Publications since 2006

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
Enkner, Franz; Pichlhöfer, Bettina; Zaharie, Alexandru Teodor; Krunic, Milica; Holper, Tina Maria; Janik, Stefan; Moser, Bernhard; Schlangen, Karin; Neudert, Barbara; Walter, Karin; Migschitz, Brigitte; Müllauer, Leonhard (2017). Molecular Profiling of Thymoma and Thymic Carcinoma: Genetic Differences and Potential Novel Therapeutic Targets. Pathology oncology research : POR.;23(3):551-564. PMID: 27844328
Popitsch, Niko; Bilusic, Ivana; Rescheneder, Philipp; Schroeder, Renée; Lybecker, Meghan (2017). Temperature-dependent sRNA transcriptome of the Lyme disease spirochete. BMC GENOMICS;18(1):28. PMID: 28056764
Klopf, Eva; Schmidt, Heiko A; Clauder-Münster, Sandra; Steinmetz, Lars M; Schüller, Christoph (2017). INO80 represses osmostress induced gene expression by resetting promoter proximal nucleosomes. NUCLEIC ACIDS RES;7(45):3752-3766. PMID: 28025392
Kühbacher, Andreas; Henkel, Helena; Stevens, Philip; Grumaz, Christian; Finkelmeier, Doris; Burger-Kentischer, Anke; Sohn, Kai; Rupp, Steffen (2017). Dermal Fibroblasts Play a Central Role in Skin Model Protection against C. albicans Invasion. J INFECT DIS;215(11):1742-1752. PMID: 28368492
Kalyaanamoorthy, Subha; Minh, Bui Quang; Wong, Thomas K F; von Haeseler, Arndt; Jermiin, Lars S (2017). ModelFinder: fast model selection for accurate phylogenetic estimates. Nature Methods;14(6):587-589. PMID: 28481363
Sedlyarova, Nadezda; Rescheneder, Philipp; Magán, Andrés; Popitsch, Niko; Rziha, Natascha; Bilusic, Ivana; Epshtein, Vitaly; Zimmermann, Bob; Lybecker, Meghan; Sedlyarov, Vitaly; Schroeder, Renée; Nudler, Evgeny (2017). Natural RNA Polymerase Aptamers Regulate Transcription in E. coli. MOL CELL;67(1):30-43.e6. PMID: 28648779
Herzog, Veronika A; Reichholf, Brian; Neumann, Tobias; Rescheneder, Philipp; Bhat, Pooja; Burkard, Thomas R; Wlotzka, Wiebke; von Haeseler, Arndt; Zuber, Johannes; Ameres, Stefan L (2017). Thiol-linked alkylation of RNA to assess expression dynamics. Nature Methods. PMID: 28945705
Niemiec, Maria J; Grumaz, Christian; Ermert, David; Desel, Christiane; Shankar, Madhu; Lopes, José Pedro; Mills, Ian G; Stevens, Philip; Sohn, Kai; Urban, Constantin F (2017). Correction to: Dual transcriptome of the immediate neutrophil and Candida albicans interplay. BMC GENOMICS;18(1):863. PMID: 29132295
Ratmann, Oliver; Wymant, Chris; Colijn, Caroline; Danaviah, Siva; Essex, M; Frost, Simon D W; Gall, Astrid; Gaiseitsiwe, Simani; Grabowski, Mary; Gray, Ronald; Guindon, Stephane; von Haeseler, Arndt; Kaleebu, Pontiano; Kendall, Michelle; Kozlov, Alexey; Manasa, Justen; Minh, Bui Quang; Moyo, Sikhulile; Novitsky, Vladimir; Nsubuga, Rebecca; Pillay, Sureshnee; Quinn, Thomas C; Serwadda, David; Ssemwanga, Deogratius; Stamatakis, Alexandros; Trifinopoulos, Jana; Wawer, Maria; Leigh Brown, Andrew; de Oliveira, Tulio; Kellam, Paul; Pillay, Deenan; Fraser, Christophe (2017). HIV-1 full-genome phylogenetics of generalized epidemics in sub-Saharan Africa: impact of missing nucleotide characters in next-generation sequences. AIDS research and human retroviruses.. PMID: 28540766
