2017

  • Sgromo A, Raisch T, Bawankar P, Bhandari D, Chen Y, Kuzuoglu-Ozturk D, Weichenrieder O & Izaurralde E (2017) A CAF40-binding motif facilitates recruitment of the CCR4-NOT complex to mRNAs targeted by Drosophila Roquin. Nat Commun 8, 14307. PubMed
  • Dietrich MH, Ogden KM, Katen SP, Reiss K, Sutherland DM, Carnahan RH, Goff M, Cooper T, Dermody TS & Stehle T (2017) Structural Insights into Reovirus sigma1 Interactions with Two Neutralizing Antibodies. J Virol 91. PubMed
  • Bauknecht P & Jekely G (2017) Ancient coexistence of norepinephrine, tyramine, and octopamine signaling in bilaterians. BMC Biol 15, 6. PubMed

 

 

2016

  • Walter C, Clemens LE, Muller AJ, Fallier-Becker P, Proikas-Cezanne T, Riess O, Metzger S & Nguyen HP (2016) Activation of AMPK-induced autophagy ameliorates Huntington disease pathology in vitro. Neuropharmacology 108, 24-38. PubMed
  • Singh AP, Dinwiddie A, Mahalwar P, Schach U, Linker C, Irion U & Nusslein-Volhard C (2016) Pigment Cell Progenitors in Zebrafish Remain Multipotent through Metamorphosis. Dev Cell 38, 316-30. PubMed
  • Serobyan V, Xiao H, Namdeo S, Rodelsperger C, Sieriebriennikov B, Witte H, Roseler W & Sommer RJ (2016) Chromatin remodelling and antisense-mediated up-regulation of the developmental switch gene eud-1 control predatory feeding plasticity. Nat Commun 7, 12337. PubMed
  • Prabh N & Rodelsperger C (2016) Are orphan genes protein-coding, prediction artifacts, or non-coding RNAs? BMC Bioinformatics 17, 226. PubMed
  • Huson DH, Beier S, Flade I, Gorska A, El-Hadidi M, Mitra S, Ruscheweyh HJ & Tappu R (2016) MEGAN Community Edition - Interactive Exploration and Analysis of Large-Scale Microbiome Sequencing Data. PLoS Comput Biol 12, e1004957. PubMed
  • Takacs Z & Proikas-Cezanne T (2016) Primary cilia mechanosensing triggers autophagy-regulated cell volume control. Nat Cell Biol 18, 591-2. PubMed
  • Schellhaus AK*, De Magistris P* & Antonin W (2016) Nuclear Reformation at the End of Mitosis. J Mol Biol 428, 1962-85. (*equal contribution) PubMed
  • Gorska A, Markowska-Zagrajek A, Rownicki M & Trylska J (2016) Scanning of 16S Ribosomal RNA for Peptide Nucleic Acid Targets. J Phys Chem B. PubMed
  • Raisch T, Bhandari D, Sabath K, Helms S, Valkov E, Weichenrieder O & Izaurralde E (2016) Distinct modes of recruitment of the CCR4-NOT complex by Drosophila and vertebrate Nanos. EMBO J 35, 974-90. PubMed
  • Akrap I, Thavamani A & Nordheim A (2016) Vps4A-mediated tumor suppression upon exosome modulation? Ann Transl Med 4, 180. PubMed
  • Audin MJ, Wurm JP, Cvetkovic MA & Sprangers R (2016) The oligomeric architecture of the archaeal exosome is important for processive and efficient RNA degradation. Nucleic Acids Res 44, 2962-73. PubMed
  • Shi L, Ravikumar V, Derouiche A, Macek B & Mijakovic I (2016) Tyrosine 601 of Bacillus subtilis DnaK Undergoes Phosphorylation and Is Crucial for Chaperone Activity and Heat Shock Survival. Front Microbiol 7, 533. PubMed
  • Walderich B, Singh AP, Mahalwar P & Nusslein-Volhard C (2016) Homotypic cell competition regulates proliferation and tiling of zebrafish pigment cells during colour pattern formation. Nat Commun 7, 11462. PubMed
  • Ravikumar V, Macek B & Mijakovic I (2016) Resources for Assignment of Phosphorylation Sites on Peptides and Proteins. Methods Mol Biol 1355, 293-306. PubMed
  • Huang PS, Feldmeier K, Parmeggiani F, Fernandez Velasco DA, Hocker B & Baker D (2016) De novo design of a four-fold symmetric TIM-barrel protein with atomic-level accuracy. Nat Chem Biol 12, 29-34. PubMed

 

 

