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10 items tagged with 'modeling software'.
Data files (1)
Uploader: Jonathan Fuller
Contributor: Jonathan Fuller, Michael Martinez, Rebecca Wade
Other contributors: Not specified
Version: 1
Projects: A3.2: Cross-talk of signaling pathways and endocytic machinery in hepato..., F3: Kinetic data handling
Scales: Not specified
LigDig is a web application for investigating ligand-protein interactions. LigDig can be used to query structural and functional properties. LigDig can be accessed at http://mcm.h-its.org/ligdig
Created: 17th Jan 2014 at 15:21 Last updated: 6th Dec 2014 at 18:09
ViewModels (1)
Uploader: Walter De Back
Contributor: Andreas Deutsch, Lutz Brusch, Walter De Back
Other contributors: Not specified
Model type: Not specified
Model format: Not specified
Version: 2
Projects: A3.2: Cross-talk of signaling pathways and endocytic machinery in hepato..., A3.3: Hepatocyte polarity, A3.5: The impact of cell polarity on metabolism detoxification and endoc..., B2.3: Effect of hepatic stellate cells on hepatocyte polarity and transd..., B3: Intercellular communication through cell adhesion, B: Communication of Hepatocytes and Non-Parenchymal Liver Cells, C2: Organization of the sinusoidal system and the liver lobule - referen..., C5: Structural changes and functional consequences of the liver lobular/..., C6: Organization and function of the sinusoidal system and the liver lob..., C: Liver lobule level, D4: Regeneration and Liver Size, E2: Integration on the liver lobule scale: Image processing and mathemat..., E3: Horizontal integration on organ scale, E: Model integration
Organism: Not specified
Environment: Not specified
Scales: Cell, Intercellular and Liver lobule
Morpheus is the modeling environment for multicellular systems biology developed at the IMC group (prof. Andreas Deutsch) at the Center for High Performance Computing at the the Technische Universität Dresden.
Created: 23rd Oct 2012 at 13:08 Last updated: 4th Dec 2012 at 13:35
Download Publications (7)
Authors: Andreas Dräger, Daniel C Zielinski, Roland Keller, Matthias Rall, Johannes Eichner, Bernhard O Palsson, Andreas Zell
DOI: 10.1186/s12918-015-0212-9
Date Published: 1st Dec 2015
Projects: A3.4: Linking signalling to metabolic functions, B5: Cell-cell communication influences detoxifying functions in hepatocytes
Journal: BMC Syst Biol
Citation: BMC Syst Biol 9(1) : 389
Scales: Cell and Intercellular
Abstract (Expand)
Created: 16th Nov 2015 at 15:27 Last updated: 16th Nov 2015 at 15:29
Authors: N. Rodriguez, A. Thomas, L. Watanabe, I. Y. Vazirabad, V. Kofia, H. F. Gomez, F. Mittag, J. Matthes, J. Rudolph, F. Wrzodek, E. Netz, A. Diamantikos, J. Eichner, R. Keller, C. Wrzodek, S. Frohlich, N. E. Lewis, C. J. Myers, N. Le Novere, B. O. Palsson, M. Hucka, A. Drager
PubMed ID: 26079347
Date Published: 17th Jun 2015
Projects: A3.4: Linking signalling to metabolic functions, B5: Cell-cell communication influences detoxifying functions in hepatocytes
Journal: Bioinformatics
Citation: Bioinformatics :
Scales: Cell, Intercellular, Liver lobule, Liver and Organism
Abstract (Expand)
Created: 22nd Jun 2015 at 17:56
Authors: Michael Hucka, David P. Nickerson, Gary D. Bader, Frank T. Bergmann, Jonathan Cooper, Emek Demir, Alan Garny, Martin Golebiewski, Chris J. Myers, Falk Schreiber, Dagmar Waltemath, Nicolas Le Novère
Date Published: 24th Feb 2015
Projects: F1: The data management system, Virtual Liver
Journal: Front. Bioeng. Biotechnol.
Citation: Front. Bioeng. Biotechnol. 3
Scales: Not specified
Abstract (Expand)
Created: 25th Feb 2015 at 12:58 Last updated: 25th Feb 2015 at 13:01
Authors: Alexander Dörr, Roland Keller, Andreas Zell, Andreas Dräger
DOI: 10.3390/computation2040246
Date Published: 1st Dec 2014
Projects: A3.4: Linking signalling to metabolic functions, B5: Cell-cell communication influences detoxifying functions in hepatocytes
Journal: Computation
Citation: Computation 2(4) : 246
Scales: Cell and Intercellular
Abstract (Expand)
Created: 14th Jan 2015 at 15:05 Last updated: 10th Jun 2015 at 18:36
Authors: Clemens Wrzodek, Andreas Dräger, Andreas Zell
PubMed ID: 21700675
Date Published: 25th Jun 2011
Projects: A3.4: Linking signalling to metabolic functions, B5: Cell-cell communication influences detoxifying functions in hepatocytes, Showcase Steatosis
Journal: Bioinformatics
Citation: Bioinformatics 27(16): 2314-5
Scales: Cell and Intercellular
Abstract (Expand)
Created: 30th Jun 2011 at 08:35 Last updated: 24th Oct 2013 at 16:18
Authors: Claudine Chaouiya, Duncan Berenguier, Sarah M Keating, Aurelien Naldi, Martijn P van Iersel, Nicolas Rodriguez, Andreas Dräger, Finja Büchel, Thomas Cokelaer, Bryan Kowal, Benjamin Wicks, Emanuel Gonçalves, Julien Dorier, Michel Page, Pedro T Monteiro, Axel von Kamp, Ioannis Xenarios, Hidde de Jong, Michael Hucka, Steffen Klamt, Denis Thieffry, Nicolas Le Novère, Julio Saez-Rodriguez, Tomá¿ Helikar
Date Published: 2013
Projects: A3.4: Linking signalling to metabolic functions, B5: Cell-cell communication influences detoxifying functions in hepatocytes
Journal: BMC Syst Biol
Citation: BMC Syst Biol 7(1) : 135
Scales: Cell and Intercellular
Abstract (Expand)
Created: 10th Dec 2013 at 18:07 Last updated: 10th Dec 2013 at 18:09
Authors: Clemens Wrzodek, Finja Büchel, Manuel Ruff, Andreas Dräger, Andreas Zell
Date Published: 2013
Projects: A3.4: Linking signalling to metabolic functions, B5: Cell-cell communication influences detoxifying functions in hepatocytes
Journal: BMC Syst Biol
Citation: BMC Syst Biol 7(1) : 15
Scales: Cell and Intercellular
Abstract (Expand)
Created: 23rd Feb 2013 at 23:19 Last updated: 24th Oct 2013 at 16:15
Presentations (1)
Uploader: Antonia Stank
Contributor: Antonia Stank, Jonathan Fuller, Michael Martinez, Rebecca Wade
Other contributors: Stefan Henrich, Stefan Richter
Version: 1
Projects: A3.2: Cross-talk of signaling pathways and endocytic machinery in hepato..., F3: Kinetic data handling
Scales: Not specified
Background: One of the major challenges in complex multi-disciplinary systems biology projects is to understand and process data from a wide variety of data sources. Computational tools to assist in the analysis of this data are essential.
Method: LigDig is a web server designed to answer questions that previously required several independent queries to diverse data sources. It also performs basic manipulations and analyses of the structures of protein–ligand complexes. The LigDig webserver is
...
Created: 15th Jan 2016 at 13:49
