Publications

2024

Memory effects of prior subculture may impact the quality of multiomic perturbation profiles.
Bortel P, Hagn G, Skos L, Bileck A, Paulitschke V, Paulitschke P, Gleiter L, Mohr T, Gerner C, Meier-Menches SM.
Proc Natl Acad Sci U S A. 2024 Jul 16;121(29):e2313851121. doi: 10.1073/pnas.2313851121. Epub 2024 Jul 8. PMID: 38976734 Sci Rep. 2024 Apr 10;14(1):8395. doi: 10.1038/s41598-024-56834-4. PMID: 38600099  

RiboScreenTM Technology Delivers a Ribosomal Target and a Small-Molecule Ligand for Ribosome Editing to Boost the Production Levels of Tropoelastin, the Monomeric Unit of Elastin.
Wimmer B, Schernthaner J, Edobor G, Friedrich A, Poeltner K, Temaj G, Wimmer M, Kronsteiner E, Pichler M, Gercke H, Huber R, Kaefer N, Rinnerthaler M, Karl T, Krauß J, Mohr T, Gerner C, Hintner H, Breitenbach M, Bauer JW, Rakers C, Kuhn D, von Hagen J, Müller N, Rathner A, Breitenbach-Koller H.
Int J Mol Sci. 2024 Aug 1;25(15):8430. doi: 10.3390/ijms25158430. PMID: 39125999

Impaired retinal oxygen metabolism and perfusion are accompanied by plasma protein and lipid alterations in recovered COVID-19 patients.
Pai V, Bileck A, Hommer N, Janku P, Lindner T, Kauer V, Rumpf B, Haslacher H, Hagn G, Meier-Menches SM, Schmetterer L, Schmidl D, Gerner C, Garhöfer G.
Sci Rep. 2024 Apr 10;14(1):8395. doi: 10.1038/s41598-024-56834-4. PMID: 38600099

Systematic optimization of automated phosphopeptide enrichment for high-sensitivity phosphoproteomics.
Bortel P, Piga I, Koenig C, Gerner C, Martinez-Val A, Olsen JV.
Mol Cell Proteomics. 2024 Mar 26:100754. doi: 10.1016/j.mcpro.2024.100754. Online ahead of print. PMID: 38548019  

Plasma Instead of Serum Avoids Critical Confounding of Clinical Metabolomics Studies by Platelets.
Hagn G, Meier-Menches SM, Plessl-Walder G, Mitra G, Mohr T, Preindl K, Schlatter A, Schmidl D, Gerner C, Garhöfer G, Bileck A.
J Proteome Res. 2024 Mar 23. doi: 10.1021/acs.jproteome.3c00761. Online ahead of print. PMID: 38520676

2023

En Route to Targeted Ribosome Editing to Replenish Skin Anchor Protein LAMB3 in Junctional Epidermolysis Bullosa.
Wimmer B, Friedrich A, Poeltner K, Edobor G, Mosshammer C, Temaj G, Rathner A, Karl T, Krauss J, von Hagen J, Gerner C, Breitenbach M, Hintner H, Bauer JW, Breitenbach-Koller H.
JID Innov. 2023 Nov 10;4(1):100240. doi: 10.1016/j.xjidi.2023.100240. eCollection 2024 Jan. PMID: 38282649

Critical shifts in lipid metabolism promote megakaryocyte differentiation and proplatelet formation.
de Jonckheere B, Kollotzek F, Münzer P, Göb V, Fischer M, Mott K, Coman C, Troppmair NN, Manke MC, Zdanyte M, Harm T, Sigle M, Kopczynski D, Bileck A, Gerner C, Hoffmann N, Heinzmann D, Assinger A, Gawaz M, Stegner D, Schulze H, Borst O, Ahrends R.
Nat Cardiovasc Res. 2023 Sep;2:835-852. doi: 10.1038/s44161-023-00325-8. Epub 2023 Aug 31. PMID: 38075556

