Publications

MS2Rescore 3.0 Is a Modular, Flexible, and User-Friendly Platform to Boost Peptide Identifications, as Showcased with MS Amanda 3.0

Louise M. Buur, Arthur Declercq, Marina Strobl, Robbin Bouwmeester, Sven Degroeve, Lennart Martens, Viktoria Dorfer, Ralf Gabriels

Journal of Proteome Research, Vol. 23, 2024

Automated Clinical Trial Cohort Definition and Evaluation with CQL and CDS-Hooks

Anja Schwab, Anna M. Lin, and Stephan M. Winkler

Studies in Health Technology and Informatics, 313, 149 - 155, 2024

Holomics-a user-friendly R shiny application for multi-omics data integration and analysis

Katharina Munk, Daria Ilina, Lisa Ziemba, Günter Brader, Eva M. Molin

BMC Bioinformatics, Vol. 25, pp. 93, 2024

Targeting NLRP3 inhibits AML progression by inducing PERK/eIF2-mediated apoptosis

Michela Luciano, Helene Sieberer, Peter W. Krenn, Hieu-Hoa Dang, Julia Vetter, Theresa Neuper, Diana Amend, Constantin Blöchl, Christian X. Weichenberger, Anna Eglseer, Michael S. Unger, Ancuela Andosch, Philip Steiner, Daniel Neureiter, Renate Bauer, Laura Hummer, Suzana Tesanovic, Stephanie Binder, Dominik P. Elmer, Helen Strandt, Susanne Schaller, Dirk Strunk, Lisa Pleyer, Richard Greil, Stephan Winkler, Tanja N. Hartmann, Dirk Schmidt-Arras, Christian G. Huber, Fritz Aberger, Jutta Horejs-Hoeck

Vol. 22, pp. 424, 2024

IMPI: An Interface for Low-Frequency Point Mutation Identification Exemplified on Resistance Mutations in Chronic Myeloid Leukemia

Julia Vetter, Jonathan Burghofer, Theodora Malli, Anna M. Lin, Gerald Webersinke, Markus Wiederstein, Stephan M. Winkler, Susanne Schaller

Vol. 4, pp. 1289-1307, 2024

Identification of Similarities and Clusters of Bread Baking Recipes Based on Data of Ingredients

Stefan Anlauf, Sebastian Dorl, Theresa Hirz, Melanie Lasslberger, Rudolf Grassmann, Johannes Himmelbauer, Stephan Winkler

International Journal of Food Engineering, 2024

Genetic Programming Theory and Practice XX

Stephan Winkler, Leonardo Trujillo, Charles Ofria, and Ting Hu (eds.)

Springer, 2024

Histological classification of canine and feline lymphoma using a modular approach based on deep learning and advanced image processing

Andreas Haghofer, Andrea Fuchs-Baumgartinger, Karoline Lipnik, Robert Klopfleisch, Marc Aubreville, Josef Scharinger, Herbert Weissenböck, Stephan M. Winkler, Christof A. Bertram

Scientific Reports, Vol. 13, 2023

MS Annika 2.0 Identifies Cross-Linked Peptides in MS2–MS3-Based Workflows at High Sensitivity and Specificity

Micha J. Birklbauer, Manuel Matzinger, Fränze Müller, Karl Mechtler, Viktoria Dorfer

Journal of Proteome Research, Vol. 22, pp. 3009-3021, 2023

Toward an Integrated Machine Learning Model of a Proteomics Experiment

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

Journal of Proteome Research, Vol. 22, pp. 681-696, 2023

The Class IIA Histone Deacetylase (HDAC) Inhibitor TMP269 Downregulates Ribosomal Proteins and Has Anti-Proliferative and Pro-Apoptotic Effects on AML Cells

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

Cancers, Vol. 15, pp. 1039, 2023

MS Ana: Improving Sensitivity in Peptide Identification with Spectral Library Search

Sebastian Dorl, Stephan Winkler, Karl Mechtler, Viktoria Dorfer

Journal of Proteome Research, Vol. 22, pp. 462–470, 2023

IMPI: An Interface for Low-Frequency Point Mutation Identification Exemplified on Resistance Mutations in Chronic Myeloid Leukemia.

Vetter, J., Burghofer, J., Malli, T., Lin, A. M., Webersinke, G., Wiederstein, M., Winkler, S. & Schaller, S.

BioMedInformatics, Vol. 4, 1289-1307, 2023

Using Explainable Artificial Intelligence for Data Based Detection of Complications in Records of Patient Treatments

Strobl, M. T., Vetter, J., Halmerbauer, G., Königswieser, T., & Winkler, S.

Revised Selected Papers, 173-180, 2023

In Computer Aided Systems Theory–EUROCAST 2022: 18th International Conference, Las Palmas de Gran Canaria, Spain, February 20–25

From Authoring to Evaluating an Electronic Health Quality Measure - Applying Logic to FHIR R© with CQL for Calculating Immunization Coverage

Anna M. Lin, Anja Schwab, Reza Abolhassni, and Stephan M. Winkler

Studies in Health Technology and Informatics, Vol. 301, pp. 12-17, 2023

ImmunoDataAnalyzer: a bioinformatics pipeline for processing barcoded and UMI tagged immunological NGS data

Julia Vetter, Susanne Schaller, Andreas Heinzel, Constantin Aschauer, Roman Reindl-Schwaighofer, Kira Jelencsics, Karin Hu, Rainer Oberbauer, Stephan Winkler

BMC Bioinformatics, Vol. 23, pp. 21, 2022

Analysis of Cell Viability in Microfluidic Spheroid Arrays by Image Analysis and Neural Networks

Jonas Schurr, Christoph Eilenberger, Florian Selinger, Peter Ertl, Josef Scharinger, Stephan Winkler

International Journal of Practical Healthcare Innovation and Management Techniques (IJPHIMT), Vol. 9, pp. 1-22, 2022

