Département de biochimie

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2020

Scientific Articles

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Caprin‐1 Promotes Cellular Uptake of Nucleic Acids with Backbone and Sequence DiscriminationGalli, Valentina; Sadhu, Kalyan Kumar; Masi, Daniela; Saarbach, Jacques; ... Winssinger, Nicolas
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Cell-Penetrating Streptavidin: A General Tool for Bifunctional Delivery with Spatiotemporal Control, Mediated by Transport Systems Such as Adaptive Benzopolysulfane NetworksLopez Andarias, Javier; Saarbach, Jacques; Moreau, Dimitri; Cheng, Yangyang; ... Matile, Stefan
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Fluorescent Membrane Tension Probes for Super-Resolution Microscopy: Combining Mechanosensitive Cascade Switching with Dynamic-Covalent Ketone ChemistryGARCIA, José; Maillard, Jimmy Stéphane; Fureraj, Ina; Strakova, Karolina; ... Matile, Stefan
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Identification of anti-mycobacterium and anti-legionella compounds with potential distinctive structural scaffolds from an HD-PBL using phenotypic screens in amoebae host modelsHanna, Nabil; Kicka, Sébastien; Chiriano, Gianpaolo; Harrison, Christopher; ... Soldati, Thierry
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Mapping Cell Membrane Organization and Dynamics Using Soft Nanoimprint LithographySansen, T.; Sanchez-Fuentes, D.; Rathar, R.; Colom Diego, Adai; ... Picas, L.
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Mycobacterium bovis uses the ESX-1 Type VII secretion system to escape predation by the soil-dwelling amoeba Dictyostelium discoideumButler, Rachel E; Smith, Alex A.; Mendum, Tom A.; Chandran, Aneesh; ... Stewart, Graham R
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Mycobacterium marinum produces distinct mycobactin and carboxymycobactin siderophores to promote growth in broth and phagocytesKnobloch, Paulina; Koliwer‐Brandl, Hendrik; Arnold, Fabian M.; Hanna, Nabil; ... Hilbi, Hubert
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Palmitate and oleate modify membrane fluidity and kinase activities of INS-1E β-cells alongside altered metabolism-secretion couplingOberhauser, Lucie; Granziera, Sabrina; Colom Diego, Adai; Goujon, Antoine; ... Maechler, Pierre
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Transcriptional Responses of Dictyostelium discoideum Exposed to Different Classes of BacteriaLamrabet, Otmane; Melotti, Astrid; Burdet, Frédéric; Hanna, Nabil; ... Cosson, Pierre