The Lipid Metabolism as Target and Modulator of BOLD-100 Anticancer Activity: Crosstalk with Histone Acetylation
Baier D, Mendrina T, Schoenhacker-Alte B, Pirker C, Mohr T, Rusz M, Regner B, Schaier M, Sgarioto N, Raynal NJ, Nowikovsky K, Schmidt WM, Heffeter P, Meier-Menches SM, Koellensperger G, Keppler BK, Berger W.
Adv Sci (Weinh). 2023 Sep 26:e2301939. doi: 10.1002/advs.202301939. Online ahead of print. PMID: 37752764  

Proteomic profiling of advanced melanoma patients to predict therapeutic response to anti-PD-1 therapy
Zila N, Eichhoff OM, Steiner I, Mohr T, Bileck A, Cheng PF, Leitner A, Gillet L, Sajic T, Goetze S, Friedrich B, Bortel P, Strobl J, Reitermaier R, Hogan SA, Martínez-Gómez JM, Staeger R, Tuchmann F, Peters S, Stary G, Kuttke M, Elbe-Buerger A, Hoeller C, Kunstfeld R, Weninger W, Wollscheid B, Dummer R, French LE, Gerner C, Aebersold R, Levesque MP, Paulitschke V.
Clin Cancer Res. 2023 Oct 20. doi: 10.1158/1078-0432.CCR-23-0562. Online ahead of print. PMID: 37861398

Primary and hTERT-Transduced Mesothelioma-Associated Fibroblasts but Not Primary or hTERT-Transduced Mesothelial Cells Stimulate Growth of Human Mesothelioma Cells
Ries A, Slany A, Pirker C, Mader JC, Mejri D, Mohr T, Schelch K, Flehberger D, Maach N, Hashim M, Hoda MA, Dome B, Krupitza G, Berger W, Gerner C, Holzmann K, Grusch M.
Cells. 2023 Aug 5;12(15):2006. doi: 10.3390/cells12152006.  

Amelogenin peptide analyses reveal female leadership in Copper Age Iberia (c. 2900-2650 BC)
Cintas-Peña M, Luciañez-Triviño M, Montero Artús R, Bileck A, Bortel P, Kanz F, Rebay-Salisbury K, García Sanjuán L.
Sci Rep. 2023 Jul 6;13(1):9594. doi: 10.1038/s41598-023-36368-x. PMID: 37414858

Single-cell transcriptomics and epigenomics unravel the role of monocytes in neuroblastoma bone marrow metastasis
Fetahu IS, Esser-Skala W, Dnyansagar R, Sindelar S, Rifatbegovic F, Bileck A, Skos L, Bozsaky E, Lazic D, Shaw L, Tötzl M, Tarlungeanu D, Bernkopf M, Rados M, Weninger W, Tomazou EM, Bock C, Gerner C, Ladenstein R, Farlik M, Fortelny N, Taschner-Mandl S.
Nat Commun. 2023 Jun 26;14(1):3620. doi: 10.1038/s41467-023-39210-0. PMID: 37365178  

Exploring the Potential of Metal-Based Candidate Drugs as Modulators of the Cytoskeleton
Borutzki Y, Skos L, Gerner C, Meier-Menches S.
Chembiochem. 2023 Jun 22:e202300178. doi: 10.1002/cbic.202300178. Online ahead of print. PMID: 37345897  

Aberrant DNA Methylation, Expression, and Occurrence of Transcript Variants of the ABC Transporter ABCA7 in Breast Cancer
Zappe K, Kopic A, Scheichel A, Schier AK, Schmidt LE, Borutzki Y, Miedl H, Schreiber M, Mendrina T, Pirker C, Pfeiler G, Hacker S, Haslik W, Pils D, Bileck A, Gerner C, Meier-Menches S, Heffeter P, Cichna-Markl M.
Cells. 2023 May 24;12(11):1462. doi: 10.3390/cells12111462. PMID: 37296582

