Publications

all

2018

  1. Merzouki, Aziza; Malaspinas, Orestis; Trushko, Anastasiya; Roux, Aurélien; Chopard, Bastien (2018) Influence of cell mechanics and proliferation on the buckling of simulated tissues using a vertex model. Nat. Comput.. [accepted]
  2. Sarkar, Namrata; Schmid-Siegert, Emanuel; Iseli, Christian; Calderon, Sandra; Gouhier-Darimont, Caroline; Chrast, Jacqueline; Cattaneo, Pietro; Schutz, Frederic; Farinelli, Laurent; Pagni, Marco; Schneider, Michel; Voumard, Jeremie; Jaboyedoff, Michel; Fankhauser, Christian; Hardtke, Christian S.; Keller, Laurent; Pannell, John R.; Reymond, Alexandre; Robinson-Rechavi, Marc; Xenarios, Ioannis; Reymond, Philippe (2018) Low Rate of Somatic Mutations in a Long-Lived Oak Tree. bioRxiv. [accepted]
  3. Shinde, Abhijit Babaji; Baboota, Ritesh Kumar; Denis, Simone; Loizides-Mangold, Ursula; Peeters, Annelies; Espeel, Marc; Malheiro, Ana Rita; Riezman, Howard; Vinckier, Stefan; Vaz, Frédéric M.; Brites, Pedro; Ferdinandusse, Sacha; Van Veldhoven, Paul P.; Baes, Myriam (2018) Mitochondrial disruption in peroxisome deficient cells is hepatocyte selective but is not mediated by common hepatic peroxisomal metabolites. Mitochondrion 39 51-59.
  4. Egea, Javier; Fabregat, I.; Frapart, Y.M.; Ghezzi, P.; Görlach, A.; Kietzmann, T.; Kubaichuk, K.; Knaus, U.G.; Lopez, M.G.; Olaso-Gonzalez, G.; Petry, A.; Schulz, R.; Vina, J.; Winyard, P.; Abbas, K.; Ademowo, O.S.; Afonso, C.B.; Andreadou, I.; Antelmann, H.; Antunes, F.; Aslan, M.; Bachschmid, M.M.; Barbosa, R.M.; Belousov, V.; Berndt, C.; Bernlohr, D.; Bertrán, E.; Bindoli, A.; Bottari, S.P.; Brito, P.M.; Carrara, G.; Casas, A.I.; Chatzi, A.; Chondrogianni, N.; Conrad, M.; Cooke, M.S.; Costa, J.G.; Cuadrado, A.; My-Chan Dang, P.; De Smet, B.; Debelec-Butuner, B.; Dias, I.H.K.; Dunn, J.D.; Edson, A.J.; El Assar, M.; El-Benna, J.; Ferdinandy, P.; Fernandes, A.S.; Fladmark, K.E.; Förstermann, U.; Giniatullin, R.; Giricz, Z.; Görbe, A.; Griffiths, H.; Hampl, V.; Hanf, A.; Herget, J.; Hernansanz-Agustín, P.; Hillion, M.; Huang, J.; Ilikay, S.; Jansen-Dürr, P.; Jaquet, V.; Joles, J.A.; Kalyanaraman, B.; Kaminskyy, D.; Karbaschi, M.; Kleanthous, M.; Klotz, L.O.; Korac, B.; Korkmaz, K.S.; Koziel, R.; Kračun, D.; Krause, K.H.; Křen, V.; Krieg, T.; Laranjinha, J.; Lazou, A.; Li, H.; Martínez-Ruiz, A.; Matsui, R.; McBean, G.J.; Meredith, S.P.; Messens, J.; Miguel, V.; Mikhed, Y.; Milisav, I.; Milković, L.; Miranda-Vizuete, A.; Mojović, M.; Monsalve, M.; Mouthuy, P.A.; Mulvey, J.; Münzel, T.; Muzykantov, V.; Nguyen, I.T.N.; Oelze, M.; Oliveira, N.G.; Palmeira, C.M.; Papaevgeniou, N.; Pavićević, A.; Pedre, B.; Peyrot, F.; Phylactides, M.; Pircalabioru, G.G.; Pitt, A.R.; Poulsen, H.E.; Prieto, I.; Rigobello, M.P.; Robledinos-Antón, N.; Rodríguez-Mañas, L.; Rolo, A.P.; Rousset, F.; Ruskovska, T.; Saraiva, N.; Sasson, S.; Schröder, Katrin; Semen, Khrystyna; Seredenina, Tamara; Shakirzyanova, Anastasia; Smith, Geoffrey L.; Soldati, Thierry; Sousa, Bebiana C.; Spickett, Corinne M.; Stancic, Ana; Stasia, Marie José; Steinbrenner, Holger; Stepanić, Višnja; Steven, Sebastian; Tokatlidis, Kostas; Tuncay, Erkan; Turan, Belma; Ursini, Fulvio; Vacek, Jan; Vajnerova, Olga; Valentová, Kateřina; Van Breusegem, Frank; Varisli, Lokman; Veal, Elizabeth A.; Yalçın, A. Suha; Yelisyeyeva, Olha; Žarković, Neven; Zatloukalová, Martina; Zielonka, Jacek; Touyz, Rhian M.; Papapetropoulos, Andreas; Grune, Tilman; Lamas, Santiago; Schmidt, Harald H. H. W.; Di Lisa, Fabio; Daiber, Andreas (2018) Corrigendum to “European contribution to the study of ROS: A summary of the findings and prospects for the future from the COST action BM1203 (EU-ROS)”  [Redox Biol. 13 (2017) 94–162]. Redox Biol. 14 694-696.
  5. Kawano, Shin; Tamura, Yasushi; Kojima, Rieko; Bala, Siqin; Asai, Eri; Michel, Agnès H.; Kornmann, Benoît; Riezman, Isabelle; Riezman, Howard; Sakae, Yoshitake; Okamoto, Yuko; Endo, Toshiya (2018) Structure–function insights into direct lipid transfer between membranes by Mmm1–Mdm12 of ERMES. J. Cell Biol.. [accepted]
  6. (2018) test. .
  7. Harayama, Takeshi; Riezman, Howard (2018) Understanding the diversity of membrane lipid composition. Nat. Rev. Mol. Cell Biol.. [accepted]
  8. Kaksonen, Marko; Roux, Aurélien (2018) Mechanisms of clathrin-mediated endocytosis. Nat. Rev. Mol. Cell Biol.. [accepted]
  9. Kaksonen, Marko; Roux, Aurélien (2018) Mechanisms of clathrin-mediated endocytosis. Nat. Rev. Mol. Cell Biol.. [accepted]

2017

  1. Pescia, Graziano; Guex, Nicolas; Iseli, Christian; Brennan, Liam; Osteras, Magne; Xenarios, Ioannis; Farinelli, Laurent; Conrad, Bernard (2017) Cell-free DNA testing of an extended range of chromosomal anomalies: clinical experience with 6,388 consecutive cases. Genet. Med. 19 (2) 169-175.
  2. Kostyrko, Kaja; Neuenschwander, Samuel; Junier, Thomas; Regamey, Alexandre; Iseli, Christian; Schmid-Siegert, Emanuel; Bosshard, Sandra; Majocchi, Stefano; Le Fourn, Valérie; Girod, Pierre-Alain; Xenarios, Ioannis; Mermod, Nicolas (2017) MAR-mediated transgene integration into permissive chromatin and increased expression by recombination pathway engineering. Biotechnol. Bioeng. 114 (2) 384-396.
  3. Mesquita, Ana; Cardenal-Muñoz, Elena; Dominguez, Eunice; Muñoz-Braceras, Sandra; Nuñez-Corcuera, Beatriz; Phillips, Ben A.; Tábara, Luis C.; Xiong, Qiuhong; Coria, Roberto; Eichinger, Ludwig; Golstein, Pierre; King, Jason S.; Soldati, Thierry; Vincent, Olivier; Escalante, Ricardo (2017) Autophagy in Dictyostelium: Mechanisms, regulation and disease in a simple biomedical model. Autophagy 13 (1) 24-40.
  4. Finn, Robert D.; Attwood, Teresa K.; Babbitt, Patricia C.; Bateman, Alex; Bork, Peer; Bridge, Alan J.; Chang, Hsin-Yu; Dosztányi, Zsuzsanna; El-Gebali, Sara; Fraser, Matthew; Gough, Julian; Haft, David; Holliday, Gemma L.; Huang, Hongzhan; Huang, Xiaosong; Letunic, Ivica; Lopez, Rodrigo; Lu, Shennan; Marchler-Bauer, Aron; Mi, Huaiyu; Mistry, Jaina; Natale, Darren A.; Necci, Marco; Nuka, Gift; Orengo, Christine A.; Park, Youngmi; Pesseat, Sebastien; Piovesan, Damiano; Potter, Simon C.; Rawlings, Neil D.; Redaschi, Nicole; Richardson, Lorna; Rivoire, Catherine; Sangrador-Vegas, Amaia; Sigrist, Christian; Sillitoe, Ian; Smithers, Ben; Squizzato, Silvano; Sutton, Granger; Thanki, Narmada; Thomas, Paul D.; Tosatto, Silvio C. E.; Wu, Cathy H.; Xenarios, Ioannis; Yeh, Lai-Su; Young, Siew-Yit; Mitchell, Alex L. (2017) InterPro in 2017—beyond protein family and domain annotations. Nucleic Acids Res. 45 (D1) D190-D199.
  5. Morgat, Anne; Lombardot, Thierry; Axelsen, Kristian B.; Aimo, Lucila; Niknejad, Anne; Hyka-Nouspikel, Nevila; Coudert, Elisabeth; Pozzato, Monica; Pagni, Marco; Moretti, Sébastien; Rosanoff, Steven; Onwubiko, Joseph; Bougueleret, Lydie; Xenarios, Ioannis; Redaschi, Nicole; Bridge, Alan (2017) Updates in rhea—an expert curated resource of biochemical reactions. Nucleic Acids Res. 45 (D1) D415-D418.
  6. Leiba, Jade; Sabra, Ayman; Bodinier, Romain; Marchetti, Anna; Lima, Wanessa C.; Melotti, Astrid; Perrin, Jackie; Burdet, Frederic; Pagni, Marco; Soldati, Thierry; Lelong, Emmanuelle; Cosson, Pierre (2017) Vps13F links bacterial recognition and intracellular killing in Dictyostelium. Cell. Microbiol. 19 (7) e12722.
  7. Picco, Andrea; Irastorza-Azcarate, Ibai; Specht, Tanja; Böke, Dominik; Pazos, Irene; Rivier-Cordey, Anne-Sophie; Devos, Damien P.; Kaksonen, Marko; Gallego, Oriol (2017) The In Vivo Architecture of the Exocyst Provides Structural Basis for Exocytosis. Cell 168 (3) 400-412.e18.
  8. Verolet, Quentin; Dal Molin, Marta; Colom, Adai; Roux, Aurelien; Guénée, Laure; Sakai, Naomi; Matile, Stefan (2017) Twisted Push-Pull Probes with Turn-On Sulfide Donors. Helv. Chim. Acta 100 (2) e1600328.
  9. Barisch, Caroline; Soldati, Thierry; Sassetti, Christopher M. (2017) Mycobacterium marinum Degrades Both Triacylglycerols and Phospholipids from Its Dictyostelium Host to Synthesise Its Own Triacylglycerols and Generate Lipid Inclusions. PLoS Pathog. 13 (1) e1006095.
  10. Moreno-Juan, Verónica; Filipchuk, Anton; Antón-Bolaños, Noelia; Mezzera, Cecilia; Gezelius, Henrik; Andrés, Belen; Rodríguez-Malmierca, Luis; Susín, Rafael; Schaad, Olivier; Iwasato, Takuji; Schüle, Roland; Rutlin, Michael; Nelson, Sacha; Ducret, Sebastien; Valdeolmillos, Miguel; Rijli, Filippo M.; López-Bendito, Guillermina (2017) Prenatal thalamic waves regulate cortical area size prior to sensory processing. Nat. Commun. 14172.
  11. Cruciani-Guglielmacci, Céline; Bellini, Lara; Denom, Jessica; Oshima, Masaya; Fernandez, Neïké; Normandie-Levi, Priscilla; Berney, Xavier P.; Kassis, Nadim; Rouch, Claude; Dairou, Julien; Gorman, Tracy; Smith, David M.; Marley, Anna; Liechti, Robin; Kuznetsov, Dmitry; Wigger, Leonore; Burdet, Frédéric; Lefèvre, Anne-Laure; Wehrle, Isabelle; Uphues, Ingo; Hildebrandt, Tobias; Rust, Werner; Bernard, Catherine; Ktorza, Alain; Rutter, Guy A.; Scharfmann, Raphael; Xenarios, Ioannis; Le Stunff, Hervé; Thorens, Bernard; Magnan, Christophe; Ibberson, Mark (2017) Molecular phenotyping of multiple mouse strains under metabolic challenge uncovers a role for Elovl2 in glucose-induced insulin secretion. Mol. Metab. 6 (4) 340-351.
  12. Spannl, Stephanie; Kumichel, Alexandra; Hebbar, Sarita; Kapp, Katja; Gonzalez-Gaitan, Marcos; Winkler, Sylke; Blawid, Rosana; Jessberger, Gregor; Knust, Elisabeth (2017) The Crumbs_C isoform of Drosophila shows tissue- and stage-specific expression and prevents light-dependent retinal degeneration. Biol. Open 6 (2) 165-175.
  13. Lovric, Svjetlana; Goncalves, Sara; Gee, Heon Yung; Oskouian, Babak; Srinivas, Honnappa; Choi, Won-Il; Shril, Shirlee; Ashraf, Shazia; Tan, Weizhen; Rao, Jia; Airik, Merlin; Schapiro, David; Braun, Daniela A.; Sadowski, Carolin E.; Widmeier, Eugen; Jobst-Schwan, Tilman; Schmidt, Johanna Magdalena; Girik, Vladimir; Capitani, Guido; Suh, Jung H.; Lachaussée, Noëlle; Arrondel, Christelle; Patat, Julie; Gribouval, Olivier; Furlano, Monica; Boyer, Olivia; Schmitt, Alain; Vuiblet, Vincent; Hashmi, Seema; Wilcken, Rainer; Bernier, Francois P.; Innes, A. Micheil; Parboosingh, Jillian S.; Lamont, Ryan E.; Midgley, Julian P.; Wright, Nicola; Majewski, Jacek; Zenker, Martin; Schaefer, Franz; Kuss, Navina; Greil, Johann; Giese, Thomas; Schwarz, Klaus; Catheline, Vilain; Schanze, Denny; Franke, Ingolf; Sznajer, Yves; Truant, Anne S.; Adams, Brigitte; Désir, Julie; Biemann, Ronald; Pei, York; Ars, Elisabet; Lloberas, Nuria; Madrid, Alvaro; Dharnidharka, Vikas R.; Connolly, Anne M.; Willing, Marcia C.; Cooper, Megan A.; Lifton, Richard P.; Simons, Matias; Riezman, Howard; Antignac, Corinne; Saba, Julie D.; Hildebrandt, Friedhelm (2017) Mutations in sphingosine-1-phosphase lyase cause nephrosis with ichthyosis and adrenal insufficiency. J. Clin. Invest. 127 (3) 912-928.
  14. Hulo, Chantal; Masson, Patrick; de Castro, Edouard; Auchincloss, Andrea H.; Foulger, Rebecca; Poux, Sylvain; Lomax, Jane; Bougueleret, Lydie; Xenarios, Ioannis; Le Mercier, Philippe; Alvisi, Gualtiero (2017) The ins and outs of eukaryotic viruses: Knowledge base and ontology of a viral infection. PLoS ONE 11 (2) e0164787.
  15. Daina, Antoine; Blatter, Marie-Claude; Baillie Gerritsen, Vivienne; Palagi, Patricia M.; Marek, Diana; Xenarios, Ioannis; Schwede, Torsten; Michielin, Olivier; Zoete, Vincent (2017) Drug Design Workshop: A Web-Based Educational Tool To Introduce Computer-Aided Drug Design to the General Public. J. Chem. Educ. 94 (3) 335-344.
  16. Zimmermann, Christine; Santos, Aline; Gable, Kenneth; Epstein, Sharon; Gururaj, Charulatha; Chymkowitch, Pierre; Pultz, Dennis; Rødkær, Steven V.; Clay, Lorena; Bjørås, Magnar; Barral, Yves; Chang, Amy; Færgeman, Nils J.; Dunn, Teresa M.; Riezman, Howard; Enserink, Jorrit M. (2017) Correction: TORC1 Inhibits GSK3-Mediated Elo2 Phosphorylation to Regulate Very Long Chain Fatty Acid Synthesis and Autophagy. Cell Rep. 18 (8) 2073-2074.
  17. Wigger, Leonore; Cruciani-Guglielmacci, Céline; Nicolas, Anthony; Denom, Jessica; Fernandez, Neïké; Fumeron, Frédéric; Marques-Vidal, Pedro; Ktorza, Alain; Kramer, Werner; Schulte, Anke; Le Stunff, Hervé; Liechti, Robin; Xenarios, Ioannis; Vollenweider, Peter; Waeber, Gérard; Uphues, Ingo; Roussel, Ronan; Magnan, Christophe; Ibberson, Mark; Thorens, Bernard (2017) Plasma Dihydroceramides Are Diabetes Susceptibility Biomarker Candidates in Mice and Humans. Cell Reports 18 (9) 2269-2279.
  18. Hannich, J. Thomas; Mellal, Denia; Feng, Suihan; Zumbuehl, Andreas; Riezman, Howard (2017) Structure and conserved function of iso-branched sphingoid bases from the nematode Caenorhabditis elegans. Chem. Sci. 8 (5) 3676-3686.
  19. Picco, A. Kaksonen, Marko (2017) Precise tracking of the dynamics of multiple proteins in endocytic events. Cell Polarity and Morphogenesis Volume 139 (Chapter 3)Ed. Thomas, LecuitMethods in Cell Biology. Academic Press. 51-68.
  20. Cardenal-Muñoz, Elena; Arafah, Sonia; López-Jiménez, Ana Teresa; Kicka, Sébastien; Falaise, Alexandra; Bach, Frauke; Schaad, Olivier; King, Jason S.; Hagedorn, Monica; Soldati, Thierry; Lewinsohn, David M. (2017) Mycobacterium marinum antagonistically induces an autophagic response while repressing the autophagic flux in a TORC1- and ESX-1-dependent manner. PLoS Pathog. 13 (4) e1006344.
  21. Cardenal-Muñoz, Elena; Arafah, Sonia; López-Jiménez, Ana Teresa; Kicka, Sébastien; Falaise, Alexandra; Bach, Frauke; Schaad, Olivier; King, Jason S.; Hagedorn, Monica; Soldati, Thierry; Lewinsohn, David M. (2017) Mycobacterium marinum antagonistically induces an autophagic response while repressing the autophagic flux in a TORC1- and ESX-1-dependent manner. PLoS Pathog. 13 (4) e1006344.
  22. Mange, François; Praz, Viviane; Migliavacca, Eugenia; Willis, Ian M.; Schütz, Frédéric; Hernandez, Nouria; Hernandez, Nouria; Delorenzi, Mauro; Deplancke, Bart; Desvergne, Béatrice; Guex, Nicolas; Herr, Winship; Naef, Felix; Rougemont, Jacques; Schibler, Ueli; Andersin, Teemu; Cousin, Pascal; Gilardi, Federica; Lammers, Fabienne; Mange, François; Villeneuve, Dominic; David, Fabrice; Fabbretti, Roberto; Jacquet, Philippe; Krier, Irina; Kuznetsov, Dmitry; Leleu, Marion; Liechti, Robin; Martin, Olivier; Migliavacca, Eugenia; Naldi, Aurélien; Praz, Viviane; Rib, Leonor; Sobel, Jonathan; Vlegel, Volker; Xenarios, Ioannis (2017) Diurnal regulation of RNA polymerase III transcription is under the control of both the feeding–fasting response and the circadian clock. Genome Res. 27 973-984.
  23. Mierzwa, Beata E.; Chiaruttini, Nicolas; Redondo-Morata, Lorena; Moser von Filseck, Joachim; König, Julia; Larios, Jorge; Poser, Ina; Müller-Reichert, Thomas; Scheuring, Simon; Roux, Aurélien; Gerlich, Daniel W. (2017) Dynamic subunit turnover in ESCRT-III assemblies is regulated by Vps4 to mediate membrane remodelling during cytokinesis. Nat. Cell Biol. 19 (7) 787-798.
  24. Colom, Adai; Redondo-Morata, Lorena; Chiaruttini, Nicolas; Roux, Aurélien; Scheuring, Simon (2017) Dynamic remodeling of the dynamin helix during membrane constriction. Proc. Natl. Acad. Sci. USA 114 (21) 5449-5454.
  25. Jukic, Nebojsa; Redondo-Morata, Lorena; Roux, Aurélien; Scheuring, Simon (2017) Recovery of ESCRT-III Filaments Subjected to Force: An 'Invasive Mode' HS-AFM Study. Biophys. J. 112 (3) 92a.
  26. Daumke, Oliver; Roux, Aurélien (2017) Mitochondrial Homeostasis: How Do Dimers of Mitofusins Mediate Mitochondrial Fusion?. Curr. Biol. 27 (9) R353-R356.
  27. Harayama, Takeshi; Riezman, Howard (2017) Detection of genome-edited mutant clones by a simple competition-based PCR method. PLoS ONE 12 (6) e0179165.
  28. Capasso, Serena; Sticco, Lucia; Rizzo, Riccardo; Pirozzi, Marinella; Russo, Domenico; Dathan, Nina A; Campelo, Felix; van Galen, Josse; Hölttä-Vuori, Maarit; Turacchio, Gabriele; Hausser, Angelika; Malhotra, Vivek; Riezman, Isabelle; Riezman, Howard; Ikonen, Elina; Luberto, Chiara; Parashuraman, Seetharaman; Luini, Alberto; D\'Angelo, Giovanni (2017) Sphingolipid metabolic flow controls phosphoinositide turnover at the trans‐Golgi network. EMBO J. 36 (12) 1736-1754.
  29. Loubéry, Sylvain; Daeden, Alicia; Seum, Carole; Holtzer, Laurent; Moraleda, Ana; Damond, Nicolas; Derivery, Emmanuel; Schmidt, Thomas; Gonzalez-Gaitan, Marcos (2017) Sara phosphorylation state controls the dispatch of endosomes from the central spindle during asymmetric division. Nat. Commun. 8 15285.
  30. Hulo, Chantal; Masson, Patrick; Toussaint, Ariane; Osumi-Sutherland, David; de Castro, Edouard; Auchincloss, Andrea; Poux, Sylvain; Bougueleret, Lydie; Xenarios, Ioannis; Le Mercier, Philippe (2017) Bacterial Virus Ontology; Coordinating across Databases. Viruses 2 (6) 1521.
  31. Shydlovskyi, Sergii; Zienert, Anke Y.; Ince, Semra; Dovengerds, Christine; Hohendahl, Annika; Dargazanli, Julia M.; Blum, Ailisa; Günther, Saskia D.; Kladt, Nikolay; Stürzl, Michael; Schauss, Astrid C.; Kutsch, Miriam; Roux, Aurélien; Praefcke, Gerrit J. K.; Herrmann, Christian (2017) Nucleotide-dependent farnesyl switch orchestrates polymerization and membrane binding of human guanylate-binding protein 1. Proc. Natl. Acad. Sci. U.S.A 114 (28) E5559-E5568.
  32. Dorsaz, Stéphane; Snäka, Tiia; Favre-Godal, Quentin; Maudens, Pierre; Boulens, Nathalie; Furrer, Pascal; Ebrahimi, Samad Nejad; Hamburger, Matthias; Allémann, Eric; Gindro, Katia; Queiroz, Emerson Ferreira; Riezman, Howard; Wolfender, Jean-Luc; Sanglard, Dominique (2017) Identification and mode of action of a plant natural product targeting human fungal pathogens. Antimicrob. Agents Chemother. 61 e00829-17.
  33. Roux, Aurélien; Loewith, Robbie (2017) Tensing Up for Lipid Droplet Formation. Dev. Cell 41 (6) 571-572.
  34. Zala, Diana; Schlattner, Uwe; Desvignes, Thomas; Bobe, Julien; Roux, Aurélien; Chavrier, Philippe; Boissan, Mathieu (2017) The advantage of channeling nucleotides for very processive functions. F1000Res. 6 724.
  35. Barisch, Caroline; Soldati, Thierry (2017) Breaking fat! How mycobacteria and other intracellular pathogens manipulate host lipid droplets. Biochimie 141 54-61.
  36. Domínguez-Martín, Eunice; Cardenal-Muñoz, Elena; King, Jason; Soldati, Thierry; Coria, Roberto; Escalante, Ricardo (2017) Methods to Monitor and Quantify Autophagy in the Social Amoeba Dictyostelium discoideum. Cells 6 (3) 18.
  37. Turrini, Riccardo; Pabois, Angélique; Xenarios, Ioannis; Coukos, George; Delaloye, Jean-François; Doucey, Marie-Agnès (2017) TIE-2 expressing monocytes in human cancers. OncoImmunology 6 (4) e1303585.
  38. Randazzo, Giuseppe Marco; Tonoli, David; Strajhar, Petra; Xenarios, Ioannis; Odermatt, Alex; Boccard, Julien; Rudaz, Serge (2017) Enhanced metabolite annotation via dynamic retention time prediction: Steroidogenesis alterations as a case study. J. Chromatogr. B 1071 11-18.
  39. Martín-Campos, Trinidad; Mylonas, Roman; Masselot, Alexandre; Waridel, Patrice; Petricevic, Tanja; Xenarios, Ioannis; Quadroni, Manfredo (2017) MsViz: A Graphical Software Tool for In-Depth Manual Validation and Quantitation of Post-translational Modifications. J. Proteome Res. 16 (8) 3092-3101.
  40. Michaud, Olivier; Fiorucci, Anne-Sophie; Xenarios, Ioannis; Fankhauser, Christian (2017) Local auxin production underlies a spatially restricted neighbor-detection response in. Proc. Natl. Acad. Sci. USA 114 (28) 7444-7449.
  41. Chiaruttini, Nicolas; Roux, Aurélien (2017) Dynamic and elastic shape transitions in curved ESCRT-III filaments. Curr. Opin. Cell Biol. 47 126-135.
  42. Egea, Javier; Fabregat, Isabel; Frapart, Yves M.; Ghezzi, Pietro; Görlach, Agnes; Kietzmann, Thomas; Kubaichuk, Kateryna; Knaus, Ulla G.; Lopez, Manuela G.; Olaso-Gonzalez, Gloria; Petry, Andreas; Schulz, Rainer; Vina, Jose; Winyard, Paul; Abbas, Kahina; Ademowo, Opeyemi S.; Afonso, Catarina B.; Andreadou, Ioanna; Antelmann, Haike; Antunes, Fernando; Aslan, Mutay; Bachschmid, Markus M.; Barbosa, Rui M.; Belousov, Vsevolod; Berndt, Carsten; Bernlohr, David; Bertrán, Esther; Bindoli, Alberto; Bottari, Serge P.; Brito, Paula M.; Carrara, Guia; Casas, Ana I.; Chatzi, Afroditi; Chondrogianni, Niki; Conrad, Marcus; Cooke, Marcus S.; Costa, João G.; Cuadrado, Antonio; My-Chan Dang, Pham; De Smet, Barbara; Debelec-Butuner, Bilge; Dias, Irundika H.K.; Dunn, Joe Dan; Edson, Amanda J.; El Assar, Mariam; El-Benna, Jamel; Ferdinandy, Péter; Fernandes, Ana S.; Fladmark, Kari E.; Förstermann, Ulrich; Giniatullin, Rashid; Giricz, Zoltán; Görbe, Anikó; Griffiths, Helen; Hampl, Vaclav; Hanf, Alina; Herget, Jan; Hernansanz-Agustín, Pablo; Hillion, Melanie; Huang, Jingjing; Ilikay, Serap; Jansen-Dürr, Pidder; Jaquet, Vincent; Joles, Jaap A.; Kalyanaraman, Balaraman; Kaminskyy, Danylo; Karbaschi, Mahsa; Kleanthous, Marina; Klotz, Lars-Oliver; Korac, Bato; Korkmaz, Kemal Sami; Koziel, Rafal; Kračun, Damir; Krause, Karl-Heinz; Křen, Vladimír; Krieg, Thomas; Laranjinha, João; Lazou, Antigone; Li, Huige; Martínez-Ruiz, Antonio; Matsui, Reiko; McBean, Gethin J.; Meredith, Stuart P.; Messens, Joris; Miguel, Verónica; Mikhed, Yuliya; Milisav, Irina; Milković, Lidija; Miranda-Vizuete, Antonio; Mojović, Miloš; Monsalve, María; Mouthuy, Pierre-Alexis; Mulvey, John; Münzel, Thomas; Muzykantov, Vladimir; Nguyen, Isabel T.N.; Oelze, Matthias; Oliveira, Nuno G.; Palmeira, Carlos M.; Papaevgeniou, Nikoletta; Pavićević, Aleksandra; Pedre, Brandán; Peyrot, Fabienne; Phylactides, Marios; Pircalabioru, Gratiela G.; Pitt, Andrew R.; Poulsen, Henrik E.; Prieto, Ignacio; Rigobello, Maria Pia; Robledinos-Antón, Natalia; Rodríguez-Mañas, Leocadio; Rolo, Anabela P.; Rousset, Francis; Ruskovska, Tatjana; Saraiva, Nuno; Sasson, Shlomo; Schröder, Katrin; Semen, Khrystyna; Seredenina, Tamara; Shakirzyanova, Anastasia; Smith, Geoffrey L.; Soldati, Thierry; Sousa, Bebiana C.; Spickett, Corinne M.; Stancic, Ana; Stasia, Marie José; Steinbrenner, Holger; Stepanić, Višnja; Steven, Sebastian; Tokatlidis, Kostas; Tuncay, Erkan; Turan, Belma; Ursini, Fulvio; Vacek, Jan; Vajnerova, Olga; Valentová, Kateřina; Van Breusegem, Frank; Varisli, Lokman; Veal, Elizabeth A.; Yalçin, A. Suha; Yelisyeyeva, Olha; Žarković, Neven; Zatloukalová, Martina; Zielonka, Jacek; Touyz, Rhian M.; Papapetropoulos, Andreas; Grune, Tilman; Lamas, Santiago; Schmidt, Harald H.H.W.; Di Lisa, Fabio; Daiber, Andreas (2017) European contribution to the study of ROS: A summary of the findings and prospects for the future from the COST action BM1203 (EU-ROS). Redox Biol. 13 94-162.
  43. Derivery, Emmanuel; Bartolami, Eline; Matile, Stefan; Gonzalez-Gaitan, Marcos (2017) Efficient Delivery of Quantum Dots into the Cytosol of Cells Using Cell-Penetrating Poly(disulfide)s. J. Am. Chem. Soc. 139 (30) 10172-10175.
  44. Ouertatani-Sakouhi, Hajer; Kicka, Sébastien; Chiriano, Gianpaolo; Harrison, Christopher F.; Hilbi, Hubert; Scapozza, Leonardo; Soldati, Thierry; Cosson, Pierre; Neyrolles, Olivier (2017) Inhibitors of Mycobacterium marinum virulence identified in a Dictyostelium discoideum host model. PLoS ONE 12 (7) e0181121.
  45. Sobel, Jonathan Aryeh; Krier, Irina; Andersin, Teemu; Raghav, Sunil; Canella, Donatella; Gilardi, Federica; Kalantzi, Alexandra Styliani; Rey, Guillaume; Weger, Benjamin; Gachon, Frédéric; Dal Peraro, Matteo; Hernandez, Nouria; Schibler, Ueli; Deplancke, Bart; Naef, Felix; Kramer, Achim (2017) Transcriptional regulatory logic of the diurnal cycle in the mouse liver. PLoS Biol. 26 (4) e2001069.
  46. Guerreiro, Joana F.; Mira, Nuno P.; Santos, Aline X. S.; Riezman, Howard; Sá-Correia, Isabel (2017) Membrane Phosphoproteomics of Yeast Early Response to Acetic Acid: Role of Hrk1 Kinase and Lipid Biosynthetic Pathways, in Particular Sphingolipids. Front. Microbiol. 8 01302.
  47. Dewhurst-Maridor, Gisèle; Abegg, Daniel; David, Fabrice P.A.; Rougemont, Jacques; Scott, Cameron C.; Adibekian, Alexander; Riezman, Howard; Drubin, David G. (2017) The SAGA complex, together with transcription factors and the endocytic protein Rvs167p, coordinate the reprofiling of gene expression in response to changes in sterol composition in Saccharomyces cerevisiae. Mol. Biol. Cell 28 (20) 2637-2649.
  48. Mueller, Jan; Szep, Gregory; Nemethova, Maria; de Vries, Ingrid; Lieber, Arnon D.; Winkler, Christoph; Kruse, Karsten; Small, J. Victor; Schmeiser, Christian; Keren, Kinneret; Hauschild, Robert; Sixt, Michael (2017) Load Adaptation of Lamellipodial Actin Networks. Cell 171 (1) 188-200.e16.
  49. Riveline, Daniel; Kruse, Karsten (2017) Interface between Physics and Biology: Training a New Generation of Creative Bilingual Scientists. Trends Cell Biol. 27 (8) 541-543.
  50. Hui, Xin; Sauer, Benjamin; Kaestner, Lars; Kruse, Karsten; Lipp, Peter (2017) PKCα diffusion and translocation are independent of an intact cytoskeleton. Sci. Rep. 7 art. num. 475.
  51. Tiedje, D.; Quer, O.; Breil, B.; Schrader, A. J.; Bothe, C.; Kruse, Karsten; Bögemann, M.; Donner-Banzhoff, N.; Semjonow, A. (2017) Anwendung der S3-Leitlinie zur Prostatakrebsfrüherkennung in urologischen Praxen. Urologe 19 (7) 349-916.
  52. Zala, Diana; Schlattner, Uwe; Desvignes, Thomas; Bobe, Julien; Roux, Aurélien; Chavrier, Philippe; Boissan, Mathieu (2017) The advantage of channeling nucleotides for very processive functions [version 2]. F1000Research 6 724.
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  54. Muriel, Olivia; Scott, Cameron Christopher; Larios, Jorge; Mercier, Vicent; Gruenberg, Jean (2017) In Vitro Polymerization of F-actin on Early Endosomes. J. Visualized Exp. (126) e55829.
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  56. Galli, Valentina; Sebastian, Rafael; Moutel, Sandrine; Ecard, Jason; Perez, Franck; Roux, Aurélien (2017) Uncoupling of dynamin polymerization and GTPase activity revealed by the conformation-specific nanobody dynab. eLife 23 3483.
  57. Hohendahl, Annika; Talledge, Nathaniel; Galli, Valentina; Shen, Peter S; Humbert, Frédéric; De Camilli, Pietro; Frost, Adam; Roux, Aurélien (2017) Structural inhibition of dynamin-mediated membrane fission by endophilin. eLife 14 331.
  58. Repnik, Urska; Borg Distefano, Marita; Speth, Martin Tobias; Ng, Matthew Yoke Wui; Progida, Cinzia; Hoflack, Bernard; Gruenberg, Jean; Griffiths, Gareth (2017) L-leucyl-L-leucine methyl ester does not release cysteine cathepsins to the cytosol but inactivates them in transiently permeabilized lysosomes. J. Cell Sci. 79 (18) 3124-3140.
  59. Liechti, Robin; George, Nancy; Götz, Lou; El-Gebali, Sara; Chasapi, Anastasia; Crespo, Isaac; Xenarios, Ioannis; Lemberger, Thomas (2017) SourceData: a semantic platform for curating and searching figures. Nat. Methods 14 (11) 1021-1022.
  60. Guri, Yakir; Colombi, Marco; Dazert, Eva; Hindupur, Sravanth K.; Roszik, Jason; Moes, Suzette; Jenoe, Paul; Heim, Markus H.; Riezman, Isabelle; Riezman, Howard; Hall, Michael N. (2017) mTORC2 Promotes Tumorigenesis via Lipid Synthesis. Cancer Cell 32 (6) 807-823.e12.

