Publications 2018

Nguyen, Lam-Tung; von Haeseler, Arndt; Minh, Bui Quang (2018). Complex Models of Sequence Evolution Require Accurate Estimators as Exemplified with the Invariable Site plus Gamma Model. SYST BIOL;67(3):552-558. PMID: 29186593

 

Hoang, Diep Thi; Chernomor, Olga; von Haeseler, Arndt; Minh, Bui Quang; Le, Sy Vinh (2018). UFBoot2: Improving the Ultrafast Bootstrap Approximation. MOL BIOL EVOL;35(2):518-522. PMID: 29077904

Zaffagnini, Gabriele; Savova, Adriana; Danieli, Alberto; Romanov, Julia; Tremel, Shirley; Ebner, Michael; Peterbauer, Thomas; Sztacho, Martin; Trapannone, Riccardo; Tarafder, Abul K; Sachse, Carsten; Martens, Sascha (2018). p62 filaments capture and present ubiquitinated cargos for autophagy. EMBO J. PMID: 29343546

Orbán-Németh, Zsuzsanna; Beveridge, Rebecca; Hollenstein, David M; Rampler, Evelyn; Stranzl, Thomas; Hudecz, Otto; Doblmann, Johannes; Schlögelhofer, Peter; Mechtler, Karl (2018). Structural prediction of protein models using distance restraints derived from cross-linking mass spectrometry data. NAT PROTOC;13(3):478-494. PMID: 29419816

Fracchiolla, Dorotea; Martens, Sascha (2018). Sorting out "non-canonical" autophagy. EMBO J. PMID: 29431607

Benke, Stefan; Agerer, Benedikt; Haas, Lisa; Stöger, Martin; Lercher, Alexander; Gabler, Lisa; Kiss, Izabella; Scinicariello, Sara; Berger, Walter; Bergthaler, Andreas; Obenauf, Anna C and Versteeg, Gijs A. (2018). Human tripartite motif protein 52 is required for cell context-dependent proliferation Oncotarget;17(9):13565-13581. PMID: 29568378

Lučić, Iva; Rathinaswamy, Manoj K; Truebestein, Linda; Hamelin, David J; Burke, John E; Leonard, Thomas A (2018). Conformational sampling of membranes by Akt controls its activation and inactivation. P NATL ACAD SCI USA. PMID: 29632185

Alves, Ricardo J Eloy; Minh, Bui Quang; Urich, Tim; von Haeseler, Arndt; Schleper, Christa (2018). Unifying the global phylogeny and environmental distribution of ammonia-oxidising archaea based on amoA genes. NAT COMMUN;9(1):1517. PMID: 29666365

Hoang, Diep Thi; Vinh, Le Sy; Flouri, Tomá?; Stamatakis, Alexandros; von Haeseler, Arndt; Minh, Bui Quang (2018). MPBoot: fast phylogenetic maximum parsimony tree inference and bootstrap approximation. BMC EVOL BIOL;18(1):11. PMID: 29390973

Uhse, Simon; Pflug, Florian G; Stirnberg, Alexandra; Ehrlinger, Klaus; von Haeseler, Arndt; Djamei, Armin (2018). In vivo insertion pool sequencing identifies virulence factors in a complex fungal-host interaction. PLOS BIOLOGY;16(4):e2005129. PMID: 29684023

Muhar, Matthias; Ebert, Anja; Neumann, Tobias; Umkehrer, Christian; Jude, Julian; Wieshofer, Corinna; Rescheneder, Philipp; Lipp, Jesse J; Herzog, Veronika A; Reichholf, Brian; Cisneros, David A; Hoffmann, Thomas; Schlapansky, Moritz F; Bhat, Pooja; von Haeseler, Arndt; Köcher, Thomas; Obenauf, Anna C; Popow, Johannes; Ameres, Stefan L; Zuber, Johannes (2018). SLAM-seq defines direct gene-regulatory functions of the BRD4-MYC axis. SCIENCE. PMID: 29622725

Pflug, Florian G; von Haeseler, Arndt (2018). TRUmiCount: Correctly counting absolute numbers of molecules using unique molecular identifiers. BIOINFORMATICS. PMID: 29672674

Müller, Christoph; Krunic, Milica; Wendt, Judith; von Haeseler, Arndt; Okamoto, Ichiro (2018). Germline Variants in the POT1-Gene in High-Risk Melanoma Patients in Austria. G3-Genes Genomes Genetics. PMID: 29523635

