Research Goals

Julia Feichtinger's research focus lies on the large-scale analyses of transcriptomics and (epi)genomics data, in particular relating to long non-coding RNAs.

Exploiting the large amount of available sequencing data enables us to construct a comprehensive picture of gene expression patterns across tissues, diseases and cell types and, therefore, will help us to better understand the underlying mechanisms of gene expression regulation and its dysregulation in diseases.

Advances in this field will greatly promote molecular biology and clinical/biomedical research. Furthermore, we support biologists with biostatistics and bioinformatics analyses.


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Current Projects

  • FWF Project T 923-B26 - Antisense and Allele-specific Transcription in Human Cancer
    January 2018 - June 2021

    We are investigating two widespread transcriptional phenomena, antisense and allele-specific transcription, in a large-scale study. Antisense transcripts are at least partially complementary to a corresponding (mainly protein-coding) sense transcript and can have diverse functional roles in gene regulation (e.g., modifying epigenetic marks). This genomic arrangement also clearly suggests that antisense transcripts are mainly involved in allele-specific gene regulation/silencing. We aim to construct a comprehensive picture of these processes in a large panel of cancer samples and healthy controls by making use of the current wealth of transcriptomics and (epi)genomics data provided in the constantly growing public repositories. This will not only lead to new insights into gene regulation and provide new diagnostic/prognostic marker and drug target candidates for clinical applications but could also change the paradigm on how we conduct gene expression analyses in the future.

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Current Theses

I am currently looking for master students! Have a look if you are interested - more details here.


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Completed Theses

MSc Theses

  • Raphael Hablesreiter: Establishment of an Analysis Pipeline for Public Cancer Gene Expression Sequencing Datasets

 


