Modelling of the Signaling network regulating the ENA1-gene transcription
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To model the ENA1 transcriptional regulation a model has to be established. First this will be just a graphical representation, it shall then be extended to a boolean model and shall at one point be converted to a kinetic model.
SEEK ID: https://fairdomhub.org/studies/6
ENA1 Transcription in Saccharomyces cerevisiae
Projects: TRANSLUCENT
Study position:
Experimentalists: Falko Krause
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Created: 28th Aug 2009 at 09:28
Last updated: 22nd Nov 2011 at 19:12
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Projects: TRANSLUCENT
Institutions: Humboldt-Universität zu Berlin
I created this for all SysMo Modellers
http://www.semanticsbml.org/aym Annotate Your Model
There you can annotate your non SBML models with biological terms (MIRIAM annotations). As a cool extra you can view you model source code with inserted biological infomation.
Together with this http://www.semanticsbml.org/semanticSBML you can serach for similar BioModels. The similarity search is based on MIRIAM annotations that are attached to you model. AYM also allows you to create annotations without ...
SysMO is a European transnational funding and research initiative on "Systems Biology of Microorganisms".
The goal pursued by SysMO was to record and describe the dynamic molecular processes going on in unicellular microorganisms in a comprehensive way and to present these processes in the form of computerized mathematical models.
Systems biology will raise biomedical and biotechnological research to a new quality level and contribute markedly to progress in understanding. Pooling European research ...
Projects: BaCell-SysMO, COSMIC, SUMO, KOSMOBAC, SysMO-LAB, PSYSMO, SCaRAB, MOSES, TRANSLUCENT, STREAM, SulfoSys, SysMO DB, SysMO Funders, SilicoTryp, Noisy-Strep
Web page: http://sysmo.net/
Gene interaction networks and models of cation homeostasis in Saccharomyces cerevisiae
Programme: SysMO
Public web page: http://www.translucent-network.org/
Investigation of how the ENA1 gene is transcriptionally regulated.
The main input is the ENA review paper (Function and Regulation of the Saccharomyces cerevisiae ENA Sodium ATPase System, Ruiz&Ariño 2007) and the papers referenced. Another source are the papers linked from the ENA page of SGD http://www.yeastgenome.org/cgi-bin/locus.fpl?locus=ENA1
Submitter: Falko Krause
Biological problem addressed: Gene Expression
Investigation: ENA1 Transcription in Saccharomyces cerevisiae
A boolean network was created using booleannet (after experimenting with Squad and CellNetAnalyzer). This network can be simulated and visualized using additional software components that will be part of the pyMantis CMS that is developed by the Translucent project.
Submitter: Falko Krause
Biological problem addressed: Gene Regulatory Network
Investigation: ENA1 Transcription in Saccharomyces cerevisiae
A interaction network analysis tool (currently based on the BioGrid - PSICQUIC web services) was created that helps to discover interactions of Yeast proteins. The tool will at some point be freely available on the www as part of the pyMantis CMS created within the Translucent project.
Submitter: Falko Krause
Biological problem addressed: Model Analysis Type
Investigation: ENA1 Transcription in Saccharomyces cerevisiae