Simulation-Based Optimization of Residential Energy Flows Using White Box Modeling by Genetic Programming

Kathrin Kefer, Roland Hanghofer, Patrick Kefer, Markus Stöger, Bernd Hofer, Michael Affenzeller, Stephan Winkler

Energy and Buildings, Vol. 258, 2022

Symbolic Regression in Materials Science: Discovering Interatomic Potentials from Data

Bogdan Burlacu, Michael Kommenda, Gabriel Kronberger, Stephan Winkler, Michael Affenzeller

GPTP XIX Workshop, June 2-4 2022, University of Michigan, Ann Arbor, Michigan, 2022

Using Heterogeneous Model Ensembles to Improve the Prediction of Yeast Contamination in Peppermint

Stefan Anlauf, Andreas Haghofer, Karl Dirnberger, Stephan M. Winkler

Proceedings of the 3rd International Conference on Industry 4.0 and Smart Manufacturing, 2022

Shapley Value Based Variable Interaction Networks for Data Stream Analysis.

Jan Zenisek, Sebastian Dorl, Dominik Falkner, Lukas Gaisberger, Stephan Winkler, Michael Affenzeller

International Conference on Computer Aided Systems Theory, pp. 130-138, 2022

Prospective tracking of donor-reactive T-cell clones in the circulation and rejecting human kidney allografts

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

Frontiers in Immunology, section Alloimmunity and Transplantation, 2021

The NLRP3/eIF2 axis drives cell cycle progression in acute myeloid leukemia

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

bioRxiv, 2021

Automated Evaluation of Cell Viability in Microfluidic Spheroid Arrays

Jonas Schurr, Christoph Eilenberger, Peter Ertl, Josef Scharinger, and Stephan M. Winkler

Proceedings of the 10th International Workshop on Innovative Simulation for Healthcare, 18th International Multidisciplinary Modeling & Simulation Multiconference 2021, 2021

Data-Based Prediction of Microbial Contamination in Herbs and Identification of Optimal Harvest Parameters

Stefan Anlauf, Andreas Haghofer, Karl Dirnberger, Stephan M. Winkler

International Journal of Food Engineering (IJFE), DeGruyter, 2021

Alignment of Multimodal Images of Extracellular Vesicles

Hannah Janout, Boris Buchroithner, Andreas Haghofer, Stephan Winkler, Jaroslaw Jacak

BIOSTEC 2021, 2021

Universal Spectrum Explorer: A Standalone (Web-)Application for Cross-Resource Spectrum Comparison

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

Journal of Proteome Research, Vol. 20, pp. 3388-3394, 2021

MS Annika: A New Cross-Linking Search Engine

Georg J. Pirklbauer, Christian E. Stieger, Manuel Matzinger, Stephan Winkler, Karl Mechtler, Viktoria Dorfer

Journal of Proteome Research, 2021

The European Bioinformatics Community for Mass Spectrometry (EuBIC-MS): an open community for bioinformatics training and research

Wout Bittremieux, David Bouyssié, Viktoria Dorfer, Marie Locard-Paulet, Yasset Perez-Riverol, Veit Schwämmle, Julian Uszkoreit, Tim Van Den Bossche

Rapid Communications in Mass Spectrometry, 2021

MS Amanda 2.0: Advancements of the Standalone Implementation

Viktoria Dorfer, Marina Strobl, Stephan Winkler, Karl Mechtler

Rapid Communications in Mass Spectrometry, Vol. 11, 2021

Focal spot optimization through scattering media in multiphoton lithography

Bianca Buchegger, Andreas Haghofer, Dominic Höglinger, Jaroslaw Jacak, Stephan Winkler, Armin Hochreiner

Optics and Lasers in Engineering, Vol. 142, pp. 106607, 2021

Predicting the Non-Linear Conveying Behavior in Single-Screw Extrusion: A Comparison of Various Data-Based Modeling Approaches used with CFD Simulations

Wolfgang Roland, Christian Marschik, Michael Kommenda, Andreas Haghofer, Sebastian Dorl, Stephan Winkler

International Polymer Processing, 2021

Proceedings of the EuBIC-MS 2020 Developers’ Meeting

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

EuPA Open Proteomics, Vol. 24, pp. 1-6, 2020

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

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

Food Chemistry, Vol. 338, pp. 128065, 2020

Laser-facilitated epicutaneous immunotherapy with hypoallergenic beta-glucan neoglycoconjugates suppresses lung inflammation and avoids local side effects in a mouse model of allergic Asthma

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

Allergy, 2020

H. pylori modulates DC functions via T4SS/TNFalpha/p38-dependent SOCS3 expression

Muamera Sarajlic, Theresa Neuper, Julia Vetter, Susanne Schaller, Maria M. Klicznik, Iris K. Gratz, Silja Wessler, Gernot Posselt, Jutta Horejs-Hoeck

Cell Communication and Signaling, Vol. 18, 2020

Evolutionary Optimization of Image Processing for Cell Detection in Microscopy Images

Andreas Haghofer, Sebastian Dorl, Andre Oszwald, Johannes Breuss, Jaroslaw Jacak, Stephan M. Winkler

Soft Computing, 2020

Governance für Medizin-Benchmarking

Klaus Arthofer, Marina Strobl, Julia Vetter, Stephan M. Winkler

BI-Spektrum, Vol. 2020, pp. 38-41, 2020

A Bioinformatics Pipeline for the Identification of Crucial Factors for Transplant Rejection Based on NGS Data

Julia Vetter, Andreas Heinzel, Constantin Aschauer, Roman Reindl-Schwaighofer, Kira Jelencsics, Karin Hu, Rainer Oberbauer, Stephan M. Winkler, Susanne Schaller