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Selected Publications

2019
Tomislav Cernava, Armin Erlacher, Jung Soh, Christoph W Sensen, Martin Grube and Gabriele Berg Enterobacteriaceae dominate the core microbiome and contribute to the resistome of arugula (Eruca sativa Mill.) Show publication in PURE
Nils Hoffmann, Joel Rein, Timo Tobias Sachsenberg, Jürgen Hartler, Kenneth Haug, Gerhard Mayer, Oliver Alka, Saravanan Dayalan, Jake Thomas Midwinter Pearce, Philippe Rocca-Serra, Da Qi, Martin Eisenacher, Yasset Perez-Riverol, Juan Antonio Vizcaíno, Reza M Salek, Steffen Neumann and Andrew R Jones mzTab-M: a data standard for sharing quantitative results in mass spectrometry metabolomics Show publication in PURE
Leen Assil Companioni, Sandy Schmidt, Petra Heidinger, Helmut Schwab and Robert Kourist Hetero- and autotrophically driven C=C bond reduction in recombinant C. necator Show publication in PURE
2018
Maximilian Malek and Christoph W Sensen Instant Feedback Rapid Prototyping for GPU-Accelerated Computation, Manipulation, and Visualization of Multidimensional Data Show publication in PURE
Erika Iveth Cedillo-Gonzálaz, Virginia Barbieri, Letiticia M. Torres-Martínez, Paolo Falcaro, Isaías Juárez-Ramírez, Laura Villanova, Monica Montecchi and Luca Pasquali Influence of domestic and environmental weathering in the self-cleaning performance and durability of TiO2 photocatalytic coatings Show 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 Hočevar A concise review of significantly modified serological biomarkers in giant cell arteritis, as detected by different methods Show publication in PURE
Julia J Unterluggauer, Katharina Prochazka, Peter V Tomazic, Heinrich J Huber, Rita Seeboeck, Karoline Fechter, Elisabeth Steinbauer, Verena Gruber, Julia Feichtinger, Martin Pichler, Marc A Weniger, Ralf Küppers, Heinz Sill, Rudolf Schicho, Peter Neumeister, Christine Beham-Schmid, Alexander J A Deutsch and Johannes Haybaeck Expression profile of translation initiation factor eIF2B5 in diffuse large B-cell lymphoma and its correlation to clinical outcome Show publication in PURE
Karoline Fechter, Julia Feichtinger, Katharina Prochazka, Julia Judith Unterluggauer, Katrin Pansy, Elisabeth Steinbauer, Martin Pichler, Johannes Haybaeck, Andreas Prokesch, Hildegard T Greinix, Christine Beham-Schmid, Peter Neumeister, Gerhard G Thallinger and Alexander J A Deutsch Cytoplasmic location of NR4A1 in aggressive lymphomas is associated with a favourable cancer specific survival Show publication in PURE
Bhupesh K Prusty, Nitish Gulve, Sheila Govind, Gerhard R F Krueger, Julia Feichtinger, Lee Larcombe, Richard Aspinall, Dharam V Ablashi and Carla T Toro Active HHV-6 Infection of Cerebellar Purkinje Cells in Mood Disorders Show publication in PURE
Thomas Vogl, Lukas Sturmberger, Pia C Fauland, Patrick Hyden, Jasmin Elgin Fischer, Christian Schmid, Gerhard G Thallinger, Martina Geier and Anton Glieder Methanol independent induction in Pichia pastoris by simple derepressed overexpression of single transcription factors Show publication in PURE
Iker Irisarri, Pooja Singh, Stephan Koblmüller, Julián Torres-Dowdall, Frederico Henning, Paolo Franchini, Christoph Fischer, Alan R Lemmon, Emily Moriarty Lemmon, Gerhard G Thallinger, Christian Sturmbauer and Axel Meyer Phylogenomics uncovers early hybridization and adaptive loci shaping the radiation of Lake Tanganyika cichlid fishes Show publication in PURE
Sylvia Schäffer, Stephan Koblmüller, Ingeborg Klymiuk and Gerhard G Thallinger The mitochondrial genome of the oribatid mite Paraleius leontonychus Show publication in PURE
Giulia Speziali, Laura Liesinger, Juergen Gindlhuber, Christina Leopold, Bettina Pucher, Jessica Brandi, Annalisa Castagna, Tamara Tomin, Petra Krenn, Gerhard G Thallinger, Oliviero Olivieri, Nicola Martinelli, Dagmar Kratky, Matthias Schittmayer, Ruth Birner-Gruenberger and Daniela Cecconi Myristic acid induces proteomic and secretomic changes associated with steatosis, cytoskeleton remodeling, endoplasmic reticulum stress, protein turnover and exosome release in HepG2 cells Show publication in PURE
P V Tomazic, L Liesinger, B Pucher, G G Thallinger, A Leitner, S Spoerk, C Gerstenberger, D Lang-Loidolt and R Birner-Gruenberger Comparison of tear proteome in allergic rhinoconjunctivitis patients and controls with respect to pollen season Show publication in PURE
Tamara Tomin, Katarina Fritz, Juergen Gindlhuber, Linda Waldherr, Bettina Pucher, Gerhard G Thallinger, Daniel K Nomura, Matthias Schittmayer and Ruth Birner-Gruenberger Deletion of Adipose Triglyceride Lipase Links Triacylglycerol Accumulation to a More-Aggressive Phenotype in A549 Lung Carcinoma Cells Show publication in PURE
Katrin Panzitt, Martin Wagner and Gerhard Thallinger Bioinformatic Analysis of FXR related ChIP-seq data Show publication in PURE
Katrin Panzitt, Martin Wagner and Gerhard Thallinger Bioinformatic Analysis of FXR related ChIP-seq data Show publication in PURE
Katrin Panzitt, Martin Wagner and Gerhard Thallinger Bioinformatic Analysis of FXR related ChIP-seq data Show publication in PURE
Gerhard Thallinger, Bettina Pucher, Natascha Fladischer and Oana Alina Zeleznik Dimension Reduction for the Integrative Analysis of Multilevel Omics Data Dimension Reduction for the Integrative Analysis of Multilevel Omics Data Show publication in PURE
2017
Petra Heidinger, Thorsten Bachler, Jung Soh, Laura Villanova, Stefan Grabuschnig and Christoph Wilhelm Sensen Circulating Nucleic Acids as Early Diagnostic Markers Show publication in PURE
Elisabeth Ullrich, Petra Heidinger, Christoph Wilhelm Sensen and R. Krause Circulating Nucleic Acids as Early Diagnostic Markers for Sepsis Show publication in PURE
Holly Stolterfoht, Daniel Schwendenwein, Christoph Wilhelm Sensen, Florian Rudroff and Margit Winkler Four distinct types of E.C. 1.2.1.30 enzymes can catalyze the reduction of carboxylic acids to aldehydes Show publication in PURE
