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SureDesign allows you to create a custom design for OneSeq target enrichment captures using a design wizard that takes you through the steps of the creation process. Custom OneSeq designs consist of a backbone design and a user-selected spike-in SureSelect design. The wizard will ask you to define the design, select the spike-in design, and then finalize the design. You do not need to submit a probe selection job and wait for SureDesign to select probes for the design. Once you finalize the design, it is available for ordering.
To open the OneSeq design wizard:
· At the top of the screen, click Create Designs > OneSeq.
The wizard window opens to Step 1.
In this step, complete the fields described below to define the design.
Design Name
Type a name for your design into the field. Alphanumeric characters, hyphens, underscores, and spaces are permitted. The name must be unique within your workgroup.
Species
The species is set to H. sapiens and cannot be changed.
Build
If multiple genome builds are available, select the desired genome build in the provided drop-down list.
If no drop-down list for build selection is provided, that indicates that only one genome build is currently available for the H. sapiens species. That build is indicated below the Species field.
Specify the folder in which you want to save this design. The default selection is the top-level folder for your workgroup.
To change the selection, click Select to open the Select Folder dialog box, and mark the folder in which you want to save the new design. This dialog box lists the available folders within your workgroup and, if you are a member of any collaborations, lists the collaboration folders to which you have access. (If you later decide you want to change the folder location of the design, you can move it to another folder.)
Description
(Optional) Type a description of the design. The description can be up to 2000 characters. Use only alphanumeric characters (a-z, A-Z, and 0-9) and the following special characters: _, -, $, #, @.
Keywords
(Optional) Type one or more keywords for the design, separated with a comma or space. You can type up to 2000 characters in this field. Use only alphanumeric characters (a-z, A-Z, and 0-9), commas, dashes, and underscores in your keywords. You can later use these keywords to search for the design.
Click Next to advance to Step 2.
In this step, select which SureSelect design you want to use as the spike-in design. The options are limited to SureSelect designs in your workgroup that target human DNA and have a status of Complete.
Catalog Design
Select the design that you want to use as the backbone design. The drop-down list has the options OneSeq 1Mb CNV Backbone and OneSeq CNV Backbone.
· The OneSeq 1Mb CNV Backbone has a genome wide resolution of 1 Mb and a resolution of 10 Mb for cnLOH intervals.
· The OneSeq CNV Backbone has a genome-wide resolution of 300 kb with a higher resolution of 25-50 kb in disease-associated ClinGen regions. For cnLOH intervals, the resolution is 5 Mb.
Workspace
Select a workspace from which to select the spike-in designs.
· If you selected OneSeq CNV Backbone as the Catalog Design, then the only option available is My Workspace, which contains designs from your own account.
· If you selected OneSeq 1Mb CNV Backbone as the Catalog Design, then you can select between My Workspace and Agilent Catalog.
Your selection in the Workspace drop-down determines which designs are displayed in the Spike-in Design table.
Spike-in Design table
The table lists the SureSelect designs that are available for selection as a spike-in design. Use the check boxes to select up to four of the designs in the table.
Click Next to advance to Step 3.
In this step, click Finalize Design to finish the design creation process.
After clicking Finalize Design, the wizard window updates to the Design Complete step, and provides the following information:
Name |
The name of the design. |
Design ID |
The unique, Agilent-assigned design ID. |
Species |
The species of the targets. The genome build is indicated in parentheses. |
Category |
Reads OneSeq. |
# Probes |
The total number of probes in the design, including replicated probes. |
Probes Size |
The total size of the genomic footprint of all the probes in the design, which is an approximation of the size of the sequenceable region. |
Use the action buttons at the bottom of the Finalize Design window to take
further action on the design:
· Click Order to open the Order dialog box, where you can add the design to your Agilent Genomics shopping cart or submit a request to receive a price quote.
· Click Mark as Favorite to add the design to your list of favorites. The design will appear in the Designs: Recent and Favorites dashboard on the Home screen.
· Click Download to download one or more design files, including a formatted PDF report that summarizes key information on the design, probes, targets, and the probe selection job.
These action buttons are also available from the design details window.