marc;
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Essential function of the alveolin network in the subpellicular microtubules and conoid assembly in Toxoplasma gondiiTosetti, Nicolo; Dos Santos Pacheco, Nicolas; Bertiaux, Eloise; Maco, Bohumil; ... Soldati-Favre, Dominique
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Evolution, Composition, Assembly, and Function of the Conoid in ApicomplexaDos Santos Pacheco, Nicolas; Tosetti, Nicolo; Koreny, Ludek; Waller, Ross F.; Soldati-Favre, Dominique
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FKBP10 regulates protein translation to sustain lung cancer growthRamadori, Giorgio; Ioris, Rafael M; Villanyi, Zoltan; Firnkes, Raquel; ... Coppari, Roberto
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Functional and computational genomics reveal unprecedented flexibility in stage-specific Toxoplasma metabolismKrishnan, Aarti; Kloehn, Joachim; Lunghi, Matteo; Chiappino-Pepe, Anush; ... Soldati-Favre, Dominique
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Integrative and quantitative view of the CtrA regulatory network in a stalked budding bacteriumLeicht, Oliver; van Teeseling, Muriel C F; Panis, Gaël; Reif, Celine; ... Thanbichler, Martin
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Loss of bacterial cell pole stabilization in caulobacter crescentus sensitizes to outer membrane stress and peptidoglycan-directed antibioticsVallet, Simon; Hansen, Lykke Haastrup; Bistrup, Freja Cecillie; Laursen, Signe Aagaard; ... Kirkpatrick, CLARE
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Molecular architecture of the DNA-binding sites of the P-loop ATPases MipZ and ParA from Caulobacter crescentusCorrales-Guerrero, Laura; He, Binbin; Refes, Yacine; Panis, Gaël; ... Thanbichler, Martin
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Multi-omics analysis delineates the distinct functions of sub-cellular acetyl-CoA pools in Toxoplasma gondiiKloehn, Joachim; Oppenheim, Rebecca; Siddiqui, Ghizal; De Bock, Pieter-Jan; ... Soldati-Favre, Dominique
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Neuroinflammation-Associated Aspecific Manipulation of Mouse Predator Fear by Toxoplasma gondiiKuby, Madlaina; Hammoudi, Pierre-Mehdi; Dogga, Sunil Kumar; Pages, Stéphane; ... Soldati-Favre, Dominique
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PfMAP-2 is essential for male gametogenesis in the malaria parasite Plasmodium falciparumHitz, Eva; Balestra, Aurélia; Brochet, Mathieu; Voss, Till S;
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Supply and demand - heme synthesis, salvage and utilization by ApicomplexaKloehn, Joachim; Harding, Clare R; Soldati-Favre, Dominique;
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Targeting Plasmepsins —an Achilles’ heel of the malaria parasiteBurrows, Jeremy N.; Soldati-Favre, Dominique;
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The ABCD database: a repository for chemically defined antibodiesDu Fresne Von Hohenesche, Wanessa Cristina; Gasteiger, Elisabeth; Marcatili, Paolo; Duek, Paula Debora; ... Cosson, Pierre
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The conserved transcriptional regulator CdnL is required for metabolic homeostasis and morphogenesis in CaulobacterWoldemeskel, Selamawit Abi; Daitch, Allison K; Alvarez, Laura; Panis, Gaël; ... Goley, Erin D
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The CzcCBA efflux system requires the CadA P-type ATPase for timely expression upon zinc excess in pseudomonas aeruginosaDucret, Verena; Gonzalez, Manuel R.; Leoni, Sara; Valentini, Martina; Perron, Karl
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The neXtProt knowledgebase in 2020: data, tools and usability improvementsZahn, Monique; Michel, Pierre-André Albert; Gateau, Alain; Nikitin, Frédéric; ... Lane, Lydie
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Validation of a commercially available SARS-CoV-2 serological immunoassayMeyer, Benjamin; Torriani, Giulia; Yerly Ferrillo, Sabine; Mazza, Léna; ... Kaiser, Laurent
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What will neXtProt help us achieve in 2020 and beyond?Zahn, Monique; Lane, Lydie;

Book Chapters

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CRISPR/cas9-mediated generation of tetracycline repressor-based inducible knockdown in toxoplasma gondiiJacot, Damien; Soldati-Favre, Dominique;
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The actomyosin systems in apicomplexaFrenal, Karine; Krishnan, Aarti; Soldati-Favre, Dominique;

Doctoral Thesis

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Cell cycle, motility and invasion: CDPK4 is a pleiotropic regulator across the lifecycle of parasites causing malariaFang, Hanwei;

