Andreas Haghofer, Andrea Fuchs-Baumgartinger, Karoline Lipnik, Robert Klopfleisch, Marc Aubreville, Josef Scharinger, Herbert Weissenböck, Stephan M. Winkler, Christof A. Bertram:
Histological classification of canine and feline lymphoma using a modular approach based on deep learning and advanced image processing
Benjamin A. Neely, Viktoria Dorfer, Lennart Martens, Isabell Bludau, Robbin Bouwmeester, Sven Degroeve, Eric W. Deutsch, Siegfried Gessulat, Lukas Käll, Pawel Palczynski, Samuel H. Payne, Tobias Greisager Rehfeldt, Tobias Schmidt, Veit Schwämmle, Julian Uszkoreit, Juan Antonio Vizcaíno, Mathias Wilhelm, Magnus Palmblad:
Toward an Integrated Machine Learning Model of a Proteomics Experiment
Journal of Proteome Research
, Vol. 22
, pp. 681-696
Laura Urwanisch, Michael Stefan Unger, Helene Sieberer, Hieu-Hoa Dang, Theresa Neuper, Christof Regl, Julia Vetter, Susanne Schaller, Stephan M. Winkler, Emanuela Kerschbamer, Christian X. Weichenberger, Peter W. Krenn, Michela Luciano, Lisa Pleyer, Richard Greil, Christian G. Huber, Fritz Aberger and Jutta Horejs-Hoeck:
The Class IIA Histone Deacetylase (HDAC) Inhibitor TMP269 Downregulates Ribosomal Proteins and Has Anti-Proliferative and Pro-Apoptotic Effects on AML Cells
Julia Vetter, Susanne Schaller, Andreas Heinzel, Constantin Aschauer, Roman Reindl-Schwaighofer, Kira Jelencsics, Karin Hu, Rainer Oberbauer, Stephan Winkler:
ImmunoDataAnalyzer: a bioinformatics pipeline for processing barcoded and UMI tagged immunological NGS data
Constantin Aschauer, Kira Jelencsics, Karin Hu, Andreas Heinzel, Mariella Gloria Gregorich, Julia Vetter, Susanne Schaller, Stephan Winkler, Johannes Weinberger, Lisabeth Pimenov, Guido A. Gualdoni, Michael Eder, Alexander Kainz, Anna Regina Tröscher, Heinz Regele, Roman Reindl-Schwaighofer, Thomas Wekerle, Johannes Bernhard Huppa, Megan Sykes, Rainer Oberbauer:
Prospective tracking of donor-reactive T-cell clones in the circulation and rejecting human kidney allografts
Frontiers in Immunology, section Alloimmunity and Transplantation
Michela Luciano, Constantin Blöchl, Julia Vetter, Laura Urwanisch, Theresa Neuper, Dominik Elmer, Renate Bauer, Hieu-Hoa Dang, Helen Strandt, Daniel Neureiter, Peter Krenn, Suzana Tesanovic, Sebastian Rieser, Susanne Schaller, Dirk Strunk, Richard Greil, Stephan M. Winkler, Tanja N. Hartmann, Christian G. Huber, Fritz Aberger, Jutta Horejs-Hoeck:
The NLRP3/eIF2 axis drives cell cycle progression in acute myeloid leukemia
Jonas Schurr, Christoph Eilenberger, Peter Ertl, Josef Scharinger, and Stephan M. Winkler:
Automated Evaluation of Cell Viability in Microfluidic Spheroid Arrays
Proceedings of the 10th International Workshop on Innovative Simulation for Healthcare, 18th International Multidisciplinary Modeling & Simulation Multiconference 2021
Tobias Schmidt, Patroklos Samaras, Viktoria Dorfer, Christian Panse, Tobias Kockmann, Leon Bichmann, Bart van Puyvelde, Yasset Perez-Riverol, Eric W. Deutsch, Bernhard Kuster, Mathias Wilhelm:
Universal Spectrum Explorer: A Standalone (Web-)Application for Cross-Resource Spectrum Comparison
Journal of Proteome Research
, Vol. 20
, pp. 3388-3394
Wolfgang Roland, Christian Marschik, Michael Kommenda, Andreas Haghofer, Sebastian Dorl, Stephan Winkler:
Predicting the Non-Linear Conveying Behavior in Single-Screw Extrusion: A Comparison of Various Data-Based Modeling Approaches used with CFD Simulations
Christopher Ashwood, Wout Bittremieux, Eric W. Deutsch, Nadezhda T. Doncheva, Viktoria Dorfer, Ralf Gabriels, Vladimir Gorshkov, Surya Gupta, Andrew R. Jones, Lukas Käll, Dominik Kopczynski, Lydie Lane, Ludwig Lautenbacher, Marc Legeay, Marie Locard-Paulet, BartMesuere, Yasset Perez-Riverol, Eugen Netz, ... SanderWillems:
Proceedings of the EuBIC-MS 2020 Developers’ Meeting
Aurelia Tschida, Verena Stadlbauer, Bettina Schwarzinger, Martin Maier, Johannes Pitsch, Flora Stübl, Ulrike Müller, Peter Lanzerstorfer, Markus Himmelsbach, Jürgen Wruss, Gerald Klanert, Jonas Schurr, Lothar Wurm, Franz Rosner, Otmar Höglinger, Stephan Winkler, Julian Weghuber:
Nutrients, bioactive compounds, and minerals in the juices of 16 varieties of apple (Malus domestica) harvested in Austria: A four-year study investigating putative correlations with weather conditions during ripening
Evgeniia Korotchenko, Victoria Schießl, Sandra Scheiblhofer, Isabella Joubert, Helen Strandt, Theresa Neuper, Muamera Sarajlic, Renate Bauer, Mark Geppert, David Joedicke, Sabrina Wildner, Susanne Schaller, Stephan Winkler, Gabriele Gadermaier, Jutta Horejs-Hoeck, Richard Weiss:
Laser-facilitated epicutaneous immunotherapy with hypoallergenic beta-glucan neoglycoconjugates suppresses lung inflammation and avoids local side effects in a mouse model of allergic Asthma
Julia Vetter, Andreas Heinzel, Constantin Aschauer, Roman Reindl-Schwaighofer, Kira Jelencsics, Karin Hu, Rainer Oberbauer, Stephan M. Winkler, Susanne Schaller:
A Bioinformatics Pipeline for the Identification of Crucial Factors for Transplant Rejection Based on NGS Data
Constantin Aschauer, Kira Jelencsics, Karin Hu, Roman Reindl-Schwaighofer, Julia Vetter, Andreas Heinzel, Alexander Kainz, Guido Gualdoni, Susanne Schaller, Stephan M. Winkler, Rainer Oberbauer:
Next Generation Sequencing Based Analysis of the T-Cell Receptor Repertoire Reveals an Increase of Alloreactive T-Cell Clones after Kidney Transplantation
Julia Vetter, Constantin Aschauer, Andreas Heinzel, Roman Reindl-Schwaighofer, Kira Jelencsics, Karin Hu, Rainer Oberbauer, Stephan M. Winkler, Susanne Schaller:
Identification of immunologic factors associated with allograft rejection using NGS T cell receptor repertoire data
Robert Heyer, Kay Schallert, Anja Büdel, Roman Zoun, Sebastian Dorl, Alexander Behne, Fabian Kohrs, Sebastian Püttker, Corina Siewert, Thilo Muth, Gunter Saake, Udo Reichl and Dirk Benndorf:
A Robust and Universal Metaproteomics Workflow for Research Studies and Routine Diagnostics Within 24 h Using Phenol Extraction, FASP Digest, and the MetaProteomeAnalyzer
Constantin Aschauer, Kira Jelencsics, Karin Hu, Andreas Heinzel, Julia Vetter, Thomas Fraunhofer, Susanne Schaller, Stephan M. Winkler, Lisabeth Pimenov, Guido Gualdoni, Michael Eder, Alexander Kainz, Heinz Regele, Roman Reindl-Schwaighofer, and Rainer Oberbauer:
Next generation sequencing based assessment of the alloreactive T cell receptor repertoire in kidney transplant patients during rejection: a prospective cohort study
Renate Haselgrübler, Peter Lanzerstorfer, Clemens Röhrl, Flora Stübl, Jonas Schurr, Bettina Schwarzinger, Clemens Schwarzinger, Mario Brameshuber, Stefan Wieser, Stephan M. Winkler, and Julian Weghuber:
Hypolipidemic effects of herbal extracts by reduction of adipocyte differentiation, intracellular neutral lipid content, lipolysis, fatty acid exchange and lipid droplet motility
Michael Affenzeller, Bogdan Burlacu, Viktoria Dorfer, Sebastian Dorl, Gerhard Halmerbauer, Tilman Königswieser, Michael Kommenda, Julia Vetter, and Stephan M. Winkler:
White Box vs. Black Box Modeling: On the Performance of Deep Learning, Random Forests, and Symbolic Regression in Solving Regression Problems
Accepted to be published in Computer Aided Systems Theory EUROCAST 2019
