SEEK ID: https://testing.sysmo-db.org/people/330
Location: Germany
ORCID: Not specified
Joined: 25th Aug 2011
Expertise: Bioinformatics
Tools: Ruby on Rails
Related items
- Programmes (2)
- Projects (4)
- Institutions (3)
- Investigations (1+1)
- Studies (3+4)
- Assays (7+1)
- Strains (3)
- Data files (25+7)
- Models (21+4)
- SOPs (9+5)
- Publications (13)
- Presentations (11+6)
- Events (1)
- Samples (4)
Projects: SUMO spawn, quyen project, maggy's project
Web page: Not specified
Comparative Systems Biology: Lactic Acid Bacteria
Programme: This Project is not associated with a Programme
Public web page: http://www.sysmo.net/index.php?index=57
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:
- maximises the ‘shelf life’ and utility of data generated by SysMO;
- provides an integrated platform for the dissemination ...
Programme: Dummy programme
Public web page: http://www.sysmo-db.org/
Organisms: Lactic Acid Bacteria, Agapornis
Programme: A programm again
Public web page: Not specified
Organisms: Callimico goeldii
Snapshots: Snapshot 1
Snapshots: No snapshots
ttt
Snapshots: No snapshots
Submitter: Quyen Yamanaka
Investigation: Growth control of the eukaryote cell: a systems...
Assays: test for biol problem
Snapshots: No snapshots
Submitter: Quyen Yamanaka
Biological problem addressed: Model Analysis Type
Investigation: Glycolitic Flux in Lactococcus lactis
Study: 1 hidden item
Organisms: No organisms
Models: A consensus yeast metabolic network reconstruct..., Lin3, showing attribution, tset model
SOPs: a test file
Data files: link to google doc, test speed, test speed 2
Snapshots: No snapshots
Submitter: Quyen Yamanaka
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: Glycerol Synthesis in Saccharomyces cerevisiae
Study: 1 hidden item
Organisms: Bacillus subtilis : NCIB3610 (wild-type / wild-type)
SOPs: No SOPs
Data files: Lactis 6, Treatments Test 1
Snapshots: No snapshots
Submitter: Quyen Yamanaka
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: Growth control of the eukaryote cell: a systems...
Study: 1 hidden item
Organisms: Lactic Acid Bacteria : lactic test (wild-type / wild-type)
SOPs: No SOPs
Data files: Lactis 6, Quyen data, smashies
Snapshots: No snapshots
Submitter: Quyen Yamanaka
Assay type: Flux Balance Analysis
Technology type: 2-hybrid System
Investigation: test investigation
Study: 1 hidden item
Organisms: Bacillus subtilis, Clostridium acetobutylicum : ATCC824 (wild-type / wild-type), Bacillus subtilis : 168a (del ase / wild-type)
SOPs: No SOPs
Data files: No Data files
Snapshots: No snapshots
Submitter: Quyen Yamanaka
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: 1 hidden item
Study: 1 hidden item
Organisms: No organisms
SOPs: pdf inline view
Data files: Testing adding by URL
Snapshots: No snapshots
Submitter: Quyen Yamanaka
Assay type: another suggested
Technology type: Technology Type
Investigation: 1 hidden item
Study: 1 hidden item
Organisms: No organisms
SOPs: 1 hidden item
Data files: No Data files
Snapshots: No snapshots
Submitter: Quyen Yamanaka
Biological problem addressed: Metabolism
Investigation: Methods for interrelating 'omics data
Study: Metabolomics data capture
Organisms: Bacillus subtilis, Clostridium acetobutylicum, Bacillus subtilis : 168b (del ase / dasfadsf)
Models: Kinetic model for incubation
SOPs: Quyen's sop, Validation experiments, ^K blabla
Data files: 5mM GLC runout data., Quyen data
Snapshots: No snapshots
Submitter: Quyen Yamanaka
Provider Name: Not specified
Provider's strain ID: Not specified
Organism: Bacillus subtilis
Genotypes: wild-type
Phenotypes: wild-type
Comment: Not specified
Submitter: Quyen Yamanaka
Provider Name: Not specified
Provider's strain ID: Not specified
Organism: Callimico goeldii
Genotypes: wild-type
Phenotypes: wild-type
Comment: Not specified
Submitter: Quyen Yamanaka
Provider Name: Not specified
Provider's strain ID: Not specified
Organism: Callimico goeldii
Genotypes: wild-type
Phenotypes: wild-type
Comment: Not specified
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
changes
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
Investigations: Growth control of the eukaryote cell: a systems..., Methods for interrelating 'omics data
Studies: Metabolomics data capture and 1 hidden item
Assays: GLC incubation, test assay
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Investigations: An example Investigation with Scale
Studies: a test study
Assays: testing assay and techno types
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
Creators: Quyen Yamanaka, Carole Goble
Submitter: Quyen Yamanaka
Investigations: Growth control of the eukaryote cell: a systems...
