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Selecting a Pipeline from the main menu of the website will take you to a list of the Procedures (experiments) done in that Pipeline.
Figure 1: List of Procedures view in the IMPC Pipeline
If you look at the figure above it displays the following:
- The stage in which the Procedure should be carried out in.
The IMPC Pipeline procedures are performed in Empryonic (1a) stages like E12.5 (roughly 12 days post coitus), in the Adult stage (1c) from week 9 and ending by week 15 and in the Terminal stage at week 16. "(Adult) Unrestricted" (1b) is an exceptional condition for Procedures that are not limited to a particular week such as the Body Weight procedure where multiple weight readings are obtained throughout the life of the mouse to produce a weight curve.
In other Pipelines the week in which a Procedure is done is in a different stage. For example, Week 16 in the JAX Pipeline is done of living adult mice and it is only until Week 18 that they enter the Terminal stage. Additionally, there is also a Mixed stage which indicates that some of the Procedures done during a single week start off being done on live mice but end with Procedures for dead mice.
- Mandatory and optional Procedures
Some of the Procedures are required to be submitted when submitting IMPC data to the DCC and these are marked as Mandatory (2a). Where there is no mandatory tick (2b) it indicates the Procedure is optional. Centres must submit mandatory Procedures and have the option to submit optional procedures. We highly recommended submitting optional procedures if you are able to.
- The Procedure
Each Procedure has a name and a key. The Key includes the Pipeline stub (IMPC) to indicate which Pipeline it came from, a three letter acronym indicating the Type of Procedure it is – in this case ELZ will be used for all Embryo Lac-Z Procedures, and the 001 on the end is the version of the Procedure. Clicking on this link will take you to the Protocol for this Procedure describing how the Procedure should be carried out and what Parameters are measured.
- Click this link to view a quick list of the Parameters
This list of Parameters is displayed in the Protocol (3) so you may not need to click this link if you are already looking at the Protocol.
- Parameters ontology annotations
Parameters can have ontologies associated with them and clicking this link will take you to a page that displays all the ontologies for all the Parameters in the Procedure in one page. Only measured parameters can have ontologies associated with them and not all measured parameters have ontologies. Ontologies are used in high-throughput annotation after statistical analysis of the data.
- Change History
Clicking this link will show a detailed view of how the individual items related with the Procedure in that Pipeline have been modified. It shows what has been newly edited, created or deleted. It shows a history of how the Procedure developed or changed over time.