Subcutaneous insulin absorption model for parameter estimation from time-course of plasma insulin. - Zlatko Trajanoski; Paul Wach; Peter Kotanko; Falko Skrabal (System Modelling and Optimization, 1993)

Neural predictive controller for insulin delivery using the subcutaneous route. - Zlatko Trajanoski; Paul Wach (IEEE Trans. Biomed. Eng., 1998)

Genesis: cluster analysis of microarray data. - Alexander Sturn; John Quackenbush; Zlatko Trajanoski (Bioinform., 2002)

YPL.db: the Yeast Protein Localization database. - Georg Habeler; Klaus Natter; Gerhard G. Thallinger; Matthew E. Crawford; Sepp D. Kohlwein; Zlatko Trajanoski (Nucleic Acids Res., 2002)

Client-Server environment for high-performance gene expression data analysis. - Alexander Sturn; Bernhard Mlecnik; Roland Pieler; Johannes Rainer; Thomas Truskaller; Zlatko Trajanoski (Bioinform., 2003)

Java editor for biological pathways. - Elmar Trost; Hubert Hackl; Michael Maurer; Zlatko Trajanoski (Bioinform., 2003)

ArrayNorm: comprehensive normalization and analysis of microarray data. - Roland Pieler; Fátima Sánchez-Cabo; Hubert Hackl; Gerhard G. Thallinger; Zlatko Trajanoski (Bioinform., 2004)

ClusterControl: a web interface for distributing and monitoring bioinformatics applications on a Linux cluster. - Gernot Stocker; Dietmar Rieder; Zlatko Trajanoski (Bioinform., 2004)

A fully Bayesian model to cluster gene-expression profiles. - C. Vogl; Fátima Sánchez-Cabo; Gernot Stocker; Simon J. Hubbard; Olaf Wolkenhauer; Zlatko Trajanoski (ECCB/JBI, 2005)

Ovarian cancer identification based on dimensionality reduction for high-throughput mass spectrometry data. - J. S. Yu; Stefano Ongarello; R. Fiedler; X. W. Chen; Gianna Toffolo; Claudio Cobelli; Zlatko Trajanoski (Bioinform., 2005)

A quantization method based on threshold optimization for microarray short time series. - Barbara Di Camillo; Fátima Sánchez-Cabo; Gianna Toffolo; Sreekumaran K. Nair; Zlatko Trajanoski; Claudio Cobelli (BMC Bioinform., 2005)

MARS: Microarray analysis, retrieval, and storage system. - Michael Maurer; Robert Molidor; Alexander Sturn; Jürgen Hartler; Hubert Hackl; Gernot Stocker; Andreas Prokesch; Marcel Scheideler; Zlatko Trajanoski (BMC Bioinform., 2005)

PathwayExplorer: web service for visualizing high-throughput expression data on biological pathways. - Bernhard Mlecnik; Marcel Scheideler; Hubert Hackl; Jürgen Hartler; Fátima Sánchez-Cabo; Zlatko Trajanoski (Nucleic Acids Res., 2005)

CARMAweb: comprehensive R- and bioconductor-based web service for microarray data analysis. - Johannes Rainer; Fátima Sánchez-Cabo; Gernot Stocker; Alexander Sturn; Zlatko Trajanoski (Nucleic Acids Res., 2006)

MASPECTRAS: a platform for management and analysis of proteomics LC-MS/MS data. - Jürgen Hartler; Gerhard G. Thallinger; Gernot Stocker; Alexander Sturn; Thomas R. Burkard; Erik Körner; Robert Rader; Andreas Schmidt 009; Karl Mechtler; Zlatko Trajanoski (BMC Bioinform., 2007)

TAMEE: data management and analysis for tissue microarrays. - Gerhard G. Thallinger; Kerstin Baumgartner; Martin Pirklbauer; Martina Uray; Elke Pauritsch; Gabor Mehes; Charles R. Buck; Kurt Zatloukal; Zlatko Trajanoski (BMC Bioinform., 2007)