Jürgen Gindlhuber, Barbara Darnhofer, Bettina Pucher, Tamara Tomin, Gerhard Thallinger and Ruth Birner-Gruenberger Mitochondrial fragmentation in fatty liver Show publication in PURE
Petra Krenn, Laura Liesinger, Bettina Pucher, Matthias Schittmayer, Gerhard Thallinger, Jürgen Cox and Ruth Birner-Gruenberger The role of protein-phosphorylation in lipolysis Show publication in PURE
Laura Liesinger, Jürgen Gindlhuber, Bettina Pucher, Gerhard Thallinger and Ruth Birner-Gruenberger Proteome-wide impact of oleic and palmitic acid induced steatosis in human liver cells Show 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 Thallinger Deciphering lipid structures based on platform-independent decision rules Show 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 Thallinger Deciphering lipid structures based on platform-independent decision rules Show 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 Thallinger Deciphering lipid structures based on platform-independent decision rules Show 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 Steininger The Human Gastric Microbiome Is Predicated upon Infection with Helicobacter pylori Show 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 Schuhmacher MetExtract II Show publication in PURE
Bettina Halwachs, Nandhitha Madhusudhan, Robert Krause, R Henrik Nilsson, Christine Moissl-Eichinger, Christoph Högenauer, Gerhard G Thallinger and Gregor Gorkiewicz Critical Issues in Mycobiota Analysis Show publication in PURE
Jung Soh and Christoph Wilhelm Sensen Unravelling the Bauplan of life: The DNA sequencing revolutionUnravelling the Bauplan of life: The DNA sequencing revolution218 Show 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 Glieder Erratum Show publication in PURE
Josch K Pauling, Martin Hermansson, Jürgen Hartler, Klaus Christiansen, Sandra F Gallego, Bing Peng, Robert Ahrends and Christer S Ejsing Proposal for a common nomenclature for fragment ions in mass spectra of lipids Show publication in PURE
Martin Trötzmüller, Alexander Triebl, Amra Ajsic, Jürgen Hartler, Harald Köfeler and Werner Regittnig Determination of the Isotopic Enrichment of 13C- and 2H-Labeled Tracers of Glucose Using High-Resolution Mass Spectrometry Show 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 Thallinger Deciphering lipid structures based on platform-independent decision rules Show publication in PURE
Katja Lakota, Julia Feichtinger, Blaž Burja, Tadeja Kuret, Polona Žigon, Žiga Rotar, Rok Ješe, Snezna Sodin-Semrl, Saša Čučnik, Gerhard G Thallinger, Matija Tomšič and Alojzija Hočevar Utility of serological biomarkers for giant cell arteritis in a large cohort of treatment-naïve patients Utility of serological biomarkers for giant cell arteritis in a large cohort of treatment-naïve patients 219 Show publication in PURE
Julia Feichtinger, Christoph Fischer, Inmaculada Hernandez, Heena Dhiman, Nicole Borth and Gerhard Thallinger Comprehensive Analysis of Genomic Data for 16 CHO Cell Lines to Investigate the (In)stability of the CHO Genome Show 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 Neumeister NR4A3 Suppresses Lymphomagenesis through Induction of Proapoptotic Genes Show publication in PURE
Alexander Triebl, M. Trötzmüller, Jürgen Hartler, Tatjana Stojakovic and Harald C. Köfeler Lipidomics by ultrahigh performance liquid chromatography-high resolution mass spectrometry and its application to complex biological samples Show publication in PURE
Alexander Triebl, Jürgen Hartler, M. Trötzmüller and Harald C. Köfeler Lipidomics: Prospects from a technological perspective Show publication in PURE
2016
Tamara Tomin, Katarina Fritz, Bettina Pucher, Matthias Schittmayer, Barbara Darnhofer and Ruth Birner-Gruenberger ATGL and cancer: when genomics meets proteomics Show publication in PURE
2015
Martin Grube, Tomislav Cernava, J. Soh, S. Fuchs, Ines Aschenbrenner, C. Lassek, U Wegener, K Riedel, Christoph Wilhelm Sensen and Gabriele Berg Exploring functional contexts of symbiotic sustain within lichen-associated bacteria by comparative omics Show publication in PURE
2010
M. Xiao, T. Do, L. Helmick, Jung Soh, A. Fisk, J.D. Fisk, G. Robertson and Christoph Wilhelm Sensen A novel MRI visualization tool for white matter pathology in multiple sclerosis Show publication in PURE
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Tomislav Cernava, Ines Aschenbrenner, Jung Soh, Christoph Wilhelm Sensen, Martin Grube and Gabriele Berg Plasticity of a holobiont: desiccation induces fasting-like metabolism within the lichen microbiota Show publication in PURE
Blaž Burja, Julia Feichtinger, Katja Lakota, Gerhard G Thallinger, Snezna Sodin-Semrl, Tadeja Kuret, Žiga Rotar, Rok Ješe, Polona Žigon, Saša Čučnik, Polonca Mali, Sonja Praprotnik, Matija Tomšič and Alojzija Hočevar Utility of serological biomarkers for giant cell arteritis in a large cohort of treatment-naïve patients Show publication in PURE
Tadeja Kuret, Blaž Burja, Julia Feichtinger, Gerhard G Thallinger, Mojca Frank-Bertoncelj, Katja Lakota, Polona Žigon, Snezna Sodin-Semrl, Saša Čučnik, Matija Tomšič and Alojzija Hočevar Gene and miRNA expression in giant cell arteritis-a concise systematic review of significantly modified studies Show publication in PURE
Bettina M Pucher, Oana A Zeleznik and Gerhard G Thallinger Comparison and evaluation of integrative methods for the analysis of multilevel omics data Show publication in PURE
Leen Assil Companioni, Sandy Schmidt, Petra Heidinger, Helmut Schwab and Robert Kourist Hydrogen-driven cofactor regeneration for stereoselective whole-cell C=C bond reduction in Cupriavidus necator Show publication in PURE

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Team Leader
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Julia Feichtinger
Dipl.-Ing. MSc PhD

Julia Feichtinger