Studies: 1 hidden item
Assays: Transcriptional profiling
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Investigations: Growth control of the eukaryote cell: a systems...
Studies: 1 hidden item
Assays: Transcriptional profiling
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
test for publishing
Creators: Olga Krebs, Quyen Yamanaka
Submitter: Olga Krebs
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
Creators: Quyen Yamanaka, testcreator
Submitter: Quyen Yamanaka
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Model type: Not specified
Model format: Not specified
Environment: Not specified
Organism: Not specified
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Model type: Not specified
Model format: Not specified
Environment: Not specified
Organism: Not specified
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Model type: Not specified
Model format: Not specified
Environment: Not specified
Organism: Not specified
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Model type: Not specified
Model format: SBML
Environment: Not specified
Organism: Not specified
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Model type: Partial differential equations (PDE)
Model format: SBML
Environment: JWS Online
Organism: Not specified
Investigations: Glycolitic Flux in Lactococcus lactis
Studies: 1 hidden item
Assays: example assay
Creator: Quyen Yamanaka
Submitter: Abeer Cherry
Model type: Not specified
Model format: Not specified
Environment: Not specified
Organism: Not specified
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Model type: Not specified
Model format: Not specified
Environment: Not specified
Organism: Not specified
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
Genomic data allow the large-scale manual or semi-automated assembly of metabolic network reconstructions, which provide highly curated organism-specific knowledge bases. Although several genome-scale network reconstructions describe Saccharomyces cerevisiae metabolism, they differ in scope and content, and use different terminologies to describe the same chemical entities. This makes comparisons between them difficult and underscores the desirability of a consolidated metabolic network that ...
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Model type: Not specified
Model format: SBML
Environment: Not specified
Organism: Not specified
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Model type: Not specified
Model format: Not specified
Environment: Not specified
Organism: Not specified
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
Genomic data allow the large-scale manual or semi-automated assembly of metabolic network reconstructions, which provide highly curated organism-specific knowledge bases. Although several genome-scale network reconstructions describe Saccharomyces cerevisiae metabolism, they differ in scope and content, and use different terminologies to describe the same chemical entities. This makes comparisons between them difficult and underscores the desirability of a consolidated metabolic network that ...
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Model type: Not specified
Model format: Not specified
Environment: Not specified
Organism: Not specified
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
Genomic data allow the large-scale manual or semi-automated assembly of metabolic network reconstructions, which provide highly curated organism-specific knowledge bases. Although several genome-scale network reconstructions describe Saccharomyces cerevisiae metabolism, they differ in scope and content, and use different terminologies to describe the same chemical entities. This makes comparisons between them difficult and underscores the desirability of a consolidated metabolic network that ...
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Model type: Not specified
Model format: SBML
Environment: Not specified
Organism: Not specified
Investigations: Glycolitic Flux in Lactococcus lactis
Studies: 1 hidden item
Assays: example assay
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Model type: Not specified
Model format: SBML
Environment: Not specified
Organism: Not specified
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Model type: Not specified
Model format: Not specified
Environment: Not specified
Organism: Not specified
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Model type: Not specified
Model format: Not specified
Environment: Not specified
Organism: Not specified
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
The recognition of carbon sources and the regulatory adjustments to recognized changes are of particular importance for bacterial survival in fluctuating environments. Despite a thorough knowledge base of Escherichia coli's central metabolism and its regulation, fundamental aspects of the employed sensing and regulatory adjustment mechanisms remain unclear. In this paper, using a differential equation model that couples enzymatic and transcriptional regulation of E. coli's central metabolism, we ...
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Model type: Not specified
Model format: SBML
Environment: Not specified
Organism: Not specified
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
Genomic data allow the large-scale manual or semi-automated assembly of metabolic network reconstructions, which provide highly curated organism-specific knowledge bases. Although several genome-scale network reconstructions describe Saccharomyces cerevisiae metabolism, they differ in scope and content, and use different terminologies to describe the same chemical entities. This makes comparisons between them difficult and underscores the desirability of a consolidated metabolic network that ...
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Model type: Not specified
Model format: SBML
Environment: Not specified
Organism: Not specified
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Model type: Not specified
Model format: Not specified
Environment: Not specified
Organism: Not specified
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Model type: Not specified
Model format: SBML
Environment: Not specified
Organism: Not specified
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Model type: Not specified
Model format: Not specified
Environment: Not specified
Organism: Not specified
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
blabla1111111111
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Model type: Not specified
Model format: Not specified
Environment: Not specified
Organism: Not specified
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
adsfa
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Investigations: Glycolitic Flux in Lactococcus lactis, I1
Studies: Study and 1 hidden item
Assays: Assay 1, example assay
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Investigations: No Investigations
Studies: No Studies
Assays: No Assays
edited to test subscription emails
Creators: None
Submitter: Quyen Yamanaka
Investigations: An example Investigation with Scale, Methods for interrelating 'omics data
Studies: Metabolomics data capture, a test study
Assays: Assay with a SOP, GLC incubation, Modelling Assay with a SOP
Creator: Quyen Yamanaka
Submitter: Quyen Yamanaka
Abstract (Expand)
Author: Mark D. Wilkinson, Michel Dumontier, IJsbrand Jan Aalbersberg, Gabrielle Appleton, Myles Axton, Arie Baak, Niklas Blomberg, Jan-Willem Boiten, Luiz Bonino da Silva Santos, Philip E. Bourne, Jildau Bouwman, Anthony J. Brookes, Tim Clark, Mercè Crosas, Ingr Mons
Date Published: 15th Mar 2016
Publication Type: Not specified
Citation: Wilkinson MD, Dumontier M, Aalbersberg IjJ, et al. The FAIR Guiding Principles for scientific data management and stewardship. Scientific Data. 2016;3:160018. doi:10.1038/sdata.2016.18.