Baumgartner, Christian; Toifl, Stefanie; Farlik, Matthias; Halbritter, Florian; Scheicher, Ruth; Fischer, Irmgard; Sexl, Veronika; Bock, Christoph; Baccarini, Manuela (2018). An ERK-Dependent Feedback Mechanism Prevents Hematopoietic Stem Cell Exhaustion. Cell stem cell.;22(6):879-892.e6. PMID: 29804890

Sedlyarov, Vitaly; Eichner, Ruth; Girardi, Enrico; Essletzbichler, Patrick; Goldmann, Ulrich; Nunes-Hasler, Paula; Srndic, Ismet; Moskovskich, Anna; Heinz, Leonhard X; Kartnig, Felix; Bigenzahn, Johannes W; Rebsamen, Manuele; Kovarik, Pavel; Demaurex, Nicolas; Superti-Furga, Giulio (2018). The Bicarbonate Transporter SLC4A7 Plays a Key Role in Macrophage Phagosome Acidification. Cell Host Microbe;23(6):766-774.e5. PMID: 29779931

Porpaczy, Edit; Tripolt, Sabrina; Hoelbl-Kovacic, Andrea; Gisslinger, Bettina; Bago-Horvath, Zsuzsanna; Casanova-Hevia, Emilio; Clappier, Emmanuelle; Decker, Thomas; Fajmann, Sabine; Fux, Daniela A; Greiner, Georg; Gueltekin, Sinan; Heller, Gerwin; Herkner, Harald; Hoermann, Gregor; Kiladjian, Jean-Jacques; Kolbe, Thomas; Kornauth, Christoph; Krauth, Maria-Theresa; Kralovics, Robert; Muellauer, Leonhard; Mueller, Mathias; Prchal-Murphy, Michaela; Putz, Eva Maria; Raffoux, Emmanuel; Schiefer, Ana-Iris; Schmetterer, Klaus; Schneckenleithner, Christine; Simonitsch-Klupp, Ingrid; Skrabs, Cathrin; Sperr, Wolfgang R; Staber, Philipp Bernhard; Strobl, Birgit; Valent, Peter; Jaeger, Ulrich; Gisslinger, Heinz; Sexl, Veronika (2018). Aggressive B-cell lymphomas in patients with myelofibrosis receiving JAK1/2 inhibitor therapy. BLOOD. PMID: 29907599

Zaffagnini, Gabriele; Savova, Adriana; Danieli, Alberto; Romanov, Julia; Tremel, Shirley; Ebner, Michael; Peterbauer, Thomas; Sztacho, Martin; Trapannone, Riccardo; Tarafder, Abul K; Sachse, Carsten; Martens, Sascha (2018). Phasing out the bad-How SQSTM1/p62 sequesters ubiquitinated proteins for degradation by autophagy. AUTOPHAGY. PMID: 29929426

Leonard, Thomas A (2018). Reply to Agarwal: Activity against nuclear substrates is not necessarily mediated by nuclear Akt. P NATL ACAD SCI USA. PMID: 29907610

Publications 2017

Kovarik, Pavel; Ebner, Florian; Sedlyarov, Vitaly (2017). Posttranscriptional regulation of cytokine expression. Cytokine.;89:21-26. PMID: 26586165

Prakash, C. and A. von Haeseler (2017). An Enumerative Combinatorics Model for Fragmentation Patterns in RNA Sequencing Provides Insights into Non-uniformity of the Expected Fragment Starting Point and Coverage Profile. J COMPUT BIOL;24(3):200-212. PMID: 27661099

Fracchiolla, D.; Zens,B.; S. Martens (2017). In Vitro Reconstitution of Atg8 Conjugation and Deconjugation. METHOD ENZYMOL;587:377–390. PMID: 28253967

Thanisch, Katharina; Song, Congdi; Engelkamp, Dieter; Koch, Jeannette; Wang, Audrey; Hallberg, Einar; Foisner, Roland; Leonhardt, Heinrich; Stewart, Colin L; Joffe, Boris; Solovei, Irina (2017). Nuclear envelope localization of LEMD2 is developmentally dynamic and lamin A/C dependent yet insufficient for heterochromatin tethering. DIFFERENTIATION;94:58-70. PMID: 28056360

Andrea Majoros, Ekaterina Platanitis, Elisabeth Kernbauer-Hölz, Felix Rosebrock, Mathias Müller and Thomas Decker (2017). Canonical and noncanonical aspects of JAK-STAT signaling: lessons from interferons for cytokine responses Frontiers in immunology;8(29). PMID: 28184222

Michael Ebner, Iva Lučić, Thomas A. Leonard, and Ivan Yudushkin (2017). PI(3,4,5)P3 Engagement Restricts Akt Activity to Cellular Membranes MOL CELL;65(3):416-431. PMID: 28157504