Impact of Bariatric Surgery on the Stability of the Genetic Material, Oxidation, and Repair of DNA and Telomere Lengths
Ferk F, Mišík M, Ernst B, Prager G, Bichler C, Mejri D, Gerner C, Bileck A, Kundi M, Langie S, Holzmann K, Knasmueller S.
Antioxidants (Basel). 2023 Mar 21;12(3):760. doi: 10.3390/antiox12030760. PMID: 36979008  

Red blood cell transfusion-related eicosanoid profiles in intensive care patients-A prospective, observational feasibility study
Raeven P, Hagn G, Niederstaetter L, Brugger J, Bayer-Blauensteiner S, Domenig C, Hoetzenecker K, Posch M, Leitner G, Gerner C, Baron DM.
Front Physiol. 2023 Mar 16;14:1164926. doi: 10.3389/fphys.2023.1164926. eCollection 2023. PMID: 37008004  

Exposure to dietary fatty acids oleic and palmitic acid alters structure and mechanotransduction of intestinal cells in vitro
Bergen J, Karasova M, Bileck A, Pignitter M, Marko D, Gerner C, Del Favero G.
Arch Toxicol. 2023 Apr 29. doi: 10.1007/s00204-023-03495-3. Online ahead of print. PMID: 37117602

Multi-omics empowered deep phenotyping of ulcerative colitis identifies biomarker signatures reporting functional remission states
Janker L, Schuster D, Bortel P, Hagn G, Meier-Menches SM, Mohr T, Mader JC, Slany A, Bileck A, Brunmair J, Madl C, Unger L, Hennlich B, Weitmayr B, Del Favero G, Pils D, Pukrop T, Pfisterer N, Feichtenschlager T, Gerner C
J Crohns Colitis. 2023 Mar 24:jjad052. doi: 10.1093/ecco-jcc/jjad052. PMID: 36961872  

ROS Induction Targets Persister Cancer Cells with Low Metabolic Activity in NRAS-Mutated Melanoma
Eichhoff OM, Stoffel CI, Käsler J, Briker L, Turko P, Karsai G, Zila N, Paulitschke V, Cheng PF, Leitner A, Bileck A, Zamboni N, Irmisch A, Balazs Z, Tastanova A, Pascoal S, Johansen P, Wegmann R, Mena J, Othman A, Viswanathan VS, Wenzina J, Aloia A, Saltari A, Dzung A; TuPro Consortium; Krauthammer M, Schreiber SL, Hornemann T, Distel M, Snijder B, Dummer R, Levesque MP
Cancer Res. 2023 Mar 22:OF1-OF19. doi: 10.1158/0008-5472.CAN-22-1826. PMID: 36946761

Methods to identify protein targets of metal-based drugs
Lukas Skos, Yasmin Borutzki, Christopher Gerner, Samuel M Meier-Menches
Curr Opin Chem Biol. 2023 Jan 2;73:102257.doi: 10.1016/j.cbpa.2022.102257  

Mesothelioma-associated fibroblasts enhance proliferation and migration of pleural mesothelioma cells via c-Met/PI3K and WNT signaling but do not protect against cisplatin
Alexander Ries, Daniela Flehberger, Astrid Slany, Christine Pirker, Johanna C Mader, Thomas Mohr, Karin Schelch, Katharina Sinn, Berta Mosleh, Mir Alireza Hoda, Balazs Dome, Helmut Dolznig, Georg Krupitza, Leonhard Müllauer, Christopher Gerner, Walter Berger, Michael Grusch
J Exp Clin Cancer Res. 2023 Jan 23;42(1):27.doi: 10.1186/s13046-022-02582-0  

A Practical and Analytical Comparative Study of Gel-Based Top-Down and Gel-Free Bottom-Up Proteomics Including Unbiased Proteoform Detection
Huriye Ercan, Ulrike Resch, Felicia Hsu, Goran Mitulovic, Andrea Bileck, Christopher Gerner, Jae-Won Yang, Margarethe Geiger, Ingrid Miller, Maria Zellner
Cells. 2023 Feb 26;12(5):747.doi: 10.3390/cells12050747

