Applied Biosystems QuantStudio 6 Flex User Manual
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Applied Biosystems QuantStudio 6 Flex User Manual

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™
QuantStudio
6 and 7 Flex Real-Time PCR
Systems
USER GUIDE
Maintenance and Administration
for use with QuantStudio
Real‑Time PCR Software v1.6
™
Publication Number MAN0018828
Revision A.0
For Research Use Only. Not for use in diagnostic procedures.

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  • Page 1 ™ QuantStudio 6 and 7 Flex Real-Time PCR Systems USER GUIDE Maintenance and Administration for use with QuantStudio Real‑Time PCR Software v1.6 ™ Publication Number MAN0018828 Revision A.0 For Research Use Only. Not for use in diagnostic procedures.
  • Page 2 Life Technologies Holdings Pte Ltd | Block 33 | Marsiling Industrial Estate Road 3 | #07-06, Singapore 739256 For descriptions of symbols on product labels or product documents, go to thermofisher.com/symbols-definition. The information in this guide is subject to change without notice. DISCLAIMER: TO THE EXTENT ALLOWED BY LAW, THERMO FISHER SCIENTIFIC INC.

  • Page 3: Table Of Contents

    Contents About this guide ............10 Purpose .
  • Page 4 Contents Calibration workflow ............29 View the calibration status of an instrument .
  • Page 5 Contents Preparing an array card for instrument verification ......65 Run the RNase P plate or array card ......... 67 Troubleshooting .
  • Page 6 Contents Software licenses ............. 105 Activate a license .
  • Page 7 Contents ■ APPENDIX D Power on or off, store, and move ..... 123 ™ Place the QuantStudio 6 or 7 Flex Real-Time PCR System on standby ....123 ™...
  • Page 8 Contents Export and import user, security, audit, and e-signature settings ....148 User overview ..............148 User account permissions .
  • Page 9 Contents ■ APPENDIX I Safety ........... . 169 Symbols on this instrument .

  • Page 10: About This Guide

    About this guide Purpose ™ This user guide provides reference information for the QuantStudio 6 and 7 Flex Real-Time PCR Systems and describes how to prepare, maintain, and troubleshoot the systems. WARNING! The protection provided by the equipment may be impaired if the instrument is operated outside the environment and use specifications, the user provides inadequate maintenance, or the equipment is used in a manner not specified by the manufacturer (Thermo Fisher Scientific).

  • Page 11: User Attention Words

    About this guide User attention words User attention words The following user attention words might appear in this document. Each word implies a particular level of observation or action as described below: Note: Provides information that may be of interest or help but is not critical to the use of the product.
  • Page 12 About this guide Contents of this manual Chapter/appendix Content ™ Appendix D, “Power on or Describes how to store, move, and reinstall the components of the QuantStudio 6 and off, store, and move“ 7 Flex Systems. Appendix E, “Security, audit, Describes how to configure the security, audit, and electronic signature functions of the ™...

  • Page 13: Chapter 1 Getting Started

    Getting started ■ ™ Differences between the QuantStudio 6 and 7 Flex Real-Time PCR Systems ............13 ■...

  • Page 14: Data Collection

    Chapter 1 Getting started About the QuantStudio 6 and 7 Flex Real-Time PCR Systems ™ ™ Data collection The QuantStudio 6 and 7 Flex Systems collect raw fluorescence data at different ™ points during a PCR, depending on the type of run that the QuantStudio 6 and 7 Flex Systems perform: Table 1...

  • Page 15: Instrument Filters And Supported Dyes

    Chapter 1 Getting started About the QuantStudio 6 and 7 Flex Real-Time PCR Systems ™ 1. Excitation: The instrument illuminates all wells of the plate or array card, within the instrument, exciting the fluorophores in each reaction. 2. Emission: The instrument optics collect the residual fluorescence emitted from the wells of the plate or array card.

  • Page 16: Instrument Hardware

    Chapter 1 Getting started Instrument hardware Wavelength (nm) Emission Spectra Filters x1-m1 x2-m2 x3-m3 x4-m4 x5-m5 x6-m6 dye and SYBR Green ™ ™ dye and JOE ™ ™ ® 3 dye, NED ™ dye, and TAMRA ™ ™ dye and Texas Red ™...

  • Page 17: Rear

    Chapter 1 Getting started Instrument hardware Component Description Provides access to the instrument functions. Can be used to Touchscreen run experiment, transfer data, and operate the instrument functions without the use of the computer. Provide USB communication with the instrument. Can be used to transfer data to and from the instrument.

  • Page 18: Barcode Scanner

    Chapter 1 Getting started Instrument hardware Component Description An RJ45 port that provides Ethernet (gigabit) communication Ethernet port with the instrument. Provide USB communication with the instrument. USB ports can be used to transfer data from the instrument. USB ports Note: If multiple USB drives are plugged into the instrument, the instrument mounts only the first drive that is installed, regardless of the USB port used.