2019

Scientific Articles

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A brief historical and evolutionary perspective on the origin of cellular microbiology researchSoldati, Thierry; Cardenal-Munoz, Elena;
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Antimycobacterial activity in a single-cell infection assay of ellagitannins from Combretum aculeatum and their bioavailable metabolitesDiop, El Hadji Assane; Ferreira Queiroz, Emerson; Marcourt, Laurence; Kicka, Sébastien; ... Wolfender, Jean-Luc
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Cellular Microbiology 1999–2019Soldati, Thierry;
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Diselenolane‐Mediated Cellular Uptake: Efficient Cytosolic Delivery of Probes, Peptides, Proteins, Artificial Metalloenzymes and Protein‐Coated Quantum DotsBartolami, Eline; Basagiannis, Dimitris; Zong, Lili; Martinent, Rémi; ... Matile, Stefan
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Distinct Mycobacterium marinum phosphatases determine pathogen vacuole phosphoinositide pattern, phagosome maturation, and escape to the cytosolKoliwer‐Brandl, Hendrik; Knobloch, Paulina; Barisch, Caroline; Welin, Amanda; ... Hilbi, Hubert
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Editorial: Amoebae as Host Models to Study the Interaction With PathogensThewes, Sascha; Soldati, Thierry; Eichinger, Ludwig;
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Lowe syndrome–linked endocytic adaptors direct membrane cycling kinetics with OCRL in Dictyostelium discoideumLuscher, Alexandre; Fröhlich, Florian; Barisch, Caroline; Littlewood, Clare; ... Swan, Laura E.
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Luciferase-Induced Photouncaging: BioluminolysisChang, Dalu; Lindberg, Eric; Feng, Suihan; Angerani, Simona; ... Winssinger, Nicolas
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Lysosome-targeted photoactivation reveals local sphingosine metabolism signaturesFeng, Suihan; Harayama, Takeshi; Chang, Dalu; Hannich, Joerg Thomas; ... Riezman, Howard
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Mechanosensitive Fluorescent Probes to Image Membrane Tension in Mitochondria, Endoplasmic Reticulum, and LysosomesGoujon, Antoine; Colom Diego, Adai; Strakova, Karolina; Mercier, Vincent; ... Matile, Stefan
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Mitochondrial arginase-2 is a cell‑autonomous regulator of CD8+ T cell function and antitumor efficacyMarti Lindez, Adria-Arnau; Dunand-Sauthier, Isabelle; Conti, Mark; Gobet, Florian; ... Reith, Walter
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Navigating in vitro bioactivity data by investigating available resources using model compoundsIlmjarv, Sten; Augsburger, Fiona; Bolleman, Jerven Tjalling; Liechti, Robin; ... Krause, Karl-Heinz
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PIKfyve/Fab1 is required for efficient V-ATPase and hydrolase delivery to phagosomes, phagosomal killing, and restriction of Legionella infectionBuckley, Catherine M.; Heath, Victoria L.; Gueho, Aurélie; Bosmani, Cristina; ... King, Jason S.
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Simplified Fabrication for Ion-Selective Optical Emulsion Sensor with Hydrophobic Solvatochromic Dye Transducer: A Cautionary TaleWang, Lu; Sadler, Stéphanie Deeka-Marie; Cao, Tianchi; Xie, Xiaojiang; ... Bakker, Eric
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Sphingolipids and membrane targets for therapeuticsLoewith, Robbie Joséph; Riezman, Howard; Winssinger, Nicolas;
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TORC2 controls endocytosis through plasma membrane tensionRiggi, Margot; Bourgoint, Clelia; Macchione, Mariano; Matile, Stefan; ... Roux, Aurélien

Preprints

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Conidial melanin of the human pathogenic fungus Aspergillus fumigatus disrupts cell autonomous defenses in amoebaeFerling, Iuliia; Dunn, Joe Dan; Ferling, Alexander; Soldati, Thierry; Hillmann, Falk
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Dictyostelium discoideum flotillin homologues are essential for phagocytosis and participate in plasma membrane recycling and lysosome biogenesisBosmani, Cristina; Bach, Frauke; Leuba, Florence; Hanna, Nabil; ... Soldati, Thierry
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Proteomic characterization of the Mycobacterium marinum-containing vacuole in Dictyostelium discoideumGueho, Aurélie; Bosmani, Cristina; Soldati, Thierry;
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The developmental cycle of Dictyostelium discoideum ensures curing of a mycobacterial infection at both cell-autonomous level and by collaborative exclusionLopez Jimenez, Ana Teresa; Hagedorn, Monica; Delincé, Matthieu J.; McKinney, John; Soldati, Thierry
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Time-resolved RNA-seq profiling of the infection of Dictyostelium discoideum by Mycobacterium marinum reveals an integrated host response to damage and stressHanna, Nabil; Burdet, F.; Melotti, Astrid; Bosmani, Cristina; ... Soldati, Thierry
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Zn2+ intoxication of Mycobacterium marinum during Dictyostelium discoideum infection is counteracted by induction of the pathogen Zn2+ exporter CtpCLefrancois, Louise; Kalinina, Vera; Cardenal-Munoz, Elena; Hanna, Nabil; ... Barisch, Caroline

Doctoral Thesis

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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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Investigating sphingolipid metabolism in budding yeast using stable isotope-labeled and caged vacuole-specific probesGirik, Vladimir;

