Our research covers management and processing of high-throughput screening data as well as the development of databases and tools for their computational analysis. Specifically we are interested in the analysis of diverse dataset generated with next generation sequencing technologies, mass spectrometry and the integration of multiple omics datasets in a joint evaluation.
The interdisciplinary team of bioinformaticians, biomedical engineers, chemists, engineers, and mathematicians at our lab builds a creative and inspiring environment to address hot topics in life sciences.
January 2015 - December 2017 acib industrial project Area 2 - New enzymes for polymer modification
The in silico screening of genomic databases and own next generation sequencing data is applied to identify novel enzymes acting on polymers and for polymer synthesis. The identified biocatalysts for polymer processing are then engineered for improved technological features.
June 2015 – May 2018 FWF Project P 27843: Comparative phylogeography of co-distributed arboreal mites
Comparative phylogeographic analyses focusing on distantly related but co-distributed species with proposed different dispersal abilities are an approved strategy to inference the effect of historical and/or contemporaneous processes driving species diversification. The present proposal is a pilot study that shall provide first insights into local- and large-scale phylogeographic patterns by comparing several co-distributed arboreal oribatid mite species with (presumed) different dispersal modes (phoretic versus non-phoretic behavior) in Europe. The use of “traditional” molecular techniques, plus modern next-generation sequencing (NGS) - a new application for population genetics and phylogeography in arachnids – will allow for illuminating recent (gene flow, genetic drift) and past (bottlenecks) evolutionary processes as far as population contractions/expansion and colonization routes, which had important impacts on contemporary intraspecific diversity of species that overlap in time and space. This is a joint project coordinated by Dr. Sylvia Schäffer, Institute of Zoology, Karl-Franzens University Graz, and Dr. Ingeborg Klymiuk, ZMF, Medical University of Graz.
July 2014 – June 2016 Land Steiermark Project Molecular Tumour Therapy Selection
Cancer therapy for patients with progressing metastatis is often hampered by the lack of further evidence based drug routes. This project aims to identify further applicable drugs by molecular analysis of samples from tumor, mestastatis and corresponding tissue of these patients. This is a joint project coordinated by Dr. Karl Kashofer, Institute of Pathology, Medical University of Graz and Dr. Bernhard Wieser, Interuniversitäres Forschungszentrum für Technik, Arbeit und Kultur.
October 2013 – December 2018 Austrian Ministry of Science, Research and Economy - Omics Center Graz
The Omics Center Graz bundles the expertise and existing infrastructure in genomics, transcriptomics, proteomics, and metabolomics/lipidomics, as well as bioinformatics and administration of research centers in Graz. Special emphasis is put on bioinformatics and measurement capacity, in order to perform more comprehensive omic studies and multi- omic projects. Such organized strategies will facilitate the obtainment of sustainable knowledge from the largest European Biobank which is located in Graz, as well as the implementation of biomarker research in Graz. From this initiative highly profit next to molecular biomedicine, particularly the strong lipid research network and research competence centers with close connection to industry (e.g. ACIB, RCPE), and young researchers finding training in state of the art high end technologies in Graz.
July 2013 – June 2016 FWF Project P 26148: High-Throughput Identification of Lipid Molecular Species in LC-MS/MS Data
The aim of this project is to develop a versatile and generally applicable method for high throughput determination of lipid structural fatty acid composition from LC-MS/MS data, easily adaptable to different mass spectrometers and experimental setups. The general applicability will be facilitated by a newly developed language for the description of MS/MS fragmentation spectra. Based on this language, a novel algorithm will identify the lipid and its deducible compositional features. The performance of the method will be verified in controlled and biological experiments. Furthermore, we want to supply a graphical user interface for the definition of rules describing the spectra, and supply pre defined rule sets for the most common mass spectrometers. This joint project is coordinated by Dr. Gerhard Thallinger with the partners Dr. Günther Hämmerle, Institute of Molecular Biosciences, Karl-Franzens University Graz, and Dr. Harald Köfeler, ZMF, Medical University of Graz.
December 2012 - November 2015 EU FP7 Project KYROBIO: Grant agreement no: 289646
The discovery, development and demonstration of biocatalysts for use in the industrial synthesis of chiral chemicals and our interest was to identify a new class of hydroxynitrile lyases. This project is carried out within acib by Dr. Margit Winkler in close collaboration with Prof. Karl Gruber (UniGraz), Prof. Ruth Birner-Grünberger (ZMF and Omics Centre) and Dr. Gerhard Thallinger (TU Graz)
January 2011 - June 2016 FWF Project P 22737: Genomic sequencing of two Lake Tanganyika cichlid fish
The cichlid fishes of Lake Tanganyika represent the oldest and ecomorphologically most advanced adaptive radiation and several lineages radiated in parallel. We chose the tribe Tropheini to study adaptive evolution and propose to decipher the genomes of two highly divergent members of the Tropheini, the epilithic algae feeder Tropheus moorii, and the unicellular algae comber Petrochromis trewavasae. This is a joint project coordinated by Prof. Christian Sturmbauer, Institute of Zoology, Karl-Franzens University Graz, Dr. Christian Gülly, ZMF, Medical University of Graz and Prof. Christian Schlötterer, Veterenary University Vienna.
