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Cell growth underlies many key cellular and developmental processes, yet a limited number of studies have been carried out on cell-growth regulation. Comprehensive studies at the transcriptional, proteomic and metabolic levels under defined controlled conditions are currently lacking.
This investigation shows public data taken from the BioInvestigation Index. (http://www.ebi.ac.uk/bioinvindex/study.seam?studyId=BII-S-1) Organism: Saccharomyces Cerevisiae
SEEK ID: https://demo.fairdomhub.org/investigations/2
Projects: SysMO DB
Investigation position:
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Created: 16th Oct 2009 at 13:08
Last updated: 29th Nov 2011 at 16:32
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Expertise: Biochemistry, Bioinformatics, Data Management
Tools: Data Management, Transcriptomics, Databases, Workflows, Web services, Taverna, Ontologies
I am a Research Fellow at the University of Manchester, working in Bioinformatics and Computer Science. I am also a guest researcher at the Vrije Universiteit.My research interests include scientific workflows, semantic discovery, and applying ontology technologies to biological data
SysMO is a European transnational funding and research initiative on "Systems Biology of Microorganisms".
The goal pursued by SysMO is 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
Web page: http://sysmo.net/
The main objectives of SysMO-DB are to: facilitate the web-based exchange of data between research groups within- and inter- consortia, and to provide an integrated platform for the dissemination of the results of the SysMO projects to the scientific community. We aim to devise a progressive and scalable solution to the data management needs of the SysMO initiative, that:
- facilitates and maximises the potential for data exchange between SysMO research groups;
- maximises the ‘shelf life’ and ...
Programme: SysMO
Public web page: http://www.sysmo-db.org/
Organisms: Saccharomyces cerevisiae, Lactic Acid Bacteria
Comprehensive high-throughput analyses at the levels of mRNAs, proteins, and metabolites, and studies on gene expression patterns are required for systems biology studies of cell growth [4,26-29]. Although such comprehensive data sets are lacking, many studies have pointed to a central role for the target-of-rapamycin (TOR) signal transduction pathway in growth control. TOR is a serine/threonine kinase that has been conserved from yeasts to mammals; it integrates signals from nutrients or growth ...
Submitter: Katy Wolstencroft
Investigation: Growth control of the eukaryote cell: a systems...
Snapshots: No snapshots
This study examines whether the in vivo behavior of yeast glycolysis can be understood in terms of the in vitro kinetic properties of the constituent enzymes.
Submitter: Katy Wolstencroft
Investigation: Growth control of the eukaryote cell: a systems...
Snapshots: No snapshots
Assay to measure gene expression of Saccharomyces cerevisiae (yeast) under different nutrient limitations
Limiting Nutrients: ethanol, nitrogen, glucose, phosphorus, carbon, sulfur, sulphur
This data is public data taken from the BioInvestigation Index.
(http://www.ebi.ac.uk/bioinvindex/study.seam?studyId=BII-S-1)
Submitter: Katy Wolstencroft
Assay type: Transcriptional Profiling
Technology type: Microarray
Investigation: Growth control of the eukaryote cell: a systems...
Study: 1 hidden item
Organisms: Saccharomyces cerevisiae
SOPs: 1 hidden item
Data files: a_transcriptome from BII-S-1
Snapshots: No snapshots
Assay to measure metabolites of yeast saccharomyces cerevisiae under different nutrient limitations
Limiting Nutrients: ethanol, nitrogen, glucose, phosphorus, carbon, sulfur, sulphur
This data is public data taken from the BioInvestigation Index. (http://www.ebi.ac.uk/bioinvindex/study.seam?studyId=BII-S-1)
Submitter: Katy Wolstencroft
Assay type: Metabolite Profiling
Technology type: Mass Spectrometry
Investigation: Growth control of the eukaryote cell: a systems...
