QuantStudio 1 Real-Time PCR System Support—Troubleshooting

Calibrating the instrument specifically for the dye being used may improve assay efficiency. The HEX dye needs to be custom calibrated on the QuantStudio 1 instrument. Please see page 62 of the QuantStudio 1 Real-Time PCR System User Guide for further instructions. You may also refer to our Custom Dye Calibration of Applied Biosystems Real-Time PCR Instruments User Guide.

For the custom dye calibration, we recommend using either a pure HEX dye purchased from the vendor producing the HEX probe or a single-labeled HEX oligo. Custom dye calibration using a labeled HEX oligo is easier to manipulate and dilute and follows the same procedure as if using the pure dye. The length or sequence of the oligo is not important and desalted purification method would suffice. No other components are required. The HEX oligo can be ordered as a 5’ Fluorescent Labeled Single Primer or Custom Standard DNA Oligo.

To see the red threshold line in the amplification plot, please go to analysis settings and select Baseline Threshold instead of Relative Threshold. Also, please select a single target in the amplification plot, from the drop-down menu.

We recommend storing no more than 1000 run files in the instrument. Please transfer EDS files from the instrument home screen, in the Settings > Run History, as shown on page 48 of the QuantStudio 1 Real-Time PCR System User Guide. Only Administrators can delete all files, however.

In an effort to reduce environmental impact, we no longer supply the software on the CD. Please download it from here.

It is possible that the instrument is not connected to the computer and is not linked with the Thermo Fisher Cloud. Please see page 38 of the QuantStudio 1 Real-Time PCR System User Guide for instructions to link an instrument profile with the Thermo Fisher Cloud. Although default installation instructions recommend using an Ethernet cable, it can also be done wirelessly using a High Power USB WiFi Module (Cat. No. A26774).

If you experience connection issues between the instrument and computer, it might be useful setting a static IP address on both the instrument and computer. On the computer, you can use online help (such as this one) to set the static IP address. Here are the details for the settings:

Computer IP: 10.0.0.2

Instrument IP: 10.0.0.3

Subnet: 255.255.255.0

DNS1: 8.8.8.8

DNS2: 8.8.4.4

Default gateway: 10.0.0.1

On the instrument, the IP address can be found under Settings and About Instrument. If you see an IP address but are still having network issues, try to PING the IP Address in a command window of the computer:

i. Select the windows start button and select the RUN command.

ii. Open the Run command and type in CMD.

iii. This will open the Command window.

iv. Type the word “PING”, space, followed by the IP address and press enter.

v. You should see 4 packets of data sent, 4 received, and 0 lost.

1. If you PING the IP Address successfully (4 sent, 4 received, 0 lost), but still cannot connect, it means that one of the needed ports is still not open. Please contact your IT department and review the instrument checklist.

2. If you PING the IP address unsuccessfully, please send us the serial number of the instrument so that we can contact your local engineer.