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
mzTab-M: a data standard for sharing quantitative results in mass spectrometry metabolomics Show publication in PURE
Christoph Wilhelm Sensen Enterobacteriaceae dominate the core microbiome and contribute to the resistome of arugula (Eruca sativa Mill.) Show publication in PURE
Petra Heidinger Hetero- and autotrophically driven C=C bond reduction in recombinant C. necator Show publication in PURE
jmzTab-M: A Reference Parser, Writer and Validator for the Proteomics Standards Initiative mzTab 2.0 Metabolomics Standard Show publication in PURE
Gerhard Thallinger A Comprehensive FXR Signaling Atlas Derived from Pooled ChIP-seq Data Show publication in PURE
Petra Heidinger Hydrogen-driven cofactor regeneration for stereoselective whole-cell C=C bond reduction in Cupriavidus necator Show publication in PURE
Gerhard Thallinger The CXCR4-CXCL12-Axis Is of Prognostic Relevance in DLBCL and Its Antagonists Exert Pro-Apoptotic Effects In Vitro Show publication in PURE
Christoph Wilhelm Sensen Cellular Immune Response Involving Multinucleated Giant Hemocytes with Two-Step Genome Amplification in the Drosophilid Zaprionus indianus Show publication in PURE
Gerhard Thallinger Utility of serological biomarkers for giant cell arteritis in a large cohort of treatment-naïve patients Show publication in PURE
Gerhard Thallinger Gene and miRNA expression in giant cell arteritis-a concise systematic review of significantly modified studies Show publication in PURE
Gerhard Thallinger Comparison and evaluation of integrative methods for the analysis of multilevel omics data Show publication in PURE
2018
Gerhard Thallinger Dimension Reduction for the Integrative Analysis of Multilevel Omics Data Dimension Reduction for the Integrative Analysis of Multilevel Omics Data Show publication in PURE
Gerhard Thallinger 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
Gerhard Thallinger Methanol independent induction in Pichia pastoris by simple derepressed overexpression of single transcription factors Show publication in PURE
Gerhard Thallinger A concise review of significantly modified serological biomarkers in giant cell arteritis, as detected by different methods Show publication in PURE
Christoph Wilhelm Sensen Instant Feedback Rapid Prototyping for GPU-Accelerated Computation, Manipulation, and Visualization of Multidimensional Data Show publication in PURE
Christoph Wilhelm Sensen Plasticity of a holobiont: desiccation induces fasting-like metabolism within the lichen microbiota Show publication in PURE
Influence of domestic and environmental weathering in the self-cleaning performance and durability of TiO2 photocatalytic coatings Show publication in PURE
Expression profile of translation initiation factor eIF2B5 in diffuse large B-cell lymphoma and its correlation to clinical outcome Show publication in PURE
Gerhard Thallinger Cytoplasmic location of NR4A1 in aggressive lymphomas is associated with a favourable cancer specific survival Show publication in PURE
Active HHV-6 Infection of Cerebellar Purkinje Cells in Mood Disorders Show publication in PURE
Gerhard Thallinger Phylogenomics uncovers early hybridization and adaptive loci shaping the radiation of Lake Tanganyika cichlid fishes Show publication in PURE
Gerhard Thallinger The mitochondrial genome of the oribatid mite Paraleius leontonychus Show publication in PURE
Gerhard Thallinger Comparison of tear proteome in allergic rhinoconjunctivitis patients and controls with respect to pollen season Show publication in PURE
Gerhard Thallinger Deletion of Adipose Triglyceride Lipase Links Triacylglycerol Accumulation to a More-Aggressive Phenotype in A549 Lung Carcinoma Cells Show publication in PURE
Gerhard Thallinger Bioinformatic Analysis of FXR related ChIP-seq data Show publication in PURE
Gerhard Thallinger Bioinformatic Analysis of FXR related ChIP-seq data Show publication in PURE
Gerhard Thallinger Bioinformatic Analysis of FXR related ChIP-seq data Show publication in PURE
2017
Gerhard Thallinger 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
Christoph Wilhelm Sensen Four distinct types of E.C. 1.2.1.30 enzymes can catalyze the reduction of carboxylic acids to aldehydes Show publication in PURE
Lipidomics: Prospects from a technological perspective Show publication in PURE
Lipidomics by ultrahigh performance liquid chromatography-high resolution mass spectrometry and its application to complex biological samples Show publication in PURE
Gerhard Thallinger Proteome-wide impact of oleic and palmitic acid induced steatosis in human liver cells Show publication in PURE
Gerhard Thallinger The role of protein-phosphorylation in lipolysis Show publication in PURE
Gerhard Thallinger Mitochondrial fragmentation in fatty liver Show publication in PURE
Christoph Wilhelm Sensen Unravelling the Bauplan of life: The DNA sequencing revolutionUnravelling the Bauplan of life: The DNA sequencing revolution218 Show publication in PURE
Gerhard Thallinger Deciphering lipid structures based on platform-independent decision rules Show publication in PURE
Determination of the Isotopic Enrichment of 13C- and 2H-Labeled Tracers of Glucose Using High-Resolution Mass Spectrometry Show publication in PURE
Proposal for a common nomenclature for fragment ions in mass spectra of lipids Show publication in PURE
Gerhard Thallinger Erratum Show publication in PURE
Gerhard Thallinger Critical Issues in Mycobiota Analysis Show publication in PURE
Gerhard Thallinger MetExtract II Show publication in PURE
Gerhard Thallinger The Human Gastric Microbiome Is Predicated upon Infection with Helicobacter pylori Show publication in PURE
Gerhard Thallinger Deciphering lipid structures based on platform-independent decision rules Show publication in PURE
Gerhard Thallinger Deciphering lipid structures based on platform-independent decision rules Show publication in PURE
Gerhard Thallinger Deciphering lipid structures based on platform-independent decision rules Show publication in PURE
Gerhard Thallinger NR4A3 Suppresses Lymphomagenesis through Induction of Proapoptotic Genes Show publication in PURE
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
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
Petra Heidinger and Christoph Wilhelm Sensen Circulating Nucleic Acids as Early Diagnostic Markers for Sepsis Show publication in PURE
Petra Heidinger, Christoph Wilhelm Sensen and Stefan Grabuschnig Circulating Nucleic Acids as Early Diagnostic Markers Show publication in PURE
2016
ATGL and cancer: when genomics meets proteomics Show publication in PURE
2015
Christoph Wilhelm Sensen Exploring functional contexts of symbiotic sustain within lichen-associated bacteria by comparative omics Show publication in PURE
2011
Klaus Peter Schliep Let them fall where they may Show publication in PURE
Klaus Peter Schliep Of woods and webs Show publication in PURE
Klaus Peter Schliep Local mobile gene pools rapidly cross species boundaries to create endemicity within global Vibrio cholerae populations Show publication in PURE
2010
Christoph Wilhelm Sensen A novel MRI visualization tool for white matter pathology in multiple sclerosis Show publication in PURE

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Team Leader
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Julia Feichtinger
Dipl.-Ing. MSc PhD

Julia Feichtinger