ClueGO: a Cytoscape plug-in to decipher functionally grouped gene ontology and pathway annotation networks. - Gabriela Bindea; Bernhard Mlecnik; Hubert Hackl; Pornpimol Charoentong; Marie Tosolini; Amos Kirilovsky; Wolf-Herman Fridman; Franck Pagès; Zlatko Trajanoski; Jérôme Galon (Bioinform., 2009)

QPCR: Application for real-time PCR data management and analysis. - Stephan Pabinger; Gerhard G. Thallinger; René Snajder; Heiko Eichhorn; Robert Rader; Zlatko Trajanoski (BMC Bioinform., 2009)

iLAP: a workflow-driven software for experimental protocol development, data acquisition and analysis. - Gernot Stocker; Maria Fischer; Dietmar Rieder; Gabriela Bindea; Simon Kainz; Michael Oberstolz; James G. McNally; Zlatko Trajanoski (BMC Bioinform., 2009)

MEMOSys: Bioinformatics platform for genome-scale metabolic models. - Stephan Pabinger; Robert Rader; Rasmus Agren; Jens Nielsen; Zlatko Trajanoski (BMC Syst. Biol., 2011)

GPViz: dynamic visualization of genomic regions and variants affecting protein domains. - René Snajder; Zlatko Trajanoski; Hubert Hackl (Bioinform., 2013)

Mathematical models for translational and clinical oncology. - Ralf Gallasch; Mirjana Efremova; Pornpimol Charoentong; Hubert Hackl; Zlatko Trajanoski (J. Clin. Bioinform., 2013)

A survey of tools for variant analysis of next-generation genome sequencing data. - Stephan Pabinger; Andreas Dander; Maria Fischer; René Snajder; Michael Sperk; Mirjana Efremova; Birgit Krabichler; Michael R. Speicher; Johannes Zschocke; Zlatko Trajanoski (Briefings Bioinform., 2014)

MEMOSys 2.0: an update of the bioinformatics database for genome-scale models and genomic data. - Stephan Pabinger; René Snajder; Timo Hardiman; Michaela Willi; Andreas Dander; Zlatko Trajanoski (Database J. Biol. Databases Curation, 2014)

Personalized Oncology Suite: integrating next-generation sequencing data and whole-slide bioimages. - Andreas Dander; Matthias Baldauf; Michael Sperk; Stephan Pabinger; Benjamin Hiltpolt; Zlatko Trajanoski (BMC Bioinform., 2014)

SPARQLGraph: a web-based platform for graphically querying biological Semantic Web databases. - Dominik Schweiger; Zlatko Trajanoski; Stephan Pabinger (BMC Bioinform., 2014)

meRanTK: methylated RNA analysis ToolKit. - Dietmar Rieder; Thomas Amort; Elisabeth Kugler; Alexandra Lusser; Zlatko Trajanoski (Bioinform., 2016)

TIminer: NGS data mining pipeline for cancer immunology and immunotherapy. - Elias Tappeiner; Francesca Finotello; Pornpimol Charoentong; Clemens Mayer; Dietmar Rieder; Zlatko Trajanoski (Bioinform., 2017)

NeoFuse: predicting fusion neoantigens from RNA sequencing data. - Georgios Fotakis; Dietmar Rieder; Marlene Haider; Zlatko Trajanoski; Francesca Finotello (Bioinform., 2020)

Scirpy: a Scanpy extension for analyzing single-cell T-cell receptor-sequencing data. - Gregor Sturm; Tamás Szabó; Georgios Fotakis; Marlene Haider; Dietmar Rieder; Zlatko Trajanoski; Francesca Finotello (Bioinform., 2020)

nextNEOpi: a comprehensive pipeline for computational neoantigen prediction. - Dietmar Rieder; Georgios Fotakis; Markus Ausserhofer; Rene Geyeregger; Wolfgang Paster; Zlatko Trajanoski; Francesca Finotello (Bioinform., 2022)