Study: 1 hidden item
Organisms: Saccharomyces cerevisiae
SOPs: No SOPs
Data files: a_metabolome_BII-S-1
Snapshots: No snapshots
Assay to measure protein expression in yeast saccharomyces cerevisiae under different nutrient limitations
Limiting Nutrients: ethanol, nitrogen, glucose, phosphorus, carbon, sulfur, sulphur
This data is public data taken from the BioInvestigation Index. (http://www.ebi.ac.uk/bioinvindex/study.seam?studyId=BII-S-1)
Submitter: Katy Wolstencroft
Assay type: Protein Expression Profiling
Technology type: Mass Spectrometry
Investigation: Growth control of the eukaryote cell: a systems...
Study: 1 hidden item
Organisms: Saccharomyces cerevisiae
SOPs: No SOPs
Data files: a_proteome from BII-S-1
Snapshots: No snapshots
Assay for transcriptional profiling time course in yeast treated with rapamycin
This is public data from the BioInvestigation Index (http://www.ebi.ac.uk/bioinvindex/study.seam?studyId=BII-S-2)
Submitter: Katy Wolstencroft
Assay type: Transcriptional Profiling
Technology type: Microarray
Investigation: Growth control of the eukaryote cell: a systems...
Organisms: Saccharomyces cerevisiae
SOPs: Nutrient_limited_stationary
Data files: a_microarray from BII-S-2
Snapshots: No snapshots
Glycolysis in Saccharomyces cerevisiae
Submitter: Guest
Biological problem addressed: Metabolism
Investigation: Growth control of the eukaryote cell: a systems...
Organisms: Saccharomyces cerevisiae
Models: Teusink and 1 hidden item
SOPs: No SOPs
Data files: No Data files
Snapshots: No snapshots
Results of transcriptional profile in Saccharomyces cerevisiae after rapamycin treatment
Creator: Katy Wolstencroft
Submitter: Katy Wolstencroft
Investigations: Growth control of the eukaryote cell: a systems...
Results of proteomics profile in Saccharomyces cerevisiae under different experimental conditions
Creator: Katy Wolstencroft
Submitter: Katy Wolstencroft
Investigations: Growth control of the eukaryote cell: a systems...
Studies: 1 hidden item
Assays: Changes in flux on the proteome
results of metabolic profiling of Saccharomyces cerevisiae in different conditions
Creator: Katy Wolstencroft
Submitter: Katy Wolstencroft
Investigations: Growth control of the eukaryote cell: a systems...
Studies: 1 hidden item
Results of transcriptional profile in saccharomyces cerevisiae under different experimental conditions
Creator: Katy Wolstencroft
Submitter: Katy Wolstencroft
Investigations: Growth control of the eukaryote cell: a systems... and 1 hidden item
Studies: 2 hidden items
Assays: Changes in flux on the transcriptome and 1 hidden item
This model is for a paper that examines whether the in vivo behavior of yeast glycolysis can be understood in terms of the in vitro kinetic properties of the constituent enzymes. In non-growing, anaerobic, compressed Saccharomyces cerevisiae the values of the kinetic parameters of most glycolytic enzymes were determined. For the other enzymes appropriate literature values were collected. By inserting these values into a kinetic model for glycolysis, fluxes and metabolites were calculated. Under ...
Creator: Stuart Owen
Submitter: Stuart Owen
Model type: Not specified
Model format: SBML
Environment: Not specified
Organism: Saccharomyces cerevisiae
Investigations: Growth control of the eukaryote cell: a systems...
A stationary-phase culture (10ml) was used to inoculate the fermenter vessel.
Taken from ArrayExpress: http://www.ebi.ac.uk/microarray-as/ae/browse.html?keywords=E-MEXP-115
Creator: Katy Wolstencroft
Submitter: Katy Wolstencroft
Investigations: Growth control of the eukaryote cell: a systems...
Abstract (Expand)
Authors: Firstname Lastname, J Passarge, C A Reijenga, E Esgalhado, C C van der Weijden, M Schepper, M C Walsh, B M Bakker, K van Dam, H V Westerhoff, Firstname Lastname
Date Published: 22nd Aug 2000
Publication Type: Not specified
PubMed ID: 10951190
Citation: