Publications

Year
Author
Title
2020 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 Allergy BibTex
2020 Andreas Haghofer, Sebastian Dorl, Andre Oszwald, Johannes Breuss, Jaroslaw Jacak, Stephan M. Winkler: Evolutionary Optimization of Image Processing for Cell Detection in Microscopy Images Soft Computing BibTex
2020 Andreas Haghofer, Josef Scharinger, Stephan Winkler: Evolutionary Optimization of Image Processing for Cell Detection in Microscopy Images Doctoral Consortium: Doctoral Consortium on Biomedical Engineering Systems and Technologies BibTex
2020 Janout Hannah, Buchegger Bianca, Haghofer Andreas, Hoeglinger Dominic, Jacak Jaroslaw, Winkler Stephan, Hochreiner Armin : PySpot: A Python based Framework for the Assessment of Laser-modified 3D Microstructures for Windows and Raspbian Conference: 7th International Conference on Bioimaging BibTex
2019 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 Frontiers in Microbiology , pp. 10:1883 BibTex
2019 Gerhard Halmerbauer, Klaus Arthofer, Stephan M. Winkler, and Tilman Königswieser: Web-based Benchmarking Platform Provides Clinical Departments with Monthly Updates about Processes of Care, Costs and Outcome to be presented at International Society for Quality in Health Care Conference BibTex
2019 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 BMC Nephrology BibTex
2019 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 Scientific Reports BibTex
2019 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 BibTex
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 Kepler Science Day 2019 BibTex
2019 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 Kepler Science Day 2019 BibTex
2019 Georg Pirklbauer, Christian Stieger, Stephan M. Winkler, Karl Mechtler, and Viktoria Dorfer: MS Annika: An Integrated Search Tool for the Identi?cation of Cross-Linked Peptides from Mass Spectrometry Data Austrian Proteomics and Metabolomics Research Symposium 2019 BibTex
2019 Stephan M. Winkler, Susanne Schaller, Viktoria Dorfer, Gabriel Kronberger, and Michael Affenzeller: Machine Learning in Medizin- und Bioinformatik - Wie künstliche Intelligenz hilft, biologische und medizinische Prozesse zu verstehen Coming Soon – The Future of Work, Education & Living BibTex
2019 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 BibTex
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 American Transplant Congress 2019 BibTex
2019 Sebastian Dorl, Stephan M. Winkler, Karl Mechtler, and Viktoria Dorfer: MS Ana: A Spectral Library Search Engine Optimized for High-Accuracy Fragment Ion Data European Bioinformatics Community (EuBIC) Winter School 2019 BibTex
2019 Georg J. Pirklbauer, Christian E. Stieger, Daniela Borgmann, Stephan M. Winkler, Karl Mechtler, and Viktoria Dorfer: MS Annika: A new Search Engine for Identifying Peptides from MS Cleavable Crosslink Data European Bioinformatics Community (EuBIC) Winter School 2019 BibTex
2018 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 Kepler Science Day BibTex
2018 Andreas Haghofer, Jaroslaw Jacak, Stephan M. Winkler, and Johannes Breuss: Automatisiertes Tracking von Zellen in Mikroskopie-Aufnahmen und evolutio¨are Optimierung von Bildvorverarbeitung Kepler Science Day BibTex
2018 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 Journal of Proteome Research BibTex
2018 Georg J. Pirklbauer, Stephan M. Winkler, Karl Mechtler, and Viktoria Dorfer: Extensions to Peptide Spectrum Match Validation by Semi-Supervised Machine Learning Methods German Conference on Bioinformatics BibTex
2018 Julia Vetter, Stephan M. Winkler, Thomas Fraunhofer, and Susanne Schaller: High-throughput Immune Repertoire Sequencing Analysis using the Software ImmunExplorer German Conference on Bioinformatics BibTex
2018 Stephan M. Winkler, Susanne Schaller, Viktoria Dorfer, Andreas Haghofer, Julia Vetter, and Michael Affenzeller: White Box Modeling, Variable Impact Analysis, and Interaction Network Identification in Biological and Medical Data Using Symbolic Regression German Conference on Bioinformatics BibTex
