Load Consumables

On the NovaSeq X, only side A is available to load consumables. On the NovaSeq X Plus, both sides are available. For single-sided runs on the NovaSeq X Plus, the instrument side that was not selected displays the Idle status and is not editable.

1. Make sure that the flow cell has reached room temperature before loading.
2. On the load consumables screen, select Load flow cells.

The display monitor raises and the flow cell door opens. The flow cell light indicates the instrument side sequencing is being performed on.

Wait until the flow cell stage has fully extended before proceeding.

3. Remove and discard the used flow cell in accordance with the applicable standards for your region.

The flow cell is not recyclable.

4. Inspect the flow cell stage for any contaminants (eg, particulates, lint, or dried reagent). If contaminants are visible, clean the flow cell stage as follows.
a. Wet a polynit heatseal wipe with isopropyl alcohol (70%).
b. Gently clean the applicable surface. Wipe in a lengthwise direction only.

Unless you find contaminants on the manifolds, avoid touching them when wiping the flow cell stage.

c. Repeat steps a and b until surfaces are clear of all contaminants.
d. Dry with a new polynit heatseal wipe or an unused side of the used wipe to avoid contamination.
5. Put on a new pair of powder-free gloves to avoid contaminating the glass surface of the flow cell.
6. With the flow cell foil package over a flat surface, peel open the foil from the corner tab.
7. Remove the flow cell from the package. Grasp the flow cell by the sides to avoid touching the glass or the underside gaskets.
8. Inspect the flow cell for any contaminants (eg, particulates, lint, or dried reagent). If contaminants are visible, clean the flow cell as follows.
a. Wet a polynit heatseal wipe with isopropyl alcohol (70%).
b. Gently clean the applicable surface. Wipe in a lengthwise direction only.
c. Repeat steps a and b until surfaces are clear of all contaminants.
d. Dry with a new polynit heatseal wipe or an unused side of the used wipe to avoid contamination.
9. Discard the package appropriately.
10. Place the flow cell in the flow cell stage so that the top surface faces upward.
11. After flow cells are loaded, select Close flow cell door.

The NovaSeq X Series displays information from the scanned flow cell after 1 minute.

12. After the flow cell is confirmed, load the reagent and buffer cartridges. Refer to Load Reagent and Buffer Cartridges.
1. Make sure that the reagent cartridge was previously thawed and the lyo insert and library tube strip are inserted into the cartridge prior to loading.
2. On the load consumables screen, select Load reagents and buffers.

The instrument doors unlock automatically and the system displays information on loading the reagent and buffer cartridges.

3. Remove the used reagent and buffer cartridges. Refer to Recycle Used Consumables for instructions on recycling the reagent and buffer cartridges.
4. Inspect the buffer cartridge foils for any leaks.
5. Load the cartridges as follows.
• Place the buffer cartridge in the left position.
• Place the reagent cartridge in the right position so that the Illumina label faces you.

6. Empty the used reagent bottles. Refer to Empty Used Reagent Bottles for more information.
7. After emptying the used reagent bottles, select Confirm.
8. Close the reagents and used reagents drawers, and then close the instrument doors.

The NovaSeq X Series displays information from the scanned consumables after 1 minute.

9. After all consumables are loaded, select Verify.
10. Review run details, and then select Start Run.

After starting a run, the instrument doors automatically lock.