Gerhard Halmerbauer, Klaus Arthofer, Judith Guttmann, Tilman Königswieser, Soodeh Peyvandi, Andreas Shamiyeh, Marina Strobl, Julia Vetter, and Stephan M. Winkler:
LeiVMed II: Ein Web-Basiertes Benchmarking-System für die Analyse von Behandlungsprozessen, Outcome und Kosten
Viktoria Dorfer, Gerhard Engelbrecht, Barbara Sikic, Viktoria Leitner, Quang-Minh Thai, Benjamin Dieplinger, Michael Hirthammer, Verena Aistleitner, Susanne Schaller, and Stephan M. Winkler:
Entwicklung eines Indikatortools auf Papierbasis und eines Kommunikationskonzepts für die Früherkennung von Glukosurie
Julia Vetter, Jonathan Burghofer, Theodora Malli, Gerald Webersinke, Wolfgang Kranewitter, Markus Wiederstein, Susanne Schaller, and Stephan M. Winkler:
A Bioinformatics Pipeline for Identifying Point Mutations in CML Patients
27th Annual International Conference on Intelligent Systems for Molecular Biology – ISMB 2019
Roman Reindl-Schwaighofer, Julia Vetter, Johannes Weinberger, Susanne Schaller, Andreas Heinzel, Guido Gualdoni, Constantin Aschauer, Kira Jelencsics, Karin Hu, Stephan M. Winkler, and Rainer Oberbauer:
T-Cell Repertoire of Tissue Infiltrating T-cells at Time of Rejection
Julia Vetter, Gerhard Halmerbauer, Klaus Arthofer, Susanne Schaller, Andreas Shamiyeh, Walter Schauer, Tilman Königswieser, Christoph Ausch, and Stephan M. Winkler:
(Retrospektive) Prädiktion von medizinischen Komplikationen auf Basis von Routinedaten in Krankenhäusern mittels MultiModel-Ensembles
Eric W. Deutsch, Yasset Perez-Riverol, Robert J. Chalkley, Mathias Wilhelm, Stephen Tate, Timo Sachsenberg, Mathias Walzer, Lukas Käll, Bernard Delanghe, Sebastian Böcker, Emma L. Schymanski, Paul Wilmes, Viktoria Dorfer, Bernhard Kuster, Pieter-Jan Volders, Nico Jehmlich, Johannes P. C. Vissers, Dennis W. Wolan, Ana Y. Wang, Luis Mendoza, Jim Shofstahl, Andrew W. Dowsey, Johannes Griss, Reza M. Salek, Steffen Neumann, Pierre-Alain Binz, Henry Lam, Juan Antonio Vizcaíno, Nuno Bandeira, and Hannes Röst:
Expanding the Use of Spectral Libraries in Proteomics
Michael D. Brodesser, Sandra Mayr, Fabian Hauser, Johannes Breuss, Michael Aspetsberger, Andreas Hangler, Lukas Bindreiter, Daniela Borgmann, Stephan M. Winkler, Christian Gabriel, Eleni Priglinger, Jaroslaw Jacak, and Birgit Plochberger:
A Fast and Reliable Online-System for Platelet Viability Studies
J. Ignacio Hidalgo, Esther Maqueda, Stephan M. Winkler, Gabrial Kronberger, J. Manuel Colmenar, Marta Botella, J. Manuel Velasco, Sergio Contador, Almudena Sa´nchez, Oscar Garnica, and Juan Lanchares:
Classification, Modeling and Prediction of Glycemia in Diabetic Patients by Evolutionary and Heuristic Computation from Continuous Glucose Monitoring, Carbohydrates and Insulin Records
10th International Conference on Advanced Technologies & Treatments for Diabetes (ATTD 2017)
Michaela Aichler, Daniela Borgmann, Jan Krumsiek, Achim Buck, Patrick E. MacDonald, Jocelyn E. Manning Fox, James Lyon, Peter E. Light, Susanne Keipert, Martin Jastroch, Annette Feuchtinger, Nikola S. Mueller, Na Sun, Andrew Palmer, Theodore Alexandrov, Martin Hrabe de Angelis, Susanne Neschen, Matthias H. Tschöp, Axel Walch:
N-acyl Taurines and Acylcarnitines Cause an Imbalance in Insulin Synthesis and Secretion Provoking ? Cell Dysfunction in Type 2 Diabetes
Almedina Kurtaj, Christoph Hillebrand, Gerda Fichtinger, Eva Hattinger, Melanie Lietzenmayer, Yoan Machado, Sandra Scheiblhofer, Angelika Stoecklinger, Theresa Thalhamer, Susanne Suessner, Martin Danzer, Sabine Keplinger, Johannes Weinberger, Susanne Schaller, Stephan Winkler, Christian Gabriel, Josef Thalhamer, Richard Weiss:
Natural protective immunity against grass pollen allergy is maintained by a diverse spectrum of response types
J. Manuel Colmenar, Stephan M. Winkler, Gabriel Kronberger, Esther Maqueda, Marta Botella, Almudena Sanchez, Sergio Contador, Jose Manuel Velasco, Oscar Garnica, Juan Lanchares, and Ignacio Hidalgo:
Prediction del nivel de glucosa en sangre para pacientes con diabetes utilizando tecnicas evolutivas
Proceedings of the XI Congreso Espanol de Metaheuristicas, Algoritmos Evolutivos y Bioinspirados (MAEB 2016)
Johannes Weinberger, Raul Jimenez-Heredia, Susanne Schaller, Susanne Suessner, Judith Sunzenauer, Roman Reindl-Schwaighofer, Richard Weiss, Stephan Winkler, Christian Gabriel, Martin Danzer, Rainer Oberbauer:
Immune Repertoire Profiling Reveals that Clonally Expanded B and T Cells Infiltrating Diseased Human Kidneys Can also Be Tracked in the Blood
J. Manuel Velasco, Stephan M. Winkler, J. Ignacio Hidalgo, Oscar Garnica, Juan Lanchares, J.Manuel Colmenar, Esther Maqueda, Marta Botella, and Jose-Antonio Rubio:
Data-Based Identification of Prediction Models for Glucose
Proceedings of the Genetic and Evolutionary Computation Conference GECCO 2015, conference companion
, pp. 1327-1334
Daniela Borgmann, Sandra Mayr, Helene Polin, Lisa Obritzberger, Susanne Schaller, Viktoria Dorfer, Jaroslaw Jacak, and Stephan M. Winkler: Computer Aided Systems Theory :
Classifying Human Blood Samples Using Characteristics of Single Molecules and Cell Structures on Microscopy Images
EUROCAST 2015 Springer Lecture Notes in Computer Science
, Vol. 9520
, pp. 310-317
Lisa Obritzberger, Susanne Schaller, Viktoria Dorfer, Andrea Lindenmair, Susanne Wolbank, Simone Hennerbichler, Heinz Redl, and Stephan M. Winkler - Computer Aided Systems Theory :
Prediction of Stem Cell Differentiation in Human Amniotic Membrane Images Using Machine Learning
EUROCAST 2015, Springer Lecture Notes in Computer Science
, Vol. 9520
, pp. 318-325
Susanne Schaller, Johannes Weinberger, Raul Jimenez Heredia, Martin Danzer, Rainer Oberbauer, Christian Gabriel, and Stephan M. Winkler:
ImmunExplorer (IMEX): A Software Framework for Diversity and Clonality Analyses of Immunoglobulins and T Cell Receptors on the Basis of IMGT/HighV-QUEST Preprocessed NGS Data
Stephan M. Winkler, Susanne Schaller, Daniela Borgmann, Lisa Obritzberger, Viktoria Dorfer, Christian Haider, Sandra Mayr, Peter Lanzerstorfer, Claudia Loimayr, Simone Hennerbichler-Lugscheider, Andrea Lindenmair, Heinz Redl, Michael Affenzeller, Julian Weghuber, and Jaroslaw Jacak:
Identification and Classification of Objects and Motions in Microscopy Images of Biological Samples Using Heuristic Algorithms
In Studies in Computational Intelligence, APCASE 2014
, pp. 103-117
Stephan M. Winkler, Michael Affenzeller, Susanne Schaller, and Herbert Stekel:
Data Based Prediction of Cancer Diagnoses Using Heterogeneous Model Ensembles - A Case Study for Breast Cancer, Melanoma, and Cancer in the Respiratory System
Proceeding of the Genetic and Evolutionary Computation Conference GECCO 2014, Conference Companion
, pp. 1337–1344
Peter Lanzerstorfer, Verena Stadlbauer, Lilia Chtcheglova, Renate Haselgrübler, Daniela Borgmann, Jürgen Wruss, Peter Hinterdorfer, Klaus Rudolf Schröder, Stephan M. Winkler, Otmar Höglinger, and Julian Weghuber:
Identification of Novel Insulin Mimetic Drugs by Quantitative Total Internal Reflection Fluorescence (TIRF) Microscopy
British Journal of Pharmacology
, Vol. 171
, pp. 5237-5251