A multi-omics based anti-inflammatory immune signature characterizes long COVID-19 syndrome
Kovarik JJ, Bileck A, Hagn G, Meier-Menches SM, Frey T, Kaempf A, Hollenstein M, Shoumariyeh T, Skos L, Reiter B, Gerner MC, Spannbauer A, Hasimbegovic E, Schmidl D, Garhöfer G, Gyöngyösi M, Schmetterer KG, Gerner C.
iScience. 2023 Jan 20;26(1):105717. doi: 10.1016/j.isci.2022.105717

2022

Inward Outward Signaling in Ovarian Cancer: Morpho-Phospho-Proteomic Profiling Upon Application of Hypoxia and Shear Stress Characterizes the Adaptive Plasticity of OVCAR-3 and SKOV-3 Cells
Bileck A, Bortel P, Kriz M, Janker L, Kiss E, Gerner C, Del Favero G.
Front Oncol. 2022 Feb 14;11:746411. doi: 10.3389/fonc.2021.746411

A Proteomic Platform Enables to Test for AML Normalization In Vitro
Meier-Menches SM, Neuditschko B, Janker L, Gerner MC, Schmetterer KG, Reichle A, Gerner C.
Front Chem. 2022 Feb 1;10:826346. doi: 10.3389/fchem.2022.826346

Metabolic phenotyping of tear fluid as a prognostic tool for personalised medicine exemplified by T2DM patients
Brunmair J, Bileck A, Schmidl D, Hagn G, Meier-Menches SM, Hommer N, Schlatter A, Gerner C, Garhöfer G.
EPMA J. 2022 Jan 29;13(1):107-123. doi: 10.1007/s13167-022-00272-7

The plasma proteome is favorably modified by a high protein diet but not by additional resistance training in older adults: A 17-week randomized controlled trial
Franzke B, Bileck A, Unterberger S, Aschauer R, Zöhrer PA, Draxler A, Strasser EM, Wessner B, Gerner C, Wagner KH.
Front Nutr. 2022 Aug 5;9:925450. doi: 10.3389/fnut.2022.925450

An Anticancer Rhenium Tricarbonyl Targets Fe-S Cluster Biogenesis in Ovarian Cancer Cells
Neuditschko B, King AP, Huang Z, Janker L, Bileck A, Borutzki Y, Marker SC, Gerner C, Wilson JJ, Meier-Menches SM.
Angew Chem Int Ed Engl. 2022 Oct 24;61(43):e202209136. doi: 10.1002/anie.202209136

Probabilistic quotient's work and pharmacokinetics' contribution: countering size effect in metabolic time series measurements
Gotsmy M, Brunmair J, Büschl C, Gerner C, Zanghellini J.
BMC Bioinformatics. 2022 Sep 16;23(1):379. doi: 10.1186/s12859-022-04918-1

INTERCEPT Pathogen Reduction in Platelet Concentrates, in Contrast to Gamma Irradiation, Induces the Formation of trans-Arachidonic Acids and Affects Eicosanoid Release during Storage
Leitner GC, Hagn G, Niederstaetter L, Bileck A, Plessl-Walder K, Horvath M, Kolovratova V, Tanzmann A, Tolios A, Rabitsch W, Wohlfarth P, Gerner C.
Biomolecules. 2022 Sep 7;12(9):1258. doi: 10.3390/biom12091258

Tyk2 is a tumor suppressor in colorectal cancer
Moritsch S, Mödl B, Scharf I, Janker L, Zwolanek D, Timelthaler G, Casanova E, Sibilia M, Mohr T, Kenner L, Herndler-Brandstetter D, Gerner C, Müller M, Strobl B, Eferl R.
Oncoimmunology. 2022 Sep 26;11(1):2127271. doi: 10.1080/2162402X.2022.2127271