2018 J. Ignacio Hidalgo, J. Manuel Colmenar, J. Manuel Velasco, Gabriel Kronberger, Stephan M. Winkler, Oscar Garnica, and Juan Lanchares: Identification of Models for Glucose Blood Values in Diabetics by Grammatical Evolution In C. Ryan et al (eds.): Handbook of Grammatical Evolution , pp. 367–393 BibTex
2018 Sebastian Dorl, Stephan Winkler, Karl Mechtler, and Viktoria Dorfer: PhoStar: Identifying Tandem Mass Spectra of Phosphorylated Peptides before Database Search Journal of Proteome Research , pp. 290–295 BibTex
2018 Viktoria Dorfer, Sergey Maltsev, Stephan M. Winkler, and Karl Mechtler: CharmeRT: Boosting peptide identifications by chimeric spectra identification and retention time prediction Journal of Proteome Research , pp. 2581–2589 BibTex
2018 Stephan M. Winkler, Johannes Zipperle, and Heinz Redl: ScienceMapper 26th Annual International Conference on Intelligent Systems for Molecular Biology – ISMB 2018 BibTex
2017 J. Ignacio Hidalgo, J. Manuel Colmenar, Gabriel Kronberger, Stephan M. Winkler, Oscar Garnica, and Juan Lanchares: Data Based Prediction of Blood Glucose Concentrations Using Evolutionary Methods Journal of Medical Systems BibTex
2017 Andreas Haghofer, Daniela Borgmann, Jaroslaw Jacak, and Stephan M. Winkler: Automatisierte Parameteroptimierung zur Analyse von Mikroskopieaufnahme-Sequenzen durch evolutionäre Algorithmen Kepler Science Day BibTex
2017 Viktoria Dorfer, Sergey Maltsev, Stephan M. Winkler, and Karl Mechtler: Identifying co-eluting peptides using MS Amanda and Elutator 65th ASMS Conference on Mass Spectrometry and Allied Topics BibTex
2017 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 61st Annual Meeting of the Biophysical Society BibTex
2017 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) BibTex
2017 Sebastian Dorl, Viktoria Dorfer, Karl Mechtler, and Stephan M. Winkler: Identifying tandem mass spectra of phosphorylated peptides before database search using machine-learning EUBIC Winter School for Proteomics Bioinformatics BibTex
2017 Christoph N. Schlaffner, Georg J. Pirklbauer, Andreas Bender, Jyoti S. Choudhary: Fast, Quantitative and Variant Enabled Mapping of Peptides to Genomes Cell Systems , Vol. 5 , pp. 152-156.e40 BibTex
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 Cell Metabolism , Vol. 25 , pp. 1334–1347 BibTex
2017 Sander Willems, David Bouyssie, Matthieu David, Marie Locard-Paulet, Karl Mechtler, Veit Schwämmle, Julian Uszkoreit, Marc Vaudel, Viktoria Dorfer: Proceedings of the EuBIC Winter School 2017 Journal of Proteomics , pp. 78-80 BibTex
2017 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 Journal of Allergy and Clinical Immunology BibTex
2016 J. Manuel Colmenar, Stephan M. Winkler, Gabriel Kronberger, Esther Maqueda, Marta Botella, J. Ignacio Hidalgo: Predicting Glycemia in Diabetic Patients By Evolutionary Computation and Continuous Glucose Monitoring Proceeding of the Genetic and Evolutionary Computation Conference GECCO 2016, conference companion , pp. 1393-1400 BibTex
2016 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) BibTex
2016 Daniela Borgmann, Sandra Mayr, Helene Polin, Susanne Schaller, Viktoria Dorfer, Christian Gabriel, Stephan Winkler, and Jaroslaw Jacak: Single Molecule Florescence Microscopy and Machine Learning for Rhesus D Antigen Classification Scientific Reports 6 BibTex
2016 Verena Stadlbauer, Renate Haselgrübler, Peter Lanzerstorfer, Birgit Plochberger, Daniela Borgmann, Jaroslaw Jacak, Stephan M. Winkler, Klaus Schröder, Otmar Höglinger, Julian Weghuber: Biomolecular Characterization of Putative Antidiabetic Herbal Extracts PLOS ONE BibTex
2015 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 PLOS ONE BibTex
2015 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 BibTex
2015 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 BibTex
