Publications of A. Nagel

Lohse, M., Nagel, A., Herter, T., May, P., Schroda, M., Zrenner, R., Tohge, T., Fernie, A. R., Stitt, M. & Usadel, B. Mercator: a fast and simple web server for genome scale functional annotation of plant sequence data. Plant Cell Environment 37, 1250–1258 (2014).

Usadel, B., Schwacke, R., Nagel, A. & Kersten, B. GabiPD – The GABI Primary Database integrates plant proteomic data with gene-centric information. Frontiers in Plant Science 3, (2012).

Lohse, M., Bolger, A. M., Nagel, A., Fernie, A. R., Lunn, J. E., Stitt, M. & Usadel, B. RobiNA: a user-friendly, integrated software solution for RNA-Seq-based transcriptomics. Nucleic Acids Research 40, W622–W627 (2012).

Nagel, A., Lohse, M., Bolger, A., Bolger, A. M., Stitt, M. & Usadel, B. Visualizing large, high-throughput datasets based on the cognitive representation of biological pathways. Human Vision and Electronic Imaging Xvi 7865, 78650h (2011).

Durek, P., Schmidt, R., Heazlewood, J. L., Jones, A., MacLean, D., Nagel, A., Kersten, B. & Schulze, W. X. PhosPhAt: the Arabidopsis thaliana phosphorylation site database. An update. Nucleic Acids Research 38, D828–D834 (2010).

Lohse, M., Nunes-Nesi, A., Krueger, P., Nagel, A., Hannemann, J., Giorgi, F. M., Childs, L., Osorio, S., Walther, D., Selbig, J., Sreenivasulu, N., Stitt, M., Fernie, A. R. & Usadel, B. Robin: An Intuitive Wizard Application for R-Based Expression Microarray Quality Assessment and Analysis. Plant Physiology 153, 642–651 (2010).

Riano-Pachon, D. M., Nagel, A., Neigenfind, J., Wagner, R., Basekow, R., Weber, E., Mueller-Roeber, B., Diehl, S. & Kersten, B. GabiPD: the GABI primary database-a plant integrative 'omics' database. Nucleic Acids Research 37, 954–959 (2009).

Usadel, B., Poree, F., Nagel, A., Lohse, M., Czedik-Eysenberg, A. & Stitt, M. A guide to using MapMan to visualize and compare Omics data in plants: a case study in the crop species, Maize. Plant Cell and Environment 32, 1211–1229 (2009).

Kersten, B., Nagel, A., Riano-Pachon, D. M., Neigenfind, J., Weber, E., Wagner, R. & Diehl, S. Die GABI-Primaerdatenbank GabiPD - Komplexe Integration von GABI-Daten aus Modell- und Nutzpflanzen. GenomXPress: Informationen aus der Deutschen Genomforschung 1, 17–19 (2008).

Lohse, M., Krueger, P., Hannemann, J., Nagel, A., Stitt, M., Walther, D. & Usadel, B. Robin - Microarray Experimentanalyse leicht gemacht. GenomXPress: Informationen aus der Deutschen Genomforschung 3, 16–17 (2008).

Thimm, O., Blaesing, O., Gibon, Y., Nagel, A., Meyer, S., Krueger, P., Selbig, J., Mueller, L. A., Rhee, S. Y. & Stitt, M. MAPMAN: a user-driven tool to display genomics data sets onto diagrams of metabolic pathways and other biological processes. Plant Journal 37, 914–939 (2004).

Usadel, B., Nagel, A., Steinhauser, D., Gibon, Y., Blaesing, O. E., Redestig, H., Sreenivasulu, N., Krall, L., Hannah, M. A., Poree, F., Fernie, A. R. & Stitt, M. PageMan: An interactive ontology tool to generate, display, and annotate overview graphs for profiling experiments. BMC Bioinformatics 7, 535 (2006).

Usadel, B., Nagel, A., Thimm, O., Redestig, H., Bläsing, O. E., Palacios-Rojas, N., Selbig, J., Hannemann, J., Piques, M. C., Steinhauser, D., Scheible, W.-R., Gibon, Y., Morcuende, R., Weicht, D., Meyer, S. & Stitt, M. Extension of the visualization tool MapMan to allow statistical analysis of arrays, display of coresponding genes, and comparison with known responses. Plant Physiology 138, 1195–1204 (2005).