Proceedings of the American Transplant Congress, 2020

Next Generation Sequencing Based Analysis of the T-Cell Receptor Repertoire Reveals an Increase of Alloreactive T-Cell Clones after Kidney Transplantation

Constantin Aschauer, Kira Jelencsics, Karin Hu, Roman Reindl-Schwaighofer, Julia Vetter, Andreas Heinzel, Alexander Kainz, Guido Gualdoni, Susanne Schaller, Stephan M. Winkler, Rainer Oberbauer

Proceedings of the American Transplant Congress, 2020

Evolutionary Optimization of Image Processing for Cell Detection in Microscopy Images

Andreas Haghofer, Josef Scharinger, Stephan Winkler

Doctoral Consortium: Doctoral Consortium on Biomedical Engineering Systems and Technologies, 2020

Identification of immunologic factors associated with allograft rejection using NGS T cell receptor repertoire data

Julia Vetter, Constantin Aschauer, Andreas Heinzel, Roman Reindl-Schwaighofer, Kira Jelencsics, Karin Hu, Rainer Oberbauer, Stephan M. Winkler, Susanne Schaller

The Journal of Immunology, 2020

PySpot: A Python based Framework for the Assessment of Laser-modified 3D Microstructures for Windows and Raspbian

Hannah Janout, Bianca Buchegger, Andreas Haghofer, Dominic Höglinger, Jaroslaw Jacak, Stephan Winkler, Armin Hochreiner

7th International Conference on Bioimaging, 2020

A Robust and Universal Metaproteomics Workflow for Research Studies and Routine Diagnostics Within 24 h Using Phenol Extraction, FASP Digest, and the MetaProteomeAnalyzer

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

Frontiers in Microbiology, pp. 10:1883, 2019

IL-1 beta Induces SOCS2 Expression in Human Dendritic Cells

Muamera Sarajlic, Theresa Neuper, Kim T. Föhrenbach Quiroz, Sara Michelini, Julia Vetter, Susanne Schaller, Jutta Horejs-Hoeck

International journal of molecular sciences, Vol. 20, pp. 5931, 2019

Web-based Benchmarking Platform Provides Clinical Departments with Monthly Updates about Processes of Care, Costs and Outcome

Gerhard Halmerbauer, Klaus Arthofer, Stephan M. Winkler, and Tilman Königswieser

Presented at International Society for Quality in Health Care Conference, 2019

Next generation sequencing based assessment of the alloreactive T cell receptor repertoire in kidney transplant patients during rejection: a prospective cohort study

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

BMC Nephrology, 2019

Hypolipidemic effects of herbal extracts by reduction of adipocyte differentiation, intracellular neutral lipid content, lipolysis, fatty acid exchange and lipid droplet motility

Renate Haselgrübler, Peter Lanzerstorfer, Clemens Röhrl, Flora Stübl, Jonas Schurr, Bettina Schwarzinger, Clemens Schwarzinger, Mario Brameshuber, Stefan Wieser, Stephan M. Winkler, and Julian Weghuber

Scientific Reports, 2019

White Box vs. Black Box Modeling: On the Performance of Deep Learning, Random Forests, and Symbolic Regression in Solving Regression Problems

Michael Affenzeller, Bogdan Burlacu, Viktoria Dorfer, Sebastian Dorl, Gerhard Halmerbauer, Tilman Königswieser, Michael Kommenda, Julia Vetter, and Stephan M. Winkler

Accepted to be published in Computer Aided Systems Theory EUROCAST 2019, 2019

LeiVMed II: Ein Web-Basiertes Benchmarking-System für die Analyse von Behandlungsprozessen, Outcome und Kosten

Gerhard Halmerbauer, Klaus Arthofer, Judith Guttmann, Tilman Königswieser, Soodeh Peyvandi, Andreas Shamiyeh, Marina Strobl, Julia Vetter, and Stephan M. Winkler

Kepler Science Day 2019, 2019

Entwicklung eines Indikatortools auf Papierbasis und eines Kommunikationskonzepts für die Früherkennung von Glukosurie

Viktoria Dorfer, Gerhard Engelbrecht, Barbara Sikic, Viktoria Leitner, Quang-Minh Thai, Benjamin Dieplinger, Michael Hirthammer, Verena Aistleitner, Susanne Schaller, and Stephan M. Winkler

Kepler Science Day 2019, 2019

MS Annika: An Integrated Search Tool for the Identi?cation of Cross-Linked Peptides from Mass Spectrometry Data

Georg Pirklbauer, Christian Stieger, Stephan M. Winkler, Karl Mechtler, and Viktoria Dorfer

Austrian Proteomics and Metabolomics Research Symposium 2019, 2019

Machine Learning in Medizin- und Bioinformatik - Wie künstliche Intelligenz hilft, biologische und medizinische Prozesse zu verstehen

Stephan M. Winkler, Susanne Schaller, Viktoria Dorfer, Gabriel Kronberger, and Michael Affenzeller

Coming Soon – The Future of Work, Education & Living, 2019

A Bioinformatics Pipeline for Identifying Point Mutations in CML Patients

Julia Vetter, Jonathan Burghofer, Theodora Malli, Gerald Webersinke, Wolfgang Kranewitter, Markus Wiederstein, Susanne Schaller, and Stephan M. Winkler

27th Annual International Conference on Intelligent Systems for Molecular Biology – ISMB 2019, 2019

T-Cell Repertoire of Tissue Infiltrating T-cells at Time of Rejection

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

American Transplant Congress 2019, 2019

MS Ana: A Spectral Library Search Engine Optimized for High-Accuracy Fragment Ion Data

Sebastian Dorl, Stephan M. Winkler, Karl Mechtler, and Viktoria Dorfer

European Bioinformatics Community (EuBIC) Winter School 2019, 2019

MS Annika: A new Search Engine for Identifying Peptides from MS Cleavable Crosslink Data

