PageMan: An interactive ontology tool to generate, display, and annotate overview graphs for profiling experiments. - Björn Usadel; Axel Nagel; Dirk Steinhauser; Yves Gibon; Oliver E. Bläsing; Henning Redestig; Nese Sreenivasulu; Leonard Krall; Matthew A. Hannah; Fabien Poree; Alisdair R. Fernie; Mark Stitt (BMC Bioinform., 2006)

Integrative Analysis of Transcriptome and Metabolome Data. - Lothar Willmitzer; Camila Caldana; Alisdair R. Fernie; Patrick Giavalisco; Matthew A. Hannah; Henning Redestig; Dirk Steinhauser (German Conference on Bioinformatics, 2007)

Transcription factor target prediction using multiple short expression time series from Arabidopsis thaliana. - Henning Redestig; Daniel Weicht; Joachim Selbig; Matthew A. Hannah (BMC Bioinform., 2007)

TargetSearch - a Bioconductor package for the efficient preprocessing of GC-MS metabolite profiling data. - Álvaro Cuadros-Inostroza; Camila Caldana; Henning Redestig; Miyako Kusano; Jan Lisec; Hugo Peña-Cortés; Lothar Willmitzer; Matthew A. Hannah (BMC Bioinform., 2009)

Dynamical differential expression (DyDE) reveals the period control mechanisms of the Arabidopsis circadian oscillator. - Laurent Mombaerts; Alberto Carignano; Fiona C. Robertson; Timothy J. Hearn; Jin Junyang; David P. Hayden; Zoe Rutterford; Carlos T. Hotta; Katherine E. Hubbard; Marti Ruiz C. Maria; Ye Yuan 002; Matthew A. Hannah; et al. (PLoS Comput. Biol., 2019)