2018

Scientific Articles

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A fluorescent membrane tension probeColom Diego, Adai; Derivery, Emmanuel; Soleimanpour, Saeideh; Tomba, Caterina; ... Roux, Aurélien
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Antimycobacterial drug discovery using Mycobacteria-infected amoebae identifies anti-infectives and new molecular targetsTrofimov, Valentin; Kicka, Sébastien; Mucaria, Sabrina; Hanna, Nabil; ... Soldati, Thierry
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Clathrin and AP1 are required for apical sorting of glycosyl phosphatidyl inositol-anchored proteins in biosynthetic and recycling routes in Madin-Darby canine kidney cellsCastillon, Guillaume Alain; Couleru-Burriat, Patricia; Abegg, Daniel; Criado Santos, Nina; Watanabe Castillon, Reika
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Decrease in plasma membrane tension triggers PtdIns(4,5)P2 phase separation to inactivate TORC2Riggi, Margot; Niewola-Staszkowska, Karolina; Chiaruttini, Nicolas; Colom Diego, Adai; ... Loewith, Robbie Joséph
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Eat Prey, Live: Dictyostelium discoideum As a Model for Cell-Autonomous DefensesDunn, Joe Dan; Bosmani, Cristina; Barisch, Caroline; Raykov, Lyudmil; ... Soldati, Thierry
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Functions of the Dictyostelium LIMP-2 and CD36 homologues in bacteria uptake, phagolysosome biogenesis and host cell defenceSattler, Natascha; Bosmani, Cristina; Barisch, Caroline; Gueho, Aurélie; ... Soldati, Thierry
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Localization of all four ZnT zinc transporters in Dictyostelium and impact of ZntA and ZntB knockout on bacteria killingBarisch, Caroline; Kalinina, Vera; Lefrançois, Louise H; Appiah, Joddy Shem; ... Soldati, Thierry
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Mitochondria-specific photoactivation to monitor local sphingosine metabolism and functionFeng, Suihan; Harayama, Takeshi; Montessuit, Sylvie; David, Fabrice Pierre André; ... Riezman, Howard
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Secreted heme peroxidase fromDictyostelium discoideum: Insights into catalysis, structure, and biological roleNicolussi, Andrea; Dunn, Joe Dan; Mlynek, Georg; Bellei, Marzia; ... Obinger, Christian
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Survey on medicinal plants traditionally used in Senegal for the treatment of tuberculosis (TB) and assessment of their antimycobacterial activityDiop, ElHadji Assane; Queiroz, Emerson Ferreira; Kicka, Sébastien; Rudaz, Serge; ... Wolfender, Jean-Luc
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The ESCRT and autophagy machineries cooperate to repair ESX-1-dependent damage at the Mycobacterium-containing vacuole but have opposite impact on containing the infectionLópez-Jiménez, Ana T; Cardenal-Munoz, Elena; Leuba, Florence; Gerstenmaier, Lilli; ... Soldati, Thierry
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The Saposin-Like Protein AplD Displays Pore-Forming Activity and Participates in Defense Against Bacterial Infection During a Multicellular Stage of Dictyostelium discoideumDhakshinamoorthy, Ranjani; Bitzhenner, Moritz; Cosson, Pierre; Soldati, Thierry; Leippe, Matthias
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Transcriptomic analyses reveal rhythmic and CLOCK-driven pathways in human skeletal musclePerrin, Laurent; Loizides-Mangold, Ursula; Chanon, Stéphanie; Gobet, Cédric; ... Dibner, Charna
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When Dicty Met Myco, a (Not So) Romantic Story about One Amoeba and Its Intracellular PathogenCardenal-Munoz, Elena; Barisch, Caroline; Lefrancois, Louise; Lopez Jimenez, Ana Teresa; Soldati, Thierry

Preprints

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ESCRT and autophagy cooperate to repair ESX-1-dependent damage to the Mycobacterium-containing vacuoleLopez Jimenez, Ana Teresa; Cardenal-Munoz, Elena; Leuba, Florence; Gerstenmaier, Lilli; ... Soldati, Thierry
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Identification of novel anti-bacterial compounds from a chemically highly diverse pathways-based library using phenotypic screens in amoebae host modelsKicka, Sébastien; Hanna, Nabil; Chiriano, Gianpaolo; Harrison, Christopher; ... Soldati, Thierry