2016

  1. Muñiz, Manuel; Riezman, Howard (2016) Trafficking of glycosylphosphatidyl inositol anchored proteins from the endoplasmic reticulum to the cell surface. J. Lipid Res. 57 352-360.
  2. Alfaiz, Ali Abdullah; Müller, Verena; Boutry-Kryza, Nadia; Ville, Dorothée; Guex, Nicolas; de Bellescize, Julitta; Rivier, Clotilde; Labalme, Audrey; des Portes, Vincent; Edery, Patrick; Till, Marianne; Xenarios, Ioannis; Sanlaville, Damien; Herrmann, Johannes M.; Lesca, Gaétan; Reymond, Alexandre (2016) West syndrome caused by homozygous variant in the evolutionary conserved gene encoding the mitochondrial elongation factor GUF1. Eur. J. Hum. Genet. 24 1001-1008.
  3. Garcia, Alba Alfonso; Pfisterer, Simon G.; Riezman, Howard; Ikonen, Elina; Potma, Eric O. (2016) D38-cholesterol as a Raman active probe for imaging intracellular cholesterol storage. J. Biomed. Opt. 21 (6) 061003.
  4. Slepikas, Liudas; Chiriano, Gianpaolo; Perozzo, Remo; Tardy, Sébastien; Kranjc-Pietrucci, Agata; Patthey-Vuadens, Ophélie; Ouertatani-Sakouhi, Hajer; Kicka, Sébastien; Harrison, Christopher F.; Scrignari, Tiziana; Perron, Karl; Hilbi, Hubert; Soldati, Thierry; Cosson, Pierre; Tarasevicius, Eduardas; Scapozza, Leonardo (2016) In silico driven design and synthesis of rhodanine derivatives as novel antibacterials targeting the enoyl reductase InhA. J. Med. Chem. 59 (24) 10917-10928.
  5. Wallabregue, Antoine; Moreau, Dimitri; Sherin, Peter; Moneva Lorente, Pau; Jarolímová, Zdeňka; Bakker, Eric; Vauthey, Eric; Gruenberg, Jean; Lacour, Jérôme (2016) Selective Imaging of Late Endosomes with a pH-Sensitive Diazaoxatriangulene Fluorescent Probe. J. Am. Chem. Soc. 138 (6) 1752-1755.
  6. Boutet, Emmanuel Lieberherr, Damien Tognolli, Michael Schneider, Michel Bansal, Parit Bridge, Alan J. Poux, Sylvain Bougueleret, Lydie Xenarios, Ioannis (2016) UniProtKB/Swiss-Prot, the Manually Annotated Section of the UniProt KnowledgeBase: How to Use the Entry View. Plant Bioinformatics Volume 1374Ed. Edwards, DavidMethods in Molecular Biology. Springer. (New-York). 23-54.
  7. Crippa, Stefania; Nemir, Mohamed; Ounzain, Samir; Ibberson, Mark; Berthonneche, Corinne; Sarre, Alexandre; Boisset, Gaëlle; Maison, Damien; Harshman, Keith; Xenarios, Ioannis; Diviani, Dario; Schorderet, Daniel; Pedrazzini, Thierry (2016) Comparative transcriptome profiling of the injured zebrafish and mouse hearts identifies miRNA-dependent repair pathways. Cardiovasc. Res. 110 (1) 73-84.
  8. Zufferey, Anne; Ibberson, Mark; Reny, Jean-Luc; Nolli, Séverine; Schvartz, Domitille; Docquier, Mylène; Xenarios, Ioannis; Sanchez, Jean-Charles; Fontana, Pierre (2016) New molecular insights into modulation of platelet reactivity in aspirin-treated patients using a network-based approach. Hum. Genet. 135 (4) 403-414.
  9. Zhang, Xuezhi; Zhuchenko, Olga; Kuspa, Adam; Soldati, Thierry (2016) Social amoebae trap and kill bacteria by casting DNA nets. Nat. Commun. 7 10938.
  10. Bron, Sylvian; Henry, Luc; Faes-van\'t Hull, Eveline; Turrini, Riccardo; Vanhecke, Dominique; Guex, Nicolas; Ifticene-Treboux, Assia; Marina Iancu, Emanuela; Semilietof, Aikaterini; Rufer, Nathalie; Lehr, Hans-Anton; Xenarios, Ioannis; Coukos, George; Delaloye, Jean-François; Doucey, Marie-Agnès (2016) TIE-2-expressing monocytes are lymphangiogenic and associate specifically with lymphatics of human breast cancer. OncoImmunology 5 (2) e1073882.
  11. Alessandri, Kevin; Feyeux, Maxime; Gurchenkov, Basile; Delgado, Christophe; Trushko, Anastasiya; Krause, Karl-Heinz; Vignjevic, Danijela; Nassoy, Pierre; Roux, Aurélien (2016) A 3D printed microfluidic device for production of functionalized hydrogel microcapsules for culture and differentiation of human Neuronal Stem Cells (hNSC). Lab Chip 16 (9) 1593-1604.
  12. Lugli, Natalia; Kamileri, Irene; Keogh, Adrian; Malinka, Thomas; Sarris, Michalis E.; Talianidis, Iannis; Schaad, Olivier; Candinas, Daniel; Stroka, Deborah; Halazonetis, Thanos D. (2016) R-spondin 1 and noggin facilitate expansion of resident stem cells from non-damaged gallbladders. EMBO Rep. 17 (5) 769-779.
  13. Mamińska1, Agnieszka; Bartosik, Anna; Banach-Orłowska, Magdalena; Pilecka, Iwona; Jastrzębski, Kamil; Zdżalik-Bielecka, Daria; Castanon, Irinka; Poulain, Morgane; Neyen, Claudine; Wolińska-Nizioł, Lidia; Toruń, Anna; Szymańska, Ewelina; Kowalczyk, Agata; Piwocka, Katarzyna; Simonsen, Anne; Stenmark, Harald; Fürthauer, Maximilian; González-Gaitán, Marcos; Miaczynska, Marta (2016) ESCRT proteins restrict constitutive NF-κB signaling by trafficking cytokine receptors. Sci. Signaling 9 (411) ra8.
  14. Altenhoff, Adrian M.; Boeckmann, Brigitte; Capella-Gutierrez, Salvador; Dalquen, Daniel A.; DeLuca, Todd; Forslund, Kristoffer; Huerta-Cepas, Jaime; Linard, Benjamin; Pereira, Cécile; Pryszcz, Leszek P.; Schreiber, Fabian; da Silva, Alan Sousa; Szklarczyk, Damian; Train, Clément-Marie; Bork, Peer; Lecompte, Odile; von Mering, Christian; Xenarios, Ioannis; Sjölander, Kimmen; Jensen, Lars Juhl; Martin, Maria J.; Muffato, Matthieu; Altenhoff, Adrian M.; Boeckmann, Brigitte; Capella-Gutierrez, Salvador; DeLuca, Todd; Forslund, Kristoffer; Huerta-Cepas, Jaime; Linard, Benjamin; Pereira, Cécile; Pryszcz, Leszek P.; Schreiber, Fabian; da Silva, Alan Sousa; Szklarczyk, Damian; Train, Clément-Marie; Lecompte, Odile; Xenarios, Ioannis; Sjölander, Kimmen; Martin, Maria J.; Muffato, Matthieu; Gabaldón, Toni; Lewis, Suzanna E.; Thomas, Paul D.; Sonnhammer, Erik; Dessimoz, Christophe; Gabaldón, Toni; Lewis, Suzanna E.; Thomas, Paul D.; Sonnhammer, Erik; Dessimoz, Christophe (2016) Standardized benchmarking in the quest for orthologs. Nat. Methods 13 425-430.
  15. Crespo, Isaac; Doucey, Marie-Agnès; Xenarios, Ioannis (2016) Social networks help to infer causality in the tumor microenvironment. BMC Res. Notes 9 (1) 1-10.
  16. Reny, Jean-Luc; Fontana, Pierre; Hochholzer, Willibald; Neumann, Franz Josef; ten Berg, Jurriën; Janssen, Paul W.; Geisler, Tobias; Gawaz, Meinrad; Marcucci, Rossella; Gori, Anna-Maria; Cuisset, Thomas; Alessi, Marie-Christine; Berdagué, Philippe; Gurbel, Paul A.; Yong, Gerald; Angiolillo, Dominick J.; Aradi, Daniel; Beigel, Roy; Campo, Gianluca; Combescure, Christophe (2016) Vascular risk levels affect the predictive value of platelet reactivity for the occurrence of MACE in patients on clopidogrel. Systematic review and meta-analysis of individual patient data.. Thromb. Haemostasis 115 (4) 844-855.
  17. Savoglidis, Georgios; da Silveira dos Santos, Aline Xavier; Riezman, Isabelle; Angelino, Paolo; Riezman, Howard; Hatzimanikatis, Vassily (2016) A method for analysis and design of metabolism using metabolomics data and kinetic models: application on lipidomics using a novel kinetic model of sphingolipid metabolism. Metab. Eng. 37 46-62.
  18. Holtzer, Laurent; Oleinich, Igor; Anzola, Marcello; Lindberg, Eric; Sadhu, Kalyan K.; Gonzalez-Gaitan, Marcos; Winssinger, Nicolas (2016) Nucleic Acid Templated Chemical Reaction in a Live Vertebrate. ACS Cent. Sci. 2 (6) 394-400.
  19. Gueho, Aurélie; Bosmani, Cristina; Gopaldass, Navin; Molle, Virginie; Soldati, Thierry; Letourneur, François (2016) Dictyostelium EHD associates with Dynamin and participates in phagosome maturation. J. Cell Sci. 129 2354-2367.
  20. Druce, Megan; Hulo, Chantal; Masson, Patrick; Sommer, Paula; Xenarios, Ioannis; Le Mercier, Philippe; De Oliveira, Tulio (2016) Improving HIV proteome annotation: new features of BioAfrica HIV Proteomics Resource. Database 2016 baw045.
  21. Rodius, Sophie; Androsova, Ganna; Götz, Lou; Liechti, Robin; Crespo, Isaac; Merz, Susanne; Nazarov, Petr V.; de Klein, Niek; Jeanty, Céline; González-Rosa, Juan M.; Muller, Arnaud; Bernardin, Francois; Niclou, Simone P.; Vallar, Laurent; Mercader, Nadia; Ibberson, Mark; Xenarios, Ioannis; Azuaje, Francisco (2016) Analysis of the dynamic co-expression network of heart regeneration in the zebrafish. Sci. Rep. 6 26822.
  22. Degueurce, Gwendoline; D\'Errico, Ilenia; Pich, Christine; Ibberson, Mark; Schütz, Frédéric; Montagner, Alexandra; Sgandurra, Marie; Mury, Lionel; Jafari, Paris; Boda, Akash; Meunier, Julien; Rezzonico, Roger; Brembilla, Nicolò Costantino; Hohl, Daniel; Kolios, Antonios; Hofbauer, Günther; Xenarios, Ioannis; Michalik, Liliane (2016) Identification of a novel PPARβ/δ/miR‐21‐3p axis in UV‐induced skin inflammation. EMBO Mol Med. e201505384.
  23. Bertipaglia, Chiara; Schneider, Sarah; Jakobi, Arjen J.; Tarafder, Abul K.; Bykov, Yury S.; Picco, Andrea; Kukulski, Wanda; Kosinski, Jan; Hagen, Wim J. H.; Ravichandran, Arvind C.; Wilmanns, Matthias; Kaksonen, Marko; Briggs, John A. G.; Sachse, Carsten (2016) Higher-order assemblies of oligomeric cargo receptor complexes form the membrane scaffold of the Cvt vesicle. EMBO Rep. 17 (7) 1044-1060.
  24. Kukulski, Wanda; Picco, Andrea; Specht, Tanja; Briggs, John A. G.; Kaksonen, Marko (2016) Clathrin modulates vesicle scission, but not invagination shape, in yeast endocytosis. eLife 5 e16036.
  25. Sikorska, Natalia; Lemus, Leticia; Aguilera-Romero, Auxiliadora; Manzano-Lopez, Javier; Riezman, Howard; Muñiz, Manuel; Goder, Veit (2016) Limited ER quality control for GPI-anchored proteins. J. Cell Biol. 269 (6) 19695-704.
  26. Delincé, Matthieu Jean-Hubert; Bureau, Jean-Baptiste; López-Jiménez, Ana Teresa; Cosson, Pierre; Soldati, Thierry; McKinney, John (2016) A microfluidic cell-trapping device for single-cell tracking of host-microbe interactions. Lab Chip 16 (17) 3276-3285.
  27. Hohendahl, Annika; Roux, Aurélien; Galli, Valentina (2016) Structural insights into the centronuclear myopathy-associated functions of BIN1 and dynamin 2. J. Struct. Biol. 196 (1) 37-47.
  28. Zhang, Xuezhi; Soldati, Thierry (2016) Of Amoebae and Men: Extracellular DNA Traps as an Ancient Cell-Intrinsic Defense Mechanism. Front. Immunol. 7 269.
  29. Van Voorhis, Wesley C.; Adams, John H.; Adelfio, Roberto; Ahyong, Vida; Akabas, Myles H.; Alano, Pietro; Alday, Aintzane; Alemán Resto, Yesmalie; Alsibaee, Aishah; Alzualde, Ainhoa; Andrews, Katherine T.; Avery, Simon V.; Avery, Vicky M.; Ayong, Lawrence; Baker, Mark; Baker, Stephen; Ben Mamoun, Choukri; Bhatia, Sangeeta; Bickle, Quentin; Bounaadja, Lotfi; Bowling, Tana; Bosch, Jürgen; Boucher, Lauren E.; Boyom, Fabrice F.; Brea, Jose; Brennan, Marian; Burton, Audrey; Caffrey, Conor R.; Camarda, Grazia; Carrasquilla, Manuela; Carter, Dee; Belen Cassera, Maria; Chih-Chien Cheng, Ken; Chindaudomsate, Worathad; Chubb, Anthony; Colon, Beatrice L.; Colón-López, Daisy D.; Corbett, Yolanda; Crowther, Gregory J.; Cowan, Noemi; D\'Alessandro, Sarah; Le Dang, Na; Delves, Michael; DeRisi, Joseph L.; Du, Alan Y.; Duffy, Sandra; Abd El-Salam El-Sayed, Shimaa; Ferdig, Michael T.; Fernández Robledo, José A.; Fidock, David A.; Florent, Isabelle; Fokou, Patrick V. T.; Galstian, Ani; Gamo, Francisco Javier; Gokool, Suzanne; Gold, Ben; Golub, Todd; Goldgof, Gregory M.; Guha, Rajarshi; Guiguemde, W. Armand; Gural, Nil; Guy, R. Kiplin; Hansen, Michael A. E.; Hanson, Kirsten K.; Hemphill, Andrew; Hooft van Huijsduijnen, Rob; Horii, Takaaki; Horrocks, Paul; Hughes, Tyler B.; Huston, Christopher; Igarashi, Ikuo; Ingram-Sieber, Katrin; Itoe, Maurice A.; Jadhav, Ajit; Naranuntarat Jensen, Amornrat; Jensen, Laran T.; Jiang, Rays H. Y.; Kaiser, Annette; Keiser, Jennifer; Ketas, Thomas; Kicka, Sebastien; Kim, Sunyoung; Kirk, Kiaran; Kumar, Vidya P.; Kyle, Dennis E.; Lafuente, Maria Jose; Landfear, Scott; Lee, Nathan; Lee, Sukjun; Lehane, Adele M.; Li, Fengwu; Little, David; Liu, Liqiong; Llinás, Manuel; Loza, Maria I.; Lubar, Aristea; Lucantoni, Leonardo; Lucet, Isabelle; Maes, Louis; Mancama, Dalu; Mansour, Nuha R.; March, Sandra; McGowan, Sheena; Medina Vera, Iset; Meister, Stephan; Mercer, Luke; Mestres, Jordi; Mfopa, Alvine N.; Misra, Raj N.; Moon, Seunghyun; Moore, John P.; Morais Rodrigues da Costa, Francielly; Müller, Joachim; Muriana, Arantza; Nakazawa Hewitt, Stephen; Nare, Bakela; Nathan, Carl; Narraidoo, Nathalie; Nawaratna, Sujeevi; Ojo, Kayode K.; Ortiz, Diana; Panic, Gordana; Papadatos, George; Parapini, Silvia; Patra, Kailash; Pham, Ngoc; Prats, Sarah; Plouffe, David M.; Poulsen, Sally-Ann; Pradhan, Anupam; Quevedo, Celia; Quinn, Ronald J.; Rice, Christopher A.; Abdo Rizk, Mohamed; Ruecker, Andrea; St. Onge, Robert; Salgado Ferreira, Rafaela; Samra, Jasmeet; Robinett, Natalie G.; Schlecht, Ulrich; Schmitt, Marjorie; Silva Villela, Filipe; Silvestrini, Francesco; Sinden, Robert; Smith, Dennis A.; Soldati, Thierry; Spitzmüller, Andreas; Stamm, Serge Maximilian; Sullivan, David J.; Sullivan, William; Suresh, Sundari; Suzuki, Brian M.; Suzuki, Yo; Swamidass, S. Joshua; Taramelli, Donatella; Tchokouaha, Lauve R. Y.; Theron, Anjo; Thomas, David; Tonissen, Kathryn F.; Townson, Simon; Tripathi, Abhai K.; Trofimov, Valentin; Udenze, Kenneth O.; Ullah, Imran; Vallieres, Cindy; Vigil, Edgar; Vinetz, Joseph M.; Voong Vinh, Phat; Vu, Hoan; Watanabe, Nao-aki; Weatherby, Kate; White, Pamela M.; Wilks, Andrew F.; Winzeler, Elizabeth A.; Wojcik, Edward; Wree, Melanie; Wu, Wesley; Yokoyama, Naoaki; Zollo, Paul H. A.; Abla, Nada; Blasco, Benjamin; Burrows, Jeremy; Laleu, Benoît; Leroy, Didier; Spangenberg, Thomas; Wells, Timothy; Willis, Paul A.; Phillips, Margaret A. (2016) Open Source Drug Discovery with the Malaria Box Compound Collection for Neglected Diseases and Beyond. PLoS Pathog. 12 (7) e1005763.
  30. Artois, Jean; Newman, Scott H.; Dhingra, Madhur S.; Chaiban, Celia; Linard, Catherine; Cattoli, Giovanni; Monne, Isabella; Fusaro, Alice; Xenarios, Ioannis; Engler, Robin; Liechti, Robin; Kuznetsov, Dmitri; Pham, Thanh Long; Nguyen, Tung; Pham, Van Dong; Castellan, David; Von Dobschuetz, Sophie; Claes, Filip; Dauphin, Gwenaëlle; Inui, Ken; Gilbert, Marius (2016) Clade-level Spatial Modelling of HPAI H5N1 Dynamics in the Mekong Region Reveals New Patterns and Associations with Agro-Ecological Factors. Sci. Rep. 6 30316.
  31. Muriel, Olivia; Tomas, Alejandra; Scott, Cameron C.; Gruenberg, Jean (2016) Moesin and cortactin control actin-dependent multivesicular endosome biogenesis. Mol. Biol. Cell 27 (21) 3305-3316.
  32. Buckley, Catherine M.; Gopaldass, Navin; Bosmani, Cristina; Johnston, Simon A.; Soldati, Thierry; Insall, Robert H.; King, Jason S. (2016) WASH drives early recycling from macropinosomes and phagosomes to maintain surface phagocytic receptors. Proc. Natl. Acad. Sci. USA 113 (40) E5906-E5915.
  33. Megyeri, Márton; Riezman, Howard; Schuldiner, Maya; Futerman, Anthony H. (2016) Making Sense of the Yeast Sphingolipid Pathway. J. Mol. Biol. 428 (24 Part A) 4765-4775.
  34. Antonny, Bruno; Burd, Christopher; De Camilli, Pietro; Chen, Elizabeth; Daumke, Oliver; Faelber, Katja; Ford, Marijn; Frolov, Vadim A.; Frost, Adam; Hinshaw, Jenny E.; Kirchhausen, Tom; Kozlov, Michael M.; Lenz, Martin; Low, Harry H.; McMahon, Harvey; Merrifield, Christien; Pollard, Thomas D.; Robinson, Phillip J.; Roux, Aurélien; Schmid, Sandra (2016) Membrane fission by dynamin: what we know and what we need to know. EMBO J. 35 (21) 2270-2284.
  35. Rodrigues, Tania; Krawczyk, Michal; Skowronska-Krawczyk, Dorota; Matter-Sadzinski, Lidia; Matter, Jean-Marc (2016) Delayed neurogenesis with respect to eye growth shapes the pigeon retina for high visual acuity. Development 143 4701-4712.
  36. Loviglio, Maria Nicla; Beck, Christine R.; White, Janson J.; Leleu, Marion; Harel, Tamar; Guex, Nicolas; Niknejad, Anne; Bi, Weimin; Chen, Edward S.; Crespo, Isaac; Yan, Jiong; Charng, Wu-Lin; Gu, Shen; Fang, Ping; Coban-Akdemir, Zeynep; Shaw, Chad A.; Jhangiani, Shalini N.; Muzny, Donna M.; Gibbs, Richard A.; Rougemont, Jacques; Xenarios, Ioannis; Lupski, James R.; Reymond, Alexandre (2016) Identification of a RAI1-associated disease network through integration of exome sequencing, transcriptomics, and 3D genomics. Genome Med. 8 (1) 105.
  37. Dorier, Julien; Crespo, Isaac; Niknejad, Anne; Liechti, Robin; Ebeling, Martin; Xenarios, Ioannis (2016) Boolean regulatory network reconstruction using literature based knowledge with a genetic algorithm optimization method. BMC Bioinf. 75 (6) 066701.
  38. Soleimanpour, Saeideh; Colom, Adai; Derivery, Emmanuel; Gonzalez-Gaitan, Marcos; Roux, Aurelien; Sakai, Naomi; Matile, Stefan (2016) Headgroup Engineering in Mechanosensitive Membrane Probes. Chem. Commun. 52 (100) 14450-14453.
  39. Soleimanpour, Saeideh; Colom, Adai; Derivery, Emmanuel; Gonzalez-Gaitan, Marcos; Roux, Aurelien; Sakai, Naomi; Matile, Stefan (2016) Headgroup Engineering in Mechanosensitive Membrane Probes. Chem. Commun. 52 (100) 14450-14453.
  40. Dhingra, Madhur S; Artois, Jean; Robinson, Timothy P; Linard, Catherine; Chaiban, Celia; Xenarios, Ioannis; Engler, Robin; Liechti, Robin; Kuznetsov, Dimitry; Xiao, Xiangming; Von Dobschuetz, Sophie; Claes, Filip; Newman, Scott H; Dauphin, Gwenaëlle; Gilbert, Marius (2016) Global mapping of highly pathogenic avian influenza H5N1 and H5Nx clade 2.3.4.4 viruses with spatial cross-validation. eLife , 10.7554/eLife.19571.
  41. Zufferey, Anne; Ibberson, Mark; Reny, Jean-Luc; Nolli, S?verine; Schvartz, Domitille; Docquier, Myl?ne; Xenarios, Ioannis; Sanchez, Jean-Charles; Fontana, Pierre (2016) New molecular insights into modulation of platelet reactivity in aspirin-treated patients using a network-based approach. Hum Genet 101 (43) 130-414.
  42. Moreau, Dimitri; Gruenberg, Jean (2016) Automated Microscopy and High Content Screens (Phenotypic Screens) in Academia Labs. Chimia 70 (12) 878-882.
  43. Wollrab, Viktoria; Thiagarajan, Raghavan; Wald, Anne; Kruse, Karsten; Riveline, Daniel (2016) Still and rotating myosin clusters determine cytokinetic ring constriction. Nat. Commun. 7 art. num. 11860.
  44. Johann, D.; Goswami, D.; Kruse, Karsten (2016) Assembly of bipolar microtubule structures by passive cross-linkers and molecular motors. Phys. Rev. E 93 062415.
  45. Fritzsche, Marco; Erlenkämper, Christoph; Moeendarbary, Emade; Charras, Guillaume; Kruse, Karsten (2016) Actin kinetics shapes cortical network structure and mechanics. Sci. Adv. 2 (4) e1501337.
  46. Bonny, Mike; Hui, Xin; Schweizer, Julia; Kaestner, Lars; Zeug, André; Kruse, Karsten; Lipp, Peter (2016) C2-domain mediated nano-cluster formation increases calcium signaling efficiency. Sci. Rep. 6 art. num. 36028.