2015 Susanne Schaller, Johannes Weinberger, Raul Jimenez-Heredia, Martin Danzer, and Stephan M. Winkler - Computer Aided Systems Theory : Classification of the States of Human Adaptive Immune Systems by Analyzing Immunoglobins and T Cell Receptors Using ImmunExplorer EUROCAST 2015, Springer Lecture Notes in Computer Science , Vol. 9520 , pp. 302-309 BibTex
2015 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 BibTex
2015 Lisa Obritzberger, Daniela Borgmann, Susanne Schaller, Viktoria Dorfer, Andrea Lindenmair, Susanne Wolbank, Heinz Redl, and Stephan M. Winkler: Prediction of Mineralization Degree in Human Amniotic Membrane Using Image Processing Techniques and Machine Learning Proceedings of 11th Metaheuristics International Conference MIC 2015 BibTex
2015 Viktoria Dorfer, Sergey Maltsev, Stephan Dreiseitl, Karl Mechtler, and Stephan M. Winkler : A Symbolic Regression Based Scoring System Improving Peptide Identifications for MS Amanda Proceedings of the Genetic and Evolutionary Computation Conference GECCO 2015, Conference Companion , pp. 1335-1341 BibTex
2015 Jaroslaw Jacak, Susanne Schaller, Daniela M. Borgmann, and Stephan M. Winkler : Characterization of the Distance Relationship between Localized Serotonin Receptors and Glia Cells on Fluorescence Microscopy Images of Brain Tissue Microscopy and Microanalysis , Vol. 21 , pp. 826-836 BibTex
2015 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 BMC Bioinformatics , Vol. 16 BibTex
2015 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 BibTex
2014 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 BibTex
2014 Lisa Obritzberger, Susanne Schaller, Viktoria Dorfer, Claudia Loimayr, Simone Hennerbichler, and Stephan M. Winkler: Identification of Endothelial Cell Morphology in Cornea Using Evolution Strategies Proceedings of the 26th European Modeling and Simulation Symposium (EMSS2014) BibTex
2014 Susanne Schaller, Johannes Weinberger, Martin Danzer, Christian Gabriel, Rainer Oberbauer, and Stephan M. Winkler: Mathematical Modeling of the Diversity in Human B and T Cell Receptors Using Machine Learning Proceedings of the 26th European Modeling and Simulation Symposium (EMSS2014) BibTex
2014 Viktoria Dorfer, Peter Pichler, Thomas Stranzl, Johannes Stadlmann, Thomas Taus, Stephan M. Winkler, and Karl Mechtler: MS Amanda, a Universal Identification Algorithm Optimized for High Accuracy Tandem Mass Spectra Journal of Proteome Research , Vol. 13 , pp. 3679-84 BibTex
2014 Stephan M. Winkler, Susanne Schaller, Viktoria Dorfer, Michael Affenzeller, Michal Karpowicz, and Gerald Petz: Data-Based Prediction of Sentiments Using Heterogeneous Model Ensembles Soft Computing, Special Issue on Hybrid and Ensemble Techniques in Soft Computing: Recent Advances and Emerging Trends , pp. 12 BibTex
2014 Peter Lanzerstorfer, Daniela Borgmann, Gerhard Schütz, Stephan M. Winkler, Otmar Höglinger, and Julian Weghuber: Quantification and Kinetic Analysis of Grb2-EGFR Interaction on Micropatterned Surfaces for the Characterization of EGFR-modulating Substances PLOS-ONE , Vol. 9 BibTex
2014 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 BibTex
2014 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 BibTex
2013 Stephan M. Winkler, Michael Affenzeller, and Herbert Stekel : Evolutionary Identification of Cancer Predictors Using Clustered Data - A Case Study for Breast Cancer, Melanoma, and Cancer in the Respiratory System Proceeding of the Genetic and Evolutionary Computation Conference (GECCO 2013), conference companion , pp. 1463-1470 BibTex
2013 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) BibTex
2013 Stephan M. Winkler, Michael Affenzeller, and Herbert Stekel : An Integrated Clustering and Classification Approach for the Analysis of Tumor Patient Data Computer Aided Systems Theory - EUROCAST 2013 , Vol. 8111 , pp. 388-395 BibTex
2013 Susanne Schaller, Jaroslaw Jacak, Michael Sams , and Stephan M. Winkler : Statistical Analysis of the Relationship between Spots and Structures in Microscopy Images Computer Aided Systems Theory - EUROCAST 2013 , Vol. 8111 , pp. 211-218 BibTex