Georg J. Pirklbauer, Christian E. Stieger, Daniela Borgmann, Stephan M. Winkler, Karl Mechtler, and Viktoria Dorfer

European Bioinformatics Community (EuBIC) Winter School 2019, 2019

(Retrospektive) Prädiktion von medizinischen Komplikationen auf Basis von Routinedaten in Krankenhäusern mittels MultiModel-Ensembles

Julia Vetter, Gerhard Halmerbauer, Klaus Arthofer, Susanne Schaller, Andreas Shamiyeh, Walter Schauer, Tilman Königswieser, Christoph Ausch, and Stephan M. Winkler

Kepler Science Day, 2018

Evolutionary Computation and Symbolic Regression in Scientific Modeling

Stephan M. Winkler

Johannes Kepler University Linz, Computer Science, Habilitation Thesis, 2018

Automatisiertes Tracking von Zellen in Mikroskopie-Aufnahmen und evolutionäre Optimierung von Bildvorverarbeitung

Andreas Haghofer, Jaroslaw Jacak, Stephan M. Winkler, and Johannes Breuss

Kepler Science Day, 2018

Expanding the Use of Spectral Libraries in Proteomics

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

Journal of Proteome Research, 2018

Extensions to Peptide Spectrum Match Validation by Semi-Supervised Machine Learning Methods

Georg J. Pirklbauer, Stephan M. Winkler, Karl Mechtler, and Viktoria Dorfer

German Conference on Bioinformatics, 2018

High-throughput Immune Repertoire Sequencing Analysis using the Software ImmunExplorer

Julia Vetter, Stephan M. Winkler, Thomas Fraunhofer, and Susanne Schaller

German Conference on Bioinformatics, Vienna, Österreich, 2018

White Box Modeling, Variable Impact Analysis, and Interaction Network Identification in Biological and Medical Data Using Symbolic Regression

Stephan M. Winkler, Susanne Schaller, Viktoria Dorfer, Andreas Haghofer, Julia Vetter, and Michael Affenzeller

German Conference on Bioinformatics, 2018

Identification of Models for Glucose Blood Values in Diabetics by Grammatical Evolution

J. Ignacio Hidalgo, J. Manuel Colmenar, J. Manuel Velasco, Gabriel Kronberger, Stephan M. Winkler, Oscar Garnica, and Juan Lanchares

In C. Ryan et al (eds.): Handbook of Grammatical Evolution, pp. 367–393, 2018

PhoStar: Identifying Tandem Mass Spectra of Phosphorylated Peptides before Database Search

Sebastian Dorl, Stephan Winkler, Karl Mechtler, and Viktoria Dorfer

Journal of Proteome Research, Vol. 17, pp. 290–295, 2018

CharmeRT: Boosting peptide identifications by chimeric spectra identification and retention time prediction

Viktoria Dorfer, Sergey Maltsev, Stephan M. Winkler, and Karl Mechtler

Journal of Proteome Research, Vol. 17, pp. 2581–2589, 2018

ScienceMapper

Stephan M. Winkler, Johannes Zipperle, and Heinz Redl

26th Annual International Conference on Intelligent Systems for Molecular Biology – ISMB 2018, 2018

Data Based Prediction of Blood Glucose Concentrations Using Evolutionary Methods

J. Ignacio Hidalgo, J. Manuel Colmenar, Gabriel Kronberger, Stephan M. Winkler, Oscar Garnica, and Juan Lanchares

Journal of Medical Systems, 2017

Automatisierte Parameteroptimierung zur Analyse von Mikroskopieaufnahme-Sequenzen durch evolutionäre Algorithmen

Andreas Haghofer, Daniela Borgmann, Jaroslaw Jacak, and Stephan M. Winkler

Kepler Science Day, 2017

Identifying co-eluting peptides using MS Amanda and Elutator

Viktoria Dorfer, Sergey Maltsev, Stephan M. Winkler, and Karl Mechtler

65th ASMS Conference on Mass Spectrometry and Allied Topics, 2017

A Fast and Reliable Online-System for Platelet Viability Studies

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

61st Annual Meeting of the Biophysical Society, 2017

Classification, Modeling and Prediction of Glycemia in Diabetic Patients by Evolutionary and Heuristic Computation from Continuous Glucose Monitoring, Carbohydrates and Insulin Records

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

10th International Conference on Advanced Technologies & Treatments for Diabetes (ATTD 2017), 2017

Identifying tandem mass spectra of phosphorylated peptides before database search using machine-learning

Sebastian Dorl, Viktoria Dorfer, Karl Mechtler, and Stephan M. Winkler

EUBIC Winter School for Proteomics Bioinformatics, 2017

Fast, Quantitative and Variant Enabled Mapping of Peptides to Genomes

Christoph N. Schlaffner, Georg J. Pirklbauer, Andreas Bender, Jyoti S. Choudhary

Cell Systems, Vol. 5, pp. 152-156.e40, 2017

N-acyl Taurines and Acylcarnitines Cause an Imbalance in Insulin Synthesis and Secretion Provoking ? Cell Dysfunction in Type 2 Diabetes

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

Cell Metabolism, Vol. 25, pp. 1334–1347, 2017

Proceedings of the EuBIC Winter School 2017

Sander Willems, David Bouyssie, Matthieu David, Marie Locard-Paulet, Karl Mechtler, Veit Schwämmle, Julian Uszkoreit, Marc Vaudel, Viktoria Dorfer

Journal of Proteomics, pp. 78-80, 2017

Natural protective immunity against grass pollen allergy is maintained by a diverse spectrum of response types

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

Journal of Allergy and Clinical Immunology, 2017

Natural protective immunity against grass pollen allergy is maintained by a diverse spectrum of response types

