Exploiting gene interaction information from microarray expression data for cancer classification. - Alexey V. Antonov; Igor V. Tetko; Michael T. Mader; Jan Budczies; Hans-Werner Mewes (German Conference on Bioinformatics, 2003)

Optimization models for cancer classification: extracting gene interaction information from microarray expression data. - Alexey V. Antonov; Igor V. Tetko; Michael T. Mader; Jan Budczies; Hans-Werner Mewes (Bioinform., 2004)

Robust detection and verification of linear relationships to generate metabolic networks using estimates of technical errors. - Frank Kose; Jan Budczies; Matthias Holschneider; Oliver Fiehn (BMC Bioinform., 2007)

METAtarget - Extracting Key Enzymes of Metabolic Regulation from Highthroughput Metabolomics Data using KEGG REACTION Information. - Jan Budczies; Carsten Denkert; Berit M. Müller; Scarlet F. Brockmöller; Manfred Dietel; Jules L. Griffin; Matej Oresic; Oliver Fiehn (GCB, 2010)

New network topology approaches reveal differential correlation patterns in breast cancer. - Michael Bockmayr; Frederick Klauschen; Balazs Györffy; Carsten Denkert; Jan Budczies (BMC Syst. Biol., 2013)

Semiconductor sequencing: how many flows do you need? - Jan Budczies; Michael Bockmayr; Denise Treue; Frederick Klauschen; Carsten Denkert (Bioinform., 2015)

Ioncopy: an R Shiny app to call copy number alterations in targeted NGS data. - Jan Budczies; Nicole Pfarr; Eva Romanovsky; Volker Endris; Albrecht Stenzinger; Carsten Denkert (BMC Bioinform., 2018)

Towards computational fluorescence microscopy: Machine learning-based integrated prediction of morphological and molecular tumor profiles. - Alexander Binder; Michael Bockmayr; Miriam Hägele; Stephan Wienert; Daniel Heim; Katharina Hellweg; Albrecht Stenzinger; Laura Parlow; Jan Budczies; Benjamin Goeppert; Denise Treue; Manato Kotani; et al. (CoRR, 2018)