Activation of autophagy triggers mitochondrial loss and changes acetylation profile relevant for mechanotransduction in bladder cancer cells
Jobst M, Kiss E, Gerner C, Marko D, Del Favero G.
Arch Toxicol. 2022 Oct 10. doi: 10.1007/s00204-022-03375-2

Metabolomics implicate eicosanoids in severe functional mitral regurgitation
Hofbauer TM, Distelmaier K, Muqaku B, Spinka G, Seidl V, Arfsten HT, Hagn G, Meier-Menches S, Bartko PE, Pavo N, Hoke M, Prausmueller S, Heitzinger G, Pils D, Lang IM, Hengstenberg C, Hülsmann MP, Gerner C, Goliasch G.
ESC Heart Fail. 2022 Oct 10. doi: 10.1002/ehf2.14160

Highly Cytotoxic Molybdenocenes with Strong Metabolic Effects Inhibit Tumour Growth in Mice
Fuchs V, Cseh K, Hejl M, Vician P, Neuditschko B, Meier-Menches SM, Janker L, Bileck A, Gajic N, Kronberger J, Schaier M, Neumayer S, Köllensperger G, Gerner C, Berger W, Jakupec MA, Malarek MS, Keppler BK.
Chemistry. 2022 Oct 12:e202202648. doi: 10.1002/chem.202202648

2021

The von Willebrand Factor A-1 domain binding aptamer BT200 elevates plasma levels of VWF and Factor VIII: a first-in-human trial
Kovacevic KD, Grafeneder J, Schörgenhofer C, Gelbenegger G, Gager G, Firbas C, Quehenberger P, Jilma-Stohlawetz P, Bileck A, Zhu S, Gilbert JC, Beliveau M, Jilma B, Derhaschnig U.
Haematologica. 2021 Nov 25. doi: 10.3324/haematol.2021.279948.

Finger sweat analysis enables short interval metabolic biomonitoring in humans
Brunmair J, Gotsmy M, Niederstaetter L, Neuditschko B, Bileck A, Slany A, Feuerstein ML, Langbauer C, Janker L, Zanghellini J, Meier-Menches SM, Gerner C.
Nat Commun. 2021 Oct 13;12(1):5993. doi: 10.1038/s41467-021-26245-4

Catalase Predicts In-Hospital Mortality after Out-of-Hospital Cardiac Arrest
Früh A, Bileck A, Muqaku B, Wurm R, Neuditschko B, Arfsten H, Galli L, Kriechbaumer L, Hubner P, Goliasch G, Heinz G, Holzer M, Sterz F, Adlbrecht C, Gerner C, Distelmaier K.
J Clin Med. 2021 Aug 30;10(17):3906. doi: 10.3390/jcm10173906.

Epithelial Cell Line Derived from Endometriotic Lesion Mimics Macrophage Nervous Mechanism of Pain Generation on Proteome and Metabolome Levels
Neuditschko B, Leibetseder M, Brunmair J, Hagn G, Skos L, Gerner MC, Meier-Menches SM, Yotova I, Gerner C.
Biomolecules. 2021 Aug 17;11(8):1230. doi: 10.3390/biom11081230.

Metabo-tip: a metabolomics platform for lifestyle monitoring supporting the development of novel strategies in predictive, preventive and personalised medicine
Brunmair J, Bileck A, Stimpfl T, Raible F, Del Favero G, Meier-Menches SM, Gerner C. 
EPMA J. 2021 May 4;12(2):141-153. doi: 10.1007/s13167-021-00241-6.

Exploring the dermotoxicity of the mycotoxin deoxynivalenol: combined morphologic and proteomic profiling of human epidermal cells reveals alteration of lipid biosynthesis machinery and membrane structural integrity relevant for skin barrier function
Del Favero G, Janker L, Neuditschko B, Hohenbichler J, Kiss E, Woelflingseder L, Gerner C, Marko D.
Arch Toxicol. 2021 Jun;95(6):2201-2221. doi: 10.1007/s00204-021-03042-y.