Maximilian Malek and Christoph W SensenInstant Feedback Rapid Prototyping for GPU-Accelerated Computation, Manipulation, and Visualization of Multidimensional DataShow publication in PURE
B Burja, T Kuret, S Sodin-Semrl, K Lakota, Ž Rotar, R Ješe, K Mrak-Poljšak, P Žigon, G G Thallinger, J Feichtinger, S Čučnik, M Tomšič, S Praprotnik and A HočevarA concise review of significantly modified serological biomarkers in giant cell arteritis, as detected by different methodsShow publication in PURE
Holly Stolterfoht, Daniel Schwendenwein, Christoph Wilhelm Sensen, Florian Rudroff and Margit WinklerFour distinct types of E.C. 126.96.36.199 enzymes can catalyze the reduction of carboxylic acids to aldehydesShow publication in PURE
Fauziah F Rochman, Andriy Sheremet, Ivica Tamas, Alireza Saidi-Mehrabad, Joong-Jae Kim, Xiaoli Dong, Christoph W Sensen, Lisa M Gieg and Peter F DunfieldBenzene and Naphthalene Degrading Bacterial Communities in an Oil Sands Tailings PondShow publication in PURE
Ingeborg Klymiuk, Ceren Bilgilier, Alexander Stadlmann, Jakob Thannesberger, Marie-Theres Kastner, Christoph Högenauer, Andreas Püspök, Susanne Biowski-Frotz, Christiane Schrutka-Kölbl, Gerhard G Thallinger and Christoph SteiningerThe Human Gastric Microbiome Is Predicated upon Infection with Helicobacter pyloriShow publication in PURE
Thomas Vogl, Lukas Sturmberger, Pia C Fauland, Patrick Hyden, Jasmin Elgin Fischer, Christian Schmid, Gerhard G Thallinger, Martina Geier and Anton GliederMethanol independent induction in Pichia pastoris by simple derepressed overexpression of single transcription factorsShow publication in PURE
Christoph Bueschl, Bernhard Kluger, Nora K N Neumann, Maria Doppler, Valentina Maschietto, Gerhard G Thallinger, Jacqueline Meng-Reiterer, Rudolf Krska and Rainer SchuhmacherMetExtract IIShow publication in PURE
Bettina Halwachs, Nandhitha Madhusudhan, Robert Krause, R Henrik Nilsson, Christine Moissl-Eichinger, Christoph Högenauer, Gerhard G Thallinger and Gregor GorkiewiczCritical Issues in Mycobiota AnalysisShow publication in PURE
Elisa Lanfranchi, Tea Pavkov-Keller, Eva-Maria Koehler, Matthias Diepold, Kerstin Steiner, Barbara Darnhofer, Jürgen Hartler, Tom Van Den Bergh, Henk-Jan Joosten, Mandana Gruber-Khadjawi, Gerhard G Thallinger, Ruth Birner-Gruenberger, Karl Gruber, Margit Winkler and Anton GliederErratumShow publication in PURE
Josch K Pauling, Martin Hermansson, Jürgen Hartler, Klaus Christiansen, Sandra F Gallego, Bing Peng, Robert Ahrends and Christer S EjsingProposal for a common nomenclature for fragment ions in mass spectra of lipidsShow publication in PURE
Martin Trötzmüller, Alexander Triebl, Amra Ajsic, Jürgen Hartler, Harald Köfeler and Werner RegittnigDetermination of the Isotopic Enrichment of 13C- and 2H-Labeled Tracers of Glucose Using High-Resolution Mass SpectrometryShow publication in PURE
Jürgen Hartler, Alexander Triebl, Andreas Ziegl, Martin Trötzmüller, Gerald N Rechberger, Oana Alina Zeleznik, Kathrin A Zierler, Federico Torta, Amaury Cazenave-Gassiot, Markus R Wenk, Alexander Fauland, Craig E Wheelock, Aaron M Armando, Oswald Quehenberger, Qifeng Zhang, Michael JO Wakelam, Guenter Haemmerle, Friedrich Spener, Harald C Köfeler and Gerhard G ThallingerDeciphering lipid structures based on platform-independent decision rulesShow publication in PURE
Alexander J A Deutsch, Beate Rinner, Martin Pichler, Katharina Prochazka, Katrin Pansy, Marco Bischof, Karoline Fechter, Stefan Hatzl, Julia Feichtinger, Kerstin Wenzl, Marie-Therese Frisch, Verena Stiegelbauer, Andreas Prokesch, Anne Krogsdam, Heinz Sill, Gerhard G Thallinger, Hildegard T Greinix, Chenguang Wang, Christine Beham-Schmid and Peter NeumeisterNR4A3 Suppresses Lymphomagenesis through Induction of Proapoptotic GenesShow publication in PURE
Elisa Lanfranchi, Tea Pavkov-Keller, Eva-Maria Koehler, Matthias Diepold, Kerstin Steiner, Barbara Darnhofer, Jürgen Hartler, Tom Van Den Bergh, Henk Jan Joosten, Mandana Gruber-Khadjawi, Gerhard Thallinger, Ruth Birner-Gruenberger, Karl Gruber, Margit Winkler and Anton GliederEnzyme discovery beyond homology: a unique hydroxynitrile lyase in the Bet v1 superfamilyShow publication in PURE
Alexander Triebl, M. Trötzmüller, Jürgen Hartler, Tatjana Stojakovic and Harald C. KöfelerLipidomics by ultrahigh performance liquid chromatography-high resolution mass spectrometry and its application to complex biological samplesShow publication in PURE
Alexander Triebl, Jürgen Hartler, M. Trötzmüller and Harald C. KöfelerLipidomics: Prospects from a technological perspectiveShow publication in PURE
Bernd Nidetzky and Christoph W SensenSpecial Issue on acib, Dedicated to the Occasion of Prof. Dr. Helmut Schwab's 65th BirthdayShow publication in PURE
Martin Grube, Tomislav Cernava, J. Soh, S. Fuchs, Ines Aschenbrenner, C. Lassek, U Wegener, K Riedel, Christoph Wilhelm Sensen and Gabriele BergExploring functional contexts of symbiotic sustain within lichen-associated bacteria by comparative omicsShow publication in PURE