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SEEK ID: https://research-sharing.cesgo.org/people/77
Location:
FR
Disciplines: Not specified
Expertise: Not specified
Tools: Not specified
ORCID: Not specified
Related items
L'objectif de ce projet est d'explorer le concept ISA. L'investigation "Demonstration ISA" est simplement cela : la création d'une structure minimale ISA.
D'autre part je (Paulette) me suis aussi amusée à explorer les fonctionalités SEEK/ISA en copiant une partie du contenu de https://demo.fairdomhub.org/investigations/2, voir https://research-sharing.cesgo.org/investigations/58.
From https://fairdomhub.org/projects/75 :
The SEEK is a web interface to a database of research "assets" organised in
...
Public web page: https://www.france-bioinformatique.fr
Organisms: Not specified
Comme son nom l'indique, nous allons simplement créer une simple structure/ arbre ISA.
Snapshots: No snapshots
Studies: Example Study
Assays: Example Experimental Assay, Example Modelling Analysis
Cell growth underlies many key cellular and developmental processes, yet a limited number of studies have been carried...
SEEK ID: https://demo.fairdomhub.org/investigations/2
Snapshots: No snapshots
From https://fairdomhub.org/studies/244?graph_view=tree
A Study corresponds to an experiment whose design reflects a specific biological research question.
It is part of an Investigation into a particular process, phenomenon or thing.
A Study will have Assays that are "measurement experiments", a standardized measurement or diagnostic experiment using a specific protocol, applied to material from a Study.
Person responsible: Paulette Lieby
Snapshots: No snapshots
Investigation: Demonstration ISA
Assays: Example Experimental Assay, Example Modelling Analysis
Person responsible: Paulette Lieby
Snapshots: No snapshots
Investigation: Growth control of the eukaryote cell: a systems...
Assays: No Assays
Person responsible: Paulette Lieby
Snapshots: No snapshots
Investigation: Growth control of the eukaryote cell: a systems...
from https://fairdomhub.org/assays/521?graph_view=tree
An Experimental Assay is a standardized measurement or diagnostic experiment using a specific protocol, applied to material from a study.
Examples include RNA sequencing, proteomics, metabolomics, and many others.
There are many Experimental Assay Types to choose from, as well as many Technology Type. Moreover, one can create new types in both cases.
Finally, note that one may also associate this assay with one or more organisms, add samples,
...
Contributor: Paulette Lieby
Assay type: Experimental Assay Type
Technology type: Technology Type
Snapshots: No snapshots
Investigation: Demonstration ISA
Study: Example Study
Organisms: No organisms
SOPs: E-coli extraction protocol
Data files: No Data files
An excellent example can be found https://demo.fairdomhub.org/assays/7?graph_view=tree which shows how a Model can be added to this analysis, together with a model that can be simulated on the fly on https://fair-dom.org/jws-online/.
I actually copy this here and one can run the model from there.
Contributor: Paulette Lieby
Biological problem addressed: Model Analysis Type
Snapshots: No snapshots
Investigation: Demonstration ISA
Study: Example Study
Organisms: No organisms
Models: Teusink
SOPs: No SOPs
Data files: No Data files
Contributor: Paulette Lieby
Assay type: Experimental Assay Type
Technology type: Technology Type
Snapshots: No snapshots
Investigation: Growth control of the eukaryote cell: a systems...
Study: A time course analysis of transcription respons...
Organisms: No organisms
SOPs: No SOPs
Data files: assay metabolome
Creators: None
Contributor: Paulette Lieby
Investigations: Growth control of the eukaryote cell: a systems...
Creator: Paulette Lieby
Contributor: Paulette Lieby
Model type: Not specified
Model format: SBML
Environment: Not specified
Organism: Not specified
Investigations: Demonstration ISA
Studies: Example Study
Modelling analyses: Example Modelling Analysis