Nguyen, Lam-Tung; von Haeseler, Arndt; Minh, Bui Quang (2017). Complex Models of Sequence Evolution Require Accurate Estimators as Exemplified with the Invariable Site plus Gamma Model. SYST BIOL. PMID: 29186593
Mailänder-Sánchez, Daniela; Braunsdorf, Christina; Grumaz, Christian; Müller, Christoph; Lorenz, Stefan; Stevens, Philip; Wagener, Jeanette; Hebecker, Betty; Hube, Bernhard; Bracher, Franz; Sohn, Kai; Schaller, Martin (2017). Antifungal defense of probiotic Lactobacillus rhamnosus GG is mediated by blocking adhesion and nutrient depletion. PLOS ONE;12(10):e0184438. PMID: 29023454
Wang, Huai-Chun; Minh, Bui Quang; Susko, Edward; Roger, Andrew J (2017). Modeling Site Heterogeneity with Posterior Mean Site Frequency Profiles Accelerates Accurate Phylogenomic Estimation. SYST BIOL. PMID: 28950365
Hoang, Diep Thi; Chernomor, Olga; von Haeseler, Arndt; Minh, Bui Quang; Le, Sy Vinh (2017). UFBoot2: Improving the Ultrafast Bootstrap Approximation. MOL BIOL EVOL. PMID: 29077904
Chernomor, Olga; von Haeseler, Arndt; Minh, Bui Quang (2016). Terrace Aware Data Structure for Phylogenomic Inference from Supermatrices. SYST BIOL. PMID: 27121966
Jagut, Marlène; Hamminger, Patricia; Woglar, Alexander; Millonigg, Sophia; Paulin, Luis; Mikl, Martin; Dello Stritto, Maria Rosaria; Tang, Lois; Habacher, Cornelia; Tam, Angela; Gallach, Miguel; von Haeseler, Arndt; Villeneuve, Anne M; Jantsch, Verena (2016). Separable Roles for a Caenorhabditis elegans RMI1 Homolog in Promoting and Antagonizing Meiotic Crossovers Ensure Faithful Chromosome Inheritance. PLOS BIOLOGY;14(3):e1002412. PMID: 27011106
Burki, Fabien; Kaplan, Maia; Tikhonenkov, Denis V; Zlatogursky, Vasily; Minh, Bui Quang; Radaykina, Liudmila V; Smirnov, Alexey; Mylnikov, Alexander P; Keeling, Patrick J (2016). Untangling the early diversification of eukaryotes: a phylogenomic study of the evolutionary origins of Centrohelida, Haptophyta and Cryptista. Proceedings. Biological sciences;283(1823). PMID: 26817772
Chernomor O., Klaere S., von Haeseler A., and B.Q. Minh (2016). Split diversity: measuring and optimizing biodiversity using phylogenetic split networks. Topics in Biodiversity and Conservation;14:173-195.
Gesson, Kevin; Rescheneder, Philipp; Skoruppa, Michael P; von Haeseler, Arndt; Dechat, Thomas; Foisner, Roland (2016). A-type lamins bind both hetero- and euchromatin, the latter being regulated by lamina-associated polypeptide 2 alpha. GENOME RES;26(4):462-73. PMID: 26798136
Holthaus, Karin Brigit; Strasser, Bettina; Sipos, Wolfgang; Schmidt, Heiko A; Mlitz, Veronika; Sukseree, Supawadee; Weissenbacher, Anton; Tschachler, Erwin; Alibardi, Lorenzo; Eckhart, Leopold (2016). Comparative Genomics Identifies Epidermal Proteins Associated with the Evolution of the Turtle Shell. MOL BIOL EVOL;33(3):726-37. PMID: 26601937