Doctoral Thesis

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Atoh7 controls mitochondrial activity along the pathway converting pre-committed progenitors into retinal ganglion cells in retina adapted for high acuity visionBrodier, Laurent;
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Brain-resident memory CD8+ T cells: roles in protection and diseaseVincenti, Ilena;
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Cytotoxicity of neuropathy-causing lipids 1-deoxy-sphingolipidsGalih, Augustinus;
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Dissecting the variability of molecular phenotypes in population cell lines and single cellsGarieri, Marco;
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Regulation of ESCRT endosomal recruitment by the lipid-binding protein ALIXLarios, Jorge;
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Role of the D. discoideum flotillin homologues in phagocytosis and Mycobacterial infectionsBosmani, Cristina;
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The role of myosin motors in endocytosis in yeastManenschijn, Hetty;

2017

Scientific Articles

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Autophagy in Dictyostelium: Mechanisms, regulation and disease in a simple biomedical modelMesquita, Ana; Cardenal-Munoz, Elena; Dominguez, Eunice; Muñoz-Braceras, Sandra; ... Escalante, Ricardo
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Breaking fat! How mycobacteria and other intracellular pathogens manipulate host lipid dropletsBarisch, Caroline; Soldati, Thierry;
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Efficient Delivery of Quantum Dots into the Cytosol of Cells Using Cell-Penetrating Poly(disulfide)sDerivery, Emmanuel; Bartolami, Eline; Matile, Stefan; Gonzalez Gaitan, Marcos;
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European contribution to the study of ROS: A summary of the findings and prospects for the future from the COST action BM1203 (EU-ROS)Egea, Javier; Fabregat, Isabel; Frapart, Yves M.; Ghezzi, Pietro; ... Soldati, Thierry
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Identification and Mode of Action of a Plant Natural Product Targeting Human Fungal PathogensDorsaz, Stéphane; Snäkä, Tiia; Favre-Godal, Quentin; Maudens, Pierre Marc Xavier; ... Sanglard, Dominique
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Influence of cell mechanics and proliferation on the buckling of simulated tissues using a vertex modelMerzouki, Fatma Aziza; Malaspinas, Orestis Pileas; Trushko, Anastasiya; Roux, Aurélien; Chopard, Bastien
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Inhibitors of Mycobacterium marinum virulence identified in a Dictyostelium discoideum host modelOuertatani, Hajer; Kicka, Sébastien; Chiriano, Gianpaolo; Harrison, Christopher F; ... Cosson, Pierre
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Lipidomics reveals diurnal lipid oscillations in human skeletal muscle persisting in cellular myotubes cultured in vitroLoizides-Mangold, Ursula; Perrin, Laurent; Vandereycken, Bart; Betts, James A; ... Dibner, Charna
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Methods to Monitor and Quantify Autophagy in the Social Amoeba Dictyostelium discoideumDomínguez-Martín, Eunice; Cardenal-Munoz, Elena; King, Jason S; Soldati, Thierry; ... Escalante, Ricardo
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Mycobacterium marinum antagonistically induces an autophagic response while repressing the autophagic flux in a TORC1- and ESX-1-dependent mannerCardenal-Munoz, Elena; Arafah, Sonia; Lopez Jimenez, Ana Teresa; Kicka, Sébastien; ... Soldati, Thierry
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Mycobacterium marinum Degrades Both Triacylglycerols and Phospholipids from Its Dictyostelium Host to Synthesise Its Own Triacylglycerols and Generate Lipid InclusionsBarisch, Caroline; Soldati, Thierry;
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Tensing Up for Lipid Droplet FormationRoux, Aurélien; Loewith, Robbie Joséph;
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The SAGA complex, together with transcription factors and the endocytic protein Rvs167p, coordinates the reprofiling of gene expression in response to changes in sterol composition in Saccharomyces cerevisiaeDewhurst, Gisele; Abegg, Daniel; David, Fabrice P. A.; Rougemont, Jacques; ... Riezman, Howard
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Vps13F links bacterial recognition and intracellular killing in DictyosteliumLeiba, Jade; Sabra, Ayman; Bodinier, Romain; Marchetti, Anna; ... Cosson, Pierre
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[4]Helicene-Squalene Fluorescent Nanoassemblies for Specific Targeting of Mitochondria in Live-Cell ImagingBabic, Andréj; Pascal, Simon; Duwald, Romain; Moreau, Dimitri; ... Allémann, Eric