A. Kurtaj, C. Hillebrand, G. Fichtinger, E. Hattinger, M. Lietzenmayer, Y. Machado, S. Scheiblhofer, A. Stoecklinger, T. Thalhamer, S. Suessner, M. Danzer, S. Keplinger, J. Weinberger, S. Schaller, S. M. Winkler, C. Gabriel, J. Thalhamer, R. Weis

JACI, Vol. 140, No. 6, 2017

Predicting Glycemia in Diabetic Patients By Evolutionary Computation and Continuous Glucose Monitoring

J. Manuel Colmenar, Stephan M. Winkler, Gabriel Kronberger, Esther Maqueda, Marta Botella, J. Ignacio Hidalgo

Proceeding of the Genetic and Evolutionary Computation Conference GECCO 2016, conference companion, pp. 1393-1400, 2016

Prediction del nivel de glucosa en sangre para pacientes con diabetes utilizando tecnicas evolutivas

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

roceedings of the XI Congreso Espanol de Metaheuristicas, Algoritmos Evolutivos y Bioinspirados (MAEB 2016), 2016

Single Molecule Florescence Microscopy and Machine Learning for Rhesus D Antigen Classification

Daniela Borgmann, Sandra Mayr, Helene Polin, Susanne Schaller, Viktoria Dorfer, Christian Gabriel, Stephan Winkler, and Jaroslaw Jacak

Scientific Reports 6, 2016

Biomolecular Characterization of Putative Antidiabetic Herbal Extracts

Verena Stadlbauer, Renate Haselgrübler, Peter Lanzerstorfer, Birgit Plochberger, Daniela Borgmann, Jaroslaw Jacak, Stephan M. Winkler, Klaus Schröder, Otmar Höglinger, Julian Weghuber

PLOS ONE, 2016

Profiling the T- and B-cell receptor repertoire of a patient with acute kidney rejection by high-throughput sequencing

M. Danzer, J. Weinberger, R. Jimenez-Heredia, S. Schaller, S. Süssner, S. M. Winkler, J. Sunzenauer, R. Oberbauer, H. Steitzer, C. Gabriel

Proceedings of the 29th European Immunogenetics and Histocompatibility Conference, Geneva, Schweiz, 2015

Modelling States of Human Adaptive Immune Systems by Analyzing B- and T-Cell Receptors using Machine Learning

S. Schaller, J. Weinberger, M. Danzer, S. M. Winkler

Proceedings of the Computer Aided Systems Theory EUROCAST 2015, Las Palmas de Gran Canaria, Spanien, 2015

ImmunExplorer (IMEX): A detailed analysis of the health status of the immune system using NGS immunoglobulin and T cell receptor IMGT/HighV-QUEST data

S. Schaller, J. Weinberger, R. Jimenez-Heredia, M. Danzer, S. M. Winkler

4th European Congress of Immunology, Vienna, Österreich, 2015

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

S. Schaller, J. Weinberger, R. Jimenez-Heredia, M. Danzer, R. Oberbauer, C. Gabriel, S. M. Winkler

BMC Bioinformatic, Vol. 16, No. 252, 2015

Detailed Analysis of Clonality, Diversity, and Gene Frequency Distributions in B- and T-Cell Receptors based on NGS Data

S. Schaller, J. Weinberger, M. Danzer, S. M. Winkler

Revolutionizing Next-Generation Sequencing: Tools and Technologies, Leuven, Belgium, 2015

Immune Repertoire Profiling Reveals that Clonally Expanded B and T Cells Infiltrating Diseased Human Kidneys Can also Be Tracked in the Blood

Johannes Weinberger, Raul Jimenez-Heredia, Susanne Schaller, Susanne Suessner, Judith Sunzenauer, Roman Reindl-Schwaighofer, Richard Weiss, Stephan Winkler, Christian Gabriel, Martin Danzer, Rainer Oberbauer

PLOS ONE, 2015

Data-Based Identification of Prediction Models for Glucose

J. Manuel Velasco, Stephan M. Winkler, J. Ignacio Hidalgo, Oscar Garnica, Juan Lanchares, J.Manuel Colmenar, Esther Maqueda, Marta Botella, and Jose-Antonio Rubio

Proceedings of the Genetic and Evolutionary Computation Conference GECCO, pp. 1327-1334, 2015

conference companion

Classifying Human Blood Samples Using Characteristics of Single Molecules and Cell Structures on Microscopy Images

Daniela Borgmann, Sandra Mayr, Helene Polin, Lisa Obritzberger, Susanne Schaller, Viktoria Dorfer, Jaroslaw Jacak, and Stephan M. Winkler:  Computer Aided Systems Theory

EUROCAST 2015 Springer Lecture Notes in Computer Science, Vol. 9520, pp. 310-317, 2015

Classification of the States of Human Adaptive Immune Systems by Analyzing Immunoglobins and T Cell Receptors Using ImmunExplorer

Susanne Schaller, Johannes Weinberger, Raul Jimenez-Heredia, Martin Danzer, and Stephan M. Winkler - Computer Aided Systems Theory

EUROCAST 2015, Springer Lecture Notes in Computer Science, Vol. 9520, pp. 302-309, 2015

Prediction of Stem Cell Differentiation in Human Amniotic Membrane Images Using Machine Learning

Lisa Obritzberger, Susanne Schaller, Viktoria Dorfer, Andrea Lindenmair, Susanne Wolbank, Simone Hennerbichler, Heinz Redl, and Stephan M. Winkler - Computer Aided Systems Theory

EUROCAST 2015, Springer Lecture Notes in Computer Science, Vol. 9520, pp. 318-325, 2015

Prediction of Mineralization Degree in Human Amniotic Membrane Using Image Processing Techniques and Machine Learning

Lisa Obritzberger, Daniela Borgmann, Susanne Schaller, Viktoria Dorfer, Andrea Lindenmair, Susanne Wolbank, Heinz Redl, and Stephan M. Winkler

