How can I back up my data in Pathway Studio 7?
Mammalian ResNet database
Option1 (recommended)
Backing up pathways and groups that you created in Pathway Studio is the easiest option and is recommended...
How can I change the font size for the entities on a pathway?
By default the font size for the entities on a pathway is set in order that the text fit the smallest entity. To change the font size for the all the...
How can I change the style of an entity on a pathway?
Font, shape and color of an entity can be modified.1. Select your entity.
2. Click on the button ‘style’ located in the main visualization toolbar from...
How can I combine canonical pathways to build a model pathway for my research of interest?
Pathway Studio includes canonical metabolic and signaling pathways that have been curated by our scientists. You can edit, expand, and modify these...
How can I customize metabolic pathways (to look similar to Ariadne metabolic pathways)?
You can customize the layout of these pathways (Figure 1 - Ariadne Metabolic Pathway Example) you have built by performing the following steps:
Step 1 –...
How can I export a list of entities that I have selected in a pathway?
There is two options to export selected entities from a pathway:
Export a selection to Excel from the Entity Table View
1. Select the desired entities in...
How can I import and view a Relation list or an Entity list identified in a MedScan Reader search in Pathway Studio?
When you send information (list of relations or list of entities) from the MedScan Reader search results into Pathway Studio, the information is automatically...
How can I migrate Pathway Studio to another PC?
The migration procedure is comprised of two major stages – transferring the user data and transferring the license.
1. Migrating...
How can I optimize settings to display large pathways in Pathway Studio?
A network is displayed more rapidly as a table view than as a graphical view in Pathway Studio. You can change the threshold on number of entities to allow...
How can I permanently delete a relation or an entity from the remote ResNet database of a Pathway Studio Enterprise installation?
A user with the ‘Editor’ role can permanently delete an object in either the private or the public space. Below are steps to follow:
1. Log as a user with...
How can I permanently delete a relation or an entity from the ResNet database of a Pathway Studio Desktop installation?
When you delete a relation or entity from a pathway view, it is only removed from that specific pathway but still remains in the ResNet database.
To...
How can I remove proteins from a functional class located in the public space of a remote ResNet database in Pathway Studio Enterprise?
You can remove a protein from a functional class located in the public space using an account with ‘Editor’ role and via the webclient (This functionality...
How can I see the connectivity of an entity in ResNet or in a specific pathway?
There are many places in the interface where you can see information about the connectivity of an entity including:
1. Right click on an entity in a...
How can I see the members of a functional class?
Double-click on the functional class entity to open the Properties dialog.
Select the Members tab to see the list of proteins mapped to the functional...
How can I see the number of genes/proteins being selected for pathway building starting from the list in the experiment pane?
When the genes are selected in the experiment pane, the total number of selected items is displayed in the lower left of the Pathway Studio window.
How can I select/highlight the members of a group on a displayed pathway?
Pathway Studio 6 allows for the selection of entities that belong to a group (such as a ontology group or a user defined group) on a displayed pathway...
How can I set the same size for entities on a pathway?
1. Select all the entities you want to resize on your pathway.- All selected entities will have a blue halo around them.- One of these entities is...
How can I set the same style for multiple entities on a pathway?
1. First set the style for only one of your entities of interest.- Select one entity
- Click on the button ‘style’ located in the main visualization toolbar...
How confident am I in the accuracy of a relationship?
Usually the number of references which are associated with this relationship gives an indication of the accuracy of the relationship.
As a rough guide,...
How do I change the color or image for an entity?
To change the color or image for an entity, first right-click on the entity in the pathway view. You will see a short menu of color and shape...