2013 Witold Jacak, Karin Pröll, and Stephan M. Winkler : Cross Classification Approach for Feature Selection Computer Aided Systems Theory - EUROCAST 2013, , Vol. 8111 , pp. 52-58 BibTex
2013 Stephan M. Winkler, Gabriel Kronberger, Michael Affenzeller, and Herbert Stekel : Variable Interaction Networks in Medical Data International Journal of Privacy and Health Information Management , Vol. 1 , pp. pp. 1-16 BibTex
2013 Stephan M. Winkler, Michael Affenzeller, Gabriel Kronberger, Michael Kommenda, Stefan Wagner, Viktoria Dorfer, Witold Jacak, and Herbert Stekel : On the Use of Estimated Tumour Marker Classifications in Tumour Diagnosis Prediction - A Case Study for Breast Cancer International Journal of Simulation and Process Modelling , Vol. 8 , pp. pp. 29-41 BibTex
2013 Witold Jacak and Karin Pröll and Stephan M. Winkler: Neural Networks Based Feature Selection in Biological Data Analysis Advanced Methods and Applications in Computational Intelligence, Topics in Intelligent Engineering and Informatics , Vol. 6 , pp. 79-94 BibTex
2013 Stephan M. Winkler, Michael Affenzeller, Gabriel K. Kronberger, Michael Kommenda, Stefan Wagner, Witold Jacak, and Herbert Stekel: On the Identification of Virtual Tumor Markers and Tumor Diagnosis Predictors Using Evolutionary Algorithms Advanced Methods and Applications in Computational Intelligence, Topics in Intelligent Engineering and Informatics , Vol. 6 , pp. 95-122 BibTex
2012 Stephan M. Winkler, Michael Affenzeller, and Herbert Stekel: Analysis of the Relevance of Blood Parameters and Virtual Tumor Markers in Tumor Diagnosis Prediction Extended Abstracts of the 14th International Asia Pacific Conference on Computer Aided System Theory , pp. 14-17 BibTex
2012 Christoph Büschl, Bernhard Kluger, Franz Berthiller, Gerald Lirk, Stephan M. Winkler, Rudolf Krska, and Rainer Schuhmacher: MetExtract: A new software tool for the automated comprehensive extraction of metabolite-derived LC/MS signals in metabolomics research Bioinformatics, Oxford Journals , Vol. 28 , pp. 736-738 BibTex
2012 Viktoria Dorfer, Stephan M. Winkler, Thomas Kern, Gerald Petz, and Patrizia Faschang: Analysis of Single-Objective and Multi-Objective Evolutionary Algorithms in Keyword Cluster Optimization EUROCAST`11 Proceedings of the 13th International Conference on Computer Aided Systems Theory , Vol. 1 , pp. 408-415 BibTex
2012 Stephan M. Winkler, Michael Affenzeller, Gabriel Kronberger, Michael Kommenda, Stefan Wagner, Witold Jacak, and Herbert Stekel: Analysis of Selected Evolutionary Algorithms in Feature Selection and Parameter Optimization for Data Based Tumor Marker Modeling EUROCAST`11 Proceedings of the 13th International Conference on Computer Aided Systems Theory , Vol. 1 , pp. 335-342 BibTex
2012 Daniela M. Borgmann, Julian Weghuber, Susanne Schaller, Jaroslaw Jacak, and Stephan M. Winkler : Identification of Patterns in Microscopy Images of Biological Samples Using Evolution Strategies Proceedings of the 24th European Modeling and Simulation Symposium (EMSS2012) , pp. 271-276 BibTex
2012 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 BibTex
2012 Stephan M. Winkler, Michael Affenzeller, Gabriel Kronberger, Michael Kommenda, Stefan Wagner, Witold Jacak, and Herbert Stekel: Variable Interaction Networks in Medical Data Proceedings of the 24 th European Modeling and Simulation Symposium (EMSS2012) , pp. 265-270 BibTex
2012 Viktoria Dorfer, Peter Pichler, Stephan M. Winkler, and Karl Mechtler: A new scoring function for HCD spectra Proceedings of the 11th European Conference on Computational Biology (ECCB), Workshop on Computational Proteomics BibTex
2012 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 BibTex
2010 Viktoria Dorfer, Sophie A. Blank, Stephan M. Winkler, Thomas Kern, Gerald Petz, and Patrizia Faschang : Using Query Extension and User Feedback to Improve PubMed Search Proceedings of the 23 rd European Modeling and Simulation Symposium (EMSS2011) , pp. 433-438 BibTex
