Comme son nom l'indique, nous allons simplement créer une simple structure/ arbre ISA.
SEEK ID: https://research-sharing.cesgo.org/investigations/59
Projects: Test_IFB
Investigation position:
Export PNG
Views: 1439
Created: 18th Sep 2020 at 10:55
Related items
Projects: Test_IFB
Institutions: Institut Français de Bioinformatique
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
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.
Submitter: Paulette Lieby
Investigation: Demonstration ISA
Assays: Example Experimental Assay, Example Modelling Analysis
Snapshots: No snapshots
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, ...
Submitter: Paulette Lieby
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: Demonstration ISA
Study: Example Study
Organisms: No organisms
SOPs: E-coli extraction protocol
Data files: No Data files
Snapshots: No snapshots
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.
Submitter: Paulette Lieby
Biological problem addressed: Model Analysis Type
Investigation: Demonstration ISA
Study: Example Study
Organisms: No organisms
Models: Teusink
SOPs: No SOPs
Data files: No Data files
Snapshots: No snapshots
Creator: Paulette Lieby
Submitter: Paulette Lieby
Model type: Not specified
Model format: SBML
Environment: Not specified
Organism: Not specified
Investigations: Demonstration ISA
Studies: Example Study
Assays: Example Modelling Analysis
SOP for labelled E-coli extraction protocol
Creator: Cyril Monjeaud
Submitter: Cyril Monjeaud
Investigations: Demonstration ISA, Detection Of QTL and functional genomics study ... and 1 hidden item
Studies: Detection Of QTL and eQTL with effects on osmor..., Example Study and 1 hidden item
Assays: Example Experimental Assay, Transcription profiling and 1 hidden item