Bio-Rad PDQuest 2-D Analysis Software - Manual (Page 50)

8. When you have viewed the cuts, click on the "Begin/Resume" button. This will close the
new image window with the overlays, and will prompt for loading the microtiter plate. Click
"OK" when you are ready to resume the cut run.
9. The cut run will resume on the next spot to be cut using the original cut targets.
10. You can repeat the "Confirm cuts" operation as many times as you want during the cut
run.
The "confirm cuts" is an option in fluorescent gel cutting. Once you are familiar with targeting and
cutting fluorescent gels, you may or may not continue to use this function.
The Save option allows the gel image with spot numbers to be saved, as well as an excel format-
ted table listing the spot number, image coordinate location, and microtiter plate well number.
Click on the "close" icon to close the Basic Excision Tool screen. PDQuest remains open.
Operation in PDQuest Integrated Excision Tool
The Integrated Excision Tool is available when a licensed version of PDQuest is used to create
match sets, analysis sets, and to run the spot cutter. This workflow interface allows for using the
PDQuest analysis sets to target the ProteomeWorks Plus spot cutter. For a complete description
of the Integated Excision Tool in PDQuest software, see the PDQuest manual.
Section 6
Accessories
6.1 Use of Gel Sheets and Gel Positioning
The ProteomeWorks Plus Gel Sheets (reorder part number 165-7057) are designed to be used
with individual gels for both handling and for protecting the thick plastic ProteomeWorks Plus
Cutting Mat (reorder part number 165-7058) on the spot cutter platform. The ProteomeWorks
Plus Gel Sheet has a thin protective film on it. Peel this film off the gel sheet before use. When the
gel is in a container of water, pick up the gel and place it on the gel sheet on the bench. The Bio-
Rad Gel Clip is an excellent gel handling device. Order part number 165-3414. The gel sheet and
gel are then placed on the cutting mat, positioned towards the right side of the cutting platform
on the spot cutter, near the microtiter plate.
A Gel Holding Bar should be positioned on the top and bottom sides of the gel or blot, resting on
the edge of the gel and on the plastic gel sheet.
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