Publications

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. 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.
  21. Hannich, J. Thomas; Umebayashi, Kyohei; Riezman, Howard (2011) Distribution and Functions of Sterols and Sphingolipids. Cold Spring Harbor Perspect. Biol. 3 (5) a004762.
  22. 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.
  23. 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.
  24. 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.
  25. 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.
  26. 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.
  27. 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.
  28. 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.
  29. 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.
  30. 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.
  31. 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.
  32. 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.
  33. 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.
  34. 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.
  35. 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.
  36. Magrane, Michele; UniProt Consortium, (2011) UniProt Knowledgebase: a hub of integrated protein data. Database bar009.
  37. 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.
  38. 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.
  39. 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.
  40. 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.
  41. 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.
  42. Aumeier, Charlotte Menzel, Diedrik (2011) Secretion in the Diatoms. Secretions and Exudates in Biological Systems vol 12Ed. Vivanco, Jorge M. Baluška, FrantišekSignaling and Communication in Plants. Springer. (Berlin, Heidelberg). 221-250.