CellNetAnalyzer Model Repository
This page serves as a repository for CellNetAnalyzer models. In the two tables below, models of mass- and signal-flow networks are listed. If you have a model that should be included in this repository please prepare the information for the new table entry and contact us.
Download and installation instructions
You can download a zip-file containing the CellNetAnalyzer project by clicking on the model name. Unzip the file at an appropriate location, at best as a sub-directory of CellNetAnalyzer's main directory. After unzipping, load MATLAB and CellNetAnalyzer. You can register the model by clicking on 'New' in the project manager, inserting the name of the project and the name of the project directory and then clicking on 'Save'. You are then asked whether the file 'app_para.m' in the network directory should be overwritten. After clicking on 'No' the model is visible as last entry in the project manager. Note: sometimes (if the creator of the network used absolute path specifications) you need to adapt the path specifications given in 'app_para.m'.
Mass-flow (metabolic) networks
| Model | Authors | Description | References | Year |
| Escherichia coli | Joerg Stelling et al. | Escherichia coli central metabolism | PubMed | 2002 |
| Purple nonsulfur bacteria | Hädicke et al. | Purple nonsulfur bacteria - central metabolism | open access | 2011 |
| Escherichia coli (EColiCore2 - ECC2) | Hädicke O and Klamt S | Escherichia coli - central metabolism (derived from iJO1366) | open access | 2017 |
| Escherichia coli (EColiCore2comp) | Hädicke O and Klamt S | Escherichia coli - central metabolism compressed (derived from iJO1366) | open access | 2017 |
| Escherichia coli (ECGS) | Hädicke O and Klamt S | Escherichia coli - genome-scale model (iJO1366 with minimal changes) | open access | 2017 |
| Escherichia coli (iJO1366) | Orth et al. | Escherichia coli - iJO1366 genome-scale model (original iJO1366 model as CNA project with network maps) | open access | 2011 |
Signal-flow (signal transduction) networks
| Model | Authors | Description | References | Year |
| T-cell | Julio Saez-Rodriguez et al. | Large-scale logical model of primary T-cells | open access | 2007 |
| Glucose Repression | Tobias Sidelmann Christensen et al. | Logical model of yeast glucose repression | open access | 2009 |
| H. pylori and HGF | Raimo Franke et al. | Logical model of hepatocyte growth factor (HGF) and H. pylori induced c-Met signal transduction | open access | 2009 |
| EGFR/ErbB | Regina Samaga et al. | Large-scale logical model of EGFR/ErbB signaling in hepatocytes | open access | 2009 |
| Apoptosis | Rebekka Schlatter et al. | Logical model of apoptosis (based on data from mouse, rat and man) | open access | 2009 |
| IL-1 signaling | Ryll et al. | Logical model of IL-1 signaling | PubMed | 2011 |
| IL-6 signaling | Ryll et al. | Logical model of IL-6 signaling | PubMed | 2011 |
| G1/S cell cyle regulation | Huard et al. | Logical model of G1/S cell cyle regulation integrating diverse signaling pathways (validated for hepatocytes) | open access | 2012 |
| HGF interaction graph | D'Allessandro et al. | Interaction graph model of HGF signaling in hepatocytes including well-established and candidate mechanisms | (submitted) | 2014 |