Schwann cell plasticity regulates neuroblastic tumor cell differentiation via epidermal growth factor-like protein 8
Weiss T, Taschner-Mandl S, Janker L, Bileck A, Rifatbegovic F, Kromp F, Sorger H, Kauer MO, Frech C, Windhager R, Gerner C, Ambros PF, Ambros IM.
Nat Commun. 2021 Mar 12;12(1):1624. doi: 10.1038/s41467-021-21859-0.

Daily Caffeine Intake Induces Concentration-Dependent Medial Temporal Plasticity in Humans: A Multimodal Double-Blind Randomized Controlled Trial
Lin YS, Weibel J, Landolt HP, Santini F, Meyer M, Brunmair J, Meier-Menches SM, Gerner C, Borgwardt S, Cajochen C, Reichert C.
Cereb Cortex. 2021 May 10;31(6):3096-3106. doi: 10.1093/cercor/bhab005.

Eicosanoid Content in Fetal Calf Serum Accounts for Reproducibility Challenges in Cell Culture
Niederstaetter L, Neuditschko B, Brunmair J, Janker L, Bileck A, Del Favero G, Gerner C.
Biomolecules. 2021 Jan 15;11(1):113. doi: 10.3390/biom11010113.

Octenidine-based hydrogel shows anti-inflammatory and protease-inhibitory capacities in wounded human skin
Seiser S, Janker L, Zila N, Mildner M, Rakita A, Matiasek J, Bileck A, Gerner C, Paulitschke V, Elbe-Bürger A.
Sci Rep. 2021 Jan 8;11(1):32. doi: 10.1038/s41598-020-79378-9.

Interaction with Ribosomal Proteins Accompanies Stress Induction of the Anticancer Metallodrug BOLD-100/KP1339 in the Endoplasmic Reticulum
Neuditschko B, Legin AA, Baier D, Schintlmeister A, Reipert S, Wagner M, Keppler BK, Berger W, Meier-Menches SM, Gerner C.
Angew Chem Int Ed Engl. 2021 Mar 1;60(10):5063-5068. doi: 10.1002/anie.202015962.

2020

An Organometallic Gold(I) Bis-N-Heterocyclic Carbene Complex with Multimodal Activity in Ovarian Cancer Cells
Meier-Menches SM, Neuditschko B, Zappe K, Schaier M, Gerner MC, Schmetterer KG, Del Favero G, Bonsignore R, Cichna-Markl M, Koellensperger G, Casini A, Gerner C.
Chemistry. 2020 Dec 1;26(67):15528-15537. doi: 10.1002/chem.202003495.

Determination of a Tumor-Promoting Microenvironment in Recurrent Medulloblastoma: A Multi-Omics Study of Cerebrospinal Fluid
DOI: 10.3390/cancers12061350

The Presence of Active Brown Adipose Tissue Determines Cold-Induced Energy Expenditure and Oxylipin Profiles in Humans
DOI: 10.1210/clinem/dgaa183

Structural Similarity with Cholesterol Reveals Crucial Insights into Mechanisms Sustaining the Immunomodulatory Activity of the Mycotoxin Alternariol
DOI: 10.3390/cells9040847

The Challenge of Classifying Metastatic Cell Properties by Molecular Profiling Exemplified with Cutaneous Melanoma Cells and Their Cerebral Metastasis from Patient Derived Mouse Xenografts
DOI: 10.1074/mcp.RA119.001886

Proteome Analysis Reveals Distinct Mitochondrial Functions Linked to Interferon Response Patterns in Activated CD4+ and CD8+ T Cells.
Gerner MC, Niederstaetter L, Ziegler L, Bileck A, Slany A, Janker L, Schmidt RLJ, Gerner C, Del Favero G, Schmetterer KG.
https://www.ncbi.nlm.nih.gov/pubmed/31354474