Proceedings of 11th Metaheuristics International Conference MIC 2015, 2015

A Symbolic Regression Based Scoring System Improving Peptide Identifications for MS Amanda

Viktoria Dorfer, Sergey Maltsev, Stephan Dreiseitl, Karl Mechtler, and Stephan M. Winkler

Proceedings of the Genetic and Evolutionary Computation Conference GECCO 2015, Conference Companion, pp. 1335-1341, 2015

Characterization of the Distance Relationship between Localized Serotonin Receptors and Glia Cells on Fluorescence Microscopy Images of Brain Tissue

Jaroslaw Jacak, Susanne Schaller, Daniela M. Borgmann, and Stephan M. Winkler

Microscopy and Microanalysis, Vo. 21, pp. 826-836, 2015

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

Susanne Schaller, Johannes Weinberger, Raul Jimenez Heredia, Martin Danzer, Rainer Oberbauer, Christian Gabriel, and Stephan M. Winkler

BMC Bioinformatics, Vol. 16, 2015

Identification and Classification of Objects and Motions in Microscopy Images of Biological Samples Using Heuristic Algorithms

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

In Studies in Computational Intelligence, APCASE 2014, pp. 103-117, 2015

MS Amanda, a Universal Identification Algorithm Optimized for High Accuracy Tandem Mass Spectra

Viktoria Dorfer, Peter Pichler, Thomas Stranzl, Johannes Stadlmann, Thomas Taus, Stephan Winkler, and Karl Mechtler

Journal of Proteome Research, Vol. 8, pp. 3679-3684, 2014

Mathematical Modeling of the Diversity in Human B and T Cell Receptors using Machine Learning

S. Schaller, J. Weinberger, M. Danzer, C. Gabriel, R. Oberbauer, S. M. Winkler

Proceedings of the 26th European Modeling and Simulation Symposium EMSS 2014, Bordeaux, France, 2014

ImmunExplorer: A Framework for NGS-based Characterization and Visualization of the Human Immune System

S. Schaller, J. Weinberger, M. Danzer, C. Gabriel, R. Oberbauer, S. M. Winkler

Proceedings of the 22nd Annual International Conference on Intelligent Systems for Molecular Biology (ISMB), Boston, MA, USA, 2014

Data Based Prediction of Cancer Diagnoses Using Heterogeneous Model Ensembles - A Case Study for Breast Cancer, Melanoma, and Cancer in the Respiratory System

Stephan M. Winkler, Michael Affenzeller, Susanne Schaller, and Herbert Stekel

Proceeding of the Genetic and Evolutionary Computation Conference GECCO 2014, Conference Companion, pp. 1337–1344, 2014

Identification of Endothelial Cell Morphology in Cornea Using Evolution Strategies

Lisa Obritzberger, Susanne Schaller, Viktoria Dorfer, Claudia Loimayr, Simone Hennerbichler, and Stephan M. Winkler

Proceedings of the 26th European Modeling and Simulation Symposium (EMSS2014), 2014

Mathematical Modeling of the Diversity in Human B and T Cell Receptors Using Machine Learning

Susanne Schaller, Johannes Weinberger, Martin Danzer, Christian Gabriel, Rainer Oberbauer, and Stephan M. Winkler

Proceedings of the 26th European Modeling and Simulation Symposium (EMSS2014), 2014

MS Amanda, a Universal Identification Algorithm Optimized for High Accuracy Tandem Mass Spectra

Viktoria Dorfer, Peter Pichler, Thomas Stranzl, Johannes Stadlmann, Thomas Taus, Stephan M. Winkler, and Karl Mechtler

Journal of Proteome Research, Vol. 13, pp. 3679-84, 2014

Data-Based Prediction of Sentiments Using Heterogeneous Model Ensembles

Stephan M. Winkler, Susanne Schaller, Viktoria Dorfer, Michael Affenzeller, Michal Karpowicz, and Gerald Petz

Soft Computing, Special Issue on Hybrid and Ensemble Techniques in Soft Computing: Recent Advances and Emerging Trends, pp. 12, 2014

Quantification and Kinetic Analysis of Grb2-EGFR Interaction on Micropatterned Surfaces for the Characterization of EGFR-modulating Substances

Peter Lanzerstorfer, Daniela Borgmann, Gerhard Schütz, Stephan M. Winkler, Otmar Höglinger, and Julian Weghuber

PLOS-ONE, Vol. 9, 2014

Identification of Novel Insulin Mimetic Drugs by Quantitative Total Internal Reflection Fluorescence (TIRF) Microscopy

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

British Journal of Pharmacology, Vol. 717, pp. 5237-5251, 2014

Bioanalytical Characterization of Apple Juice from 88 Grafted and Nongrafted Apple Varieties Grown in Upper Austria

Peter Lanzerstorfer, Jürgen Wruss, Stefan Huemer, Andrea Steininger, Ulrike Müller, Markus Himmelsbach, Daniela Borgmann, Stephan M. Winkler, Otmar Höglinger, and Julian Weghuber

Journal of Agricultural and Food Chemistry, Vol. 62, pp. 1047-1056, 2014

Evolutionary Identification of Cancer Predictors Using Clustered Data - A Case Study for Breast Cancer, Melanoma, and Cancer in the Respiratory System

Stephan M. Winkler, Michael Affenzeller, and Herbert Stekel

Proceeding of the Genetic and Evolutionary Computation Conference (GECCO 2013), conference companion, pp. 1463-1470, 2013

Biophysical and biochemical characterization of insulin-dependent cellular systems in response to secondary plant metabolites

Peter Lanzerstorfer, Andrea Steininger, Verena Stadlbauer, Daniela M. Borgmann, Stephan M. Winkler, Otmar Höglinger, and Julian Weghuber

Tagungsband des 7. Forschungsforums der Österreichischen Fachhochschulen (Proceedings of the 7th Science Symposium of Austrian Universities for Applied Sciences), 2013