Abstract (Expand)
Authors: Emanuel Gonçalves, Joachim Bucher, Anke Ryll, Jens Niklas, Klaus Mauch, Steffen Klamt, Miguel Rocha, Julio Saez-Rodriguez
Date Published: 4th Jun 2013
Publication Type: Not specified
PubMed ID: 23525368
Citation:
Abstract (Expand)
Authors: Andreas Petzold, Kathrin Reichwald, Marco Groth, Stefan Taudien, Nils Hartmann, Steffen Priebe, Dmitry Shagin, Christoph Englert, Matthias Platzer
Date Published: 16th Mar 2013
Publication Type: Not specified
PubMed ID: 23496936
Citation:
Abstract (Expand)
Authors: Andreas Petzold, Kathrin Reichwald, Marco Groth, Stefan Taudien, Nils Hartmann, Steffen Priebe, Dmitry Shagin, Christoph Englert, Matthias Platzer
Date Published: 16th Mar 2013
Publication Type: Not specified
PubMed ID: 23496936
Citation:
Abstract (Expand)
Authors: J. C. Fuller, P. Khoueiry, H. Dinkel, K. Forslund, A. Stamatakis, J. Barry, A. Budd, T. G. Soldatos, K. Linssen, A. M. Rajput
Date Published: 15th Mar 2013
Publication Type: Not specified
PubMed ID: 23492829
Citation:
Abstract
Authors: Firstname Lastname, Firstname Lastname, Matthew Horridge, Simon Jupp, Firstname Lastname, Firstname Lastname, Firstname Lastname, Wolfgang Mueller, Robert Stevens, Firstname Lastname
Date Published: 1st Feb 2013
Publication Type: Not specified
DOI: 10.1002/cpe.2941
Citation:
Abstract
Authors: Katherine Wolstencroft, Stuart Owen, Matthew Horridge, Simon Jupp, Olga Krebs, Jacky Snoep, Franco du Preez, Wolfgang Mueller, Robert Stevens, Carole Goble
Date Published: 1st Feb 2013
Publication Type: Not specified
DOI: 10.1002/cpe.2941
Citation:
Abstract
Editor:
Date Published: 2013
Publication Type: Not specified
DOI: 10.1038/psp.2012.22
Citation:
Abstract
Authors: Katherine Wolstencroft, Stuart Owen, Olga Krebs, Wolfgang Mueller, Quyen Nguyen, Jacky L. Snoep, Carole Goble
Date Published: 2013
Publication Type: Not specified
DOI: 10.1007/978-3-642-41338-4_14
Citation: Lecture Notes in Computer Science 8219 : 212
Abstract (Expand)
Authors: A. Schroder, J. Wollnik, C. Wrzodek, A. Drager, M. Bonin, O. Burk, M. Thomas, W. E. Thasler, U. M. Zanger, A. Zell
Date Published: 14th Jul 2011
Publication Type: Not specified
PubMed ID: 21757465
Citation:
Abstract
Authors: A. Schroder, J. Wollnik, C. Wrzodek, A. Drager, M. Bonin, O. Burk, M. Thomas, W. E. Thasler, U. M. Zanger, A. Zell
Date Published: 14th Jul 2011
Publication Type: Not specified
DOI: 10.1093/bioinformatics/btr416
Citation:
Abstract
Authors: M. Carmen Herrera, Estrella Duque, José J. RodrÃguez-Herva, Ana M. Fernández-Escamilla, Juan L. Ramos
Date Published: 2010
Publication Type: Not specified
DOI: 10.1111/j.1462-2920.2009.02124.x
Citation:
Abstract (Expand)
Authors: Q Zhou, P Ruiz-Lozano, M E Martone, J Chen
Date Published: 3rd Jul 1999
Publication Type: Not specified
PubMed ID: 10391924
Citation:
David's presentation from PALs meeting in Heidelberg
Creators: Olga Krebs, David Jones, Quyen Yamanaka, Miss X
Submitter: Olga Krebs
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Start Date: 7th Sep 2011
End Date: 29th Sep 2011
Event Website: Not specified
Country: Bangladesh
City: Not specified