2019

Scientific Articles

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A bifunctional ATPase drives tad pilus extension and retractionEllison, Courtney K; Kan, Jingbo; Chlebek, Jennifer L; Hummels, Katherine R; ... Brun, Yves V
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A spoIID homolog cleaves glycan strands at the chlamydial division septumJacquier, Nicolas; Yadav, Akhilesh K; Pillonel, Trestan; Viollier, Patrick; ... Greub, Gilbert Daniel
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Advances in identifying and characterizing the human proteomePaik, Young-Ki; Overall, Christopher M; Corrales, Fernando; Deutsch, Eric W; ... Omenn, Gilbert S
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Bacterial cell cycle and growth phase switch by the essential transcriptional regulator CtrA.Delaby, Marie; Panis, Gaël; Viollier, Patrick;
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Biogenesis and secretion of micronemes in Toxoplasma gondiiDubois, David Jean; Soldati-Favre, Dominique;
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Blinded testing of function annotation for uPE1 proteins by I-TASSER/COFACTOR pipeline using the 2018-2019 additions to neXtProt and the CAFA3 challengeZhang, Chengxin; Lane, Lydie; Omenn, Gilbert S; Zhang, Yang;
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Cell lines as biological models: practical steps for more reliable researchCapes-Davis, Amanda; Bairoch, Amos Marc; Barrett, Tanya; Burnett, Edward C; ... Tian, Fang
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Choosing an Optimal Sample Preparation in Caulobacter crescentus for Untargeted Metabolomics ApproachesPezzatti, Julian; Berge, Matthieu; Boccard, Julien; Codesido Sanchez, Santiago; ... Rudaz, Serge
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Co-translational assembly of proteasome subunits in NOT1-containing assemblysomesPanasenko, Olesya; Somasekharan, Syam Prakash; Villanyi, Zoltan; Zagatti, Marina; ... Collart, Martine
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CXCL4 assembles DNA into liquid crystalline complexes to amplify TLR9-mediated interferon-α production in systemic sclerosisLande, Roberto; Lee, Ernest Y; Palazzo, Raffaella; Marinari, Barbara; ... Frasca, Loredana
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Detection of dicistroviruses RNA in blood of febrile Tanzanian childrenCordey, Samuel; Laubscher, Florian; Hartley, Mary-Anne; Junier, Thomas; ... Kaiser, Laurent
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Genetic resistance to DEHP-induced transgenerational endocrine disruptionStenz, Ludwig; Rahban, Rita; Prados, Julien; Nef, Serge; Giacobino, Ariane
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Genetic screens reveal novel major and minor players in magnesium homeostasis of Staphylococcus aureusTrachsel, Emilie; Redder, Peter; Linder, Patrick; Armitano, Joshua;
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Genome-scale identification of essential metabolic processes for targeting the plasmodium liver stageStanway, Rebecca R.; Bushell, Ellen; Chiappino-Pepe, Anush; Roques, Magali; ... Heussler, Volker T.
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Growth of Zika virus in human reconstituted respiratory, intestinal, vaginal and neural tissuesCagno, Valeria; Tseligka, Eirini; Bettex, Quentin; Huang, S; ... Tapparel, Caroline
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Heparan sulfate proteoglycans and viral attachment: true receptors or adaptation bias?Cagno, Valeria; Tseligka, Eirini; Tapparel, Caroline;
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Human proteome project mass spectrometry data interpretation guidelines 3.0Deutsch, Eric W; Lane, Lydie; Overall, Christopher M; Bandeira, Nuno; ... Omenn, Gilbert S
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Identification of new DNA-associated proteins from Waddlia chondrophilaBarsy, Marie de; Herrgott, Lucas; Martin, Virginie; Pillonel, Trestan; ... Greub, Gilbert
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Incidences of problematic cell lines are lower in papers that use RRIDs to identify cell linesBabic, Zeljana; Capes-Davis, Amanda; Martone, Maryann E; Bairoch, Amos Marc; ... Bandrowski, Anita E
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Linking toxin-antitoxin systems with phenotypes: A Staphylococcus aureus viewpointSierra Miranda, Roberto Mario; Viollier, Patrick; Renzoni, Adriana Maria;
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Ménage à trois: virus, host, and microbiota in experimental infection modelsMazel-Sanchez, Beryl; Yildiz, Soner; Schmolke, Mirco;
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Phosphatidic acid governs natural egress in Toxoplasma gondii via a guanylate cyclase receptor platformBisio Sabaris, Hugo; Lunghi, Matteo; Brochet, Mathieu; Soldati-Favre, Dominique;
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Progress on identifying and characterizing the human proteome: 2019 metrics from the HUPO human proteome projectOmenn, Gilbert S; Lane, Lydie; Overall, Christopher M; Corrales, Fernando J; ... Deutsch, Eric W
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Proteomics standards initiative extended FASTA formatBinz, Pierre-Alain; Shofstahl, Jim; Vizcaíno, Juan Antonio; Barsnes, Harald; ... Deutsch, Eric W
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Signaling cascades governing entry into and exit from host cells by toxoplasma gondiiBisio Sabaris, Hugo; Soldati-Favre, Dominique;
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Sub-inhibitory doses of individual constituents of essential oils can select for Staphylococcus aureus resistant mutantsBerdejo, Daniel; Chueca, Beatriz; Pagán, Elisa; Renzoni, Adriana Maria; ... Garcia-Gonzalo, Diego
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The lectin-specific activity of Toxoplasma gondii microneme proteins 1 and 4 binds Toll-like receptor 2 and 4 N-glycans to regulate innate immune primingSardinha-Silva, Aline; Mendonça-Natividade, Flávia C; Pinzan, Camila F; Lopes, Carla D; ... Roque-Barreira, Maria Cristina
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The roles of CEN2 and DLC8a in apical secretory organelles discharge of toxoplasma gondiiLentini, Gaëlle; Dubois, David Jean; Maco, Bohumil; Soldati-Favre, Dominique; Frenal, Karine
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The triumvirate of signaling molecules controlling Toxoplasma microneme exocytosis: Cyclic GMP, calcium, and phosphatidic acidBullen, Hayley Elise; Bisio Sabaris, Hugo; Soldati-Favre, Dominique;
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Three F-actin assembly centers regulate organelle inheritance, cell-cell communication and motility in Toxoplasma gondiiTosetti, Nicolo; Dos Santos Pacheco, Nicolas; Soldati-Favre, Dominique; Jacot, Damien;
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Transcriptional profiling of pseudomonas aeruginosa and staphylococcus aureus during in vitro co-cultureTognon, Mikael; Kohler, Thilo; Luscher, Alexandre; Van Delden, Christian;
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Transcriptome analysis of Plasmodium berghei during exo-erythrocytic developmentCaldelari, Reto; Dogga, Sunil Kumar; Schmid, Marc W; Franke-Fayard, Blandine; ... Heussler, Volker
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Vitamin and cofactor acquisition in apicomplexans: synthesis versus salvageKrishnan, Aarti; Kloehn, Joachim; Lunghi, Matteo; Soldati-Favre, Dominique;
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Worming into the uncharacterized human proteomeDuek, Paula Debora; Lane, Lydie;

Newspaper Articles

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Plasmespine IX et Plasmespine X: deux nouvelles cibles dans la lutte contre la malariaPino, Paco; Soldati-Favre, Dominique; Heussler, Volker;

Doctoral Thesis

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Control of cell cycle transcription in caulobacter crescentusDelaby, Marie;
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Crossroads at translation initiation: the long and the short of a short and a long 5’ transcript leader and the eukaryotic initiation factor eIF4E3Weiss, Benjamin;
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Identification of Enterovirus 71 virulence determinantsTseligka, Eirini;
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Modulation of cell death and inflammation in Influenza A Virus infection through PB1-F2-specific targeting of host proteinsBoal P. T. De Carvalho, Inès;
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Molecular mechanisms that integrate and control the actomyosin system in Toxoplasma gondiiTosetti, Nicolo;

2018

Scientific Articles

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A new bioinformatics tool to help assess the significance of BRCA1 variantsCusin, Isabelle; Teixeira, Daniel; Zahn, Monique; Rech De Laval, Valentine; ... Gaudet, Pascale
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A VP1 mutation acquired during an enterovirus 71 disseminated infection confers heparan sulfate binding ability and modulates ex vivo tropismTseligka, Eirini; Sobo, Komla; Stoppini, Luc; Cagno, Valeria; ... Tapparel, Caroline
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Antiviral drug screening by assessing epithelial functions and innate immune responses in human 3D airway epithelium modelBoda, Bernadett; Benaoudia, Sacha; Huang, Song; Bonfante, Rosy; ... Constant, Samuel Claude
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Broad-spectrum non-toxic antiviral nanoparticles with a virucidal inhibition mechanismCagno, Valeria; Andreozzi, Patrizia; D'Alicarnasso, Marco; Jacob Silva, Paulo; ... Stellacci, Francesco
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cGMP Signalling: Malarial Guanylyl Cyclase Leads the WayBrochet, Mathieu;
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Deep dive on the proteome of human cerebrospinal fluid: a valuable data resource for biomarker discovery and missing protein identificationMacron, Charlotte; Lane, Lydie; Núñez Galindo, Antonio; Dayon, Loic;
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Epistasis studies reveal redundancy among calcium-dependent protein kinases in motility and invasion of malaria parasitesFang, Hanwei; Gomes, Ana Rita; Klages Jemelin, Natacha; Pino, Paco; ... Brochet, Mathieu
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Exploring the Uncharacterized Human Proteome Using neXtProtDuek, Paula Debora; Gateau, Alain; Bairoch, Amos Marc; Lane, Lydie;
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Identification of missing proteins in normal human cerebrospinal fluidMacron, Charlotte; Lane, Lydie; Núñez Galindo, Antonio; Dayon, Loic;
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Kinases and CancerCicenas, Jonas; Zalyte, Egle; Bairoch, Amos Marc; Gaudet, Pascale;
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Large-Scale Reanalysis of Publicly Available HeLa Cell Proteomics Data in the Context of the Human Proteome ProjectRobin, Thibault; Bairoch, Amos Marc; Muller, Markus Johann; Lisacek, Frédérique; Lane, Lydie
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Launching the C-HPP neXt-CP50 pilot project for functional characterization of identified proteins with no known functionPaik, Young-Ki; Lane, Lydie; Kawamura, Takeshi; Chen, Yu-Ju; ... Overall, Christopher M
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Modeling and resistant alleles explain the selectivity of antimalarial compound 49c towards apicomplexan aspartyl proteasesMukherjee, Budhaditya; Tessaro, Francesca; Vahokoski, Juha; Kursula, Inari; ... Soldati-Favre, Dominique
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Novel broad spectrum virucidal molecules against enveloped virusesCagno, Valeria; Tintori, Cristina; Civra, Andrea; Cavalli, Roberta; ... Botta, Maurizio
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Overcoming the neonatal limitations of inducing germinal centers through liposome-based adjuvants including c-type lectin agonists trehalose dibehenate or curdlanVono, Maria; Eberhardt, Christiane Sigrid; Mohr, Elodie; Auderset, Floriane; ... Siegrist, Claire-Anne
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Phosphoproteomic-based kinase profiling early in influenza virus infection identifies GRK2 as antiviral drug targetYángüez, Emilio; Hunziker, Annika; Dobay, Maria Pamela; Yildiz, Soner; ... Stertz, Silke
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Progress on identifying and characterizing the human proteome: 2018 metrics from the HUPO human proteome projectOmenn, Gilbert S; Lane, Lydie; Overall, Christopher M; Corrales, Fernando J; ... Deutsch, Eric W
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RNA helicases in RNA decayKhemici, Vanessa; Linder, Patrick;
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Role of CNNM in transepithelial Mg2+ (re)absorption: searching the answer in a bacterial homologLinder, Patrick; Armitano, Joshua;
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Smc5/6 Antagonism by HBx Is an Evolutionarily Conserved Function of Hepatitis B Virus Infection in MammalsAbdul, Fabien; Filleton, Fabien; Gerossier, Laetitia; Paturel, Alexia; ... Etienne, Lucie
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Structural Basis of Phosphatidic Acid Sensing by APH in Apicomplexan ParasitesDarvill, Nick; Dubois, David Jean; Rouse, Sarah L.; Hammoudi, Pierre-Mehdi; ... Matthews, Steve
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The Cellosaurus, a Cell-Line Knowledge ResourceBairoch, Amos Marc;
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Toward completion of the human proteome parts list: progress uncovering proteins that are missing or have unknown function and developing analytical methodsPaik, Young-Ki; Overall, Christopher M; Corrales, Fernando; Deutsch, Eric W; ... Omenn, Gilbert S
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Toxoplasma gondii TFP1 is an essential transporter family protein critical for microneme maturation and exocytosisHammoudi, Pierre-Mehdi; Maco, Bohumil; Dogga, Sunil Kumar; Frenal, Karine; Soldati-Favre, Dominique
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Update of the functional mitochondrial human proteome networkMonti, Chiara; Lane, Lydie; Fasano, Mauro; Alberio, Tiziana;
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Viral chimeras decrypt the role of enterovirus capsid proteins in viral tropism, acid sensitivity and optimal growth temperatureRoyston, Lena; Essaidi-Laziosi, Manel; Pérez-Rodríguez, Francisco J; Piuz, Isabelle; ... Tapparel, Caroline

Book Chapters

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Influenza A Virus Genetic Tools: From Clinical Sample to Molecular CloneAnchisi, Stéphanie; Gonçalves, Ana Rita; Mazel-Sanchez, Beryl; Cordey, Samuel; Schmolke, Mirco

Doctoral Thesis

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Diversity in protein post-translational modifications and their critical impacts on the lytic cycle of Toxoplasma gondiiDogga, Sunil Kumar;
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Forward genetic dissection of bacterial polarisome in Caulobacter crescentusEroglu Yuce, Ezgi;
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Genetic determinants underlying Enterovirus phenotypic diversityRoyston, Lena;
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Impact of acute respiratory infections on host microbiotaYildiz, Soner;
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Role of RNA1 and RNase J1 in controlling plasmid replication in staphylococcus aureusAndrade Guimaraes, Vanessa;
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