An Integrated Clustering and Classification Approach for the Analysis of Tumor Patient Data

Stephan M. Winkler, Michael Affenzeller, and Herbert Stekel

Computer Aided Systems Theory - EUROCAST 2013, Vol. 8111, pp. 388-395, 2013

Statistical Analysis of the Relationship between Spots and Structures in Microscopy Images

Susanne Schaller, Jaroslaw Jacak, Michael Sams , and Stephan M. Winkler

Computer Aided Systems Theory - EUROCAST 2013, Vol. 8111, pp. 211-218, 2013

Cross Classification Approach for Feature Selection

Witold Jacak, Karin Pröll, and Stephan M. Winkler

Computer Aided Systems Theory - EUROCAST 2013,, Vol. 8111, pp. 52-58, 2013

Variable Interaction Networks in Medical Data

Stephan M. Winkler, Gabriel Kronberger, Michael Affenzeller, and Herbert Stekel

International Journal of Privacy and Health Information Management, Vol. 1, pp. 1-16, 2013

On the Use of Estimated Tumour Marker Classifications in Tumour Diagnosis Prediction - A Case Study for Breast Cancer

Stephan M. Winkler, Michael Affenzeller, Gabriel Kronberger, Michael Kommenda, Stefan Wagner, Viktoria Dorfer, Witold Jacak, and Herbert Stekel

nternational Journal of Simulation and Process Modelling, Vol. 8, pp. 29-41, 2013

Neural Networks Based Feature Selection in Biological Data Analysis

Witold Jacak and Karin Pröll and Stephan M. Winkler

Advanced Methods and Applications in Computational Intelligence, Topics in Intelligent Engineering and Informatics, Vol. 6, pp. 79-94, 2013

On the Identification of Virtual Tumor Markers and Tumor Diagnosis Predictors Using Evolutionary Algorithms

Stephan M. Winkler, Michael Affenzeller, Gabriel K. Kronberger, Michael Kommenda, Stefan Wagner, Witold Jacak, and Herbert Stekel

Advanced Methods and Applications in Computational Intelligence, Topics in Intelligent Engineering and Informatics, Vol. 6, pp. 95-122, 2013

Analysis of the Relevance of Blood Parameters and Virtual Tumor Markers in Tumor Diagnosis Prediction

Stephan M. Winkler, Michael Affenzeller, and Herbert Stekel

Extended Abstracts of the 14th International Asia Pacific Conference on Computer Aided System Theory, pp. 14-17, 2012

MetExtract: A new software tool for the automated comprehensive extraction of metabolite-derived LC/MS signals in metabolomics research

Christoph Büschl, Bernhard Kluger, Franz Berthiller, Gerald Lirk, Stephan M. Winkler, Rudolf Krska, and Rainer Schuhmacher

Bioinformatics, Oxford Journals, Vol. 28, pp. 736-738, 2012

Analysis of Single-Objective and Multi-Objective Evolutionary Algorithms in Keyword Cluster Optimization

Viktoria Dorfer, Stephan M. Winkler, Thomas Kern, Gerald Petz, and Patrizia Faschang

UROCAST`11 Proceedings of the 13th International Conference on Computer Aided Systems Theory, Vol. 1, pp. 408-415, 2012

Analysis of Selected Evolutionary Algorithms in Feature Selection and Parameter Optimization for Data Based Tumor Marker Modeling

Stephan M. Winkler, Michael Affenzeller, Gabriel Kronberger, Michael Kommenda, Stefan Wagner, Witold Jacak, and Herbert Stekel

EUROCAST`11 Proceedings of the 13th International Conference on Computer Aided Systems Theory, Vol. 1, pp. 335-342, 2012

Identification of Patterns in Microscopy Images of Biological Samples Using Evolution Strategies

Daniela M. Borgmann, Julian Weghuber, Susanne Schaller, Jaroslaw Jacak, and Stephan M. Winkler

Proceedings of the 24th European Modeling and Simulation Symposium (EMSS2012), pp. 271-276, 2012

µDetect: Design of a Framework for Optimized Structure Analysis in Fluorescence Microscopy Images

Susanne Schaller, Stephan M. Winkler, Julian Weghuber, Michael Sams, Jaroslaw Jacak

agungsband des 6. Forschungsforums der Österreichischen Fachhochschulen (Proceedings of the 6th Science Symposium of Austrian Universities for Applied Sciences), Vol. 1, pp. 125-130, 2012

Variable Interaction Networks in Medical Data

Stephan M. Winkler, Michael Affenzeller, Gabriel Kronberger, Michael Kommenda, Stefan Wagner, Witold Jacak, and Herbert Stekel

Proceedings of the 24 th European Modeling and Simulation Symposium (EMSS2012), pp. 265-270, 2012

A new scoring function for HCD spectra

Viktoria Dorfer, Peter Pichler, Stephan M. Winkler, and Karl Mechtler

Proceedings of the 11th European Conference on Computational Biology (ECCB), Workshop on Computational Proteomics, 2012

Analysis of Protein-Protein Interactions in Live Cells - The µ-Patterning Approach

Peter Lanzerstorfer, Andrea Steininger, Otmar Höglinger, Julian Weghuber, Daniela Borgmann, Susanne Schaller, Stephan M. Winkler, Mario Brameshuber, Stefan Sunzenauer, and Gerhard Schütz

In Basic Methods in Protein Purification and Analysis, iConcept Press, 2012

Using Query Extension and User Feedback to Improve PubMed Search

Viktoria Dorfer, Sophie A. Blank, Stephan M. Winkler, Thomas Kern, Gerald Petz, and Patrizia Faschang

Proceedings of the 23 rd European Modeling and Simulation Symposium (EMSS2011), pp. 433-438, 2012

