Data files

 

Zip Microarray data from transgenic SLC mice


Uploader: Madlen Matz-Soja

Contributor: Madlen Matz-Soja, Rolf Gebhardt, Wolfgang Schmidt-Heck

Other contributors: Not specified

Version: 2

Projects: A1: Cellular metabolism

Scales: Cell

Transgenic mice with a conditional hepatocyte-specific deletion of the Smoothened gene after adolescence were characterized for alterations in gene expression via microarrays.

Created: 20th Oct 2015 at 09:10   Last updated: 3rd May 2017 at 11:12


 

Xls test parsing hünfeld


Uploader: Meik Bittkowski

Contributor: Martin Golebiewski, Meik Bittkowski

Other contributors: Not specified

Version: 1

Projects: F: Data management

Scales: Not specified

No description specified

Created: 30th Oct 2013 at 11:07   Last updated: 13th Apr 2016 at 13:33


 

Ppt Modeling approaches in A3.4 and B5


Uploader: Andreas Dräger

Contributor: Andreas Dräger

Other contributors: Not specified

Scales: Not specified

The project A3.4 will create a combined model that containes metabolism, gene regulation and signal transduction with main focus on the influence of the nuclear receptors PXR, CAR, and PPARa. To this end, information is gathered from HepatoNet1, TRANSFAC, and Ingenuity aiming at creating an overal model, which will be equipped with kinetic information subsequently. In project B.5 a model of IL6 signal transduction that links of STAT3 and MAPK (ERK) to ADME genes is created using TRANSFAC, Ingenuity,
...

Created: 25th Jun 2011 at 11:23   Last updated: 12th Jan 2016 at 08:13


 

Ppt In vitro KD of Rab5all for 5 days. Strong reduction on LAMP1 staining


Uploader: Konstantina Diamantara

Contributor: Anja Zeigerer, Hidenori Nonaka, Konstantina Diamantara, Marino Zerial

Other contributors: Not specified

Scales: Cell, Intercellular and Liver

No description specified

Created: 28th Feb 2014 at 11:23   Last updated: 11th Jan 2016 at 15:18


 

Ppt In vitro KD of Rab5all for 5 days. No affect on Rab11


Uploader: Konstantina Diamantara

Contributor: Anja Zeigerer, Hidenori Nonaka, Konstantina Diamantara, Marino Zerial

Other contributors: Not specified

Scales: Cell, Intercellular and Liver

No description specified

Created: 28th Feb 2014 at 11:27   Last updated: 11th Jan 2016 at 15:18


 

Ppt In vitro KD of Rab5all for 5 days followed by 30 min DiI-LDL uptake. Strong effect on LDL internalization upon Rab5 loss


Uploader: Konstantina Diamantara

Contributor: Anja Zeigerer, Hidenori Nonaka, Konstantina Diamantara, Marino Zerial

Other contributors: Not specified

Scales: Not specified

No description specified

Created: 28th Feb 2014 at 11:31   Last updated: 11th Jan 2016 at 15:18


 

Genericblue in vivo fluorescent analysis of LNP-siRNAs


Uploader: Konstantina Diamantara

Contributor: Anja Zeigerer, Jerome Gilleron, Konstantina Diamantara

Other contributors: Not specified

Scales: Not specified

No description specified

Created: 11th Dec 2013 at 10:35   Last updated: 11th Jan 2016 at 15:18


 

Pdf Urea synthesis rate - raw data


Uploader: Bruno Christ

Contributor: Bruno Christ

Other contributors: Not specified

Scales: Liver

No description specified

Created: 12th Feb 2014 at 16:18   Last updated: 11th Jan 2016 at 08:50


 

Pdf Cytochrome P450 enzyme activity - raw data


Uploader: Bruno Christ

Contributor: Bruno Christ

Other contributors: Not specified

Scales: Liver

No description specified

Created: 12th Feb 2014 at 16:15   Last updated: 11th Jan 2016 at 08:48


 

Xls Keller et al_Manuscript-relevant data


Uploader: Maria Thomas

Contributor: Andreas Dräger, Andreas Zell, Marcus Klein, Maria Thomas, Roland Keller, Thomas Joos, Ulrich Zanger, Ute Metzger, Wolfgang E. Thasler

Other contributors: Not specified

Scales: Not specified

Contains all experimental data used for the study "Coordinating role of RXRα in downregulating hepatic detoxification during inflammation revealed by fuzzy logic modeling" by Keller and colleagues.

Created: 6th Oct 2015 at 13:16


 

Html SDA7


Uploader: Antonia Stank

Contributor: Rebecca Wade

Other contributors: Michael Martinez, Neil J. Bruce, Julia Romanowska, Daria B. Kokh, Musa Ozboyaci, Xiaofeng Yu, Mehmet Ali Öztürk, Stefan Richter

Scales: Cell

SDA7 can be used to carry out Brownian dynamics simulations of the diffusional association in a continuum aqueous solvent of two solute molecules, e.g. proteins, or of a solute molecule to an inorganic surface. SDA7 can also be used to simulate the diffusion of multiple proteins, in dilute or concentrated solutions, e.g., to study the effects of macromolecular crowding.

