New ERGO Feature: Feature Lists
/“Feature Lists” are a list of genome features in ERGO. These could be coding sequences, genes, or other genomic features. Lists can contain features from any genome that is accessible to your account.
Creation
Feature Lists can be created in several places in ERGO:
Feature Dialogs
Feature Pages
Orthologs Table
Differential Gene Expression Experiments
Protein Properties Search
Directly by pasting data
For example, on an ortholog table for a feature, you can create a feature list of all the orthologs of a gene.
Viewing & Managing Feature Lists
You can view and manage your feature lists in your settings, which you can access by clicking the “gear” icon at the top right. Then scroll down to “Feature Lists”.
A list of Feature LIsts accessible through your settings
Using Feature Lists
Feature lists can be used several places in ERGO including:
Building phylogenetic trees
Exporting specific features.
Highlight in Volcano plots or other differential gene expression views
Expression Clustering
and more coming soon…
For example, we can use the feature list we created above, bacterial orthologs of Escherichia coli K-12 MG1655 gene gyrB to create a phylogenetic tree of those orthologs. We can do this by adding a new workflow to a project, by clicking “Create or Add Workflow”, then “Start New Workflow”, then selecting “Phylogentic Tree”.
In our workflow parameters, select “FROM” to be “feature_list”, then select our gyrB feature list. Then click “Save” and “Start Workflow”. After the workflow is completed you’ll be presented with an multiple sequence alignment and phylogenetic tree of all the gyrB orthologs.