Identification of cancer diagnosis estimation models using evolutionary algorithms: a case study for breast cancer, melanoma, and cancer in the respiratory system

Stephan M. Winkler, Michael Affenzeller, Witold Jacak, and Herbert Stekel

Proceedings of the 13th Annual Genetic and Evolutionary Computation Conference - GECCO 2011, Companion Material Proceedings, pp. 503-510, 2011

On the performance of evolutionary algorithms in biomedical keyword clustering

Viktoria Dorfer, Stephan M. Winkler, Thomas Kern, Sophie A. Blank, Gerald Petz, and Patrizia Faschang

Proceedings of the 13th Annual Genetic and Evolutionary Computation Conference - GECCO 2011, Companion Material Proceedings, pp. 511-518, 2011

On the Use of Estimated Tumor Marker Classifications in Tumor Diagnosis Prediction - A Case Study for Breast Cancer

Stephan M. Winkler, Michael Affenzeller, Gabriel Kronberger, Michael Kommenda, Stefan Wagner, Witold Jacak, and Herbert Stekel

Proceedings of the 23rd European Modeling and Simulation Symposium (EMSS2011), pp. 454-459, 2011

Classification of Tumor Marker Values Using Heuristic Data Mining Methods

Stephan M. Winkler, Michael Affenzeller, Witold Jacak, and Herbert Stekel

Proceedings of the GECCO 2010 Workshop on Medical Applications of Genetic and Evolutionary Computation (MedGEC 2010), 2010

Heuristische Modellierung der Krankheitsverlaufsdaten von Menschen mit Alzheimer Demenz

Stephan M. Winkler, Stefanie Auer, and Michael Affenzeller

Tagungsband des 4. Forschungsforums der Österreichischen Fachhochschulen (Proceedings of the 4th Science Symposium of Austrian Universities for Applied Sciences), pp. 23-28, 2010

Feature Selection in the Analysis of Tumor Marker Data Using Evolutionary Algorithms

Stephan M. Winkler, Michael Affenzeller, Gabriel Kronberger, Stefan Wagner, Witold Jacak, and Herbert Stekel

Proceedings of the 21st European Modeling and Simulation Symposium (EMSS2010), pp. 1-6, 2009

Using Enhanced Genetic Programming Techniques for Evolving Classifiers in the Context of Medical Diagnosis

Stephan M. Winkler, Michael Affenzeller, and Stefan Wagner

Genetic Programming and Evolvable Machines, Vol. 10, pp. 111-140, 2009

Optimization of Keyword Grouping in Biomedical Information Retrieval Using Evolutionary Algorithms

Viktoria Dorfer, Stephan M. Winkler, Gerald Petz, Andreas Greiner, and Thomas Kern

Proceedings of the 21st European Modeling and Simulation Symposium (EMSS2010), pp. 25-30, 2009

Genetic Algorithms and Genetic Programming - Modern Concepts and Practical Applications

Michael Affenzeller, Stephan M. Winkler, Stefan Wagner, and Andreas Beham

Chapman & Hall / CRC Press, 2009

Analyse von Patientendaten und Evolutionäres Design von Virtuellen Sensoren für Erkrankungen (Analysis of Patient Data and Evolutionary Design of Virtual Sensors for Diseases)

Stephan M. Winkler, Michael Affenzeller, Stefan Wagner, and Gabriel Kronberger

agungsband des 3. Forschungsforums der Österreichischen Fachhochschulen (Proceedings of the 3rd Science Symposium of Austrian Universities for Applied Sciences), pp. 56-61, 2009

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

Stephan M. Winkler, Stefanie Auer, Michael Affenzeller, Yvonne Donabauer, and Barry Reisberg

Proceedings of the 20th European Modeling and Simulation Symposium (EMSS2009), pp. 167-172, 2009

Variables Diversity in Systems Identification Based on Extended Genetic Programming

Stephan M. Winkler, Michael Affenzeller, and Stefan Wagner

Journal of Systems Science, Vol. 34, pp. 27-34, 2008

Advanced Genetic Programming Based Machine Learning

Stephan M. Winkler, Michael Affenzeller, and Stefan Wagner

Journal of Mathematical Modelling and Algorithms, 2007

Using Enhanced Genetic Programming Techniques for Evolving Classifiers in the Context of Medical Diagnosis - An Empirical Study

Stephan M. Winkler, Michael Affenzeller, and Stefan Wagner

Proceedings of the GECCO 2006 Workshop on Medical Applications of Genetic and Evolutionary Computation (MedGEC 2006), 2006

Sets of Receiver Characteristic Curves and their Use in the Evaluation of Multi-Class Classification

Stephan M. Winkler, Michael Affenzeller, and Stefan Wagner

Proceedings of the Genetic and Evolutionary Computation Conference GECCO 2006, The Association for Computing Machinery (ACM), Vol. 2, pp. 1601-1602, 2006

Advances in Applying Genetic Programming to Machine Learning, Focussing on Classification Problems

Stephan M. Winkler, Michael Affenzeller, and Stefan Wagner

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, 2006

Automatic Data Based Patient Classification Using Genetic Programming

Stephan M. Winkler, Michael Affenzeller, and Stefan Wagner

In Cybernetics and Systems 2006. Austrian Society for Cybernetic Studies, 2006., Vol. 1, pp. 251-256, 2006

A Genetic Programming Based Tool for Supporting Bioinformatical Classification Problems

Stephan M. Winkler, Michael Affenzeller, and Stefan Wagner

Proceedings of the FH Science Day 2005, Shaker Verlag, pp. 3-10, 2005

Solving Multiclass Classification Problems by Genetic Programming

Stephan M. Winkler, Michael Affenzeller, and Stefan Wagner

Proceedings of The 9th World Multi-Conference on Systemics, Cybernetics and Informatics SCI, International Institute of Informatics and Systemics, Vol. 1, pp. 48-53, 2005