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Showing Category: ResNet Databases and Ontologies

How can I add proteins to a functional class?

You can add proteins to an existing functional class or a newly created functional class by doing the following:

1. Open a new pathway and add to the pathway...

11/24/2008 Category: ResNet Databases and Ontologies, Working with Pathways

How can I attribute a specific shape to all miRNA in the ResNet Explore database?

In ResNet Explore database, miRNA belongs to the protein entity category. By default, the miRNA shape is an ellipse, the generic protein shape in ResNet....

10/21/2009 Category: Working with Pathways, ResNet Databases and Ontologies

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,...

08/18/2008 Category: Working with Pathways, ResNet Databases and Ontologies

How do I export a pathway?

Select the file for export and select Export. A menu box appears with 3 export options.  The first two options export the file as a *.gpp file that can...

08/05/2008 Category: ResNet Databases and Ontologies, Working with Pathways

How do I find the intersection between two lists of groups?

Follow these steps to find the intersection between two lists of groups: 

1.  Open both list of groups in the list pane (ex. the results of a GSEA...

10/06/2008 Category: Working with Pathways, ResNet Databases and Ontologies

How do I import a list of proteins?

In the database pane, select Import.  From the drop-down menu select “Gene List”. The following dialog box appears (Figure 1). 

Identifies such...

08/05/2008 Category: ResNet Databases and Ontologies, Experimental Data Analysis

How often is the Gene Ontology updated?

Gene Ontology and Entrez Gene IDs are updated when major ResNet updates are released.  Currently that is approximately once a year.

06/25/2008 Category: ResNet Databases and Ontologies

What are the full text journals included in ResNet 7 Explore?

1.    Am J Respir Cell Mol Biol2.    Am J Transplantation3.    ATVB 4.    Biology of...

09/03/2008 Category: ResNet Databases and Ontologies

What is Ariadne Ontology?

Ariadne has prepared an organization of genes/miRNAs for use in interpretation of experimental data, simplification of pathway diagrams, and summarization of...

09/03/2008 Category: ResNet Databases and Ontologies

What is Gene Ontology?

Gene Ontology is a controlled vocabulary (ontology) that describe gene products in terms of their associated:

biological processes;cellular...

06/25/2008 Category: ResNet Databases and Ontologies

What is the source of the cellular processes in ResNet?

The cellular process categories and associated aliases come directly from the Gene Ontology without further annotation or curation by Ariadne.

06/15/2009 Category: Working with Pathways, ResNet Databases and Ontologies

Why do some proteins have three different Entrez Gene IDs?

ResNet contains information for human, mouse and rat proteins.  When an Entrez GeneID exists in each species for a protein, all three IDs will be listed...

08/05/2008 Category: ResNet Databases and Ontologies, Experimental Data Analysis