Doctoral Thesis

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Asymmetric mechanics of cell-size control during asymmetric cell divisions in sensory organs precursorsDaeden, Alicia;
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Fate of intracellular mycobacteria and host response to vacuolar escapeLopez Jimenez, Ana Teresa;
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Involvement of Nuclear Factor of Activated T-Cells (NFAT) transcription factors during human primary myoblast differentiationPerroud, Julie;
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Omics profiling to dissect complex diseasePanousis, Nikolaos;
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Probing and modelling membrane tension in the context of ESCRT-III regulationMolinard, Guillaume;
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Role of Sorting Nexins in intralumenal vesicle formationUstunel Eren, Cansel;
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Roles Of mir‑21 in The development of Non‑alcoholic fatty liver disease and hepatocellular carcinomaCalo, Nicolas Virgile;
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Searching for novel players in intraluminal vesicle formation and dynamicsJohnson, Shem;
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The Role of TOR Complex 2 in the Maintenance of Plasma Membrane Tension HomeostasisRiggi, Margot;

2016

Scientific Articles

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A 3D printed microfluidic device for production of functionalized hydrogel microcapsules for culture and differentiation of human Neuronal Stem Cells (hNSC)Alessandri, Kevin; Feyeux, Maxime; Gurchenkov, Basile; Delgado, Christophe; ... Roux, Aurélien
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A microfluidic cell-trapping device for single-cell tracking of host-microbe interactionsDelincé, Matthieu J; Bureau, Jean-Baptiste; Lopez Jimenez, Ana Teresa; Cosson, Pierre; ... McKinney, John D
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Dictyostelium EHD associates with Dynamin and participates in phagosome maturationGueho, Aurélie; Bosmani, Cristina; Gopaldass, Navin Andréw; Molle, Virginie; ... Letourneur, François
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Headgroup engineering in mechanosensitive membrane probesSoleimanpour, Saeideh; Colom Diego, Adai; Derivery, Emmanuel; Gonzalez Gaitan, Marcos; ... Matile, Stefan
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In silico driven design and synthesis of rhodanine derivatives as novel antibacterials targeting the enoyl reductase InhASlepikas, Liudas; Chiriano, Gianpaolo; Perozzo, Remo; Tardy, Sébastien; ... Scapozza, Leonardo
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New molecular insights into modulation of platelet reactivity in aspirin-treated patients using a network-based approachZufferey Bakos, Anne; Ibberson, Mark; Reny, Jean-Luc; Nolli, Severine; ... Fontana, Pierre
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Nucleic Acid Templated Chemical Reaction in a Live VertebrateHoltzer, Laurentius Henricus; Oleinich, Igor; Anzola, Marcello; Lindberg, Eric; ... Winssinger, Nicolas
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Of Amoebae and Men: Extracellular DNA Traps as an Ancient Cell-Intrinsic Defense MechanismZhang, Xuezhi; Soldati, Thierry;
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Open Source Drug Discovery with the Malaria Box Compound Collection for Neglected Diseases and BeyondVan Voorhis, Wesley C; Kicka, Sébastien; Soldati, Thierry; Trofimov, Valentin; Abla, Nada
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Selective Imaging of Late Endosomes with a pH-Sensitive Diazaoxatriangulene Fluorescent ProbeWallabregue, Antoine; Moreau, Dimitri; Sherin, Petr; Moneva Lorente, Pau; ... Lacour, Jérôme
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Social amoebae trap and kill bacteria by casting DNA netsZhang, Xuezhi; Zhuchenko, Olga; Kuspa, Adam; Soldati, Thierry;
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WASH drives early recycling from macropinosomes and phagosomes to maintain surface phagocytic receptorsBuckley, Catherine M; Gopaldass, Navin Andréw; Bosmani, Cristina; Johnston, Simon A; ... King, Jason S

Doctoral Thesis

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Analysis of mechanisms that control the onset of neurogenesis in the avian retinasRodrigues, Tania;
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Dpp signalling gradient scaling and cell size regulation in Drosophila wing imaginal discsMachado, Sarah;
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Regulation of dynamin-mediated membrane fission by the N-BAR protein endophilinHohendahl, Annika;
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The role of paxillin in the signalling of the alphavbeta3/talin/kindlin complexVazquez Pico, Patricia;
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Visualizing the GTPase activity of dynamin with nanobodiesGalli, Valentina;
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