CSB.DB: a comprehensive systems-biology database. - Dirk Steinhauser; Björn Usadel; Alexander Lüdemann; Oliver Thimm; Joachim Kopka (Bioinform., 2004)

GMD@CSB.DB: the Golm Metabolome Database. - Joachim Kopka; Nicolas Schauer; Stephan Krueger; Claudia Birkemeyer; Björn Usadel; Eveline Bergmüller; Peter Dörmann; Wolfram Weckwerth; Yves Gibon; Mark Stitt; Lothar Willmitzer; Alisdair R. Fernie; et al. (Bioinform., 2005)

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)

Correlation-maximizing surrogate gene space for visual mining of gene expression patterns in developing barley endosperm tissue. - Marc Strickert; Nese Sreenivasulu; Björn Usadel; Udo Seiffert (BMC Bioinform., 2007)

Detecting Inconsistencies in Large Biological Networks with Answer Set Programming. - Martin Gebser; Torsten Schaub; Sven Thiele; Björn Usadel; Philippe Veber (ICLP, 2008)

Algorithm-driven Artifacts in median polish summarization of Microarray data. - Federico M. Giorgi; Anthony M. Bolger; Marc Lohse; Björn Usadel (BMC Bioinform., 2010)

Visualizing large, high-throughput datasets based on the cognitive representation of biological pathways. - Axel Nagel; Marc Lohse; Anthony M. Bolger; Mark Stitt; Björn Usadel (Human Vision and Electronic Imaging, 2011)

The SEQanswers wiki: a wiki database of tools for high-throughput sequencing analysis. - Jing-Woei Li; Keith Robison; Marcel Martin; Andreas Sjödin; Björn Usadel; Matthew Young; Eric C. Olivares; Dan M. Bolser (Nucleic Acids Res., 2012)

RobiNA: a user-friendly, integrated software solution for RNA-Seq-based transcriptomics. - Marc Lohse; Anthony M. Bolger; Axel Nagel; Alisdair R. Fernie; John E. Lunn; Mark Stitt; Björn Usadel (Nucleic Acids Res., 2012)

The NGS WikiBook: a dynamic collaborative online training effort with long-term sustainability. - Jing-Woei Li; Dan M. Bolser; Magnus Manske; Federico Manuel Giorgi; Nikolay Vyahhi; Björn Usadel; Bernardo J. Clavijo; Ting-Fung Chan; Nathalie Wong; Daniel R. Zerbino; Maria Victoria Schneider (Briefings Bioinform., 2013)

Trimmomatic: a flexible trimmer for Illumina sequence data. - Anthony M. Bolger; Marc Lohse; Björn Usadel (Bioinform., 2014)

GoMapMan: integration, consolidation and visualization of plant gene annotations within the MapMan ontology. - Ziva Ramsak; Spela Baebler; Ana Rotter; Matej Korbar; Igor Mozetic; Björn Usadel; Kristina Gruden (Nucleic Acids Res., 2014)

Mapping a database schema to the structure of an existing ontology. - Anahita Nafissi; Fabio Fiorani; Björn Usadel (ICBO, 2015)

PAGANtec: OpenMP Parallel Error Correction for Next-Generation Sequencing Data. - Markus Joppich; Dirk Schmidl; Anthony M. Bolger; Torsten W. Kuhlen; Björn Usadel (IWOMP, 2015)

Plant genome and transcriptome annotations: from misconceptions to simple solutions. - Marie E. Bolger; Borjana Arsova; Björn Usadel (Briefings Bioinform., 2018)

The de.NBI / ELIXIR-DE training platform - Bioinformatics training in Germany and across Europe within ELIXIR. - Daniel Wibberg; Bérénice Batut; Peter Belmann; Jochen Blom; Frank Oliver Glöckner; Björn A. Grüning; Nils Hoffmann; Nils Kleinbölting; René Rahn; Maja Rey; Uwe Scholz; Malvika Sharan; et al. (F1000Research, 2019)

Ontologies for increasing the FAIRness of plant research data. - Kathryn Dumschott; Hannah Dörpholz; Marie-Angélique Laporte; Dominik Brilhaus; Andrea Schrader; Björn Usadel; Steffen Neumann; Elizabeth Arnaud; Angela Kranz (CoRR, 2023)

DataPLAN: A Web-Based Data Management Plan Generator for the Plant Sciences. - Xiao-Ran Zhou; Sebastian Beier; Dominik Brilhaus; Cristina Martins Rodrigues; Timo Mühlhaus; Dirk von Suchodoletz; Richard M. Twyman; Björn Usadel; Angela Kranz (Data, 2023)

FAIRagro: Ein Konsortium in der Nationalen Forschungsdateninfrastruktur (NFDI) für Forschungsdaten in der Agrosystemforschung. - Xenia Specka; Daniel Martini; Claus Weiland; Daniel Arend; Senthold Asseng; Franziska Boehm; Til Feike; Juliane Fluck; David Gackstetter; Aida Gonzales-Mellado; Thomas Hartmann; Jan-Henrik Haunert; et al. (Inform. Spektrum, 2023)

A roadmap for a middleware as a federation service for integrative data retrieval of agricultural data. - Jorge García Brizuela; Carsten Scharfenberg; Carmen Scheuner; Florian Hoedt; Patrick König; Angela Kranz; Antonia Leidel; Daniel Martini; Gabriel Schneider; Julian Schneider; Lea Sophie Singson; Harald von Waldow; et al. (J. Integr. Bioinform., 2024)