2015

  1. Gerstenmaier, Lilli; Pilla, Rachel; Herrmann, Lydia; Herrmann, Hendrik; Prado, Monica; Villafano, Geno J.; Kolonko, Margot; Reimer, Rudolph; Soldati, Thierry; King, Jason S.; Hagedorn, Monica (2015) The autophagic machinery ensures nonlytic transmission of mycobacteria. Proc. Natl. Acad. Sci. USA 112 (7) E687-E692.
  2. Wilson-Zbinden, Caroline; dos Santos, Aline Xavier da Silveira; Stoffel-Studer, Ingrid; van der Vaart, Aniek; Hofmann, Kay; Reggiori, Fulvio; Riezman, Howard; Kraft, Claudine; Peter, Matthias (2015) Autophagy Competes for a Common Phosphatidylethanolamine Pool with Major Cellular PE-Consuming Pathways in Saccharomyces cerevisiae. Genetics 199 (2) 475-485.
  3. Kressmann, Sabine; Campos, Claudia; Castanon, Irinka; Fürthauer, Maximilian; González-Gaitán, Marcos (2015) Directional Notch trafficking in Sara endosomes during asymmetric cell division in the spinal cord. Nat. Cell Biol. 17 (3) 333-339.
  4. Saleem, Mohammed; Morlot, Sandrine; Hohendahl, Annika; Manzi, John; Lenz, Martin; Roux, Aurélien (2015) A balance between membrane elasticity and polymerization energy sets the shape of spherical clathrin coats. Nat. Commun. 6 6249.
  5. Ounzain, Samir; Micheletti, Rudi; Beckmann, Tal; Schroen, Blanche; Alexanian, Michael; Pezzuto, Iole; Crippa, Stefania; Nemir, Mohamed; Sarre, Alexandre; Johnson, Rory; Dauvillier, Jérôme; Burdet, Frédéric; Ibberson, Mark; Guigó, Roderic; Xenarios, Ioannis; Heymans, Stephane; Pedrazzini, Thierry (2015) Genome-wide profiling of the cardiac transcriptome after myocardial infarction identifies novel heart-specific long non-coding RNAs. Eur. Heart J. 36 (6) 353-368.
  6. Morgat, Anne; Axelsen, Kristian B.; Lombardot, Thierry; Alcántara, Rafael; Aimo, Lucila; Zerara, Mohamed; Niknejad, Anne; Belda, Eugeni; Hyka-Nouspikel, Nevila; Coudert, Elisabeth; Redaschi, Nicole; Bougueleret, Lydie; Steinbeck, Christoph; Xenarios, Ioannis; Bridge, Alan (2015) Updates in Rhea—a manually curated resource of biochemical reactions. Nucleic Acids Res. 43 (D1) D459-D464.
  7. Mitchell, Alex; Chang, Hsin-Yu; Daugherty, Louise; Fraser, Matthew; Hunter, Sarah; Lopez, Rodrigo; McAnulla, Craig; McMenamin, Conor; Nuka, Gift; Pesseat, Sebastien; Sangrador-Vegas, Amaia; Scheremetjew, Maxim; Rato, Claudia; Yong, Siew-Yit; Bateman, Alex; Punta, Marco; Attwood, Teresa K.; Sigrist, Christian J. A.; Redaschi, Nicole; Rivoire, Catherine; Xenarios, Ioannis; Kahn, Daniel; Guyot, Dominique; Bork, Peer; Letunic, Ivica; Gough, Julian; Oates, Matt; Haft, Daniel; Huang, Hongzhan; Natale, Darren A.; Wu, Cathy H.; Orengo, Christine; Sillitoe, Ian; Mi, Huaiyu; Thomas, Paul D.; Finn, Robert D. (2015) The InterPro protein families database: the classification resource after 15 years. Nucleic Acids Res. 43 (D1) D213-D221.
  8. Pedruzzi, Ivo; Rivoire, Catherine; Auchincloss, Andrea H.; Coudert, Elisabeth; Keller, Guillaume; de Castro, Edouard; Baratin, Delphine; Cuche, Béatrice A.; Bougueleret, Lydie; Poux, Sylvain; Redaschi, Nicole; Xenarios, Ioannis; Bridge, Alan (2015) HAMAP in 2015: updates to the protein family classification and annotation system. Nucleic Acids Res. 43 (D1) D1064-D1070.
  9. The Gene Ontology Consortium*, (2015) Gene Ontology Consortium: going forward. Nucleic Acids Res. 43 (D1) D1049-D1056.
  10. Naldi, Aurélien; Monteiro, Pedro T.; Müssel, Christoph; Kestler, Hans A.; Thieffry, Denis; Xenarios, Ioannis; Saez-Rodriguez, Julio; Helikar, Tomas; Chaouiya, Claudine (2015) Cooperative development of logical modelling standards and tools with CoLoMoTo. Bioinformatics 31 (7) 1154-1159.
  11. Wachowicz, Paulina; Chasapi, Anastasia; Krapp, Andrea; Cano del Rosario, Elena; Schmitter, Daniel; Sage, Daniel; Unser, Michael; Xenarios, Ioannis; Rougemont, Jacques; Simanis, Viesturs (2015) Analysis of S. pombe SIN protein association to the SPB reveals two genetically separable states of the SIN. J. Cell Sci. 128 (4) 741-754.
  12. Loubéry, Sylvain; Seum, Carole; Moraleda, Ana; Daeden, Alicia; Fürthauer, Maximilian; Gonzalez-Gaitan, Marcos (2015) [Erratum] Uninflatable and Notch Control the Targeting of Sara Endosomes during Asymmetric Division. Curr. Biol. 25 (6) 817-818.
  13. Barisch, Caroline; Paschke, Peggy; Hagedorn, Monica; Maniak, Markus; Soldati, Thierry (2015) Lipid droplet dynamics at early stages of Mycobacterium marinum infection in Dictyostelium. Cell. Microbiol. 17 (9) 1332-1349.
  14. Dikoglu, Esra; Alfaiz, Ali; Gorna, Maria; Bertola, Deborah; Chae, Jong Hee; Cho, Tae-Joon; Derbent, Murat; Alanay, Yasemin; Guran, Tulay; Kim, Ok-Hwa; Llerenar Jr, Juan C.; Yamamoto, Guillerme; Superti-Furga, Giulio; Reymond, Alexandre; Xenarios, Ioannis; Stevenson, Brian; Campos-Xavier, Belinda; Bonafé, Luisa; Superti-Furga, Andrea; Unger, Sheila (2015) Mutations in LONP1, a mitochondrial matrix protease, cause CODAS syndrome. Am. J. Med. Genet. 167 (7) 1501-1509.
  15. Guex, Nicolas; Crespo, Isaac; Bron, Sylvian; Ifticene-Treboux, Assia; Faes-van\'t Hull, Eveline; Kharoubi, Solange; Liechti, Robin; Werffeli, Patricia; Ibberson, Mark; Majo, Francois; Nicolas, Michäel; Laurent, Julien; Garg, Abhishek; Zaman, Khalil; Lehr, Hans-Anton; Stevenson, Brian J.; Rüegg, Curzio; Coukos, George; Delaloye, Jean-François; Xenarios, Ioannis; Doucey, Marie-Agnès; Mac Gabhann, Feilim (2015) Angiogenic Activity of Breast Cancer Patients’ Monocytes Reverted by Combined Use of Systems Modeling and Experimental Approaches. PLoS Comput Biol 11 (3) e1004050.
  16. Barisch, Caroline López-Jiménez, Ana T. Soldati, Thierry (2015) Live Imaging of Mycobacterium marinum Infection in Dictyostelium discoideum. Mycobacteria Protocols Vol. 1285 (Chapter 23)Ed. Parish, Tanya Roberts, David M.Methods in Molecular Biology. Springer. (New York). 369-385.
  17. Harrison, Christopher F.; Kicka, Sébastien; Kranjc, Agata; Finsel, Ivo; Chiriano, Gianpaolo; Ouertatani-Sakouhi, Hajer; Soldati, Thierry; Scapozza, Leonoardo; Hilbi, Hubert (2015) Adrenergic antagonists restrict replication of Legionella. Microbiol. 161 (7) 1392-1406.
  18. Overduin, Michael; Rajesh, Sandya; Gruenberg, Jean; Lenoir, Marc (2015) Secondary structure and 1H, 13C, 15N resonance assignments of the endosomal sorting protein sorting nexin 3. Biomol. NMR Assign. 9 (2) 355-358.
  19. Scott, Cameron C.; Vossio, Stefania; Vacca, Fabrizio; Snijder, Berend; Larios, Jorge; Schaad, Olivier; Guex, Nicolas; Kuznetsov, Dmitry; Martin, Olivier; Chambon, Marc; Turcatti, Gerardo; Pelkmans, Lucas; Gruenberg, Jean (2015) Wnt directs the endosomal flux of LDL-derived cholesterol and lipid droplet homeostasis. EMBO Rep. 16 (6) 741-752.
  20. Scott, Cameron C.; Vossio, Stefania; Vacca, Fabrizio; Snijder, Berend; Larios, Jorge; Schaad, Olivier; Guex, Nicolas; Kuznetsov, Dmitry; Martin, Olivier; Chambon, Marc; Turcatti, Gerardo; Pelkmans, Lucas; Gruenberg, Jean (2015) Wnt directs the endosomal flux of LDL-derived cholesterol and lipid droplet homeostasis. EMBO Rep. 16 (6) 741-752.
  21. Harrison, Christopher F.; Chiriano, Gianpaolo; Finsel, Ivo; Manske, Christian; Hoffmann, Christine; Steiner, Bernhard; Kranjc, Agata; Patthey-Vuadens, Ophelie; Kicka, Sebastien; Trofimov, Valentin; Ouertatani-Sakhoui, Hajer; Soldati, Thierry; Scapozza, Leonardo; Hilbi, Hubert (2015) Amoebae-based screening reveals a novel family of compounds restricting intracellular Legionella pneumophila. ACS Infect. Dis. 1 (7) 327-338.
  22. Aimo, Lucila; Liechti, Robin; Nouspikel, Nevila; Niknejad, Anne; Gleizes, Anne; Gotz, Lou; Kuznetsov, Dmitry; David, Fabrice P. A.; van der Gout, Gisou; Riezman, Howard; Bougueleret, Lydie; Xenarios, Ioannis; Bridge, Alan (2015) The SwissLipids knowledgebase for lipid biology. Bioinformatics 31 (17) 2860-2866.
  23. Aimo, Lucila; Liechti, Robin; Nouspikel, Nevila; Niknejad, Anne; Gleizes, Anne; Gotz, Lou; Kuznetsov, Dmitry; David, Fabrice P. A.; van der Gout, Gisou; Riezman, Howard; Bougueleret, Lydie; Xenarios, Ioannis; Bridge, Alan (2015) The SwissLipids knowledgebase for lipid biology. Bioinformatics 31 (17) 2860-2866.
  24. Suresh, Harsha Garadi; da Silveira dos Santos, Aline Xavier; Kukulski, Wanda; Tyedmers, Jens; Riezman, Howard; Bukau, Bernd; Mogk, Axel (2015) Prolonged starvation drives reversible sequestration of lipid biosynthetic enzymes and organelle reorganization in Saccharomyces cerevisiae. Mol. Biol. Cell 26 (9) 1601-1615.
  25. Barbier de Reuille, Pierre; Routier-Kierzkowska, Anne-Lise; Kierzkowski, Daniel; Bassel, George W.; Schüpbach, Thierry; Tauriello, Gerardo; Bajpai, Namrata; Strauss, Sören; Weber, Alain; Kiss, Annamaria; Burian, Agata; Hofhuis, Hugo; Sapala, Aleksandra; Lipowczan, Marcin; Heimlicher, Maria B.; Robinson, Sarah; Bayer, Emmanuelle M.; Basler, Konrad; Koumoutsakos, Petros; Roeder, Adrienne H. K.; Aegerter-Wilmsen, Tinri; Nakayama, Naomi; Tsiantis, Miltos; Hay, Angela; Kwiatkowska, Dorota; Xenarios, Ioannis; Kuhlemeier, Cris; Smith, Richard S. (2015) MorphoGraphX: A platform for quantifying morphogenesis in 4D. eLife 4 e05864.
  26. Schaper, Elke; Korsunsky, Alexander; Messina, Antonio; Murri, Riccardo; Pečerska, Jūlija; Stockinger, Heinz; Zoller, Stefan; Xenarios, Ioannis; Anisimova, Maria (2015) TRAL: Tandem repeat annotation library. Bioinformatics 31 (18) 3051-3053.
  27. Frechin, Mathieu; Stoeger, Thomas; Daetwyler, Stephan; Gehin, Charlotte; Battich, Nico; Damm, Eva-Maria; Stergiou, Lilli; Riezman, Howard; Pelkmans, Lucas (2015) Cell-intrinsic adaptation of lipid composition to local crowding drives social behaviour. Nature 523 (7558) 88-91.
  28. Xie, Xiaojiang; Gutiérrez, Agustín; Trofimov, Valentin; Szilagyi, Istvan; Soldati, Thierry; Bakker, Eric (2015) Potassium Sensitive Optical Nanosensors Containing Voltage Sensitive Dyes. CHIMIA 69 (4) 196-198.
  29. Boeckmann, Brigitte; Marcet-Houben, Marina; Rees, Jonathan A.; Forslund, Kristoffer; Huerta-Cepas, Jaime; Muffato, Matthieu; Yilmaz, Pelin; Xenarios, Ioannis; Bork, Peer; Lewis, Suzanna E.; Gabaldón, Toni (2015) Quest for Orthologs entails Quest for Tree of Life: in Search of the Gene Stream. Genome Biol. Evol. 7 (7) 1988-1999.
  30. Chasapi, Anastasia; Wachowicz, Paulina; Niknejad, Anne; Collin, Philippe; Krapp, Andrea; Cano, Elena; Simanis, Viesturs; Xenarios, Ioannis; Toda, Takashi (2015) An Extended, Boolean Model of the Septation Initiation Network in S.Pombe Provides Insights into Its Regulation. PLoS ONE 10 (8) e0134214.
  31. Blom, Tomas; Li, Shiqian; Dichlberger, Andrea; Bäck, Nils; Kim, Young Ah; Loizides-Mangold, Ursula; Riezman, Howard; Bittman, Robert; Ikonen, Elina (2015) LAPTM4B facilitates late endosomal ceramide export to control cell death pathways. Nat. Chem. Biol. 11 (10) 799-806.
  32. Toruń, Anna; Szymańska, Ewelina; Castanon, Irinka; Wolińska-Nizioł, Lidia; Bartosik, Anna; Jastrzębski, Kamil; Miętkowska, Magdalena; González-Gaitán, Marcos; Miaczynska, Marta; Königshoff, Melanie (2015) Endocytic Adaptor Protein Tollip Inhibits Canonical Wnt Signaling. PLoS ONE 10 (6) e0130818.
  33. Romanova-Michaelides, Maria; Aguilar-Hidalgo, Daniel; Jülicher, Frank; Gonzalez-Gaitan, Marcos (2015) The wing and the eye: a parsimonious theory for scaling and growth control?. Wiley Interdiscip. Rev.: Dev. Biol. 4 (6) 591-608.
  34. Xie, Xiaojiang; Gutierrez, Agustin; Trofimov, Valentin; Szilágyi, István; Soldati, Thierry; Bakker, Eric (2015) Charged Solvatochromic Dyes as Signal Transducers in pH Independent Fluorescent and Colorimetric Ion Selective Nanosensors. Anal. Chem. 87 (19) 9954-9959.
  35. Avinoam, Ori; Schorb, Martin; Beese, Carsten J.; Briggs, John A. G.; Kaksonen, Marko (2015) Endocytic sites mature by continuous bending and remodeling of the clathrin coat. Science 348 (6241) 1369-1372.
  36. Skruzny, Michal; Desfosses, Ambroise; Prinz, Simone; Dodonova, Svetlana O.; Gieras, Anna; Uetrecht, Charlotte; Jakobi, Arjen J.; Abella, Marc; Hagen, Wim J.H.; Schulz, Joachim; Meijers, Rob; Rybin, Vladimir; Briggs, John A.G.; Sachse, Carsten; Kaksonen, Marko (2015) An Organized Co-assembly of Clathrin Adaptors Is Essential for Endocytosis. Dev. Cell 33 (2) 150-162.
  37. Dan Dunn, Joe; Alvarez, Luis A. J.; Zhang, Xuezhi; Soldati, Thierry (2015) Reactive oxygen species and mitochondria: A nexus of cellular homeostasis. Redox Biol. 6 472-485.
  38. Gonzalez-Gaitan, Marcos; Roux, Aurélien (2015) When cell biology meets theory. J. Cell Biol. 210 (7) 1041-1045.
  39. Gonzalez-Gaitan, Marcos; Roux, Aurélien (2015) When cell biology meets theory. J. Cell Biol. 210 (7) 1041-1045.
  40. Picco, Andrea; Mund, Markus; Ries, Jonas; Nédélec, François; Kaksonen, Marko (2015) Visualizing the functional architecture of the endocytic machinery. eLife 4 e04535.
  41. Lukinavičius, Gražvydas; Blaukopf, Claudia; Pershagen, Elias; Schena, Alberto; Reymond, Luc; Derivery, Emmanuel; Gonzalez-Gaitan, Marcos; D’Este, Elisa; Hell, Stefan W.; Wolfram Gerlich, Daniel; Johnsson, Kai (2015) SiR–Hoechst is a far-red DNA stain for live-cell nanoscopy. Nat. Commun. 6 8497.
  42. Johnson, Shem Gruenberg, Jean (2015) The pathway of VSV entry into cells. Biology and Pathogenesis of Rhabdo- and Filoviruses (Chapter 3)Ed. Pattnaik, Asit K. Whitt, Michael A.World Scientific. 33-47.
  43. Chiaruttini, Nicolas; Redondo-Morata, Lorena; Colom, Adai; Humbert, Frédéric; Lenz, Martin; Scheuring, Simon; Roux, Aurélien (2015) Relaxation of Loaded ESCRT-III Spiral Springs Drives Membrane Deformation. Cell 163 (4) 866-879.
  44. Derivery, Emmanuel; Seum, Carole; Daeden, Alicia; Loubéry, Sylvain; Holtzer, Laurent; Jülicher, Frank; Gonzalez-Gaitan, Marcos (2015) Polarized endosome dynamics by spindle asymmetry during asymmetric cell division. Nature 528 (7581) 280-285.
  45. Höglinger, Doris; Haberkant, Per; Aguilera-Romero, Auxiliadora; Riezman, Howard; Porter, Forbes D.; Platt, Frances M.; Galione, Antony; Schultz, Carsten (2015) Intracellular sphingosine releases calcium from lysosomes. eLife 4 e10616.
  46. Doucey, Marie-Agnès; Xenarios, Ioannis (2015) Toward a rational design of combination therapy in cancer. OncoImmunology 4 (11) e1046674.
  47. , SIB Swiss Institute of Bioinformatics Members (2015) The SIB Swiss Institute of Bioinformatics’ resources: focus on curated databases. Nucleic Acids Res. 44 (D1) D27-D37.
  48. Johann, D.; Goswami, D.; Kruse, Karsten (2015) Generation of Stable Overlaps between Antiparallel Filaments. Phys. Rev. Lett. 115 art. num. 118103.

2014

  1. Rodius, Sophie; Nazarov, Petr V.; Nepomuceno-Chamorro, Isabel A.; Jeanty, Céline; González-Rosa, Juan; Ibberson, Mark; da Costa, Ricardo M.; Xenarios, Ioannis; Mercader, Nadia; Azuaje, Francisco (2014) Transcriptional response to cardiac injury in the zebrafish: systematic identification of genes with highly concordant activity across in vivo models. BMC Genomics 15:852.
  2. Dornbusch, Tino; Michaud, Olivier; Xenarios, Ioannis; Fankhauser, Christian (2014) Differentially Phased Leaf Growth and Movements in Arabidopsis Depend on Coordinated Circadian and Light Regulation. Plant Cell 26 (10) 3911-3921.
  3. Griss, Johannes; Jones, Andrew R.; Sachsenberg, Timo; Walzer, Mathias; Gatto, Laurent; Hartler, Jürgen; Thallinger, Gerhard G.; Salek, Reza M.; Steinbeck, Christoph; Neuhauser, Nadin; Cox, Jürgen; Neumann, Steffen; Fan, Jun; Reisinger, Florian; Xu, Qing-Wei; del Toro, Noemi; Perez-Riverol, Yasset; Ghali, Fawaz; Bandeira, Nuno; Xenarios, Ioannis; Kohlbacher, Oliver; Vizcaino, Juan Antonio; Hermjakob, Henning (2014) The mzTab Data Exchange Format: Communicating Mass-spectrometry-based Proteomics and Metabolomics Experimental Results to a Wider Audience. Mol. Cell. Proteomics 13 (10) 2765-2775.
  4. Rausell, Antonio; Mohammadi, Pejman; McLaren, Paul J.; Bartha, Istvan; Xenarios, Ioannis; Fellay, Jacques; Telenti, Amalio; Quintana-Murci, Lluis (2014) Analysis of Stop-Gain and Frameshift Variants in Human Innate Immunity Genes. PLoS Comput. Biol. 10 (7) e1003757.
  5. Sankar, Martial; Nieminen, Kaisa; Ragni, Laura; Xenarios, Ioannis; Hardtke, Christian S (2014) Automated quantitative histology reveals vascular morphodynamics during Arabidopsis hypocotyl secondary growth. eLife 3 e01567.
  6. Roppolo, Daniele; Boeckmann, Brigitte; Pfister, Alexandre; Boutet, Emmanuel; Rubio, Maria C.; Denervaud-Tendon, Valerie; Vermeer, Joop E. M.; Gheyselinck, Jacqueline; Xenarios, Ioannis; Geldner, Niko (2014) Functional and Evolutionary Analysis of the CASPARIAN STRIP MEMBRANE DOMAIN PROTEIN Family. Plant Physiol. 165 (4) 1709-1722.
  7. Famiglietti, Maria Livia; Estreicher, Anne; Gos, Arnaud; Bolleman, Jerven; Géhant, Sébastien; Breuza, Lionel; Bridge, Alan; Poux, Sylvain; Redaschi, Nicole; Bougueleret, Lydie; Xenarios, Ioannis (2014) Genetic Variations and Diseases in UniProtKB/Swiss-Prot: The Ins and Outs of Expert Manual Curation. Hum. Mutat. 35 (8) 927-935.
  8. Stockinger, Heinz; Altenhoff, Adrian M.; Arnold, Konstantin; Bairoch, Amos; Bastian, Frederic; Bergmann, Sven; Bougueleret, Lydie; Bucher, Philipp; Delorenzi, Mauro; Lane, Lydie; Le Mercier, Philippe; Lisacek, Frederique; Michielin, Olivier; Palagi, Patricia M.; Rougemont, Jacques; Schwede, Torsten; von Mering, Christian; van Nimwegen, Erik; Walther, Daniel; Xenarios, Ioannis; Zavolan, Mihaela; Zdobnov, Evgeny M.; Zoete, Vincent; Appel, Ron D. (2014) Fifteen years SIB Swiss Institute of Bioinformatics: life science databases, tools and support. Nucleic Acids Res. 42 (W1) W436-W441.
  9. Rausell, Antonio; Mohammadi, Pejman; McLaren, Paul J.; Xenarios, Ioannis; Fellay, Jacques; Telenti, Amalio (2014) Analysis of stop-gain and frameshift variants in human innate immunity genes. bioRxiv, Bioinf..
  10. Crouse, Josh; Bedenikovic, Gregor; Wiesel, Melanie; Ibberson, Mark; Xenarios, Ioannis; Von Laer, Dorothee; Kalinke, Ulrich; Vivier, Eric; Jonjic, Stipan; Oxenius, Annette (2014) Type I Interferons Protect T Cells against NK Cell Attack Mediated by the Activating Receptor NCR1. Immunity 40 (6) 961-973.
  11. Marti-Solano, Maria; Birney, Ewan; Bril, Antoine; Pasqua, Oscar Della; Kitano, Hiroaki; Mons, Barend; Xenarios, Ioannis; Sanz, Ferran (2014) Integrative knowledge management to enhance pharmaceutical R&D. Nat. Rev. Drug Discov. 13 (4) 239-240.
  12. Alfaiz, Ali Abdullah; Micale, Lucia; Mandriani, Barbara; Augello, Bartolomeo; Pellico, Maria Teresa; Chrast, Jacqueline; Xenarios, Ioannis; Zelante, Leopoldo; Merla, Giuseppe; Reymond, Alexandre (2014) TBC1D7 Mutations are Associated with Intellectual Disability, Macrocrania, Patellar Dislocation, and Celiac Disease. Hum. Mutat. 35 (4) 447-451.
  13. Vizcaíno, Juan A.; Deutsch, Eric W.; Wang, Rui; Csordas, Attila; Reisinger, Florian; Ríos, Daniel; Dianes, José A.; Sun, Zhi; Farrah, Terry; Bandeira, Nuno; Binz, Pierre-Alain; Xenarios, Ioannis; Eisenacher, Martin; Mayer, Gerhard; Gatto, Laurent; Campos, Alex; Chalkley, Robert J.; Kraus, Hans-Joachim; Albar, Juan Pablo; Martinez-Bartolomé, Salvador; Apweiler, Rolf; Omenn, Gilbert S.; Martens, Lennart; Jones, Andrew R.; Hermjakob, Henning (2014) ProteomeXchange provides globally coordinated proteomics data submission and dissemination. Nat. Biotechnol. 32 (3) 223-226.
  14. Roux, Aurélien (2014) Reaching a consensus on the mechanism of dynamin?. F1000Prime Rep. 6:86.
  15. Seguin-Estevez, Queralt; Dunand-Sauthier, Isabelle; Lemeille, Sylvain; Iseli, Christian; Ibberson, Mark; Ioannidis, Vassilios; Schmid, Christoph D.; Rousseau, Philippe; Barras, Emmanuèle; Geinoz, Antoine; Xenarios, Ioannis; Acha-Orbea, Hans; Reith, Walter (2014) Extensive remodeling of DC function by rapid maturation-induced transcriptional silencing. Nucleic Acids Res. 42 (15) 9641-9655.
  16. Boeke, Dominik; Trautmann, Susanne; Meurer, Matthias; Wachsmuth, Malte; Godlee, Camilla; Knop, Michael; Kaksonen, Marko (2014) Quantification of cytosolic interactions identifies Ede1 oligomers as key organizers of endocytosis. Mol. Syst. Biol. 10 (11) 756-756.
  17. Xiol, Jordi; Spinelli, Pietro; Laussmann, Maike A.; Homolka, David; Yang, Zhaolin; Cora, Elisa; Couté, Yohann; Conn, Simon; Kadlec, Jan; Sachidanandam, Ravi; Kaksonen, Marko; Cusack, Stephen; Ephrussi, Anne; Pillai, Ramesh S. (2014) RNA Clamping by Vasa Assembles a piRNA Amplifier Complex on Transposon Transcripts. Cell 157 (7) 1698-1711.
  18. Brach, Thorsten; Godlee, Camilla; Moeller-Hansen, Iben; Boeke, Dominik; Kaksonen, Marko (2014) The Initiation of Clathrin-Mediated Endocytosis Is Mechanistically Highly Flexible. Curr. Biol. 24 (5) 548-554.
  19. Merrifield, Christien J.; Kaksonen, Marko (2014) Endocytic Accessory Factors and Regulation of Clathrin-Mediated Endocytosis. Cold Spring Harbor Perspect. Biol. 6 (11) a016733.
  20. Jaensch, Nina; Corrêa, Ivan R.; Watanabe, Reika (2014) Stable Cell Surface Expression of GPI-Anchored Proteins, but not Intracellular Transport, Depends on their Fatty Acid Structure. Traffic 15 (12) 1305-1329.

2013

  1. Kemp, Louise E.; Rusch, Marion; Adibekian, Alexander; Bullen, Hayley E.; Graindorge, Arnault; Freymond, Céline; Rottmann, Matthias; Braun-Breton, Catherine; Baumeister, Stefan; Porfetye, Arthur T.; Vetter, Ingrid R.; Hedberg, Christian; Soldati-Favre*, Dominique (2013) Characterization of a Serine Hydrolase Targeted by Acyl-protein Thioesterase Inhibitors in Toxoplasma gondii. J. Biol. Chem. 288 (38) 27002-27018.
  2. Zufferey, Anne; Ibberson, Mark; Reny, Jean-Luc; Xenarios, Ioannis; Sanchez, Jean-Charles; Fontana, Pierre (2013) Unraveling modulators of platelet reactivity in cardiovascular patients using omics strategies: Towards a network biology paradigm. Transl. Proteomics 1 (1) 25-37.
  3. Schmitter, Daniel; Wachowicz, Paulina; Sage, Daniel; Chasapi, Anastasia; Xenarios, Ioannis; Simanis, Viesturs; Unser, Michael (2013) A 2D/3D image analysis system to track fluorescently labeled structures in rod-shaped cells: application to measure spindle pole asymmetry during mitosis. Cell Div. 8:6.
  4. Guex, Nicolas; Iseli, Christian; Syngelaki, Argyro; Deluen, Cécile; Pescia, Graziano; Nicolaides, Kypros H.; Xenarios, Ioannis; Conrad, Bernard (2013) A robust second-generation genome-wide test for fetal aneuploidy based on shotgun sequencing cell-free DNA in maternal blood. Prenatal Diagn. 33 (7) 707-710.
  5. Bonzanni, Nicola; Garg, Abhishek; Feenstra, K. Anton; Schutte, Judith; Kinston, Sarah; Miranda-Saavedra, Diego; Heringa, Jaap; Xenarios, Ioannis; Gottgens, Berthold (2013) Hard-wired heterogeneity in blood stem cells revealed using a dynamic regulatory network model. Bioinformatics 29 (13) i80-i88.
  6. Topf, Florian; Schvartz, Domitille; Gaudet, Pascale; Priego-Capote, F.; Zufferey, Anne; Turck, Natacha; Binz, Pierre-Alain; Fontana, Pierre; Wiederkehr, Andreas; Finamore, Francesco; Xenarios, Ioannis; Goodlett, D.; Kussmann, M.; Bergsten, P.; Sanchez, Jean-Charles (2013) The Human Diabetes Proteome Project (HDPP): From network biology to targets for therapies and prevention. Transl. Proteomics 1 (1) 3-11.
  7. Zhang, Xuezhi; Krause, Karl-Heinz; Xenarios, Ioannis; Soldati, Thierry; Boeckmann, Brigitte; Haslam, Niall James (2013) Evolution of the Ferric Reductase Domain (FRD) Superfamily: Modularity, Functional Diversification, and Signature Motifs. PLoS ONE 8 (3) e58126.
  8. Bugliani, Marco; Liechti, Robin; Cheon, Hwanju; Suleiman, Mara; Marselli, Lorella; Kirkpatrick, Clare; Filipponi, Franco; Boggi, Ugo; Xenarios, Ioannis; Syed, Farooq; Ladriere, Laurence; Wollheim, Claes; Lee, Myung-Shik; Marchetti, Piero (2013) Microarray analysis of isolated human islet transcriptome in type 2 diabetes and the role of the ubiquitin–proteasome system in pancreatic beta cell dysfunction. Molecular and Cellular Endocrinology 367 (1-2) 1-10.
  9. Godlee, Camilla; Kaksonen, Marko (2013) From uncertain beginnings: Initiation mechanisms of clathrin-mediated endocytosis. The Journal of Cell Biology 104 (10) 3793-725.
  10. Maeda, Kenji; Anand, Kanchan; Chiapparino, Antonella; Kumar, Arun; Poletto, Mattia; Kaksonen, Marko; Gavin, Anne-Claude (2013) Interactome map uncovers phosphatidylserine transport by oxysterol-binding proteins. Nature 501 (7466) 257-261.
  11. Gallego, Oriol; Specht, Tanja; Brach, Thorsten; Kumar, Arun; Gavin, Anne-Claude; Kaksonen, Marko; Keen, James (2013) Detection and Characterization of Protein Interactions In Vivo by a Simple Live-Cell Imaging Method. PLoS ONE 8 (5) e62195.
  12. Castillon, Guillaume Alain; Michon, Laetitia; Watanabe, Reika (2013) Apical sorting of lysoGPI-anchored proteins occurs independent of association with detergent-resistant membranes but dependent on their N-glycosylation. Mol. Biol. Cell 24 (12) 2021-2033.
  13. Satoh, Takunori; Inagaki, Tsuyoshi; Liu, Ziguang; Watanabe, Reika; Satoh, Akiko K. (2013) GPI biosynthesis is essential for rhodopsin sorting at the trans-Golgi network in Drosophila photoreceptors. Development 140 (2) 385-394.
  14. Cox, Jos A. (2013) Divers Models of Divalent Cation Interaction to Calcium-Binding Proteins: Techniques and Anthology. Calcium-Binding Proteins and RAGE Volume 963Ed. Heizmann, Claus W.Methods in Molecular Biology. Springer. 15-35.
  15. Chiodini, Florence; Matter-Sadzinski, Lidia; Rodrigues, Tania; Skowronska-Krawczyk, Dorota; Brodier, Laurent; Schaad, Olivier; Bauer, Christoph; Ballivet, Marc; Matter, Jean-Marc (2013) A Positive Feedback Loop between ATOH7 and a Notch Effector Regulates Cell-Cycle Progression and Neurogenesis in the Retina. Cell Rep. 3 (3) 796-807.
  16. Castanon, Irinka; Abrami, Laurence; Holtzer, Laurent; Heisenberg, Carl-Philipp; van der Goot, F. Gisou; González-Gaitán, Marcos (2013) Anthrax toxin receptor 2a controls mitotic spindle positioning. Nat. Cell Biol. 15 (1) 28-39.

2012

  1. Garg, Abhishek Mohanram, Kartik De Micheli, Giovanni Xenarios, Ioannis (2012) Implicit Methods for Qualitative Modeling of Gene Regulatory Networks. Gene Regulatory Networks Vol. 786Ed. Deplancke, Bart Gheldof, NeleMethods in Molecular Biology. Humana Press. 397-343.
  2. Kicheva, Anna; Bollenbach, Tobias; Wartlick, Ortrud; Jülicher, Frank; Gonzalez-Gaitan, Marcos (2012) Investigating the principles of morphogen gradient formation: from tissues to cells. Curr. Opin. Genet. Dev. 22 (6) 527-532.
  3. Kobayashi, Tomonori; Komatsu, Toru; Kamiya, Mako; Campos, Cláudia; González-Gaitán, Marcos; Terai, Takuya; Hanaoka, Kenjiro; Nagano, Tetsuo; Urano, Yasuteru (2012) Highly Activatable and Environment-Insensitive Optical Highlighters for Selective Spatiotemporal Imaging of Target Proteins. J. Am. Chem. Soc. 134 (27) 11153-11160.
  4. Wartlick, Ortrud; Mumcu, Peer; Julicher, Frank; Gonzalez-Gaitan, Marcos (2012) Response to Comment on “Dynamics of Dpp Signaling and Proliferation Control”. Science 335 (6067) 401.
  5. Snijder, Berend; Sacher, Raphael; Rämö, Pauli; Liberali, Prisca; Mench, Karin; Wolfrum, Nina; Burleigh, Laura; Scott, Cameron C.; Verheije, Monique H.; Mercer, Jason; Moese, Stefan; Heger, Thomas; Theusner, Kristina; Jurgeit, Andreas; Lamparter, David; Balistreri, Giuseppe; Schelhaas, Mario; De Haan, Cornelis A. M.; Marjomäki, Varpu; Hyypiä, Timo; Rottier, Peter J. M.; Sodeik, Beate; Marsh, Mark; Gruenberg, Jean; Amara, Ali; Greber, Urs; Helenius, Ari; Pelkmans, Lucas (2012) Single-cell analysis of population context advances RNAi screening at multiple levels. Mol. Syst. Biol. 8:579 18 pp.
  6. Gruenberg, Jean (2012) An MBoC Favorite: Functional interactions between sphingolipids and sterols in biological membranes regulating cell physiology. Mol. Biol. Cell 23 (13) 2402.
  7. Brankatschk, Ben; Wichert, Sven P.; Johnson, Shem D.; Schaad, Olivier; Rossner, Moritz J.; Gruenberg, Jean (2012) Regulation of the EGF Transcriptional Response by Endocytic Sorting. Sci. Signaling 5 (215) ra21.
  8. Pons, Véronique; Ustunel, Cansel; Rolland, Corinne; Torti, Eleonora; Parton, Robert G.; Gruenberg, Jean; Johannes, Ludger (2012) SNX12 Role in Endosome Membrane Transport. PLoS ONE 7 (6) e38949.
  9. Bissig, Christin Johnson, Shem Gruenberg, Jean (2012) Studying Lipids Involved in the Endosomal Pathway. Lipids Volume 108 (Chapter 2)Methods in Cell Biology. Elsevier. 19-46.
  10. Falguières, Thomas; Castle, David; Gruenberg, Jean (2012) Regulation of the MVB Pathway by SCAMP3. Traffic 13 (1) 131-142.
  11. Santos, Aline X. S.; Riezman, Howard (2012) Yeast as a model system for studying lipid homeostasis and function. FEBS Lett. 586 (18) 2858-2867.
  12. Berchtold, Doris; Piccolis, Manuele; Chiaruttini, Nicolas; Riezman, Isabelle; Riezman, Howard; Roux, Aurélien; Walther, Tobias C.; Loewith, Robbie (2012) Plasma membrane stress induces relocalization of Slm proteins and activation of TORC2 to promote sphingolipid synthesis. Nat. Cell Biol. 14 (5) 542-547.
  13. Epstein, Sharon; Kirkpatrick, Clare L.; Castillon, Guillaume A.; Muniz, Manuel; Riezman, Isabelle; David, Fabrice P. A.; Wollheim, Claes B.; Riezman, Howard (2012) Activation of the unfolded protein response pathway causes ceramide accumulation in yeast and INS-1E insulinoma cells. J. Lipid Res. 53 (3) 412-420.
  14. Loizides-Mangold, Ursula; David, Fabrice P. A.; Nesatyy, Victor J.; Kinoshita, Taroh; Riezman, Howard (2012) Glycosylphosphatidylinositol anchors regulate glycosphingolipid levels. J. Lipid Res. 53 (8) 1522-1534.
  15. Epstein, Sharon; Castillon, Guillaume A.; Qin, Yongmei; Riezman, Howard (2012) An essential function of sphingolipids in yeast cell division. Mol. Microbiol. 84 (6) 1018-1032.
  16. Jarmoszewicz, Katarzyna; Łukasiak, Katarzyna; Riezman, Howard; Kaminska, Joanna; Polymenis, Michael (2012) Rsp5 Ubiquitin Ligase Is Required for Protein Trafficking in Saccharomyces cerevisiae COPI Mutants. PLoS ONE 7 (6) e39582.
  17. Jennemann, Richard; Rabionet, Mariona; Gorgas, Karin; Epstein, Sharon; Dalpke, Alexander; Rothermel, Ulrike; Bayerle, Aline; van der Hoeven, Franciscus; Imgrund, Silke; Kirsch, Joachim; Nickel, Walter; Willecke, Klaus; Riezman, Howard; Grone, Hermann-Josef; Sandhoff, Roger (2012) Loss of ceramide synthase 3 causes lethal skin barrier disruption. Hum. Mol. Genet. 21 (3) 586-608.
  18. Berchtold, Doris; Piccolis, Manuele; Chiaruttini, Nicolas; Riezman, Isabelle; Riezman, Howard; Roux, Aurélien; Walther, Tobias C.; Loewith, Robbie (2012) Plasma membrane stress induces relocalization of Slm proteins and activation of TORC2 to promote sphingolipid synthesis. Nat. Cell Biol. 14 (5) 542-547.
  19. Morlot, Sandrine; Galli, Valentina; Klein, Marius; Chiaruttini, Nicolas; Manzi, John; Humbert, Frédéric; Dinis, Luis; Lenz, Martin; Cappello, Giovanni; Roux, Aurélien (2012) Membrane Shape at the Edge of the Dynamin Helix Sets Location and Duration of the Fission Reaction. Cell 151 (3) 619-629.
  20. Kornmann, Benoît; Roux, Aurélien (2012) Lipids as organizers of cell membranes. EMBO Rep. 13 (8) 667-669.
  21. Sorre, Benoît; Callan-Jones, Andrew; Manzi, John; Goud, Bruno; Prost, Jacques; Bassereau, Patricia; Roux, Aurélien (2012) Nature of curvature coupling of amphiphysin with membranes depends on its bound density. Proc. Natl. Acad. Sci. U. S. A. 109 (1) 173-178.
  22. Fernandez, Paula; Solenthaler, Max; Spertini, Olivier; Quarroz, Stephane; Rovo, Alicia; Lovey, Pierre-Yves; Leoncini, Leda; Ruault-Jungblut, Sylvie; D?Asaro, Mathilde; Schaad, Olivier; Docquier, Mylène; Descombes, Patrick; Matthes, Thomas; Starczynowski, Daniel T. (2012) Using Digital RNA Counting and Flow Cytometry to Compare mRNA with Protein Expression in Acute Leukemias. PLoS ONE 7 (11) e49010.
  23. Saurat, Jean-Hilaire; Kaya, Guerkan; Saxer-Sekulic, Nikolina; Pardo, Bruno; Becker, Minerva; Fontao, Lionel; Mottu, Florence; Carraux, Pierre; Pham, Xuan-Cuong; Barde, Caroline; Fontao, Fabienne; Zennegg, Markus; Schmid, Peter; Schaad, Olivier; Descombes, Patrick; Sorg, Olivier (2012) The Cutaneous Lesions of Dioxin Exposure: Lessons from the Poisoning of Victor Yushchenko. Toxicol. Sci. 125 (1) 310-317.
  24. Lima, Wanessa C.; Leuba, Florence; Soldati, Thierry; Cosson, Pierre (2012) Mucolipin controls lysosome exocytosis in Dictyostelium. J. Cell Sci. 125 (9) 2315-2322.
  25. Dieckmann, Régis; Gueho, Aurélie; Monroy, Roger; Ruppert, Thomas; Bloomfield, Gareth; Soldati, Thierry (2012) The Balance in the Delivery of ER Components and the Vacuolar Proton Pump to the Phagosome Depends on Myosin IK in Dictyostelium. Mol. Cell. Proteomics 11 (10) 886-900.
  26. Soldati, Thierry; Neyrolles, Olivier (2012) Mycobacteria and the Intraphagosomal Environment: Take It With a Pinch of Salt(s)!. Traffic 13 (8) 1042-1052.
  27. Essid, Miriam; Gopaldass, Navin; Yoshida, Kunito; Merrifield, Christien; Soldati, Thierry (2012) Rab8a regulates the exocyst-mediated kiss-and-run discharge of the Dictyostelium contractile vacuole. Mol. Biol. Cell 23 (7) 1267-1282.
  28. Jaiswal, Pundrik; Soldati, Thierry; Thewes, Sascha; Baskar, Ramamurthy (2012) Regulation of aggregate size and pattern by adenosine and caffeine in cellular slime molds. BMC Dev. Biol. 12 (1) 5.
  29. Gopaldass, Navin; Patel, Devang; Kratzke, Ramona; Dieckmann, Regis; Hausherr, Stéphanie; Hagedorn, Monica; Monroy, Roger; Krüger, Julia; Neuhaus, Eva M.; Hoffmann, Eik; Hille, Katja; Kuznetsov, Sergei A.; Soldati, Thierry (2012) Dynamin A, Myosin IB and Abp1 Couple Phagosome Maturation to F-Actin Binding. Traffic 13 (1) 120-130.
  30. Friedrich, Nikolas; Hagedorn, Monica; Soldati-Favre, Dominique; Soldati, Thierry (2012) Prison Break: Pathogens' Strategies To Egress from Host Cells. Microbiol. Mol. Biol. Rev. 76 (4) 707-720.
  31. Tollis, Sylvain Gopaldass, Navin Soldati, Thierry Endres, Robert G. (2012) How One Cell Eats Another: Principles of Phagocytosis. Systems Microbiology: Current Topics and Applications (Chapter 6)Ed. Robertson, Brian D. Wren, Brendan W.Caister Academic Press. (Norfolk). 97-128.
  32. Burge, Sarah; Attwood, Teresa K.; Bateman, Alex; Berardini, Tanya Z.; Cherry, Michael; O\'Donovan, Claire; Xenarios, loannis; Gaudet, Pascale (2012) Biocurators and Biocuration: surveying the 21st century challenges. Database bar059.
  33. Morgat, Anne; Coissac, Eric; Coudert, Elisabeth; Axelsen, Kristian B.; Keller, Guillaume; Bairoch, Amos; Bridge, Alan; Bougueleret, Lydie; Xenarios, Ioannis; Viari, Alain (2012) UniPathway: a resource for the exploration and annotation of metabolic pathways. Nucleic Acids Res. 40 (D1) D761-D769.
  34. Nikolaev, Sergey I.; Rimoldi, Donata; Iseli, Christian; Valsesia, Armand; Robyr, Daniel; Gehrig, Corinne; Harshman, Keith; Guipponi, Michel; Bukach, Olesya; Zoete, Vincent; Michielin, Olivier; Muehlethaler, Katja; Speiser, Daniel; Beckmann, Jacques S.; Xenarios, Ioannis; Halazonetis, Thanos D.; Jongeneel, C. Victor; Stevenson, Brian J.; Antonarakis, Stylianos E (2012) Exome sequencing identifies recurrent somatic MAP2K1 and MAP2K2 mutations in melanoma. Nat. Genet. 44 (2) 133-139.
  35. Brankatschk, Ben; Wichert, Sven P.; Johnson, Shem D.; Schaad, Olivier; Rossner, Moritz J.; Gruenberg, Jean (2012) Regulation of the EGF Transcriptional Response by Endocytic Sorting. Sci. Signaling 5 (215) ra21.
  36. Artimo, Panu; Jonnalagedda, Manohar; Arnold, Konstantin; Baratin, Delphine; Csardi, Gabor; de Castro, Edouard; Duvaud, Séverine; Flegel, Volker; Fortier, Arnaud; Gasteiger, Elisabeth; Grosdidier, Aurélien; Hernandez, Céline; Ioannidis, Vassilios; Kuznetsov, Dmitry; Liechti, Robin; Moretti, Sébastien; Mostaguir, Khaled; Redaschi, Nicole; Rossier, Grégoire; Xenarios, Ioannis; Stockinger, Heinz (2012) ExPASy: SIB bioinformatics resource portal. Nucleic Acids Res. 40 (W1) W597-W603.
  37. Le Martelot, Gwendal; Canella, Donatella; Symul, Laura; Migliavacca, Eugenia; Gilardi, Federica; Liechti, Robin; Martin, Olivier; Harshman, Keith; Delorenzi, Mauro; Desvergne, Béatrice; Herr, Winship; Deplancke, Bart; Schibler, Ueli; Rougemont, Jacques; Guex, Nicolas; Hernandez, Nouria; Naef, Felix; the CycliX consortium, (2012) Genome-Wide RNA Polymerase II Profiles and RNA Accumulation Reveal Kinetics of Transcription and Associated Epigenetic Changes During Diurnal Cycles. PLoS Biol. 10 (11) e1001442.
  38. Hornitschek, Patricia; Kohnen, Markus V.; Lorrain, Séverine; Rougemont, Jacques; Ljung, Karin; López-Vidriero, Irene; Franco-Zorrilla, José M.; Solano, Roberto; Trevisan, Martine; Pradervand, Sylvain; Xenarios, Ioannis; Fankhauser, Christian (2012) Phytochrome interacting factors 4 and 5 control seedling growth in changing light conditions by directly controlling auxin signaling. Plant J. 71 (5) 699-711.
  39. Jungo, Florence; Bougueleret, Lydie; Xenarios, Ioannis; Poux, Sylvain (2012) The UniProtKB/Swiss-Prot Tox-Prot program: A central hub of integrated venom protein data. Toxicon 60 (4) 551-557.
  40. Orchard, Sandra; Kerrien, Samuel; Abbani, Sara; Aranda, Bruno; Bhate, Jignesh; Bidwell, Shelby; Bridge, Alan; Briganti, Leonardo; Brinkman, Fiona; Cesareni, Gianni; Chatr-aryamontri, Andrew; Chautard, Emilie; Chen, Carol; Dumousseau, Marine; Goll, Johannes; Hancock, Robert; Hannick, Linda I.; Jurisica, Igor; Khadake, Jyoti; Lynn, David J.; Mahadevan, Usha; Perfetto, Livia; Raghunath, Arathi; Ricard-Blum, Sylvie; Roechert, Bernd; Salwinski, Lukasz; Stümpflen, Volker; Tyers, Mike; Uetz, Peter; Xenarios, Ioannis; Hermjakob, Henning (2012) Protein interaction data curation: the International Molecular Exchange (IMEx) consortium. Nat. Meth. 9 (4) 345-350.
  41. Sansone, Susanna-Assunta; Rocca-Serra, Philippe; Field, Dawn; Maguire, Eamonn; Taylor, Chris; Hofmann, Oliver; Fang, Hong; Neumann, Steffen; Tong, Weida; Amaral-Zettler, Linda; Begley, Kimberly; Booth, Tim; Bougueleret, Lydie; Burns, Gully; Chapman, Brad; Clark, Tim; Coleman, Lee-Ann; Copeland, Jay; Das, Sudeshna; de Daruvar, Antoine; de Matos, Paula; Dix, Ian; Edmunds, Scott; Evelo, Chris T.; Forster, Mark J.; Gaudet, Pascale; Gilbert, Jack; Goble, Carole; Griffin, Julian L.; Jacob, Daniel; Kleinjans, Jos; Harland, Lee; Haug, Kenneth; Hermjakob, Henning; Sui, Shannan J. Ho; Laederach, Alain; Liang, Shaoguang; Marshall, Stephen; McGrath, Annette; Merrill, Emily; Reilly, Dorothy; Roux, Magali; Shamu, Caroline E.; Shang, Catherine A.; Steinbeck, Christoph; Trefethen, Anne; Williams-Jones, Bryn; Wolstencroft, Katherine; Xenarios, Ioannis; Hide, Winston (2012) Toward interoperable bioscience data. Nat. Genet. 44 (2) 121-126.
  42. The Gene Ontology Consortium, (2012) The Gene Ontology: enhancements for 2011. Nucleic Acids Res. 40 (D1) D559-D564.
  43. Dimmer, Emily C.; Huntley, Rachael P.; Alam-Faruque, Yasmin; Sawford, Tony; O\'Donovan, Claire; Martin, Maria J.; Bely, Benoit; Browne, Paul; Mun Chan, Wei; Eberhardt, Ruth; Gardner, Michael; Laiho, Kati; Legge, Duncan; Magrane, Michele; Pichler, Klemens; Poggioli, Diego; Sehra, Harminder; Auchincloss, Andrea; Axelsen, Kristian; Blatter, Marie-Claude; Boutet, Emmanuel; Braconi-Quintaje, Silvia; Breuza, Lionel; Bridge, Alan; Coudert, Elizabeth; Estreicher, Anne; Famiglietti, Livia; Ferro-Rojas, Serenella; Feuermann, Marc; Gos, Arnaud; Gruaz-Gumowski, Nadine; Hinz, Ursula; Hulo, Chantal; James, Janet; Jimenez, Silvia; Jungo, Florence; Keller, Guillaume; Lemercier, Phillippe; Lieberherr, Damien; Masson, Patrick; Moinat, Madelaine; Pedruzzi, Ivo; Poux, Sylvain; Rivoire, Catherine; Roechert, Bernd; Schneider, Michael; Stutz, Andre; Sundaram, Shyamala; Tognolli, Michael; Bougueleret, Lydie; Argoud-Puy, Ghislaine; Cusin, Isabelle; Duek- Roggli, Paula; Xenarios, Ioannis; Apweiler, Rolf (2012) The UniProt-GO Annotation database in 2011. Nucleic Acids Res. 40 (D1) D565-D570.
  44. The UniProt Consortium, (2012) Reorganizing the protein space at the Universal Protein Resource (UniProt). Nucleic Acids Res. 40 (D1) D71-D75.
  45. Alcántara, Rafael; Axelsen, Kristian B.; Morgat, Anne; Belda, Eugeni; Coudert, Elisabeth; Bridge, Alan; Cao, Hong; de Matos, Paula; Ennis, Marcus; Turner, Steve; Owen, Gareth; Bougueleret, Lydie; Xenarios, Ioannis; Steinbeck, Christoph (2012) Rhea—a manually curated resource of biochemical reactions. Nucleic Acids Res. 40 (D1) D754-D760.
  46. Kukulski, Wanda Schorb, Martin Welsch, Sonja Picco, Andrea Kaksonen, Marko Briggs, John A.G. (2012) Precise, Correlated Fluorescence Microscopy and Electron Tomography of Lowicryl Sections Using Fluorescent Fiducial Markers. Correlative Light and Electron Microscopy Volume 111 (Chapter 13)Ed. Müller-Reichert, Thomas Verkade, PaulMethods in Cell Biology. Elsevier. 235-257.
  47. Skruzny, Michal; Brach, Thorsten; Ciuffa, Rodolfo; Rybina, Sofia; Wachsmuth, Malte; Kaksonen, Marko (2012) Molecular basis for coupling the plasma membrane to the actin cytoskeleton during clathrin-mediated endocytosis. Proc. Natl. Acad. Sci. U. S. A. 109 (38) E2533-E2542.
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Peter; Rodríguez de Córdoba, Santiago; Rohrer, Bärbel; Roninson, Igor B.; Rosen, Kirill; Rost-Roszkowska, Magdalena M.; Rouis, Mustapha; Rouschop, Kasper M.A.; Rovetta, Francesca; Rubin, Brian P.; Rubinsztein, David C.; Ruckdeschel, Klaus; Rucker, Edmund B.; Rudich, Assaf; Rudolf, Emil; Ruiz-Opazo, Nelson; Russo, Rossella; Rusten, Tor Erik; Ryan, Kevin M.; Ryter, Stefan W.; Sabatini, David M.; Sadoshima, Junichi; Saha, Tapas; Saitoh, Tatsuya; Sakagami, Hiroshi; Sakai, Yasuyoshi; Salekdeh, Ghasem Hoseini; Salomoni, Paolo; Salvaterra, Paul M.; Salvesen, Guy; Salvioli, Rosa; Sanchez, Anthony M.J.; Sánchez-Alcázar, José A.; Sánchez-Prieto, Ricardo; Sandri, Marco; Sankar, Uma; Sansanwal, Poonam; Santambrogio, Laura; Saran, Shweta; Sarkar, Sovan; Sarwal, Minnie; Sasakawa, Chihiro; Sasnauskiene, Ausra; Sass, Miklós; Sato, Ken; Sato, Miyuki; Schapira, Anthony H.V.; Scharl, Michael; Schätzl, Hermann M.; Scheper, Wiep; Schiaffino, Stefano; Schneider, Claudio; Schneider, Marion E.; Schneider-Stock, Regine; Schoenlein, Patricia V.; Schorderet, Daniel F.; Schüller, Christoph; Schwartz, Gary K.; Scorrano, Luca; Sealy, Linda; Seglen, Per O.; Segura-Aguilar, Juan; Seiliez, Iban; Seleverstov, Oleksandr; Sell, Christian; Seo, Jong Bok; Separovic, Duska; Setaluri, Vijayasaradhi; Setoguchi, Takao; Settembre, Carmine; Shacka, John J.; Shanmugam, Mala; Shapiro, Irving M.; Shaulian, Eitan; Shaw, Reuben J.; Shelhamer, James H.; Shen, Han-Ming; Shen, Wei-Chiang; Sheng, Zu-Hang; Shi, Yang; Shibuya, Kenichi; Shidoji, Yoshihiro; Shieh, Jeng-Jer; Shih, Chwen-Ming; Shimada, Yohta; Shimizu, Shigeomi; Shintani, Takahiro; Shirihai, Orian S.; Shore, Gordon C.; Sibirny, Andriy A.; Sidhu, Stan B.; Sikorska, Beata; Silva-Zacarin, Elaine C.M.; Simmons, Alison; Simon, Anna Katharina; Simon, Hans-Uwe; Simone, Cristiano; Simonsen, Anne; Sinclair, David A.; Singh, Rajat; Sinha, Debasish; Sinicrope, Frank A.; Sirko, Agnieszka; Siu, Parco M.; Sivridis, Efthimios; Skop, Vojtech; Skulachev, Vladimir P.; Slack, Ruth S.; Smaili, Soraya S.; Smith, Duncan R.; Soengas, Maria S.; Soldati, Thierry; Song, Xueqin; Sood, Anil K.; Soong, Tuck Wah; Sotgia, Federica; Spector, Stephen A.; Spies, Claudia D.; Springer, Wolfdieter; Srinivasula, Srinivasa M.; Stefanis, Leonidas; Steffan, Joan S.; Stendel, Ruediger; Stenmark, Harald; Stephanou, Anastasis; Stern, Stephan T.; Sternberg, Cinthya; Stork, Björn; Strålfors, Peter; Subauste, Carlos S.; Sui, Xinbing; Sulzer, David; Sun, Jiaren; Sun, Shi-Yong; Sun, Zhi-Jun; Sung, Joseph J.Y.; Suzuki, Kuninori; Suzuki, Toshihiko; Swanson, Michele S.; Swanton, Charles; Sweeney, Sean T.; Sy, Lai-King; Szabadkai, György; Tabas, Ira; Taegtmeyer, Heinrich; Tafani, Marco; Takács-Vellai, Krisztina; Takano, Yoshitaka; Takegawa, Kaoru; Takemura, Genzou; Takeshita, Fumihiko; Talbot, Nicholas J.; Tan, Kevin S.W.; Tanaka, Keiji; Tanaka, Kozo; Tang, Daolin; Tang, Dingzhong; Tanida, Isei; Tannous, Bakhos A.; Tavernarakis, Nektarios; Taylor, Graham S.; Taylor, Gregory A.; Taylor, J. Paul; Terada, Lance S.; Terman, Alexei; Tettamanti, Gianluca; Thevissen, Karin; Thompson, Craig B.; Thorburn, Andrew; Thumm, Michael; Tian, FengFeng; Tian, Yuan; Tocchini-Valentini, Glauco; Tolkovsky, Aviva M.; Tomino, Yasuhiko; Tönges, Lars; Tooze, Sharon A.; Tournier, Cathy; Tower, John; Towns, Roberto; Trajkovic, Vladimir; Travassos, Leonardo H.; Tsai, Ting-Fen; Tschan, Mario P.; Tsubata, Takeshi; Tsung, Allan; Turk, Boris; Turner, Lorianne S.; Tyagi, Suresh C.; Uchiyama, Yasuo; Ueno, Takashi; Umekawa, Midori; Umemiya-Shirafuji, Rika; Unni, Vivek K.; Vaccaro, Maria I.; Valente, Enza Maria; Van den Berghe, Greet; van der Klei, Ida J.; van Doorn, Wouter G.; van Dyk, Linda F.; van Egmond, Marjolein; van Grunsven, Leo A.; Vandenabeele, Peter; Vandenberghe, Wim P.; Vanhorebeek, Ilse; Vaquero, Eva C.; Velasco, Guillermo; Vellai, Tibor; Vicencio, José Miguel; Vierstra, Richard D.; Vila, Miquel; Vindis, Cécile; Viola, Giampietro; Viscomi, Maria Teresa; Voitsekhovskaja, Olga V.; von Haefen, Clarissa; Votruba, Marcela; Wada, Keiji; Wade-Martins, Richard; Walker, Cheryl L.; Walsh, Craig M.; Walter, Jochen; Wan, Xiang-Bo; Wang, Aimin; Wang, Chenguang; Wang, Dawei; Wang, Fan; Wang, Fen; Wang, Guanghui; Wang, Haichao; Wang, Hong-Gang; Wang, Horng-Dar; Wang, Jin; Wang, Ke; Wang, Mei; Wang, Richard C.; Wang, Xinglong; Wang, Xiujie J.; Wang, Ying-Jan; Wang, Yipeng; Wang, Zhen-Bo; Wang, Zhigang Charles; Wang, Zhinong; Wansink, Derick G.; Ward, Diane M.; Watada, Hirotaka; Waters, Sarah L.; Webster, Paul; Wei, Lixin; Weihl, Conrad C.; Weiss, William A.; Welford, Scott M.; Wen, Long-Ping; Whitehouse, Caroline A.; Whitton, J. 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Autophagy 8 (4) 445-544.

2011

  1. Lelièvre, Elise C.; Lek, Madelen; Boije, Henrik; Houille-Vernes, Laura; Brajeul, Valérie; Slembrouck, Amélie; Roger, Jérôme E.; Sahel, José-Alain; Matter, Jean-Marc; Sennlaub, Florian; Hallböök, Finn; Goureau, Olivier; Guillonneau, Xavier (2011) Ptf1a/Rbpj complex inhibits ganglion cell fate and drives the specification of all horizontal cell subtypes in the chick retina. Dev. Biol. 358 (2) 296-308.
  2. Castanon, Irinka; González-Gaitán, Marcos (2011) Oriented cell division in vertebrate embryogenesis. Curr. Opin. Cell Biol. 23 (6) 697-704.
  3. Castanon, Irinka; González-Gaitán, Marcos (2011) Integrating levels of complexity: a trend in developmental biology. Curr. Opin. Cell Biol. 23 (6) 647-649.
  4. Wartlick, Ortrud; González-Gaitán, Marcos (2011) The missing link: implementation of morphogenetic growth control on the cellular and molecular level. Curr. Opin. Genet. Dev. 21 (6) 690-695.
  5. Wartlick, Ortrud; Mumcu, Peer; Jülicher, Frank; Gonzalez-Gaitan, Marcos (2011) Understanding morphogenetic growth control – lessons from flies. Nat. Rev. Mol. Cell Biol. 12 (9) 594-604.
  6. Campos, Cláudia; Kamiya, Mako; Banala, Sambashiva; Johnsson, Kai; González-Gaitán, Marcos (2011) Labelling cell structures and tracking cell lineage in zebrafish using SNAP-tag. Dev. Dyn. 240 (4) 820-827.
  7. Semrau, Stefan; Holtzer, Laurent; González-Gaitán, Marcos; Schmidt, Thomas (2011) Quantification of Biological Interactions with Particle Image Cross-Correlation Spectroscopy (PICCS). Biophys. J. 100 (7) 1810-1818.
  8. Wartlick, Ortrud; Mumcu, P.; Kicheva, Anna; Bittig, T.; Seum, Carole; Julicher, Frank; Gonzalez-Gaitan, Marcos (2011) Dynamics of Dpp Signaling and Proliferation Control. Science 331 (6021) 1154-1159.
  9. Moreau, Dimitri; Scott, Cameron; Gruenberg, Jean (2011) A Novel Strategy to Identify Drugs that Interfere with Endosomal Lipids. CHIMIA 65 (11) 846-848.
  10. Scott, Cameron C; Bissig, Christin; Gruenberg, Jean (2011) Duelling functions of the V-ATPase. EMBO J. 30 (20) 4113-4115.
  11. Brankatschk, Ben; Pons, Véronique; Parton, Robert G.; Gruenberg, Jean; Rappoport, Joshua Z. (2011) Role of SNX16 in the Dynamics of Tubulo-Cisternal Membrane Domains of Late Endosomes. PLoS ONE 6 (7) e21771.
  12. Laulagnier, Karine; Schieber, Nicole L.; Maritzen, Tanja; Haucke, Volker; Parton, Robert G.; Gruenberg, Jean (2011) Role of AP1 and Gadkin in the traffic of secretory endo-lysosomes. Mol. Biol. Cell 22 (12) 2068-2082.
  13. Scott, Cameron C.; Gruenberg, Jean (2011) Ion flux and the function of endosomes and lysosomes: pH is just the start. BioEssays 33 (2) 103-110.
  14. Ternes, Philipp; Feussner, Kirstin; Werner, Stephanie; Lerche, Jennifer; Iven, Tim; Heilmann, Ingo; Riezman, Howard; Feussner, Ivo (2011) Disruption of the ceramide synthase LOH1 causes spontaneous cell death in Arabidopsis thaliana. New Phytol. 192 (4) 841-854.
  15. Alvarez-Vasquez, Fernando; Riezman, Howard; Hannun, Yusuf A.; Voit, Eberhard O.; Zhang, Zhengguang (2011) Mathematical Modeling and Validation of the Ergosterol Pathway in Saccharomyces cerevisiae. PLoS ONE 6 (12) e28344.
  16. Sturzenegger, Susi; Johnsson, Kai; Riezman, Howard (2011) NCCR Chemical Biology: Interdisciplinary Research Excellence, Outreach, Education, and New Tools for Switzerland. CHIMIA 65 (11) 832-834.
  17. Lissina, Elena; Young, Brian; Urbanus, Malene L.; Guan, Xue Li; Lowenson, Jonathan; Hoon, Shawn; Baryshnikova, Anastasia; Riezman, Isabelle; Michaut, Magali; Riezman, Howard; Cowen, Leah E.; Wenk, Markus R.; Clarke, Steven G.; Giaever, Guri; Nislow, Corey; Cooper, Sara J. (2011) A Systems Biology Approach Reveals the Role of a Novel Methyltransferase in Response to Chemical Stress and Lipid Homeostasis. PLoS Genet. 7 (10) e1002332.
  18. Souza, Cleiton M.; Schwabe, Tatjana M.E.; Pichler, Harald; Ploier, Birgit; Leitner, Erich; Guan, Xue Li; Wenk, Markus R.; Riezman, Isabelle; Riezman, Howard (2011) A stable yeast strain efficiently producing cholesterol instead of ergosterol is functional for tryptophan uptake, but not weak organic acid resistance. Metab. Eng. 13 (5) 555-569.
  19. Castillon, Guillaume A.; Aguilera-Romero, Auxiliadora; Manzano-Lopez, Javier; Epstein, Sharon; Kajiwara, Kentaro; Funato, Kouichi; Watanabe, Reika; Riezman, Howard; Muniz, Manuel (2011) The yeast p24 complex regulates GPI-anchored protein transport and quality control by monitoring anchor remodeling. Mol. Biol. Cell 22 (16) 2924-2936.
  20. Hannich, J. Thomas; Umebayashi, Kyohei; Riezman, Howard (2011) Distribution and Functions of Sterols and Sphingolipids. Cold Spring Harbor Perspect. Biol. 3 (5) a004762.
  21. Fujita, Morihisa; Watanabe, Reika; Jaensch, Nina; Romanova-Michaelides, Maria; Satoh, Tadashi; Kato, Masaki; Riezman, Howard; Yamaguchi, Yoshiki; Maeda, Yusuke; Kinoshita, Taroh (2011) Sorting of GPI-anchored proteins into ER exit sites by p24 proteins is dependent on remodeled GPI. J. Cell Biol. 194 (1) 61-75.
  22. Ternes, Philipp; Wobbe, Tobias; Schwarz, Marnie; Albrecht, Sandra; Feussner, Kirstin; Riezman, Isabelle; Cregg, James M.; Heinz, Ernst; Riezman, Howard; Feussner, Ivo; Warnecke, Dirk (2011) Two Pathways of Sphingolipid Biosynthesis Are Separated in the Yeast Pichia pastoris. J. Biol. Chem. 286 (13) 11401-11414.
  23. Chang-Ileto, Belle; Frere, Samuel G.; Chan, Robin B.; Voronov, Sergey V.; Roux, Aurélien; Di Paolo, Gilbert (2011) Synaptojanin 1-Mediated PI(4,5)P2 Hydrolysis Is Modulated by Membrane Curvature and Facilitates Membrane Fission. Dev. Cell 20 (2) 206-218.
  24. Dunand-Sauthier, Isabelle; Santiago-Raber, Marie-Laure; Capponi, Leonardo; Vejnar, Charles E.; Schaad, Olivier; Irla, Magali; Seguin-Estevez, Queralt; Descombes, Patrick; Zdobnov, Evgeny M.; Acha-Orbea, Hans; Reith, Walter (2011) Silencing of c-Fos expression by microRNA-155 is critical for dendritic cell maturation and function. Blood 117 (17) 4490-4500.
  25. Papaioannou, Marilena D.; Lagarrigue, Melanie; Vejnar, Charles E.; Rolland, Antoine D.; Kuhne, Francoise; Aubry, Florence; Schaad, Olivier; Fort, Alexandre; Descombes, Patrick; Neerman-Arbez, Marguerite; Guillou, Florian; Zdobnov, Evgeny M.; Pineau, Charles; Nef, Serge (2011) Loss of Dicer in Sertoli Cells Has a Major Impact on the Testicular Proteome of Mice. Mol. Cell. Proteomics 10 (4) M900587-MCP200.
  26. Carnell, Michael; Zech, Tobias; Calaminus, Simon D.; Ura, Seiji; Hagedorn, Monica; Johnston, Simon A.; May, Robin C.; Soldati, Thierry; Machesky, Laura M.; Insall, Robert H. (2011) Actin polymerization driven by WASH causes V-ATPase retrieval and vesicle neutralization before exocytosis. J. Cell Biol. 193 (5) 831-839.
  27. Lelong, Emmanuelle; Marchetti, Anna; Guého, Aurélie; Lima, Wanessa C.; Sattler, Natascha; Molmeret, Maëlle; Hagedorn, Monica; Soldati, Thierry; Cosson, Pierre (2011) Role of magnesium and a phagosomal P-type ATPase in intracellular bacterial killing. Cell. Microbiol. 13 (2) 246-258.
  28. Shlomovitz, Roie; Gov, Nir S.; Roux, Aurélien (2011) Membrane-mediated interactions and the dynamics of dynamin oligomers on membrane tubes. New J. Phys. 13 (6) 065008.
  29. Hulo, Chantal; de Castro, Edouard; Masson, Patrick; Bougueleret, Lydie; Bairoch, Amos; Xenarios, Ioannis; Le Mercier, Philippe (2011) ViralZone: a knowledge resource to understand virus diversity. Nucleic Acids Res. 39 (suppl 1) D576-D582.
  30. Kapur, Karen; Schüpbach, Thierry; Xenarios, Ioannis; Kutalik, Zoltán; Bergmann, Sven; Xiong, Momiao (2011) Comparison of Strategies to Detect Epistasis from eQTL Data. PLoS ONE 6 (12) e28415.
  31. Riba-Grognuz, Oksana; Keller, Laurent; Falquet, Laurent; Xenarios, Ioannis; Wurm, Yannick (2011) Visualization and quality assessment of de novo genome assemblies. Bioinformatics 27 (24) 3425-3426.
  32. Di Tommaso, Paolo; Moretti, Sebastien; Xenarios, Ioannis; Orobitg, Miquel; Montanyola, Alberto; Chang, Jia-Ming; Taly, Jean-François; Notredame, Cedric (2011) T-Coffee: a web server for the multiple sequence alignment of protein and RNA sequences using structural information and homology extension. Nucleic Acids Res. 39 (suppl) W13-W17.
  33. Sankar, Martial; Osmont, Karen S.; Rolcik, Jakub; Gujas, Bojan; Tarkowska, Danuse; Strnad, Miroslav; Xenarios, Ioannis; Hardtke, Christian S. (2011) A qualitative continuous model of cellular auxin and brassinosteroid signaling and their crosstalk. Bioinformatics 27 (10) 1404-1412.
  34. Magrane, Michele; UniProt Consortium, (2011) UniProt Knowledgebase: a hub of integrated protein data. Database bar009.
  35. Valsesia, Armand; Rimoldi, Donata; Martinet, Danielle; Ibberson, Mark; Benaglio, Paola; Quadroni, Manfredo; Waridel, Patrice; Gaillard, Muriel; Pidoux, Mireille; Rapin, Blandine; Rivolta, Carlo; Xenarios, Ioannis; Simpson, Andrew J. G.; Antonarakis, Stylianos E.; Beckmann, Jacques S.; Jongeneel, C. Victor; Iseli, Christian; Stevenson, Brian J.; Krahe, Ralf (2011) Network-Guided Analysis of Genes with Altered Somatic Copy Number and Gene Expression Reveals Pathways Commonly Perturbed in Metastatic Melanoma. PLoS ONE 6 (4) e18369.
  36. Wurm, Yannick; Wang, John; Riba-Grognuz, Oksana; Corona, Miguel; Nygaard, Sanne; Hunt, Brendan G.; Ingram, Krista K.; Falquet, Laurent; Nipitwattanaphon, Mingkwan; Gotzek, Dietrich; Dijkstra, Michiel B.; Oettler, Jan; Comtesse, Fabien; Shih, Cheng-Jen; Wu, Wen-Jer; Yang, Chin-Cheng; Thomas, Jerome; Beaudoing, Emmanuel; Pradervand, Sylvain; Flegel, Volker; Cook, Erin D.; Fabbretti, Roberto; Stockinger, Heinz; Long, Li; Farmerie, William G.; Oakey, Jane; Boomsma, Jacobus J.; Pamilo, Pekka; Yi, Soojin V.; Heinze, Jürgen; Goodisman, Michael A. D.; Farinelli, Laurent; Harshman, Keith; Hulo, Nicolas; Cerutti, Lorenzo; Xenarios, Ioannis; Shoemaker, DeWayne; Keller, Laurent (2011) The genome of the fire ant Solenopsis invicta. Proc. Natl. Acad. Sci. U. S. A. 108 (14) 5679-5684.
  37. Boeckmann, Brigitte; Robinson-Rechavi, Marc; Xenarios, Ioannis; Dessimoz, Christophe (2011) Conceptual framework and pilot study to benchmark phylogenomic databases based on reference gene trees. Briefings Bioinf. 12 (5) 423-435.
  38. Brach, Thorsten; Specht, Tanja; Kaksonen, Marko (2011) Reassessment of the role of plasma membrane domains in the regulation of vesicular traffic in yeast. J. Cell Sci. 124 (3) 328-337.
  39. Kukulski, Wanda; Schorb, Martin; Welsch, Sonja; Picco, Andrea; Kaksonen, Marko; Briggs, John A.G. (2011) Correlated fluorescence and 3D electron microscopy with high sensitivity and spatial precision. J. Cell Biol. 208 (1) 3-119.
  40. Castillon, Guillaume A.; Aguilera-Romero, Auxiliadora; Manzano-Lopez, Javier; Epstein, Sharon; Kajiwara, Kentaro; Funato, Kouichi; Watanabe, Reika; Riezman, Howard; Muniz, Manuel (2011) The yeast p24 complex regulates GPI-anchored protein transport and quality control by monitoring anchor remodeling. Mol. Biol. Cell 22 (16) 2924-2936.
  41. Fujita, Morihisa; Watanabe, Reika; Jaensch, Nina; Romanova-Michaelides, Maria; Satoh, Tadashi; Kato, Masaki; Riezman, Howard; Yamaguchi, Yoshiki; Maeda, Yusuke; Kinoshita, Taroh (2011) Sorting of GPI-anchored proteins into ER exit sites by p24 proteins is dependent on remodeled GPI. J. Cell Biol. 194 (1) 61-75.