2011 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 BibTex
2011 Viktoria Dorfer, Stephan M. Winkler, Thomas Kern, Sophie A. Blank, Gerald Petz, and Patrizia Faschang: On the performance of evolutionary algorithms in biomedical keyword clustering Proceedings of the 13th Annual Genetic and Evolutionary Computation Conference - GECCO 2011, Companion Material Proceedings , pp. 511-518 BibTex
2011 Stephan M. Winkler, Michael Affenzeller, Gabriel Kronberger, Michael Kommenda, Stefan Wagner, Witold Jacak, and Herbert Stekel: On the Use of Estimated Tumor Marker Classifications in Tumor Diagnosis Prediction - A Case Study for Breast Cancer Proceedings of the 23rd European Modeling and Simulation Symposium (EMSS2011) , pp. 454-459 BibTex
2010 Stephan M. Winkler, Michael Affenzeller, Gabriel Kronberger, Stefan Wagner, Witold Jacak, and Herbert Stekel: Feature Selection in the Analysis of Tumor Marker Data Using Evolutionary Algorithms Proceedings of the 21st European Modeling and Simulation Symposium (EMSS2010) , pp. 1-6 BibTex
2010 Stephan M. Winkler, Michael Affenzeller, Witold Jacak, and Herbert Stekel: Classification of Tumor Marker Values Using Heuristic Data Mining Methods Proceedings of the GECCO 2010 Workshop on Medical Applications of Genetic and Evolutionary Computation (MedGEC 2010) BibTex
2010 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 BibTex
2009 Stephan M. Winkler, Michael Affenzeller, and Stefan Wagner: Using Enhanced Genetic Programming Techniques for Evolving Classifiers in the Context of Medical Diagnosis Genetic Programming and Evolvable Machines , Vol. 10 , pp. 111-140 BibTex
2009 Viktoria Dorfer, Stephan M. Winkler, Gerald Petz, Andreas Greiner, and Thomas Kern: Optimization of Keyword Grouping in Biomedical Information Retrieval Using Evolutionary Algorithms Proceedings of the 21st European Modeling and Simulation Symposium (EMSS2010) , pp. 25-30 BibTex
2009 Michael Affenzeller, Stephan M. Winkler, Stefan Wagner, and Andreas Beham: Genetic Algorithms and Genetic Programming - Modern Concepts and Practical Applications Chapman & Hall / CRC Press BibTex
2009 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 BibTex
2009 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 BibTex
2008 Stephan M. Winkler, Michael Affenzeller, and Stefan Wagner: Variables Diversity in Systems Identification Based on Extended Genetic Programming Journal of Systems Science , Vol. 34 , pp. 27-34 BibTex
2007 Stephan M. Winkler, Michael Affenzeller, and Stefan Wagner: Advanced Genetic Programming Based Machine Learning Journal of Mathematical Modelling and Algorithms BibTex
2006 Stephan M. Winkler, Michael Affenzeller, and Stefan Wagner: Using Enhanced Genetic Programming Techniques for Evolving Classifiers in the Context of Medical Diagnosis - An Empirical Study Proceedings of the GECCO 2006 Workshop on Medical Applications of Genetic and Evolutionary Computation (MedGEC 2006) BibTex
2006 Stephan M. Winkler, Michael Affenzeller, and Stefan Wagner: Sets of Receiver Characteristic Curves and their Use in the Evaluation of Multi-Class Classification Proceedings of the Genetic and Evolutionary Computation Conference GECCO 2006, The Association for Computing Machinery (ACM) , Vol. 2 , pp. 1601-1602 BibTex
2006 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 BibTex
2006 Stephan M. Winkler, Michael Affenzeller, and Stefan Wagner: Automatic Data Based Patient Classification Using Genetic Programming In Cybernetics and Systems 2006. Austrian Society for Cybernetic Studies, 2006. , Vol. 1 , pp. 251-256 BibTex
2005 Stephan M. Winkler, Michael Affenzeller, and Stefan Wagner: A Genetic Programming Based Tool for Supporting Bioinformatical Classification Problems Proceedings of the FH Science Day 2005 , pp. 3-10 , Shaker Verlag, 2005 BibTex
2005 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 BibTex