2015

  • Schellhaus AK*, Magalska A*, Schooley A & Antonin W (2015) A Cell Free Assay to Study Chromatin Decondensation at the End of Mitosis. J Vis Exp, e53407. (*equal contribution) PubMed
  • Denisova E, Heidenreich B, Nagore E, Rachakonda PS, Hosen I, Akrap I, Traves V, Garcia-Casado Z, Lopez-Guerrero JA, Requena C, et al. (2015) Frequent DPH3 promoter mutations in skin cancers. Oncotarget 6, 35922-30. PubMed
  • Gorska A, Jasinski M & Trylska J (2015) MINT: software to identify motifs and short-range interactions in trajectories of nucleic acids. Nucleic Acids Res 43, e114. PubMed
  • Rosenberg A, Soufi B, Ravikumar V, Soares NC, Krug K, Smith Y, Macek B & Ben-Yehuda S (2015) Phosphoproteome dynamics mediate revival of bacterial spores. BMC Biol 13, 76. PubMed
  • Schooley A, Moreno-Andres D, De Magistris P, Vollmer B & Antonin W (2015) The lysine demethylase LSD1 is required for nuclear envelope formation at the end of mitosis. J Cell Sci 128, 3466-77. PubMed
  • Baskaran P, Rodelsperger C, Prabh N, Serobyan V, Markov GV, Hirsekorn A & Dieterich C (2015) Ancient gene duplications have shaped developmental stage-specific expression in Pristionchus pacificus. BMC Evol Biol 15, 185. PubMed
  • Gao X, Metzger U, Panza P, Mahalwar P, Alsheimer S, Geiger H, Maischein HM, Levesque MP, Templin M & Sollner C (2015) A Floor-Plate Extracellular Protein-Protein Interaction Screen Identifies Draxin as a Secreted Netrin-1 Antagonist. Cell Rep 12, 694-708. PubMed
  • Bauknecht P & Jekely G (2015) Large-Scale Combinatorial Deorphanization of Platynereis Neuropeptide GPCRs. Cell Rep 12, 684-93. PubMed
  • Vollmer B, Lorenz M, Moreno-Andres D, Bodenhofer M, De Magistris P, Astrinidis SA, Schooley A, Flotenmeyer M, Leptihn S & Antonin W (2015) Nup153 Recruits the Nup107-160 Complex to the Inner Nuclear Membrane for Interphasic Nuclear Pore Complex Assembly. Dev Cell 33, 717-28. PubMed
  • Muller AJ & Proikas-Cezanne T (2015) Function of human WIPI proteins in autophagosomal rejuvenation of endomembranes? FEBS Lett 589, 1546-1551. PubMed
  • Stettner E, Dietrich MH, Reiss K, Dermody TS & Stehle T (2015) Structure of Serotype 1 Reovirus Attachment Protein sigma1 in Complex with Junctional Adhesion Molecule A Reveals a Conserved Serotype-Independent Binding Epitope. J Virol 89, 6136-40. PubMed
  • Ohrnberger S, Thavamani A, Braeuning A, Lipka DB, Kirilov M, Geffers R, Authenrieth SE, Romer M, Zell A, Bonin M, et al. (2015) Dysregulated serum response factor triggers formation of hepatocellular carcinoma. Hepatology 61, 979-89. PubMed
  • Proikas-Cezanne T, Takacs Z, Donnes P & Kohlbacher O (2015) WIPI proteins: essential PtdIns3P effectors at the nascent autophagosome. J Cell Sci 128, 207-17. PubMed
  • Takacs Z & Proikas-Cezanne T (2015) Human WIPIs as Phosphoinositide Effectors at the Nascent Autophagosome: A Robust Tool to Assess Macroautophagy by Quantitative Imaging. In Book Human WIPIs as Phosphoinositide Effectors at the Nascent Autophagosome: A Robust Tool to Assess Macroautophagy by Quantitative Imaging (Hayat DM, ed.), Vol. 7 "Cancer Other Pathologies, Inflammation, Immunity, Infection, And Aging". Academic Press, Elsevier.
  • Kushal Kumar Das, JDU, Ana Garcia Saez (2015) Microscopy of Model Membranes: Understanding how Bcl2 proteins mediate apoptosis. In Book Microscopy of Model Membranes: Understanding how Bcl2 proteins mediate apoptosis 2015 edit., Vol. 21. Elsevier.