Created: 18th Sep 2015 at 14:51


 

Html webSDA


Uploader: Antonia Stank

Contributor: Jonathan Fuller, Rebecca Wade

Other contributors: Xiaofeng Yu, Michael Martinez, Annika L. Gable, Neil J. Bruce, Stefan Richte

Scales: Cell

webSDA: a web server to simulate macromolecular diffusional association.

Created: 18th Sep 2015 at 14:47   Last updated: 18th Sep 2015 at 14:48


 

Html Brownian Dynamics Simulation


Uploader: Antonia Stank

Contributor: Rebecca Wade

Other contributors: N.J. Bruce, Daria B. Kokh, M. Ozboyaci

Version: 1

Projects: F3: Kinetic data handling

Scales: Cell

Lecture notes from Winterschool in Juelich:

N.J. Bruce, Daria B. Kokh, M. Ozboyaci and Rebecca C. Wade.
Modelling of solvation effects for brownian dynamics simulation of biomolecular recognition.
In Computational Trends in Solvation and Transport in Liquids Lecture Notes, volume 28 of IAS Series, (2015) pages 259-280. Eds. Sutmann G., Grotendorst, J., Gompper,G., Marx,D. Schriften des Forschungszentrums Juelich.

https://juser.fz-juelich.de/record/188877/files/IAS-Band-28-V2.pdf

Created: 18th Sep 2015 at 13:48


 

Xls One-Meal and three-meal glucose timecourse [Stanhope2008]


Uploader: Matthias König

Contributor: Matthias König

Other contributors: Not specified

Version: 1

Projects: A: Cellular level

Scales: Not specified

Experimental data digitized from publication figure.

Twenty-four-hour endocrine and metabolic profiles following consumption of high-fructose corn syrup-, sucrose-, fructose-, and glucose-sweetened beverages with meals.
Stanhope KL, Griffen SC, Bair BR, Swarbrick MM, Keim NL, Havel PJ.
Am J Clin Nutr. 2008 May;87(5):1194-203.
PMID: 18469239
http://www.ncbi.nlm.nih.gov/pubmed/18469239

Created: 30th Jun 2015 at 07:18


 

Genericblue Semantic EvidencE (SEE)


Uploader: Iryna Ilkavets

Contributor: Christian Bölling, Hermann-Georg Holzhütter, Michael Weidlich

Other contributors: Not specified

Version: 1

Projects: F2: The Liver Knowledge Base (LKB)

Scales: Not specified

SEE: structured representation of scientific evidence in the biomedical domain using Semantic Web techniques. Link to the project is given.

Created: 19th Jun 2015 at 10:19


 

Genericblue PsicquicGraph


Uploader: Iryna Ilkavets

Contributor: Bianca Habermann, Jose Villaveces

Other contributors: Not specified

Scales: Cell

PsicquicGraph, a BioJS component to visualize molecular inteactions from PSICQUIC servers. PsicquicGraph is freely available at the BioJS Registry for download and enhancement. Instructions on how to use the tool are available here http://goo.gl/kDaIgZ and the source code can be found at http://github.com/biojs/biojs and DOI:10.5281/zenodo.7709

Created: 19th Jun 2015 at 09:46


 

Genericblue KEGGViewer


Uploader: Iryna Ilkavets

Contributor: Bianca Habermann, Jose Villaveces

Other contributors: Not specified

Scales: Cell

KEGGViewer is an open-source tool freely available at the BioJS Registry. Renders a KEGGML file and displays a KEGG pathway.

Created: 19th Jun 2015 at 09:34


 

Zip Affymetrix microarray data of primary mouse hepatocytes, comparison of the two types of hepatocytes with high and low insulin affinity


Uploader: Clemens Kreutz

Contributor: Clemens Kreutz, María Matilde Bartolomé Rodríguez

Other contributors: Not specified

Scales: Cell

The data set was generated from four samples (mice). For each sample, three conditions were measured:
a) unsorted cells
b) sorted cells: low insulin binding type
c) sorted cells: high insuin binding type
Altogether, 4x3 =12 experimental data sets were investigated.

Gene expression profiling was performed using an AffymetrixGeneChip mouse gene 2.0 ST Array (Affymetrix Europe, Wooburn Green, UK).
The probe sequences can be downloaded from the Affymetrix website.
The following files contain probe
...

Created: 27th Mar 2014 at 09:06   Last updated: 26th Jan 2015 at 18:08


 

Html LigDig webserver


Uploader: Jonathan Fuller

Contributor: Jonathan Fuller, Michael Martinez, Rebecca Wade

Other contributors: Not specified

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


 

Pdf COMBINE & ERASysAPP Tutorial 'Modelling and Simulation of Biological Models'


Uploader: Martin Golebiewski

Contributor: Martin Golebiewski

Other contributors: Not specified

Version: 1

Projects: F: Data management, Virtual Liver

Scales: Not specified

Tutorial workshop outline

Created: 13th Aug 2014 at 13:25



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