Publications

2014

  • Loizides-Mangold, Ursula; Clément, Sophie; Alfonso-Garcia, Alba; Branche, Emilie; Conzelmann, Stéphanie; Parisot, Clotilde; Potma, Eric O.; Riezman, Howard; Negro, Francesco; Jhaveri, Ravi (2014) HCV 3a Core Protein Increases Lipid Droplet Cholesteryl Ester Content via a Mechanism Dependent on Sphingolipid Biosynthesis. PLoS ONE 9 (12) e115309.
  • 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.
  • 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.
  • 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.
  • 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.
  • Merrifield, Christien J.; Kaksonen, Marko (2014) Endocytic Accessory Factors and Regulation of Clathrin-Mediated Endocytosis. Cold Spring Harbor Perspect. Biol. 6 (11) a016733.
  • Roux, Aurélien (2014) Reaching a consensus on the mechanism of dynamin?. F1000Prime Rep. 6:86.
  • da Silveira dos Santos, Aline Xavier; Riezman, Isabelle; Aguilera-Romero, Maria-Auxiliadora; David, Fabrice; Piccolis, Manuele; Loewith, Robbie; Schaad, Olivier; Riezman, Howard (2014) Systematic lipidomic analysis of yeast protein kinase and phosphatase mutants reveals novel insights into regulation of lipid homeostasis. Mol. Biol. Cell 25 (20) 3234-3246.
  • 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.
  • 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.
  • 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.
  • 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.
  • 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.
  • 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.
  • 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.
  • 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.
  • 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.
  • Aumeier, C.; Kasdorf, B.; Gruber, M.; Busse, H.; Wiese, C. H.; Zink, W.; Graf, B. M.; Zausig, Y. A. (2014) Lipid emulsion pretreatment has different effects on mepivacaine and bupivacaine cardiac toxicity in an isolated rat heart model. Br. J. Anaesth. 112 (4) 735-741.
  • 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..
  • 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.
  • 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.
  • Blaskovic, Sanja; Adibekian, Alexander; Blanc, Mathieu; van der Goot*, Gisou F. (2014) Mechanistic effects of protein palmitoylation and the cellular consequences thereof. Chem. Phys. Lipids 180 44-52.
  • 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.
  • 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.
  • Lakshminarayanan, Rajamani; Liu, Shouping; Li, Jianguo; Nandhakumar, Muruganantham; Aung, Thet Tun; Goh, Eunice; Chang, Jamie Ya Ting; Saraswathi, Padhmanaban; Tang, Charles; Safie, Siti Radiah Binte; Lin, Lim Yih; Riezman, Howard; Lei, Zhou; Verma, Chandra S.; Beuerman, Roger W.; Khan, Rizwan H. (2014) Synthetic Multivalent Antifungal Peptides Effective against Fungi. PLoS ONE 9 (2) e87730.
  • Prifti, Efthymia; Reymond, Luc; Umebayashi, Miwa; Hovius, Ruud; Riezman, Howard; Johnsson, Kai (2014) A Fluorogenic Probe for SNAP-Tagged Plasma Membrane Proteins Based on the Solvatochromic Molecule Nile Red. ACS Chem. Biol. 9 (3) 606-612.
  • Kajiwara, Kentaro; Ikeda, Atsuko; Aguilera-Romero, Auxiliadora; Castillon, Guillaume A.; Kagiwada, Satoshi; Hanada, Kentaro; Riezman, Howard; Muniz, Manuel; Funato, Kouichi (2014) Osh proteins regulate COPII-mediated vesicular transport of ceramide from the endoplasmic reticulum in budding yeast. J. Cell Sci. 127 (2) 376-387.
  • Aguilera-Romero, Auxiliadora; Gehin, Charlotte; Riezman, Howard (2014) Sphingolipid homeostasis in the web of metabolic routes. Biochim. Biophys. Acta, Mol. Cell Biol. Lipids 1841 (5) 647-656.