2010

  1. Roux, Aurélien; Koster, Gerbrand; Lenz, Martin; Sorre, Benoît; Manneville, Jean-Baptiste; Nassoy, Pierre; Bassereau, Patricia (2010) Membrane curvature controls dynamin polymerization. Proc. Natl. Acad. Sci. U. S. A. 107 (9) 4141-4146.
  2. Morlot, Sandrine; Lenz, Martin; Prost, Jacques; Joanny, Jean-François; Roux, Aurélien (2010) Deformation of Dynamin Helices Damped by Membrane Friction. Biophys. J. 99 (11) 3580-3588.
  3. Gallego, Oriol; Betts, Matthew J.; Gvozdenovic-Jeremic, Jelena; Maeda, Kenji; Matetzki, Christian; Aguilar-Gurrieri, Carmen; Beltran-Alvarez, Pedro; Bonn, Stefan; Fernández-Tornero, Carlos; Jensen, Lars Juhl; Kuhn, Michael; Trott, Jamie; Rybin, Vladimir; Müller, Christoph W.; Bork, Peer; Kaksonen, Marko; Russell, Robert B.; Gavin, Anne-Claude (2010) A systematic screen for protein–lipid interactions in Saccharomyces cerevisiae. Mol. Syst. Biol. 6 (1) 430.
  4. Assaker, Gloria; Ramel, Damien; Wculek, Stefanie K.; Gonzalez-Gaitan, Marcos; Emery, Gregory (2010) Spatial restriction of receptor tyrosine kinase activity through a polarized endocytic cycle controls border cell migration. Proc. Natl. Acad. Sci. U. S. A. 107 (52) 22558-22563.
  5. Mottola, Giovanna; Classen, Anne-Kathrin; Gonzalez-Gaitan, Marcos; Eaton, Suzanne; Zerial, Marino (2010) A novel function for the Rab5 effector Rabenosyn-5 in planar cell polarity. Development 137 (14) 2353-2364.
  6. Goursot, A.; Mineva, T.; Bissig, Christin; Gruenberg, Jean; Salahub, D. R. (2010) Structure, Dynamics, and Energetics of Lysobisphosphatidic Acid (LBPA) Isomers. J. Phys. Chem. B 114 (47) 15712-15720.
  7. Carvalho, Maria; Schwudke, Dominik; Sampaio, Julio L.; Palm, Wilhelm; Riezman, Isabelle; Dey, Gautam; Gupta, Gagan D.; Mayor, Satyajit; Riezman, Howard; Shevchenko, Andrej; Kurzchalia, Teymuras V.; Eaton, Suzanne (2010) Survival strategies of a sterol auxotroph. Development 137 (21) 3675-3685.
  8. Bourquin, Florence; Riezman, Howard; Capitani, Guido; Grütter, Markus G. (2010) Structure and Function of Sphingosine-1-Phosphate Lyase, a Key Enzyme of Sphingolipid Metabolism. Structure 18 (8) 1054-1065.
  9. Guan, Xue Li Riezman, Isabelle Wenk, Markus R. Riezman, Howard (2010) Yeast Lipid Analysis and Quantification by Mass Spectrometry. Guide to Yeast Genetics: Functional Genomics, Proteomics, and Other Systems Analysis Volume 470 (Chapter 15)Methods in Enzymology. Elsevier. 369-391.
  10. Roux, Aurélien; Plastino, Julie (2010) Actin takes its hat off to dynamin. EMBO J. 29 (21) 3591-3592.
  11. Cederroth, Christopher R.; Zimmermann, Celine; Beny, Jean-Louis; Schaad, Olivier; Combepine, Chantal; Descombes, Patrick; Doerge, Daniel R.; Pralong, François P.; Vassalli, Jean-Dominique; Nef, Serge (2010) Potential detrimental effects of a phytoestrogen-rich diet on male fertility in mice. Mol. Cell. Endocrinol. 321 (2) 152-160.
  12. Calvo-Garrido, Javier; Carilla-Latorre, Sergio; Kubohara, Yuzuru; Santos-Rodrigo, Natalia; Mesquita, Ana; Soldati, Thierry; Golstein, Pierre; Escalante, Ricardo (2010) Autophagy in Dictyostelium: Genes and pathways, cell death and infection. Autophagy 6 (6) 686-701.
  13. Dieckmann, Régis; von Heyden, Yosuke; Kistler, Claudia; Gopaldass, Navin; Hausherr, Stéphanie; Crawley, Scott William; Schwarz, Eva C.; Diensthuber, Ralph P.; Côté, Graham P.; Tsiavaliaris, Georgios; Soldati, Thierry (2010) A Myosin IK-Abp1-PakB Circuit Acts as a Switch to Regulate Phagocytosis Efficiency. Mol. Biol. Cell 21 (9) 1505-1518.
  14. Pino, Paco; Aeby, Eric; Foth, Bernardo Javier; Sheiner, Lilach; Soldati, Thierry; Schneider, Andre; Soldati-Favre, Dominique (2010) Mitochondrial translation in absence of local tRNA aminoacylation and methionyl tRNAMet formylation in Apicomplexa. Mol. Microbiol. 76 (3) 706-718.
  15. Boulais, Jonathan; Trost, Matthias; Landry, Christian R.; Dieckmann, Régis; Levy, Emmanuel D.; Soldati, Thierry; Michnick, Stephen W.; Thibault, Pierre; Desjardins, Michel (2010) Molecular characterization of the evolution of phagosomes. Mol. Syst. Biol. 6 (1) 423.
  16. Rivier, Anne-Sophie; Castillon, Guillaume A.; Michon, Laetitia; Fukasawa, Masayoshi; Romanova-Michaelides, Maria; Jaensch, Nina; Hanada, Kentaro; Watanabe, Reika (2010) Exit of GPI-Anchored Proteins from the ER Differs in Yeast and Mammalian Cells. Traffic 11 (8) 1017-1033.
  17. Radu, Laura; Durussel, Isabelle; Assairi, Liliane; Blouquit, Yves; Miron, Simona; Cox, Jos A.; Craescu, Constantin T. (2010) Scherffelia dubia Centrin Exhibits a Specific Mechanism for Ca2+-Controlled Target Binding. Biochemistry 49 (20) 4383-4394.
  18. Ojha, Mukti; Cattaneo, Arlette; Hugh, Séverine; Pawlowski, Jan; Cox, Jos A. (2010) Structure, expression and function of Allomyces arbuscula CDP II (metacaspase) gene. Gene 457 (1-2) 25-34.
  19. Tirone, Fabiana; Radu, Laura; Craescu, Constantin T.; Cox, Jos A. (2010) Identification of the Binding Site for the Regulatory Calcium-Binding Domain in the Catalytic Domain of NOX5. Biochemistry 49 (4) 761-771.
  20. Gordon, Vicki; Bhadel, Shriti; Wunderlich, Winfried; Zhang, JoAnn; Ficarro, Scott B.; Mollah, Sahana A.; Shabanowitz, Jeffrey; Hunt, Donald F.; Xenarios, Ioannis; Hahn, William C.; Conaway, Mark; Carey, Michael F.; Gioeli, Daniel (2010) CDK9 Regulates AR Promoter Selectivity and Cell Growth through Serine 81 Phosphorylation. Mol. Endocrinol. 24 (12) 2267-2280.
  21. Liechti, Robin; Csardi, Gábor; Bergmann, Sven; Schutz, Frédéric; Sengstag, Thierry; Boj, Sylvia F.; Servitja, Joan-Marc; Ferrer, Jorge; Van Lommel, Leentje; Schuit, Frans; Klinger, Sonia; Thorens, Bernard; Naamane, Najib; Eizirik, Decio L.; Marselli, Lorella; Bugliani, Marco; Marchetti, Piero; Lucas, Stephanie; Holm, Cecilia; Jongeneel, C. Victor; Xenarios, Ioannis (2010) EuroDia: a beta-cell gene expression resource. Database baq024.
  22. Schupbach, Thierry; Xenarios, Ioannis; Bergmann, Sven; Kapur, Karen (2010) FastEpistasis: a high performance computing solution for quantitative trait epistasis. Bioinformatics 26 (11) 1468-1469.
  23. Liechti, Robin; Gleizes, Anne; Kuznetsov, Dmitry; Bougueleret, Lydie; Le Mercier, Philippe; Bairoch, Amos; Xenarios, Ioannishttp://openflu.vital-it.ch (2010) OpenFluDB, a database for human and animal influenza virus. Database baq004.
  24. Jungo, Florence; Estreicher, Anne; Bairoch, Amos; Bougueleret, Lydie; Xenarios, Ioannis (2010) Animal Toxins: How is Complexity Represented in Databases?. Toxins 2 (12) 262-282.
  25. Santuari, Luca; Pradervand, Sylvain; Amiguet-Vercher, Amelia-Maria; Thomas, Jerôme; Dorcey, Eavan; Harshman, Keith; Xenarios, Ioannis; Juenger, Thomas E.; Hardtke, Christian S. (2010) Substantial deletion overlap among divergent Arabidopsis genomes revealed by intersection of short reads and tiling arrays. Genome Biol. 11 (1) R4.
  26. Guex, Nicolas; Migliavacca, Eugenia; Xenarios, Ioannis (2010) Multiple Imputations Applied to the DREAM3 Phosphoproteomics Challenge: A Winning Strategy. PLoS ONE 5 (1) e8012.
  27. Berardini, Tanya Z.; Li, Donghui; Huala, Eva; Bridges, Susan; Burgess, Shane; McCarthy, Fiona; Carbon, Seth; Lewis, Suzanna E.; Mungall, Christopher J.; Abdulla, Amina; Wood, Valerie; Feltrin, Erika; Valle, Giorgio; Chisholm, Rex L.; Fey, Petra; Gaudet, Pascale; Kibbe, Warren; Basu, Siddhartha; Bushmanova, Yulia; Eilbeck, Karen; Siegele, Deborah A.; McIntosh, Brenley; Renfro, Daniel; Zweifel, Adrienne; Hu, James C.; Ashburner, Michael; Tweedie, Susan; Alam-Faruque, Yasmin; Apweiler, Rolf; Auchinchloss, Andrea; Bairoch, Amos; Barrell, Daniel; Binns, David; Blatter, Marie-Claude; Bougueleret, Lydie; Boutet, Emmanuel; Breuza, Lionel; Bridge, Alan; Browne, Paul; Chan, Wei Mun; Coudert, Elizabeth; Daugherty, Louis; Dimmer, Emily; Eberhardt, Ruth; Estreicher, Anne; Famiglietti, Livia; Ferro-Rojas, Serenella; Feuermann, Marc; Foulger, Rebecca; Gruaz-Gumowski, Nadine; Hinz, Ursula; Huntley, Rachael; Jimenez, Silvia; Jungo, Florence; Keller, Guillaume; Laiho, kati; Legge, Duncan; Lemercier, Philippe; Lieberherr, Damien; Magrane, Michele; O\'Donovan, Claire; Pedruzzi, Ivo; Poux, Sylvain; Rivoire, Catherine; Roechert, Bernd; Sawford, Tony; Schneider, Michel; Stanley, Eleanor; Stutz, Andre; Sundaram, Shyamala; tognolli, Michael; Xenarios, Ioannis; Harris, Midori A.; Deegan, Jennifer I.; Ireland, Amelia; Lomax, Jane; Jaiswal, Pankaj; Chibucos, Marcus; Gwinn, Michelle; Wortman, Jennifer; Hannick, Linda; Madupu, Ramana; Botstein, David; Dolinski, Kara; Livstone, Michael S.; Oughtred, Rose; blake, Judith A.; Bult, Carol; Diehl, Alexander D.; Dolan, Mary; Drabkin, Harold; Eppig, Janan T.; Hill, David P.; Ni, Li; Ringwald, Martin; Sitnikov, Dmitry; Collmer, Candace; Torto-Alalibo, Trudy; Laulederkind, Stan; Shimoyama, Mary; Twigger, Simon; D\'Eustachio, Peter; Matthews, Lisa; Balakrishnan, Rama; Binkley, Gail; Cherry, J. Michael; Christie, Karen R.; Costanzo, Maria C.; Engel, Stacia R.; Fisk, Dianna, G.; Hirschman, Jodi E.; Hitz, Benjamin C.; Hong, Eurie L.; Krieger, Cynthia J.; Miyasato, Stuart R.; Nash, Robert S.; Park, Julie; Skrzypek, Marek, S.; Weng, Shuai; Wong, Edith D.; Aslett, martin; Chan, Juancarlos; Kishore, Ranjana; Sternberg, Paul; Van Auken, Kimberly; Khodiyar, Varsha K.; Lovering, Ruth C.; Talmud, Philippa J.; Howe, Doug; Westerfield, Monte (2010) The Gene Ontology in 2010: extensions and refinements. Nucleic Acids Res. 38 (suppl 1) D331-D335.
  28. Apweiler, Rolf; Jesus Martin, Maria; O\'Donovan, Claire; Magrane, Michele; Alam-Faruque, Yasmin; Antunes, Ricardo; Barrell, Daniel; Bely, Benoit; Bingley, Mark; Binns, David; Bower, Lawrence; Browne, Paul; Chan, Wei Mun; Dimmer, Emily; Eberhardt, Ruth; Fedotov, Alexander; Foulger, Rebecca; Garavelli, John; Huntley, Rachael; Jacobsen, Julius; Kleen, Michael; Laiho, Kati; Leinonen, Rasko; Legge, Duncan; Lin, Quan; Liu, Wudong; Luo, Jie; Orchard, Sandra; Patient, Samuel; Poggioli, Diego; Pruess, Manuela; Corbett, Matt; di Martino, Giuseppe; Donnelly, Mike; van Rensburg, Pieter; Bairoch, Amos; Bougueleret, Lydie; Xenarios, Ioannis; Altairac, Severine; Auchincloss, Andrea; Argoud-Puy, Ghislaine; Axelsen, Kristian; Baratin, Delphine; Blatter, Marie-Claude; Boeckmann, Brigitte; Bolleman, Jerven; Bollondi, Laurent; Boutet, Emmanuel; Quintaje, Silvia Braconi; Breuza, Lionel; Bridge, Alan; deCastro, Edouard; Ciapina, Luciane; Coral, Danielle; Coudert, Elisabeth; Cusin, isabelle; Delbard, Gwennaelle; Doche, Mikael; Dornevil, Dolnide; Roggli, Paula Duek; Duvaud, Severine; Estreicher, Anne; Famiglietti, Livia; Feuermann, Marc; Gehant, Sebastien; Farriol-Mathis, Natalie; Ferro, Serenella; Gasteiger, Elisabeth; Gateau, Alain; Gerritsen, Vivienne; Gos, Arnaud; Gruaz-Gumowski, Nadine; Hinz, Ursula; Hula, Chantal; Hulo, Nicolas; James, Janet; Jimenez, Silvia; Jungo, Florence; Kappler, thomas; Keller, Guillaume; Lachaize, Corinne; Lane-Guermonprez, Lydie; Langendijk-Genevauz, Petra; Lara, Vicente; Lemercier, Philippe; Lieberherr, Damien; de Oliveira Lima, Tania; Mangold, Veronique; Martin, Xavier; Masson, Patrick; Moinat, Madelaine; Morgat, Anne; Mottaz, Anais; Paesano, Salvo; Pedruzzi, ivo; Pilbout, Sandrine; Pillet, Violaine; Poux, Sylvain; Pozzato, Monica; Redaschi, Nicole; Rivoire, Catherine; Roechert, Bernd; Schneider, Michel; Sigrist, Christian; Sonesson, Karin; Staehli, Sylvie; Stanley, Eleanor; Stutz, Andre; Sundaram, Shyamala; Tognolli, Michael; Verbregue, Laure; Veuthey, Anne-Lise; Yip, Lina; Zuletta, Laure; Wu, Cathy; Arighi, Cecilia; Arminski, Leslie; Barker, Winona; Chen, Chuming; Chen, Yongxing; Hu, Zhang-Zhi; Huang, Hongzhan; Mazumder, Raja; McGarvey, Peter; Natale, Darren A.; Nchoutmboube, Jules; Petrova, Natalia; Subramanian, Nisha; Suzek, Baris E.; Ugochukwu, Uzoamaka; Vasudevan, Sona; Vinayaka, C. R.; Yeh, Lai Su; Zhang, Jian (2010) The Universal Protein Resource (UniProt) in 2010. Nucleic Acids Res. 38 (suppl 1) D142-D148.
  29. Dominiczak, Anna F.; Herget-Rosenthal, Stefan; Delles, Christian; Fliser, Danilo; Fournier, Isabelle; Graber, Armin; Girolami, Mark; Holmes, Elaine; Lang, Florian; Molina, Franck; Nicholson, Jeremy; Remuzzi, Giuseppe; Rossing, Peter; Rudolph, Karl Lenhard; Wolkenhauer, Olaf; Xenarios, Ioannis; Zubarev, Roman; Zubov, Dimitry; Vlahou, Antonia; Schanstra, Joost P. (2010) Systems biology to battle vascular disease. Nephrol., Dial., Transplant. 25 (4) 1019-1022.

2009

  1. Morel, Etienne; Parton, Robert G.; Gruenberg, Jean (2009) Annexin A2-Dependent Polymerization of Actin Mediates Endosome Biogenesis. Dev. Cell 16 (3) 445-457.
  2. Castillon, Guillaume A.; Watanabe, Reika; Taylor, Marcia; Schwabe, Tatjana M. E.; Riezman, Howard (2009) Concentration of GPI-Anchored Proteins upon ER Exit in Yeast. Traffic 10 (2) 186-200.
  3. Guan, Xue Li; Souza, Cleiton M.; Pichler, Harald; Dewhurst, Gisèle; Schaad, Olivier; Kajiwara, Kentaro; Wakabayashi, Hirotomo; Ivanova, Tania; Castillon, Guillaume A.; Piccolis, Manuele; Abe, Fumiyoshi; Loewith, Robbie; Funato, Kouichi; Wenk, Markus R.; Riezman, Howard (2009) Functional Interactions between Sphingolipids and Sterols in Biological Membranes Regulating Cell Physiology. Mol. Biol. Cell 20 (7) 2083-2095.
  4. Menuz, Vincent; Howell, Kate S.; Gentina, Sébastien; Epstein, Sharon; Riezman, Isabelle; Fornallaz-Mulhauser, Monique; Hengartner, Michael O.; Gomez, Marie; Riezman, Howard; Martinou, Jean-Claude (2009) Protection of C. elegans from Anoxia by HYL-2 Ceramide Synthase. Science 324 (5925) 381-384.
  5. Hagedorn, Monica; Rohde, Kyle H.; Russell, David G.; Soldati, Thierry (2009) Infection by Tubercular Mycobacteria Is Spread by Nonlytic Ejection from Their Amoeba Hosts. Science 323 (5922) 1729-1733.
  6. Dieckmann, Régis Soldati, Thierry (2009) Phagosome Proteomes Unite! A Virtual Model of Maturation as a Tool to Study Pathogen-Induced Changes. Intracellular Niches of Microbes: A Pathogens Guide Through the Host Cell (Chapter 7)Ed. Schaible, Ulrich E. Haas, AlbertWiley-VCH. (Weinheim). 107-124.
  7. Hagedorn, Monica Soldati, Thierry (2009) Mycobacterium Marinum. Intracellular Niches of Microbes: A Pathogens Guide Through the Host Cell (Chapter 25)Ed. Schaible, Ulrich E. Haas, AlbertWiley-VCH. (Weinheim). 455-467.
  8. González-Gaitán, Marcos; Gruenberg, Jean; Halazonetis, Thanos; Laemmli, Ulrich K.; Matter, Jean-Marc; Riezman, Howard; Schaad, Olivier; Soldati, Thierry; Watanabe, Reika (2009) The Biochemistry Department of the University of Geneva: Understanding the Molecular Basis and Function of Intracellular Organization. CHIMIA 63 (12) 830-834.
  9. Le Martelot, Gwendal; Claudel, Thierry; Gatfield, David; Schaad, Olivier; Kornmann, Benoît; Sasso, Giuseppe Lo; Moschetta, Antonio; Schibler, Ueli; Vidal-Puig, Antonio J. (2009) REV-ERBα Participates in Circadian SREBP Signaling and Bile Acid Homeostasis. PLoS Biol. 7 (9) e1000181.
  10. Skowronska-Krawczyk, Dorota; Chiodini, Florence; Ebeling, Martin; Alliod, Christine; Kundzewicz, Adam; Castro, Diogo; Ballivet, Marc; Guillemot, François; Matter-Sadzinski, Lidia; Matter, Jean-Marc (2009) Conserved regulatory sequences in Atoh7 mediate non-conserved regulatory responses in retina ontogenesis. Development 136 (22) 3767-3777.
  11. Skowronska-Krawczyk, Dorota; Chiodini, Florence; Ebeling, Martin; Alliod, Christine; Kundzewicz, Adam; Castro, Diogo; Ballivet, Marc; Guillemot, François; Matter-Sadzinski, Lidia; Matter, Jean-Marc (2009) Conserved regulatory sequences in Atoh7 mediate non-conserved regulatory responses in retina ontogenesis. Development 136 (22) 3767-3777.
  12. González-Gaitán, Marcos; Gruenberg, Jean; Halazonetis, Thanos; Laemmli, Ulrich K.; Matter, Jean-Marc; Riezman, Howard; Schaad, Olivier; Soldati, Thierry; Watanabe, Reika (2009) The Biochemistry Department of the University of Geneva: Understanding the Molecular Basis and Function of Intracellular Organization. CHIMIA 63 (12) 830-834.
  13. Castillon, Guillaume A.; Watanabe, Reika; Taylor, Marcia; Schwabe, Tatjana M. E.; Riezman, Howard (2009) Concentration of GPI-Anchored Proteins upon ER Exit in Yeast. Traffic 10 (2) 186-200.
  14. Wartlick, Ortrud; Kicheva, Anna; Gonzalez-Gaitan, Marcos (2009) Morphogen Gradient Formation. Cold Spring Harbor Perspect. Biol. 1 (3) a001255-a001255.
  15. Fürthauer, Maximilian; González-Gaitán, Marcos (2009) Endocytosis and mitosis: A two-way relationship. Cell Cycle 8 (20) 3311-3318.
  16. Fürthauer, Maximilian; González-Gaitán, Marcos (2009) Endocytosis, asymmetric cell division, stem cells and cancer: Unus pro omnibus, omnes pro uno. Mol. Oncol. 3 (4) 339-353.
  17. González-Gaitán, Marcos; Gruenberg, Jean; Halazonetis, Thanos; Laemmli, Ulrich K.; Matter, Jean-Marc; Riezman, Howard; Schaad, Olivier; Soldati, Thierry; Watanabe, Reika (2009) The Biochemistry Department of the University of Geneva: Understanding the Molecular Basis and Function of Intracellular Organization. CHIMIA 63 (12) 830-834.
  18. Bittig, T.; Wartlick, Ortrud; González-Gaitán, Marcos; Jülicher, Frank (2009) Quantification of growth asymmetries in developing epithelia. Eur. Phys. J. E 30 (1) 93-99.
  19. Oates, Andrew C.; Gorfinkiel, Nicole; González-Gaitán, Marcos; Heisenberg, Carl-Philipp (2009) Quantitative approaches in developmental biology. Nat. Rev. Genet. 10 (8) 517-530.
  20. Fürthauer, Maximilian; González-Gaitán, Marcos (2009) Endocytic Regulation of Notch Signalling During Development. Traffic 10 (7) 792-802.
  21. Fürthauer, Maximilian; González-Gaitán, Marcos (2009) Tales of 1001 Functions: The Multiple Roles of Membrane Trafficking in Development. Traffic 10 (7) 781-782.
  22. Coumailleau, Franck; Fürthauer, Maximilian; Knoblich, J. A.; González-Gaitán, Marcos (2009) Directional Delta and Notch trafficking in Sara endosomes during asymmetric cell division. Nature 458 (7241) 1051-1055.
  23. Peralta, Susana; Gómez, Yolanda; González-Gaitán, Marcos A.; Moya, Fernando; Vinós, Javier (2009) Notch down-regulation by endocytosis is essential for pigment cell determination and survival in the Drosophila retina. Mech. Dev. 126 (3-4) 256-269.
  24. González-Gaitán, Marcos; Gruenberg, Jean; Halazonetis, Thanos; Laemmli, Ulrich K.; Matter, Jean-Marc; Riezman, Howard; Schaad, Olivier; Soldati, Thierry; Watanabe, Reika (2009) The Biochemistry Department of the University of Geneva: Understanding the Molecular Basis and Function of Intracellular Organization. CHIMIA 63 (12) 830-834.
  25. Gruenberg, Jean (2009) Viruses and endosome membrane dynamics. Curr. Opin. Cell Biol. 21 (4) 582-588.
  26. Falguières, Thomas; Luyet, Pierre-Philippe; Gruenberg, Jean (2009) Molecular assemblies and membrane domains in multivesicular endosome dynamics. Exp. Cell Res. 315 (9) 1567-1573.
  27. Morel, Etienne; Gruenberg, Jean (2009) Annexin A2 Binding to Endosomes and Functions in Endosomal Transport Are Regulated by Tyrosine 23 Phosphorylation. J. Biol. Chem. 284 (3) 1604-1611.
  28. González-Gaitán, Marcos; Gruenberg, Jean; Halazonetis, Thanos; Laemmli, Ulrich K.; Matter, Jean-Marc; Riezman, Howard; Schaad, Olivier; Soldati, Thierry; Watanabe, Reika (2009) The Biochemistry Department of the University of Geneva: Understanding the Molecular Basis and Function of Intracellular Organization. CHIMIA 63 (12) 830-834.
  29. Castillon, Guillaume A. Riezman, Howard (2009) Transport of GPI-Anchored Proteins: Connections to Sphingolipid and Sterol Transport. Glycosylphosphatidylinositol (GPI) Anchoring of Proteins Vol. 26 (Chapter 13)Ed. Menon, Anant Kumar Kinoshita, Taroh Orlean, Peter Tamanoi, FuyuhikoThe Enzymes. Elsevier. 269-288.
  30. González-Gaitán, Marcos; Gruenberg, Jean; Halazonetis, Thanos; Laemmli, Ulrich K.; Matter, Jean-Marc; Riezman, Howard; Schaad, Olivier; Soldati, Thierry; Watanabe, Reika (2009) The Biochemistry Department of the University of Geneva: Understanding the Molecular Basis and Function of Intracellular Organization. CHIMIA 63 (12) 830-834.
  31. Deshusses, Jacques; Riezman, Howard (2009) History of Biochemistry at the University of Geneva: From the Boulevard des Philosophes to Quai Ernest-Ansermet. CHIMIA 63 (12) 826-829.
  32. Hannich, J. Thomas; Entchev, Eugeni V.; Mende, Fanny; Boytchev, Hristio; Martin, René; Zagoriy, Vyacheslav; Theumer, Gabriele; Riezman, Isabelle; Riezman, Howard; Knölker, Hans-Joachim; Kurzchalia, Teymuras V. (2009) Methylation of the Sterol Nucleus by STRM-1 Regulates Dauer Larva Formation in Caenorhabditis elegans. Dev. Cell 16 (6) 833-843.
  33. González-Gaitán, Marcos; Gruenberg, Jean; Halazonetis, Thanos; Laemmli, Ulrich K.; Matter, Jean-Marc; Riezman, Howard; Schaad, Olivier; Soldati, Thierry; Watanabe, Reika (2009) The Biochemistry Department of the University of Geneva: Understanding the Molecular Basis and Function of Intracellular Organization. CHIMIA 63 (12) 830-834.
  34. Guan, Xue Li; Souza, Cleiton M.; Pichler, Harald; Dewhurst, Gisèle; Schaad, Olivier; Kajiwara, Kentaro; Wakabayashi, Hirotomo; Ivanova, Tania; Castillon, Guillaume A.; Piccolis, Manuele; Abe, Fumiyoshi; Loewith, Robbie; Funato, Kouichi; Wenk, Markus R.; Riezman, Howard (2009) Functional Interactions between Sphingolipids and Sterols in Biological Membranes Regulating Cell Physiology. Mol. Biol. Cell 20 (7) 2083-2095.
  35. Gatfield, David; Le Martelot, Gwendal; Vejnar, Charles E.; Gerlach, Daniel; Schaad, Olivier; Fleury-Olela, Fabienne; Ruskeepää, Anna-Liisa; Oresic, Matej; Esau, Christine C.; Zdobnov, Evgeny M.; Schibler, Ueli (2009) Integration of microRNA miR-122 in hepatic circadian gene expression. Development 23 (11) 1313-1326.
  36. Papaioannou, Marilena D.; Pitetti, Jean-Luc; Ro, Seungil; Park, Chanjae; Aubry, Florence; Schaad, Olivier; Vejnar, Charles E.; Kühne, Francoise; Descombes, Patrick; Zdobnov, Evgeny M.; McManus, Michael T.; Guillou, Florian; Harfe, Brian D.; Yan, Wei; Jégou, Bernard; Nef, Serge (2009) Sertoli cell Dicer is essential for spermatogenesis in mice. Dev. Biol. 326 (1) 250-259.
  37. Ramirez, Jean-Marie; Schaad, Olivier; Durual, Stephane; Cossali, Dominique; Docquier, Mylène; Beris, Photis; Descombes, Patrick; Matthes, Thomas (2009) Growth differentiation factor 15 production is necessary for normal erythroid differentiation and is increased in refractory anaemia with ring-sideroblasts. Br. J. Haematol. 144 (2) 251-262.
  38. Deshusses, Jacques; Riezman, Howard (2009) History of Biochemistry at the University of Geneva: From the Boulevard des Philosophes to Quai Ernest-Ansermet. CHIMIA 63 (12) 826-829.
  39. González-Gaitán, Marcos; Gruenberg, Jean; Halazonetis, Thanos; Laemmli, Ulrich K.; Matter, Jean-Marc; Riezman, Howard; Schaad, Olivier; Soldati, Thierry; Watanabe, Reika (2009) The Biochemistry Department of the University of Geneva: Understanding the Molecular Basis and Function of Intracellular Organization. CHIMIA 63 (12) 830-834.
  40. Gattiker, Alexandre; Hermida, Leandro; Liechti, Robin; Xenarios, Ioannis; Collin, Olivier; Rougemont, Jacques; Primig, Michael (2009) MIMAS 3.0 is a Multiomics Information Management and Annotation System. BMC Bioinf. 10 (1) 151.
  41. Gattiker, Alexandre; Dessimoz, Christophe; Schneider, Adrian; Xenarios, Ioannis; Pagni, Marco; Rougemont, Jacques (2009) The Microbe browser for comparative genomics. Nucleic Acids Res. 37 (suppl 2) W296-W299.
  42. Kahlem, Pascal; Clegg, Andrew; Reisinger, Florian; Xenarios, Ioannis; Hermjakob, Henning; Orengo, Christine; Birney, Ewan (2009) ENFIN – A European network for integrative systems biology. C. R. Biol. 332 (11) 1050-1058.
  43. Bugliani, Marco; Masini, Matilde; Liechti, Robin; Marselli, Lorella; Xenarios, Ioannis; Boggi, Ugo; Filipponi, Franco; Masiello, Pellegrino; Marchetti, Piero (2009) The direct effects of tacrolimus and cyclosporin A on isolated human islets: A functional, survival and gene expression study. Islets 1 (2) 106-110.
  44. Martin, Olivier; Valsesia, Armand; Telenti, Amalio; Xenarios, Ioannis; Stevenson, Brian J. (2009) AssociationViewer: a scalable and integrated software tool for visualization of large-scale variation data in genomic context. Bioinformatics 25 (5) 662-663.
  45. Garg, Abhishek; Mohanram, Kartik; Di Cara, Alessandro; De Micheli, Giovanni; Xenarios, Ioannis (2009) Modeling stochasticity and robustness in gene regulatory networks. Bioinformatics 25 (12) i101-i109.
  46. Ortiz, Millan; Guex, Nicolas; Patin, Etienne; Martin, Olivier; Xenarios, Ioannis; Ciuffi, Angela; Quintana-Murci, Lluis; Telenti, Amalio (2009) Evolutionary Trajectories of Primate Genes Involved in HIV Pathogenesis. Mol. Biol. Evol. 26 (12) 2865-2875.
  47. Lenz, Martin; Morlot, Sandrine; Roux, Aurélien (2009) Mechanical requirements for membrane fission: Common facts from various examples. FEBS Lett. 583 (23) 3839-3846.

