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[1]
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Michael Römer, Johannes Eichner, Andreas Dräger, Clemens Wrzodek, Finja
Wrzodek, and Andreas Zell.
ZBIT Bioinformatics Toolbox: a Web-Platform for Systems Biology and
Expression Data Analysis.
PLoS ONE, 11(2):e0149263, February 2016.
[ DOI |
details |
link ]
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[2]
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Andreas Dräger, Daniel C. Zielinski, Roland Keller, Matthias Rall, Johannes
Eichner, Bernhard O. Palsson, and Andreas Zell.
SBMLsqueezer 2: Context-sensitive creation of kinetic equations in
biochemical networks.
BMC Systems Biology, 9(1):1--17, September 2015.
[ DOI |
details |
link |
pdf ]
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[3]
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Nicolas Rodriguez, Alex Thomas, Leandro Watanabe, Ibrahim Y. Vazirabad, Victor
Kofia, Harold F. Gómez, Florian Mittag, Jakob Matthes, Jan D. Rudolph,
Finja Wrzodek, Eugen Netz, Alexander Diamantikos, Johannes Eichner, Roland
Keller, Clemens Wrzodek, Sebastian Fröhlich, Nathan E. Lewis, Chris J.
Myers, Nicolas Le Novère, Bernhard Ø. Palsson, Michael Hucka, and
Andreas Dräger.
JSBML 1.0: providing a smorgasbord of options to encode systems
biology models.
Bioinformatics, June 2015.
[ DOI |
arXiv |
details |
link |
pdf ]
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[4]
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Bettina Grasl-Kraupp, Teresa Riegler, Marzieh Nejabat, Jakob Paur, Johannes
Eichner, Michael Römer, Andreas Zell, Rolf Schulte-Hermann, and Wolfgang
Huber.
Abstract 810: Non-genotoxic hepatocarcinogens induce growth and
anti-apoptotic pathways in hepatocytes via mesenchymal cytokines.
Cancer Research, 75(15 Supplement):810, April 2015.
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link ]
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[5]
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Michael Römer, Linus Backert, Johannes Eichner, and Andreas Zell.
Toxdbscan: Large-scale similarity screening of toxicological
databases for drug candidates.
International Journal of Molecular Sciences,
15(10):19037--19055, October 2014.
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link ]
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[6]
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Johannes Eichner, Yvonne Heubach, Manuel Ruff, Hella Kohlhof, Stefan Strobl,
Barbara Mayer, Michael Pawlak, Markus F. Templin, and Andreas Zell.
RPPApipe: A pipeline for the analysis of reverse-phase protein array
data.
BioSystems, June 2014.
[ DOI |
details |
link |
pdf ]
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[7]
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Johannes Eichner, Lars Rosenbaum, Clemens Wrzodek, Hans-Ulrich Häring,
Andreas Zell, and Rainer Lehmann.
Integrated enrichment analysis and pathway-centered visualization of
metabolomics, proteomics, transcriptomics, and genomics data by using the
InCroMAP software.
Journal of Chromatography B, May 2014.
[ DOI |
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[8]
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Johannes Eichner, Clemens Wrzodek, Michael Römer, Heidrun
Ellinger-Ziegelbauer, and Andreas Zell.
Evaluation of toxicogenomics approaches for assessing the risk of
nongenotoxic carcinogenicity in rat liver.
PLoS ONE, 9(5):e97678, May 2014.
[ DOI |
link ]
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[9]
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Michael Römer, Johannes Eichner, Ute Metzger, Markus F. Templin, Simon
Plummer, Heidrun Ellinger-Ziegelbauer, and Andreas Zell.
Cross-platform toxicogenomics for the prediction of non-genotoxic
hepatocarcinogenesis in rat.
PLoS ONE, 9(5):e97640, May 2014.
[ DOI |
link ]
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[10]
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Elif B. Unterberger, Johannes Eichner, Clemens Wrzodek, Harri Lempiäinen,
Raphaëlle Luisier, Rémi Terranova, Ute Metzger, Simon Plummer, Thomas
Knorpp, Albert Braeuning, Jonathan Moggs, Markus Templin, Valerie Honndorf,
Martial Piotto, Andreas Zell, and Michael Schwarz.
Metabolic Programs Orchestrated by the Activated Ha-ras and
β-Catenin Oncoproteins in Mouse Liver Tumors.
International Journal of Cancer, March 2014.
[ DOI |
link ]
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[11]
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Johannes Eichner, Florian Topf, Andreas Dräger, Clemens Wrzodek, Dierk Wanke,
and Andreas Zell.
TFpredict and SABINE: Sequence-Based Prediction of Structural and
Functional Characteristics of Transcription Factors.
PLoS ONE, 8(12):e82238, December 2013.
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details |
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[12]
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Johannes Eichner.
Inference of Alternative Splicing from Tiling Array Data,
volume 1067 of Methods in Molecular Biology, pages 143--164.
Humana Press, October 2013.
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[13]
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Johannes Eichner, Nadine Kossler, Clemens Wrzodek, Arno Kalkuhl, Dorthe Bach
Toft, Nina Ostenfeldt, Virgile Richard, and Andreas Zell.
A Toxicogenomic Approach for the Prediction of Murine
Hepatocarcinogenesis Using Ensemble Feature Selection.
PLoS ONE, 8(9):e73938, September 2013.
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link ]
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[14]
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Clemens Wrzodek, Johannes Eichner, Finja Büchel, and Andreas Zell.
InCroMAP: Integrated analysis of Cross-platform MicroArray and
Pathway data.
Bioinformatics, 29(4):506--508, December 2012.
[ DOI |
arXiv |
details |
link |
pdf ]
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[15]
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Clemens Wrzodek, Johannes Eichner, and Andreas Zell.
Pathway-based visualization of cross-platform microarray datasets.
Bioinformatics, 28(23):3021--3026, September 2012.
[ DOI |
arXiv |
details |
link |
pdf ]
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[16]
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Finja Büchel, Clemens Wrzodek, Florian Mittag, Andreas Dräger, Johannes
Eichner, Nicolas Rodriguez, Nicolas Le Novère, and Andreas Zell.
Qualitative translation of relations from BioPAX to SBML qual.
Bioinformatics, 28(20):2648--2653, August 2012.
[ DOI |
details |
link |
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[17]
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Clemens Wrzodek, Finja Büchel, Georg Hinselmann, Johannes Eichner, Florian
Mittag, and Andreas Zell.
Linking the epigenome to the genome: Correlation of different
features to DNA methylation of CpG islands.
PLoS ONE, 7(4):e35327, 04 2012.
[ DOI |
details |
link |
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[18]
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Johannes Eichner, Georg Zeller, Sascha Laubinger, and Gunnar Raetsch.
Support vector machines-based identification of alternative splicing
in Arabidopsis thaliana from whole-genome tiling arrays.
BMC Bioinformatics, 12(1):55, February 2011.
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link ]
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[19]
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Adrian Schröder, Johannes Eichner, Jochen Supper, Jonas Eichner, Dierk Wanke,
Carsten Henneges, and Andreas Zell.
Predicting DNA-Binding Specificities of Eukaryotic Transcription
Factors.
PLoS ONE, 5(11):e13876, November 2010.
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details |
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