 

 

2014

  • Krug K, Popic S, Carpy A, Taumer C & Macek B (2014) Construction and assessment of individualized proteogenomic databases for large-scale analysis of nonsynonymous single nucleotide variants. Proteomics 14, 2699-708. PubMed
  • Magalska A, Schellhaus AK, Moreno-Andres D, Zanini F, Schooley A, Sachdev R, Schwarz H, Madlung J & Antonin W (2014) RuvB-like ATPases function in chromatin decondensation at the end of mitosis. Dev Cell 31, 305-18. PubMed
  • Shi L, Pigeonneau N, Ravikumar V, Dobrinic P, Macek B, Franjevic D, Noirot-Gros MF & Mijakovic I (2014) Cross-phosphorylation of bacterial serine/threonine and tyrosine protein kinases on key regulatory residues. Front Microbiol 5, 495. PubMed
  • Pfisterer SG, Bakula D, Cezanne A, Robenek H & Proikas-Cezanne T (2014) WIPI beta-propellers at the crossroads of autophagosome and lipid droplet dynamics. Biochem Soc Trans 42, 1414-7. PubMed
  • Stiel AC, Feldmeier K & Hocker B (2014) Identification of protein scaffolds for enzyme design using scaffold selection. Methods Mol Biol 1216, 183-96. PubMed
  • Mahalwar P, Walderich B, Singh AP & Nusslein-Volhard C (2014) Local reorganization of xanthophores fine-tunes and colors the striped pattern of zebrafish. Science 345, 1362-4. PubMed
  • Ravikumar V, Shi L, Krug K, Derouiche A, Jers C, Cousin C, Kobir A, Mijakovic I & Macek B (2014) Quantitative phosphoproteome analysis of bacillus subtilis reveals novel substrates of the kinase PrkC and phosphatase PrpC. Mol Cell Proteomics 13, 1965-78. PubMed
  • Carpy A, Krug K, Graf S, Koch A, Popic S, Hauf S & Macek B (2014) Absolute proteome and phosphoproteome dynamics during the cell cycle of Schizosaccharomyces pombe (Fission Yeast). Mol Cell Proteomics 13, 1925-36. PubMed
  • Pfisterer SG, Bakula D, Frickey T, Cezanne A, Brigger D, Tschan MP, Robenek H & Proikas-Cezanne T (2014) Lipid droplet and early autophagosomal membrane targeting of Atg2A and Atg14L in human tumor cells. J Lipid Res 55, 1267-1278. PubMed
  • Bhandari D, Raisch T, Weichenrieder O, Jonas S & Izaurralde E (2014) Structural basis for the Nanos-mediated recruitment of the CCR4-NOT complex and translational repression. Genes Dev 28, 888-901. PubMed
     

2013

  • Feldmeier K & Hocker B (2013) Computational protein design of ligand binding and catalysis. Curr Opin Chem Biol 17, 929-33. PubMed
  • Boland A*, Chen Y*, Raisch T*, Jonas S*, Kuzuoglu-Ozturk D, Wohlbold L, Weichenrieder O & Izaurralde E (2013) Structure and assembly of the NOT module of the human CCR4-NOT complex. Nat Struct Mol Biol 20, 1289-97.(*equal contribution) PubMed
  • Engedal N, Torgersen ML, Guldvik IJ, Barfeld SJ, Bakula D, Saetre F, Hagen LK, Patterson JB, Proikas-Cezanne T, Seglen PO, et al. (2013) Modulation of intracellular calcium homeostasis blocks autophagosome formation. Autophagy 9, 1475-90. PubMed
  • Bakula D, Takacs Z & Proikas-Cezanne T (2013) WIPI beta-propellers in autophagy-related diseases and longevity. Biochem Soc Trans 41, 962-7. PubMed
  • Jehle AK, Lipschis M, Albert M, Fallahzadeh-Mamaghani V, Furst U, Mueller K & Felix G (2013) The receptor-like protein ReMAX of Arabidopsis detects the microbe-associated molecular pattern eMax from Xanthomonas. Plant Cell 25, 2330-40. PubMed
  • Rieter E, Vinke F, Bakula D, Cebollero E, Ungermann C, Proikas-Cezanne T & Reggiori F (2013) Atg18 function in autophagy is regulated by specific sites within its beta-propeller. J Cell Sci 126, 593-604. PubMed
  • Book Chapter: Proikas-Cezanne T and Bakula D (2013). “Role of Human WIPIs in Macroautophagy” in “Autophagy - A Double-Edged Sword - Cell Survival or Death?” Yannick Bailly (Ed.), ISBN: 978-953-51-1062-0, InTech, DOI: 10.5772/54601.    

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2012

  • Gaugel A, Bakula D, Hoffmann A & Proikas-Cezanne T (2012) Defining regulatory and phosphoinositide-binding sites in the human WIPI-1 beta-propeller responsible for autophagosomal membrane localization downstream of mTORC1 inhibition. J Mol Signal 7, 16. PubMed
  • Soufi B, Soares NC, Ravikumar V & Macek B (2012) Proteomics reveals evidence of cross-talk between protein modifications in bacteria: focus on acetylation and phosphorylation. Curr Opin Microbiol 15, 357-63. PubMed