2008

  1. Kaksonen, Marko (2008) Taking apart the endocytic machinery. J. Cell Biol. 180 (6) 1059-1060.
  2. Watanabe, Reika; Castillon, Guillaume A.; Meury, Anja; Riezman, Howard (2008) The presence of an ER exit signal determines the protein sorting upon ER exit in yeast. Biochem. J. 414 (2) 237-245.
  3. Gonzalez-Gaitan, Marcos (2008) The Garden of Forking Paths: Recycling, Signaling, and Degradation. Dev. Cell 15 (2) 172-174.
  4. Coumailleau, Franck; González-Gaitán, Marcos (2008) From endocytosis to tumors through asymmetric cell division of stem cells. Curr. Opin. Cell Biol. 20 (4) 462-469.
  5. Bollenbach, Tobias; Pantazis, Periklis; Kicheva, Anna; Bökel, Christian; González-Gaitán, Marcos; Jülicher, Frank (2008) Precision of the Dpp gradient. Development 135 (6) 1137-1146.
  6. Kicheva, Anna; González-Gaitán, Marcos (2008) The Decapentaplegic morphogen gradient: a precise definition. Curr. Opin. Cell Biol. 20 (2) 137-143.
  7. Luyet, Pierre-Philippe; Falguières, Thomas; Pons, Véronique; Pattnaik, Asit K.; Gruenberg, Jean (2008) The ESCRT-I Subunit TSG101 Controls Endosome-to-Cytosol Release of Viral RNA. Traffic 9 (12) 2279-2290.
  8. Falguieres, Thomas; Luyet, Pierre-Philippe; Bissig, Christin; Scott, Cameron C.; Velluz, Marie-Claire; Gruenberg, Jean (2008) In Vitro Budding of Intralumenal Vesicles into Late Endosomes Is Regulated by Alix and Tsg101. Mol. Biol. Cell 19 (11) 4942-4955.
  9. Pons, Véronique; Luyet, Pierre-Philippe; Morel, Etienne; Abrami, Laurence; van der Goot, F. Gisou; Parton, Robert G; Gruenberg, Jean; Pfeffer, Suzanne (2008) Hrs and SNX3 Functions in Sorting and Membrane Invagination within Multivesicular Bodies. PLoS Biol. 9 (9) 1942-1956.
  10. Cataldo, Anne M.; Mathews, Paul M.; Boiteau, Anne Boyer; Hassinger, Linda C.; Peterhoff, Corrinne M.; Jiang, Ying; Mullaney, Kerry; Neve, Rachael L.; Gruenberg, Jean; Nixon, Ralph A. (2008) Down Syndrome Fibroblast Model of Alzheimer-Related Endosome Pathology. Am. J. Pathol. 173 (2) 370-384.
  11. Mitrovic, Sandra; Ben-Tekaya, Houchaima; Koegler, Eva; Gruenberg, Jean; Hauri, Hans-Peter (2008) The Cargo Receptors Surf4, Endoplasmic Reticulum-Golgi Intermediate Compartment (ERGIC)-53, and p25 Are Required to Maintain the Architecture of ERGIC and Golgi. Mol. Biol. Cell 19 (5) 1976-1990.
  12. Heng, Julian Ik-Tsen; Nguyen, Laurent; Castro, Diogo S.; Zimmer, Céline; Wildner, Hendrik; Armant, Olivier; Skowronska-Krawczyk, Dorota; Bedogni, Francesco; Matter, Jean-Marc; Hevner, Robert; Guillemot, François (2008) Neurogenin 2 controls cortical neuron migration through regulation of Rnd2. Nature 455 (7209) 114-118.
  13. Watanabe, Reika; Castillon, Guillaume A.; Meury, Anja; Riezman, Howard (2008) The presence of an ER exit signal determines the protein sorting upon ER exit in yeast. Biochem. J. 414 (2) 237-245.
  14. Mukhopadhyay, Debdyuti; Howell, Kate S.; Riezman, Howard; Capitani, Guido (2008) Identifying Key Residues of Sphinganine-1-phosphate Lyase for Function in Vivo and in Vitro. J. Biol. Chem. 283 (29) 20159-20169.
  15. Kajiwara, Kentaro; Watanabe, Reika; Pichler, Harald; Ihara, Kensuke; Murakami, Suguru; Riezman, Howard; Funato, Kouichi (2008) Yeast ARV1 Is Required for Efficient Delivery of an Early GPI Intermediate to the First Mannosyltransferase during GPI Assembly and Controls Lipid Flow from the Endoplasmic Reticulum. Mol. Biol. Cell 19 (5) 2069-2082.
  16. Idrissi, Fatima-Zahra; Grötsch, Helga; Fernández-Golbano, Isabel M.; Presciatto-Baschong, Cristina; Riezman, Howard; Geli, María-Isabel (2008) Distinct acto/myosin-I structures associate with endocytic profiles at the plasma membrane. J. Cell Biol. 180 (6) 1219-1232.
  17. Aguilera-Romero, Auxiliadora; Kaminska, Joanna; Spang, Anne; Riezman, Howard; Muñiz, Manuel (2008) The yeast p24 complex is required for the formation of COPI retrograde transport vesicles from the Golgi apparatus. J. Cell Biol. 13 (4) 5539-720.
  18. te Welscher, Yvonne M.; ten Napel, Hendrik H.; Balagué, Miriam Masià; Souza, Cleiton M.; Riezman, Howard; de Kruijff, Ben; Breukink, Eefjan (2008) Natamycin Blocks Fungal Growth by Binding Specifically to Ergosterol without Permeabilizing the Membrane. J. Biol. Chem. 283 (10) 6393-6401.
  19. Cosson, Pierre; Soldati, Thierry (2008) Eat, kill or die: when amoeba meets bacteria. Curr. Opin. Microbiol. 11 (3) 271-276.
  20. Dieckmann, Régis Gopaldass, Navin Escalera, Caroline Soldati, Thierry (2008) Maturation Changes in Purified Phagosomes. Autophagosome and Phagosome Vol. 445Ed. Deretic, VojoMethods in Molecular Biology. Humana Press. 327-337.
  21. Kajiwara, Kentaro; Watanabe, Reika; Pichler, Harald; Ihara, Kensuke; Murakami, Suguru; Riezman, Howard; Funato, Kouichi (2008) Yeast ARV1 Is Required for Efficient Delivery of an Early GPI Intermediate to the First Mannosyltransferase during GPI Assembly and Controls Lipid Flow from the Endoplasmic Reticulum. Mol. Biol. Cell 19 (5) 2069-2082.
  22. Haruki, Hirohito; Nishikawa, Junichi; Laemmli, Ulrich K. (2008) The Anchor-Away Technique: Rapid, Conditional Establishment of Yeast Mutant Phenotypes. Mol. Cell 31 (6) 925-932.
  23. Pons, Véronique; Luyet, Pierre-Philippe; Morel, Etienne; Abrami, Laurence; van der Goot, F. Gisou; Parton, Robert G; Gruenberg, Jean; Pfeffer, Suzanne (2008) Hrs and SNX3 Functions in Sorting and Membrane Invagination within Multivesicular Bodies. PLoS Biol. 9 (9) 1942-1956.
  24. Garg, Abhishek; Di Cara, Alessandro; Xenarios, Ioannis; Mendoza, Luis; De Micheli, Giovanni (2008) Synchronous versus asynchronous modeling of gene regulatory networks. Bioinformatics 24 (17) 1917-1925.
  25. Taylor, Chris F.; Binz, Pierre-Alain; Aebersold, Ruedi; Affolter, Michel; Barkovich, Robert; Deutsch, Eric W.; Horn, David M.; Hühmer, Andreas; Kussmann, Martin; Lilley, Kathryn; Macht, Marcus; Mann, Matthias; Müller, Dieter; Neubert, Thomas A.; Nickson, Janice; Patterson, Scott D.; Raso, Roberto; Resing, Kathryn; Seymour, Sean L.; Tsugita, Akira; Xenarios, Ioannis; Zeng, Rong; Julian, Randall K. (2008) Correspondence: Guidelines for reporting the use of mass spectrometry in proteomics. Nat. Biotechnol. 26 (8) 860-861.
  26. Moretti, Sébastien; Wilm, Andreas; Higgins, Desmond G.; Xenarios, Ioannis; Notredame, Cédric (2008) R-Coffee: a web server for accurately aligning noncoding RNA sequences. Nucleic Acids Res. 36 (suppl 2) W10-W13.
  27. Favre-Kontula, Linda; Sattonnet-Roche, Pascale; Magnenat, Edith; Proudfoot, Amanda E. I.; Boschert, Ursula; Xenarios, Ioannis; Vilbois, Francis; Antonsson, Bruno (2008) Detection and identification of plasma proteins that bind GlialCAM using ProteinChip™ Arrays, SELDI-TOF MS, and nano-LC MS/MS. Proteomics 8 (2) 378-388.
  28. Rougemont, Jacques; Amzallag, Arnaud; Iseli, Christian; Farinelli, Laurent; Xenarios, Ioannis; Naef, Felix (2008) Probabilistic base calling of Solexa sequencing data. BMC Bioinf. 9 (1) 431.
  29. Kundzewicz, Adam Munier, Francis Matter, Jean-Marc (2008) Expression and Cell Compartmentalization of EFEMP1, a Protein Associated with Malattia Leventinese. Recent Advances in Retinal Degeneration Vol. 613 (Part VI)Ed. Anderson, Robert E. LaVail, Matthew M. Hollyfield, Joe G.Advances in Experimental Medicine and Biology. Springer. (New York). 277-282.
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  31. Krauss, Michael; Jia, Jun-Yong; Roux, Aurélien; Beck, Rainer; Wieland, Felix T.; De Camilli, Pietro; Haucke, Volker (2008) Arf1-GTP-induced Tubule Formation Suggests a Function of Arf Family Proteins in Curvature Acquisition at Sites of Vesicle Budding. J. Biol. Chem. 283 (41) 27717-27723.
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  33. Van Eyk, Jennifer E. Dunn, Michael J. Vaezzadeh, Ali R. Zimmermann-Ivol, Catherine G. Deshusses, Jacques Scherl, Alexander Hochstrasser, Denis F. (2008) IEF Analysis of Peptides for Biomarkers Discovery. Clinical Proteomics: From Diagnosis to Therapy (Chapter 5)Ed. Van Eyk, Jennifer E. Dunn, Michael J.Wiley-VCH Verlag GmbH & Co. KGaA. (Weinheim, Germany). 61-71.

2007

  1. Sun, Yidi; Carroll, Susheela; Kaksonen, Marko; Toshima, Junko Y.; Drubin, David G. (2007) PtdIns(4,5)P2 turnover is required for multiple stages during clathrin- and actin-dependent endocytic internalization. J. Cell Biol. 177 (2) 355-367.
  2. Pellissier, François; Gerber, Alan; Bauer, Christoph; Ballivet, Marc; Ossipow, Vincent (2007) The adhesion molecule Necl-3/SynCAM-2 localizes to myelinated axons, binds to oligodendrocytes and promotes cell adhesion. BMC Neurosci. 8 (1) 90.
  3. Hernandez, Julio; Matter-Sadzinski, Lidia; Skowronska-Krawczyk, Dorota; Chiodini, Florence; Alliod, Christine; Ballivet, Marc; Matter, Jean-Marc (2007) Highly Conserved Sequences Mediate the Dynamic Interplay of Basic Helix-Loop-Helix Proteins Regulating Retinogenesis. J. Biol. Chem. 282 (52) 37894-37905.
  4. Tirone, Fabiana; Cox, Jos A. (2007) NADPH oxidase 5 (NOX5) interacts with and is regulated by calmodulin. FEBS Lett. 581 (6) 1202-1208.
  5. Sbrissa, Diego; Ikonomov, Ognian C.; Fu, Zhiyao; Ijuin, Takeshi; Gruenberg, Jean; Takenawa, Tadaomi; Shisheva, Assia (2007) Core Protein Machinery for Mammalian Phosphatidylinositol 3,5-Bisphosphate Synthesis and Turnover That Regulates the Progression of Endosomal Transport. J. Biol. Chem. 282 (33) 23878-23891.
  6. Sobo, Komla; Chevallier, Julien; Parton, Robert G.; Gruenberg, Jean; van der Goot, F. Gisou; Valdivia, Raphael (2007) Diversity of Raft-Like Domains in Late Endosomes. PLoS ONE 2 (4) e391.
  7. Sobo, Komla; Le Blanc, Isabelle; Luyet, Pierre-Philippe; Fivaz, Marc; Ferguson, Charles; Parton, Robert G.; Gruenberg, Jean; van der Goot, F. Gisou; Valdivia, Raphael (2007) Late Endosomal Cholesterol Accumulation Leads to Impaired Intra-Endosomal Trafficking. PLoS ONE 2 (9) e851.
  8. Morel, Etienne; Gruenberg, Jean; Steinhardt, Richard (2007) The p11/S100A10 Light Chain of Annexin A2 Is Dispensable for Annexin A2 Association to Endosomes and Functions in Endosomal Transport. PLoS ONE 2 (10) e1118.
  9. Felberbaum-Corti, Michela; Morel, Etienne; Cavalli, Valeria; Vilbois, Francis; Gruenberg, Jean; Steinhardt, Richard (2007) The Redox Sensor TXNL1 Plays a Regulatory Role in Fluid Phase Endocytosis. PLoS ONE 2 (11) e1144.
  10. Luyet, Pierre-Philippe; Falguières, Thomas; Pons, Véronique; Gruenberg, Jean (2007) Endosomal Membrane Dynamics. J. Oral Biosci. 49 (4) 231-243.
  11. Dyer, Naomi; Rebollo, Elena; Dominguez, Paloma; Elkhatib, Nadia; Chavrier, Philippe; Daviet, Laurent; Gonzalez, Cayetano; Gonzalez-Gaitan, Marcos (2007) Spermatocyte cytokinesis requires rapid membrane addition mediated by ARF6 on central spindle recycling endosomes. Development 134 (24) 4437-4447.
  12. Pantazis, Periklis; González-Gaitán, Marcos (2007) Localized multiphoton photoactivation of paGFP in Drosophila wing imaginal discs. J. Biomed. Opt. 12 (4) 044004.
  13. Bollenbach, Tobias; Kruse, K.; Pantazis, Periklis; González-Gaitán, Marcos; Jülicher, Frank (2007) Morphogen transport in epithelia. Phys. Rev. E 75 (1) 011901.
  14. Kicheva, Anna; Pantazis, Periklis; Bollenbach, Tobias; Kalaidzidis, Yannis; Bittig, Thomas; Julicher, Frank; Gonzalez-Gaitan, Marcos (2007) Kinetics of Morphogen Gradient Formation. Science 315 (5811) 521-525.
  15. Riezman, Howard (2007) The Long and Short of Fatty Acid Synthesis. Cell 130 (4) 587-588.
  16. Urban, Jörg; Soulard, Alexandre; Huber, Alexandre; Lippman, Soyeon; Mukhopadhyay, Debdyuti; Deloche, Olivier; Wanke, Valeria; Anrather, Dorothea; Ammerer, Gustav; Riezman, Howard; Broach, James R.; De Virgilio, Claudio; Hall, Michael N.; Loewith, Robbie (2007) Sch9 Is a Major Target of TORC1 in Saccharomyces cerevisiae. Molecular Cell 26 (5) 663-674.
  17. Mukhopadhyay, Debdyuti; Riezman, Howard (2007) Proteasome-Independent Functions of Ubiquitin in Endocytosis and Signaling. Science 315 (5809) 201-205.
  18. Hagedorn, Monica; Soldati, Thierry (2007) Flotillin and RacH modulate the intracellular immunity of Dictyostelium to Mycobacterium marinum infection. Cell Microbiol. 9 (11) 2716-2733.
  19. Hagedorn, Monica; Soldati, Thierry (2007) Erratum: Flotillin and RacH modulate the intracellular immunity of Dictyostelium to Mycobacterium marinum infection. Cell Microbiol. 9 (12) 2984.
  20. Pino, Paco; Foth, Bernardo Javier; Kwok, Lai-Yu; Sheiner, Lilach; Schepers, Rebecca; Soldati, Thierry; Soldati-Favre, Dominique (2007) Dual Targeting of Antioxidant and Metabolic Enzymes to the Mitochondrion and the Apicoplast of Toxoplasma gondii. PLoS Pathog. 3 (8) 1092-1108.
  21. Kerrien, Samuel; Orchard, Sandra; Montecchi-Palazzi, Luisa; Aranda, Bruno; Quinn, Antony F; Vinod, Nisha; Bader, Gary D; Xenarios, Ioannis; Wojcik, Jérôme; Sherman, David; Tyers, Mike; Salama, John J; Moore, Susan; Ceol, Arnaud; Chatr-aryamontri, Andrew; Oesterheld, Matthias; Stümpflen, Volker; Salwinski, Lukasz; Nerothin, Jason; Cerami, Ethan; Cusick, Michael E; Vidal, Marc; Gilson, Michael; Armstrong, John; Woollard, Peter; Hogue, Christopher; Eisenberg, David; Cesareni, Gianni; Apweiler, Rolf; Hermjakob, Henning (2007) Broadening the horizon – level 2.5 of the HUPO-PSI format for molecular interactions. BMC Biol. 5 (1) 44.
  22. Pasquali, Christian; Bertschy-Meier, Dominique; Chabert, Christian; Curchod, Marie-Laure; Arod, Christian; Booth, Randy; Mechtler, Karl; Vilbois, Francis; Xenarios, Ioannis; Ferguson, Colin G.; Prestwich, Glenn D.; Camps, Montserrat; Rommel, Christian (2007) A Chemical Proteomics Approach to Phosphatidylinositol 3-Kinase Signaling in Macrophages. Mol. Cell. Proteomics 6 (11) 1829-1841.
  23. Taylor, Chris F.; Paton, Norman W.; Lilley, Kathryn S.; Binz, Pierre-Alain; Julian, Randall K.; Jones, Andrew R.; Zhu, Weimin; Apweiler, Rolf; Aebersold, Ruedi; Deutsch, Eric W.; Dunn, Michael J.; Heck, Albert J. R.; Leitner, Alexander; Macht, Marcus; Mann, Matthias; Martens, Lennart; Neubert, Thomas A.; Patterson, Scott D.; Ping, Peipei; Seymour, Sean L.; Souda, Puneet; Tsugita, Akira; Vandekerckhove, Joel; Vondriska, Thomas M.; Whitelegge, Julian P.; Wilkins, Marc R.; Xenarios, Ioannnis; Yates, John R.; Hermjakob, Henning (2007) The minimum information about a proteomics experiment (MIAPE). Nat. Biotechnol. 25 (8) 887-893.
  24. Orchard, Sandra; Salwinski, Lukasz; Kerrien, Samuel; Montecchi-Palazzi, Luisa; Oesterheld, Matthias; Stümpflen, Volker; Ceol, Arnaud; Chatr-aryamontri, Andrew; Armstrong, John; Woollard, Peter; Salama, John J.; Moore, Susan; Wojcik, Jérôme; Bader, Gary D.; Vidal, Marc; Cusick, Michael E.; Gerstein, Mark; Gavin, Anne-Claude; Superti-Furga, Giulio; Greenblatt, Jack; Bader, Joel; Uetz, Peter; Tyers, Mike; Legrain, Pierre; Fields, Stan; Mulder, Nicola; Gilson, Michael; Niepmann, Michael; Burgoon, Lyle; Rivas, Javier De Las; Prieto, Carlos; Perreau, Victoria M.; Hogue, Chris; Mewes, Hans-Werner; Apweiler, Rolf; Xenarios, Ioannis; Eisenberg, David; Cesareni, Gianni; Hermjakob, Henning (2007) The minimum information required for reporting a molecular interaction experiment (MIMIx). Nat. Biotechnol. 25 (8) 894-898.
  25. Di Cara, Alessandro; Garg, Abhishek; De Micheli, Giovanni; Xenarios, Ioannis; Mendoza, Luis (2007) Dynamic simulation of regulatory networks using SQUAD. BMC Bioinf. 8 (1) 462.
  26. Hernandez, Julio; Matter-Sadzinski, Lidia; Skowronska-Krawczyk, Dorota; Chiodini, Florence; Alliod, Christine; Ballivet, Marc; Matter, Jean-Marc (2007) Highly Conserved Sequences Mediate the Dynamic Interplay of Basic Helix-Loop-Helix Proteins Regulating Retinogenesis. J. Biol. Chem. 282 (52) 37894-37905.
  27. Del Bene, Filippo; Ettwiller, Laurence; Skowronska-Krawczyk, Dorota; Baier, Herwig; Matter, Jean-Marc; Birney, Ewan; Wittbrodt, Joachim (2007) In Vivo Validation of a Computationally Predicted Conserved Ath5 Target Gene Set. PLoS Genet. 427 (9) 1661-1671.
  28. Roux, Aurélien; Biais, Nicolas; Bassereau, Patricia (2007) Import-export dans la cellule. Pour la Science (355) 46-52.
  29. Kornmann, Benoit; Schaad, Olivier; Reinke, H.; Saini, C.; Schibler, Ueli (2007) Regulation of Circadian Gene Expression in Liver by Systemic Signals and Hepatocyte Oscillators. Cold Spring Harbor Symp. Quant. Biol. 72 319-330.
  30. Kornmann, Benoît; Schaad, Olivier; Bujard, Hermann; Takahashi, Joseph S.; Schibler, Ueli; O\'Rahilly, Steve (2007) System-Driven and Oscillator-Dependent Circadian Transcription in Mice with a Conditionally Active Liver Clock. PLoS Biol. 6 (2) e34.