Peter Lanzerstorfer, Jürgen Wruss, Stefan Huemer, Andrea Steininger, Ulrike Müller, Markus Himmelsbach, Daniela Borgmann, Stephan M. Winkler, Otmar Höglinger, and Julian Weghuber:
Bioanalytical Characterization of Apple Juice from 88 Grafted and Nongrafted Apple Varieties Grown in Upper Austria
Journal of Agricultural and Food Chemistry
, Vol. 62
, pp. 1047-1056
Peter Lanzerstorfer, Andrea Steininger, Verena Stadlbauer, Daniela M. Borgmann, Stephan M. Winkler, Otmar Höglinger, and Julian Weghuber:
Biophysical and biochemical characterization of insulin-dependent cellular systems in response to secondary plant metabolites
Tagungsband des 7. Forschungsforums der Österreichischen Fachhochschulen (Proceedings of the 7th Science Symposium of Austrian Universities for Applied Sciences)
Susanne Schaller, Stephan M. Winkler, Julian Weghuber, Michael Sams, Jaroslaw Jacak :
µDetect: Design of a Framework for Optimized Structure Analysis in Fluorescence Microscopy Images
Tagungsband des 6. Forschungsforums der Österreichischen Fachhochschulen (Proceedings of the 6th Science Symposium of Austrian Universities for Applied Sciences)
, Vol. 1
, pp. 125-130
Peter Lanzerstorfer, Andrea Steininger, Otmar Höglinger, Julian Weghuber, Daniela Borgmann, Susanne Schaller, Stephan M. Winkler, Mario Brameshuber, Stefan Sunzenauer, and Gerhard Schütz:
Analysis of Protein-Protein Interactions in Live Cells - The µ-Patterning Approach
In Basic Methods in Protein Purification and Analysis, iConcept Press
Stephan M. Winkler, Michael Affenzeller, Witold Jacak, and Herbert Stekel :
Identification of cancer diagnosis estimation models using evolutionary algorithms: a case study for breast cancer, melanoma, and cancer in the respiratory system
Proceedings of the 13th Annual Genetic and Evolutionary Computation Conference - GECCO 2011, , Companion Material Proceedings
, pp. 503-510
Stephan M. Winkler, Stefanie Auer, and Michael Affenzeller:
Heuristische Modellierung der Krankheitsverlaufsdaten von Menschen mit Alzheimer Demenz
Tagungsband des 4. Forschungsforums der Österreichischen Fachhochschulen (Proceedings of the 4th Science Symposium of Austrian Universities for Applied Sciences)
, pp. 23-28
Stephan M. Winkler, Michael Affenzeller, Stefan Wagner, and Gabriel Kronberger:
Analyse von Patientendaten und Evolutionäres Design von Virtuellen Sensoren für Erkrankungen (Analysis of Patient Data and Evolutionary Design of Virtual Sensors for Diseases)
Tagungsband des 3. Forschungsforums der Österreichischen Fachhochschulen (Proceedings of the 3rd Science Symposium of Austrian Universities for Applied Sciences)
, pp. 56-61
Stephan M. Winkler, Stefanie Auer, Michael Affenzeller, Yvonne Donabauer, and Barry Reisberg:
Heuristic Modeling of the Mental Progress of Persons with Normal Brain Aging, Subjective Cognitive Impairment, Mild Cognitive Impairment, Alzheimer´s Disease and Related Dementia Disorders
Proceedings of the 20th European Modeling and Simulation Symposium (EMSS2009)
, pp. 167-172
Stephan M. Winkler, Michael Affenzeller, and Stefan Wagner:
Advances in Applying Genetic Programming to Machine Learning, Focussing on Classification Problems
Proceedings of the 9 th International Workshop on Nature Inspired Distributed Computing NIDISC´06, part of the Proceedings of the 20th IEEE International Parallel&Distributed Processing Symposium IPDPS 2006
Stephan M. Winkler, Michael Affenzeller, and Stefan Wagner:
Solving Multiclass Classification Problems by Genetic Programming
Proceedings of The 9th World Multi-Conference on Systemics, Cybernetics and Informatics SCI 2005
, Vol. 1
, pp. 48-53
, International Institute of Informatics and Systemics, 2005