2006

  1. Kaksonen, Marko; Drubin, David G. (2006) PALM Reading: Seeing the Future of Cell Biology at Higher Resolution. Dev. Cell 11 (4) 438-439.
  2. Liu, Jian; Kaksonen, Marko; Drubin, David G.; Oster, George (2006) Endocytic vesicle scission by lipid phase boundary forces. Proc. Natl. Acad. Sci. USA 103 (27) 10277-10282.
  3. Kaksonen, Marko; Toret, Christopher P.; Drubin, David G. (2006) Harnessing actin dynamics for clathrin-mediated endocytosis. Nat. Rev. Mol. Cell Biol. 7 (6) 404-414.
  4. Toshima, Junko Y.; Toshima, Jiro; Kaksonen, Marko; Martin, Adam C.; King, David S.; Drubin, David G. (2006) Spatial dynamics of receptor-mediated endocytic trafficking in budding yeast revealed by using fluorescent α-factor derivatives. Proc. Natl. Acad. Sci. USA 103 (15) 5793-5798.
  5. Schmid, Manfred; Arib, Ghislaine; Laemmli, Caroline; Nishikawa, Junichi; Durussel, Thérèse; Laemmli, Ulrich K. (2006) Nup-PI: The Nucleopore-Promoter Interaction of Genes in Yeast. Mol. Cell 21 (3) 379-391.
  6. Blattes, Roxane; Monod, Caroline; Susbielle, Guillaume; Cuvier, Olivier; Wu, Jian-hong; Hsieh, Tao-shih; Laemmli, Ulrich K; Käs, Emmanuel (2006) Displacement of D1, HP1 and topoisomerase II from satellite heterochromatin by a specific polyamide. EMBO J. 25 (11) 2397-2408.
  7. Gurcel, Laure; Abrami, Laurence; Girardin, Stephen; Tschopp, Jurg; van der Goot, F. Gisou (2006) Caspase-1 Activation of Lipid Metabolic Pathways in Response to Bacterial Pore-Forming Toxins Promotes Cell Survival. Cell 126 (6) 1135-1145.
  8. Abrami, Laurence; Leppla, Stephen H.; van der Goot, F. Gisou (2006) Receptor palmitoylation and ubiquitination regulate anthrax toxin endocytosis. J. Cell Biol. 86 (2) 266-320.
  9. Roux, Aurélien; Uyhazi, Katherine; Frost, Adam; De Camilli, Pietro (2006) GTP-dependent twisting of dynamin implicates constriction and tension in membrane fission. Nature 441 (7092) 528-531.
  10. Bökel, Christian; Schwabedissen, Anja; Entchev, Eugeni; Renaud, Olivier; Gonzalez-Gaitan, Marcos (2006) Sara Endosomes and the Maintenance of Dpp Signaling Levels Across Mitosis. Science 314 (5802) 1135-1139.
  11. Dudu, Veronica; Bittig, Thomas; Entchev, Eugeni; Kicheva, Anna; Jülicher, Frank; González-Gaitán, Marcos (2006) Erratum: Postsynaptic Mad Signaling at the Drosophila Neuromuscular Junction. Curr. Biol. 16 (12) 1256.
  12. Dudu, Veronica; Bittig, Thomas; Entchev, Eugeni; Kicheva, Anna; Jülicher, Frank; González-Gaitán, Marcos (2006) Postsynaptic Mad Signaling at the Drosophila Neuromuscular Junction. Curr. Biol. 16 (7) 625-635.
  13. Brissoni, Brian; Agostini, Laetitia; Kropf, Michel; Martinon, Fabio; Swoboda, Valentin; Lippens, Saskia; Everett, Helen; Aebi, Natalia; Janssens, Sophie; Meylan, Etienne; Felberbaum-Corti, Michela; Hirling, Harald; Gruenberg, Jean; Tschopp, Jürg; Burns, Kimberly (2006) Intracellular Trafficking of Interleukin-1 Receptor I Requires Tollip. Curr. Biol. 16 (22) 2265-2270.
  14. van der Goot, F. Gisou; Gruenberg, Jean (2006) Intra-endosomal membrane traffic. Trends Cell Biol. 16 (10) 514-521.
  15. Gruenberg, Jean; van der Goot, F. Gisou (2006) Toxoplasma: Guess Who's Coming to Dinner. Cell 125 (2) 226-228.
  16. Gruenberg, Jean; van der Goot, F. Gisou (2006) Mechanisms of pathogen entry through the endosomal compartments. Nat. Rev. Mol. Cell Biol. 7 (7) 495-504.
  17. Castro, Diogo S.; Skowronska-Krawczyk, Dorota; Armant, Olivier; Donaldson, Ian J.; Parras, Carlos; Hunt, Charles; Critchley, James A.; Nguyen, Laurent; Gossler, Achim; Göttgens, Berthold; Matter, Jean-Marc; Guillemot, François (2006) Proneural bHLH and Brn Proteins Coregulate a Neurogenic Program through Cooperative Binding to a Conserved DNA Motif. Dev. Cell 11 (6) 831-844.
  18. Kageyama-Yahara, Natsuko; Riezman, Howard (2006) Transmembrane topology of ceramide synthase in yeast. Biochem. J. 398 (3) 585-593.
  19. Meier, Karsten D.; Deloche, Olivier; Kajiwara, Kentaro; Funato, Kouichi; Riezman, Howard (2006) Sphingoid Base Is Required for Translation Initiation during Heat Stress in Saccharomyces cerevisiae. Mol. Biol. Cell 17 (3) 1164-1175.
  20. Riezman, Howard (2006) Organization and functions of sphingolipid biosynthesis in yeast. Biochem. Soc. Trans. 34 (3) 367-369.
  21. Grosshans, Bianka L.; Grötsch, Helga; Mukhopadhyay, Debdyuti; Fernandez, Isabel M.; Pfannstiel, Jens; Idrissi, Fatima-Zahra; Lechner, Johannes; Riezman, Howard; Geli, M. Isabel (2006) TEDS Site Phosphorylation of the Yeast Myosins I Is Required for Ligand-induced but Not for Constitutive Endocytosis of the G Protein-coupled Receptor Ste2p. J. Biol. Chem. 281 (16) 11104-11114.
  22. Gachon, Frédéric; Olela, Fabienne Fleury; Schaad, Olivier; Descombes, Patrick; Schibler, Ueli (2006) The circadian PAR-domain basic leucine zipper transcription factors DBP, TEF, and HLF modulate basal and inducible xenobiotic detoxification. Cell Metab. 4 (1) 25-36.
  23. Hermida, Leandro; Schaad, Olivier; Demougin, Philippe; Descombes, Patrick; Primig, Michael (2006) MIMAS: an innovative tool for network-based high density oligonucleotide microarray data management and annotation. BMC Bioinformatics 7 (1) 190.
  24. Gotthardt, Daniel; Blancheteau, Vincent; Bosserhoff, Armin; Ruppert, Thomas; Delorenzi, Mauro; Soldati, Thierry (2006) Proteomics Fingerprinting of Phagosome Maturation and Evidence for the Role of a Gα during Uptake. Mol. Cell. Proteomics 5 (12) 2228-2243.
  25. Soldati, Thierry; Schliwa, Manfred (2006) Powering membrane traffic in endocytosis and recycling. Nat. Rev. Mol. Cell Biol. 7 (12) 897-908.
  26. Yoshida, Kunito; Soldati, Thierry (2006) Dissection of amoeboid movement into two mechanically distinct modes. J. Cell Sci. 119 (18) 3833-3844.
  27. Gotthardt, Daniel Dieckmann, Régis Blancheteau, Vincent Kistler, Claudia Reichardt, Frank Soldati, Thierry (2006) Preparation of Intact, Highly Purified Phagosomes from Dictyostelium. Dictyostelium discoideum Protocols Vol. 346 (Part IV)Ed. Eichinger, Ludwig Rivero, FranciscoMethods in Molecular Biology. Humana Press. (Totowa, NJ). 439-448.
  28. Hagedorn, Monica Neuhaus, Eva M. Soldati, Thierry (2006) Optimized Fixation and Immunofluorescence Staining Methods for Dictyostelium Cells. Dictyostelium discoideum Protocols Vol. 346 (Part III)Ed. Eichinger, Ludwig Rivero, FranciscoMethods in Molecular Biology. Humana Press. (Totowa, NJ). 327-338.
  29. Mendoza, Luis; Xenarios, Ioannis (2006) A method for the generation of standardized qualitative dynamical systems of regulatory networks. Theor Biol Med Model 3 (1) 13.

2005

  1. Kaksonen, Marko; Toret, Christopher P.; Drubin, David G. (2005) A Modular Design for the Clathrin- and Actin-Mediated Endocytosis Machinery. Cell 123 (2) 305-320.
  2. Sun, Yidi; Kaksonen, Marko; Madden, David T.; Schekman, Randy; Drubin, David G. (2005) Interaction of Sla2p's ANTH Domain with PtdIns(4,5)P2 Is Important for Actin-dependent Endocytic Internalization. Mol. Biol. Cell 16 (2) 717-730.
  3. Martin, Adam C.; Xu, Xiao-Ping; Rouiller, Isabelle; Kaksonen, Marko; Sun, Yidi; Belmont, Lisa; Volkmann, Niels; Hanein, Dorit; Welch, Matthew; Drubin, David G. (2005) Effects of Arp2 and Arp3 nucleotide-binding pocket mutations on Arp2/3 complex function. J. Cell Biol. 168 (2) 315-328.
  4. Drubin, David G. Kaksonen, Marko Toret, Christopher Sun, Yidi (2005) Cytoskeletal Networks and Pathways Involved in Endocytosis. Signalling Networks in Cell Shape and Motility 269Ed. Bock, Gregory Goode, JamieNovartis Foundation Symposium. John Wiley & Sons, Ltd. (Chichester, UK.). 35-46.
  5. Itoh, Toshiki; Erdmann, Kai S.; Roux, Aurelien; Habermann, Bianca; Werner, Hauke; De Camilli, Pietro (2005) Dynamin and the Actin Cytoskeleton Cooperatively Regulate Plasma Membrane Invagination by BAR and F-BAR Proteins. Dev. Cell 9 (6) 791-804.
  6. Jolimaître, Pascale; Roux, Aurélien; Blanpain, Annick; Leduc, Cécile; Bassereau, Patricia; Bourel-Bonnet, Line (2005) Synthesis and preliminary physical applications of a rhodamin-biotin phosphatidylethanolamine, an easy attainable lipid double probe. Chem. Phys. Lipids 133 (2) 215-223.
  7. Roux, Aurélien; Cuvelier, Damien; Nassoy, Pierre; Prost, Jacques; Bassereau, Patricia; Goud, Bruno (2005) Role of curvature and phase transition in lipid sorting and fission of membrane tubules. EMBO J. 24 (8) 1537-1545.
  8. Le Blanc, Isabelle; Luyet, Pierre-Philippe; Pons, Véronique; Ferguson, Charles; Emans, Neil; Petiot, Anne; Mayran, Nathalie; Demaurex, Nicolas; Fauré, Julien; Sadoul, Rémy; Parton, Robert G.; Gruenberg, J. (2005) Endosome-to-cytosol transport of viral nucleocapsids. Nat. Cell Biol. 7 (7) 653-664.
  9. Maeshima, Kazuhiro; Eltsov, Michail; Laemmli, Ulrich K. (2005) Chromosome structure: improved immunolabeling for electron microscopy. Chromosoma 114 (5) 365-375.

2004

  1. Watanabe, Reika; Riezman, Howard (2004) Differential ER exit in yeast and mammalian cells. Curr. Opin. Cell Biol. 16 (4) 350-355.
  2. Leduc, Cécile; Campàs, Otger; Zeldovich, Konstantin B.; Roux, Aurélien; Jolimaitre, Pascale; Bourel-Bonnet, Line; Goud, Bruno; Joanny, Jean-François; Bassereau, Patricia; Prost, Jacques (2004) Cooperative extraction of membrane nanotubes by molecular motors. Proc. Natl. Acad. Sci. U. S. A. 101 (49) 17096-17101.
  3. Allain, J.-M.; Storm, C.; Roux, Aurélien; Amar, M. Ben; Joanny, Jean-François (2004) Fission of a Multiphase Membrane Tube. Phys. Rev. Lett. 93 (15) 158104.
  4. Fauré, Julien; Stalder, Romaine; Borel, Christelle; Sobo, Komla; Piguet, Vincent; Demaurex, Nicolas; Gruenberg, Jean; Trono, Didier (2004) ARF1 Regulates Nef-Induced CD4 Degradation. Curr. Biol. 14 (12) 1056-1064.
  5. Schmid, Manfred; Durussel, Thérèse; Laemmli, Ulrich K. (2004) ChIC and ChEC: Genomic Mapping of Chromatin Proteins. Mol. Cell 16 (1) 147-157.

2003

  1. Kaksonen, Marko; Sun, Yidi; Drubin, David G. (2003) A Pathway for Association of Receptors, Adaptors, and Actin during Endocytic Internalization. Cell 115 (4) 475-487.
  2. Sekiya-Kawasaki, Mariko; Groen, Aaron Chris; Cope, M. Jamie T. V.; Kaksonen, Marko; Watson, Hadiya A.; Zhang, Chao; Shokat, Kevan M.; Wendland, Beverly; McDonald, Kent L.; McCaffery, J. Michael; Drubin, David G. (2003) Dynamic phosphoregulation of the cortical actin cytoskeleton and endocytic machinery revealed by real-time chemical genetic analysis. J. Cell Biol. 162 (5) 765-772.
  3. Schaerer-Brodbeck, Claudia; Riezman, Howard (2003) Genetic and biochemical interactions between the Arp2/3 complex, Cmd1p, casein kinase II, and Tub4p in yeast. FEMS Yeast Res. 4 (1) 37-49.
  4. Abaza, Aouatef; Soleilhac, Jean-Marc; Westendorf, Joanne; Piel, Matthieu; Crevel, Isabelle; Roux, Aurélien; Pirollet, Fabienne (2003) M Phase Phosphoprotein 1 Is a Human Plus-end-directed Kinesin-related Protein Required for Cytokinesis. J. Biol. Chem. 278 (30) 27844-27852.
  5. Nizak, Clément; Martin-Lluesma, Silvia; Moutel, Sandrine; Roux, Aurélien; Kreis, Thomas E.; Goud, Bruno; Perez, Franck (2003) Recombinant Antibodies Against Subcellular Fractions Used to Track Endogenous Golgi Protein Dynamics in Vivo. Traffic 4 (11) 739-753.
  6. Maeshima, Kazuhiro; Laemmli, Ulrich K. (2003) A Two-Step Scaffolding Model for Mitotic Chromosome Assembly. Dev. Cell 4 (4) 467-480.
  7. Ishii, Kojiro; Laemmli, Ulrich K. (2003) Structural and Dynamic Functions Establish Chromatin Domains. Mol. Cell 11 (1) 237-248.

2002

  1. Kaksonen, Marko; Pavlov, Ivan; Võikar, Vootele; Lauri, Sari E.; Hienola, Anni; Riekki, Ruusu; Lakso, Merja; Taira, Tomi; Rauvala, Heikki (2002) Syndecan-3-Deficient Mice Exhibit Enhanced LTP and Impaired Hippocampus-Dependent Memory. Mol. Cell. Neurosci. 21 (1) 158-172.
  2. Pavlov, Ivan; Võikar, Vootele; Kaksonen, Marko; Lauri, Sari E.; Hienola, Anni; Taira, Tomi; Rauvala, Heikki (2002) Role of Heparin-Binding Growth-Associated Molecule (HB-GAM) in Hippocampal LTP and Spatial Learning Revealed by Studies on Overexpressing and Knockout Mice. Mol. Cell. Neurosci. 20 (2) 330-342.
  3. Edelstein, Stuart J. (2002) John Edsall and ligand-linked subunit interactions in hemoglobin. Biophys. Chem. 100 (1-3) 117-121.
  4. Roux, Aurélien; Cappello, Giovanni; Cartaud, Jean; Prost, Jacques; Goud, Bruno; Bassereau, Patricia (2002) A minimal system allowing tubulation with molecular motors pulling on giant liposomes. Proc. Natl. Acad. Sci. U. S. A. 99 (8) 5394-5399.

2001

  1. Reizes, Ofer; Lincecum, John; Wang, Zihua; Goldberger, Olga; Huang, Li; Kaksonen, Marko; Ahima, Rexford; Hinkes, Michael T.; Barsh, Gregory S.; Rauvala, Heikki; Bernfield, Merton (2001) Transgenic Expression of Syndecan-1 Uncovers a Physiological Control of Feeding Behavior by Syndecan-3. Cell 106 (1) 105-116.
  2. Klezovitch, Olga; Brandenburger, Yves; Geindre, Michèle; Deshusses, Jacques (2001) Characterization of reactions catalysed by yeast phosphatidylinositol synthase. FEBS Lett. 320 (3) 256-260.
  3. Cavalli, Valeria; Corti, Michela; Gruenberg, Jean (2001) Endocytosis and signaling cascades: a close encounter. FEBS Lett. 498 (2-3) 190-196.
  4. Maeshima, Kazuhiro; Janssen, Samuel; Laemmli, Ulrich K. (2001) Specific targeting of insect and vertebrate telomeres with pyrrole and imidazole polyamides. EMBO J. 20 (12) 3218-3228.

2000

  1. Kaksonen, Marko; Peng, H. Benjamin; Rauvala, Heikki (2000) Association of cortactin with dynamic actin in lamellipodia and on endosomal vesicles. J. Cell Sci. 113 (24) 4421-4426.
  2. Rauvala, Heikki; Huttunen, Henri J.; Fages, Carole; Kaksonen, Marko; Kinnunen, Tarja; Imai, Shinji; Raulo, Erkki; Kilpeläinen, Ilkka (2000) Heparin-binding proteins HB-GAM (pleiotrophin) and amphoterin in the regulation of cell motility. Matrix Biol. 19 (5) 377-387.
  3. Kilpelainen, Ilkka; Kaksonen, Marko; Kinnunen, Tarja; Avikainen, Hanna; Fath, Melissa; Linhardt, Robert J.; Raulo, Erkki; Rauvala, Heikki (2000) Heparin-binding Growth-associated Molecule Contains Two Heparin-binding beta -Sheet Domains That Are Homologous to the Thrombospondin Type I Repeat. J. Biol. Chem. 275 (18) 13564-13570.
  4. Erkman, Linda; Matter, Jean-Marc; Matter-Sadzinski, Lidia; Ballivet, Marc (2000) Nicotinic acetylcholine receptor gene expression in developing chick autonomic ganglia. Eur. J. Pharmacol. 393 (1-3) 97-104.
  5. Erkman, Linda; Matter, Jean-Marc; Matter-Sadzinski, Lidia; Ballivet, Marc (2000) Nicotinic acetylcholine receptor gene expression in developing chick autonomic ganglia. Eur. J. Pharmacol. 393 (1-3) 97-104.

1999

  1. Kinnunen, Anu; Niemi, Maria; Kinnunen, Tarja; Kaksonen, Marko; Nolo, Riitta; Rauvala, Heikki (1999) Heparan sulphate and HB-GAM (heparin-binding rowth-associated molecule) in the development of the thalamocortical pathway of rat brain. Eur. J. Neurosci. 11 (2) 491-502.
  2. van der Goot, F. Gisou; Pugin, Jérôme; Hribar, Marusa; Fransen, Lucie; Dunant, Yves; De Baetselier, Patrick; Bloc, Alain; Lucas, Rudolf (1999) Membrane interaction of TNF is not sufficient to trigger increase in membrane conductance in mammalian cells. FEBS Lett. 460 (1) 107-111.
  3. Hribar, Marusa; Bloc, Alain; Van der Goot, F. Gisou; Fransen, Lucie; De Baetselier, Patrick; Grau, Georges E.; Bluethmann, Horst; Matthay, Michael A.; Dunant, Yves; Pugin, Jérôme; Lucas, Rudolf (1999) The lectin-like domain of tumor necrosis factor-α increases membrane conductance in microvascular endothelial cells and peritoneal macrophages. Eur. J. Immunol. 29 (10) 3105-3111.
  4. Vécsey-Semjén, Beatrix; Knapp, Stefan; Möllby, Roland; van der Goot, F. Gisou (1999) The Staphylococcal α-Toxin Pore Has a Flexible Conformation. Biochemistry 38 (14) 4296-4302.

1998

  1. Fages, Carole; Kaksonen, Marko; Kinnunen, Tarja; Punnonen, Eeva-Liisa; Rauvala, Heikki (1998) Regulation of mRNA localization by transmembrane signalling: local interaction of HB-GAM (heparin-binding growth-associated molecule) with the cell surface localizes beta-actin mRNA. J. Cell Sci. 111 (20) 3073-3080.
  2. Imai, Shinji; Kaksonen, Marko; Raulo, Erkki; Kinnunen, Tarja; Fages, Carole; Meng, Xiaojuan; Lakso, Merja; Rauvala, Heikki (1998) Osteoblast Recruitment and Bone Formation Enhanced by Cell Matrix-associated Heparin-binding Growth-associated Molecule (HB-GAM). J. Cell Biol. 143 (4) 1113-1128.
  3. Kinnunen, Tarja; Kaksonen, Marko; Saarinen, Juhani; Kalkkinen, Nisse; Peng, H. Benjamin; Rauvala, H. Benjamin (1998) Cortactin-Src Kinase Signaling Pathway Is Involved in N-syndecan-dependent Neurite Outgrowth. J. Biol. Chem. 273 (17) 10702-10708.
  4. Kinnunen, Anu; Kinnunen, Tarja; Kaksonen, Marko; Nolo, Riitta; Panula, Pertti; Rauvala, Heikki (1998) N-Syndecan and HB-GAM (Heparin-Binding Growth-Associated Molecule) associate with early axonal tracts in the rat brain. Eur. J. Neurosci. 10 (2) 635-648.
  5. Fucile, Sergio; Matter, Jean-Marc; Erkman, Linda; Ragozzino, Davide; Barabino, Benedetta; Grassi, Francesca; Alemà, Stefano; Ballivet, Marc; Eusebi, Fabrizio (1998) The neuronal α6 subunit forms functional heteromeric acetylcholine receptors in human transfected cells. Eur. J. Neurosci. 10 (1) 172-178.
  6. Rossjohn, Jamie; Feil, Susanne C.; McKinstry, William J.; Tsernoglou, Demetrius; Van Der Goot, Gisou; Buckley, J.Thomas; Parker, Michael W. (1998) Aerolysin—A Paradigm for Membrane Insertion of Beta-Sheet Protein Toxins?. J. Struct. Biol. 121 (2) 92-100.
  7. Rossjohn, Jamie; Raja, Srikumar M.; Nelson, Kim L.; Feil, Susanne C.; van der Goot, F. Gisou; Parker, Michael W.; Buckley, J. Thomas (1998) Movement of a Loop in Domain 3 of Aerolysin Is Required for Channel Formation. Biochemistry 37 (2) 741-746.
  8. Pizarro-Cerdá, Javier; Parton, Robert G.; van der Goot, Gisou; Sola-Landa, Alberto; Lopez-Goñi, Ignacio; Moreno, Edgardo; Gorvel, Jean-Pierre (1998) Brucella abortus Transits through the Autophagic Pathway and Replicates in the Endoplasmic Reticulum of Nonprofessional Phagocytes. Infect. Immun. 66 (12) 5711-5724.
  9. Fucile, Sergio; Matter, Jean-Marc; Erkman, Linda; Ragozzino, Davide; Barabino, Benedetta; Grassi, Francesca; Alemà, Stefano; Ballivet, Marc; Eusebi, Fabrizio (1998) The neuronal α6 subunit forms functional heteromeric acetylcholine receptors in human transfected cells. Eur. J. Neurosci. 10 (1) 172-178.

1997

  1. Ragozzino, Davide; Fucile, Sergio; Giovannelli, Aldo; Grassi, Francesca; Mileo, Anna Maria; Ballivet, Marc; Alemà, Stefano; Eusebi, Fabrizio (1997) Functional Properties of Neuronal Nicotinic Acetylcholine Receptor Channels Expressed in Transfected Human Cells. Eur. J. Neurosci. 9 (3) 480-488.
  2. Fraser-L\'Hostis, Chantal; Defrise-Quertain, Fabienne; Coral, Danièle; Deshusses, Jacques (1997) Regulation of the Intracellular pH in the Protozoen Parasite Trypanosoma brucei brucei. Biol. Chem. 378 (9) 1039-1046.
  3. Cabiaux, Véronique; Buckley, J. Thomas; Wattiez, Ruddy; Ruysschaert, Jean-Marie; Parker, Michael W.; van der Goot, F. Gisou (1997) Conformational Changes in Aerolysin during the Transition from the Water-Soluble Protoxin to the Membrane Channel. Biochemistry 36 (49) 15224-15232.

1996

  1. Nolo, Riitta; Kaksonen, Marko; Rauvala, Heikki (1996) Developmentally Regulated Neurite Outgrowth Response from Dorsal Root Ganglion Neurons to Heparin-binding Growth-associated Molecule (HB-GAM) and the Expression of HB-GAM in the Targets of the Developing Dorsal Root Ganglion Neurites. Eur. J. Neurosci. 8 (8) 1658-1665.
  2. Edelstein, Stuart J.; Changeux, J. -P. (1996) Allosteric proteins after thirty years: The binding and state functions of the neuronalα7 nicotinic acetylcholine receptors. Experientia 52 (12) 1083-1090.

1995

  1. Nolo, Riitta; Kaksonen, Marko; Raulo, Erkki; Rauvala, Heikki (1995) Co-expression of heparin-binding growth-associated molecule (HB-GAM) and N-syndecan (syndecan-3) in developing rat brain. Neurosci. Lett. 191 (1-2) 39-42.

1993

  1. Steele-Mortimer, Olivia; Gruenberg, Jean; Clague, Michael J. (1993) Phosphorylation of GDI and membrane cycling of rab proteins. FEBS Lett. 329 (3) 313-318.

1992

  1. Matter-Sadzinski, Lidia; Hernandez, Maria Clemencia; Roztocil, Tomas; Matter, Jean-Marc; Ballivet, Marc (1992) Neuronal specificity of the α7 nicotinic acetylcholine receptor promoter develops during morphogenesis of the central nervous system. EMBO J. 11 (12) 4529-4539.
  2. Bellocq, Christine; Andrey-Tornare, Isabelle; Deret, Anne-Marie PAUNIER; Maeder, Bernard; Paturle, Lawrence; Job, Didier; Haiech, Jacques; Edelstein, Stuart J. (1992) Purification of assembly-competent tubulin from Saccharomyces cerevisiae. Eur. J. Biochem. 210 (1) 343-349.

1986

  1. Mirkovitch, Jovan; Spierer, Pierre; Laemmli, Ulrich K. (1986) Genes and loops in 320,000 base-pairs of the Drosophila melanogaster chromosome. J. Mol. Biol. 190 (2) 255-258.