  • Page 19: Twister ™ Robot Components

    QuantStudio ™ 7 Flex System. The QuantStudio ™ 7 Flex System supports the use of the Applied Biosystems ™ Twister ™ Robot, an optional accessory that consists of the components shown below. Note: See the Applied Biosystems ™...
  • Page 20 Chapter 1 Getting started Instrument hardware Component Description Moves the grip horizontally 11.25 in (28.5 cm) to 19.75 in Reach axis (50.1 cm) from the center of the robot post. Rotates materials to either the portrait or landscape positions, Wrist mechanism where the range of motion is ±135°...
  • Page 21 Chapter 1 Getting started Instrument hardware Rack parts and functions Racks are removable aluminum frames used as input and output locations for PCR consumables. Rack positions are numbered counter-clockwise, with position 1 closest to the front of the Twister ™ Robot (see below).

  • Page 22: Electrical Protective Devices

    Chapter 1 Getting started Instrument software Electrical We recommend several protective devices to protect the instrument in environments with large voltage and power fluctuations. protective devices Power line regulator We recommend the use of a 1.5-kVA power line regulator in areas where the supplied power fluctuates in excess of ±...

  • Page 23: Software Installation

    Chapter 1 Getting started Instrument software Software The default installation of the instrument partitions the computer hard drive to create the logical drives as explained below. installation Drive Software Description ™ ™ C drive Microsoft Windows Operating system files. Used to calibrate and perform experiments on the QuantStudio ™...

  • Page 24: Instrument Consumables

    Chapter 1 Getting started Instrument consumables Instrument consumables The QuantStudio ™ 6 and 7 Flex Systems support a series of specialized consumables through interchangeable sample blocks. Use the consumables appropriate for the ™ sample block of your QuantStudio 6 or 7 Flex Systems. ™...

  • Page 25: Interchangeable Sample Blocks, Heated Covers, And Plate Retainers

    Chapter 1 Getting started Interchangeable sample blocks, heated covers, and plate retainers Interchangeable sample blocks, heated covers, and plate retainers The QuantStudio ™ 6 and 7 Flex Systems feature a set of interchangeable sample blocks, heated covers, and plate retainers that allow the instruments to support multiple consumable formats.

  • Page 26: Chapter 2 Calibrate The Instrument

    Calibrate the instrument ■ Calibration overview ..........27 ■...

  • Page 27: Calibration Overview

    Chapter 2 Calibrate the instrument Calibration overview Calibration overview Calibration and ™ The QuantStudio 6 and 7 Flex Systems require regular calibration and maintenance for proper operation. To ensure proper operation of your instrument, perform weekly, maintenance monthly, and semiannual maintenance as indicated in the following table. schedule IMPORTANT! Perform calibrations and run experiments under the environmental conditions specified in Appendix H, “Instrument specification and layout“.

  • Page 28: Calibration With Quantstudio ™ Real-Time Pcr Software V1.6

    Chapter 2 Calibrate the instrument Calibration overview Calibration with QuantStudio ™ Real-Time PCR Software v1.6 does not require a normalization calibration for the 96-well plate blocks or the 384-well plate block. For this version of QuantStudio ™ ® the software, normalization calibration is only required for the TaqMan Array Card Real‑Time PCR block.

  • Page 29: Calibration Workflow

    Chapter 2 Calibrate the instrument Calibration overview Calibration Whether you are performing all calibrations or just a subset, perform calibrations for ™ the QuantStudio 6 and 7 Flex Systems in the following sequence. workflow Note: A normalization calibration is not required for the 96-well plate blocks (0.1-mL or 0.2-mL) or the 384-well plate block.
  • Page 30 Chapter 2 Calibrate the instrument Calibration overview 3. From the Instrument Manager, click Monitor, then click Information to open the instrument monitor. The instrument monitor screen displays the following information: ™ ™ a. The Instrument type (the QuantStudio 6 Flex System or the QuantStudio 7 Flex System) b.
  • Page 31 Chapter 2 Calibrate the instrument Calibration overview (TaqMan Array Card block) TaqMan Array Card block Figure 2 Information screen for the instrument with a TaqMan ® Array Card block Note: While viewing the Monitor screen, you can generate reports of the calibration history and status for the instrument.

  • Page 32: Enable Or Change The Calibration Reminders

    Chapter 2 Calibrate the instrument Enable or change the calibration reminders Enable or change the calibration reminders The calibration reminder settings allow you to configure the QuantStudio ™ Real-Time PCR Software to alert you by email when the QuantStudio ™ 6 or 7 Flex Real-Time PCR System requires calibration.
  • Page 33 Chapter 2 Calibrate the instrument Enable or change the calibration reminders d. If the mail server requires authentication, enter the user name and password provided by your systems administrator. 4. Click OK. 5. Test the mail server settings: a. In the Home tab of the QuantStudio ™...

  • Page 34: Modify The Notification Settings For A Monitored Instrument

    Chapter 2 Calibrate the instrument Enable or change the calibration reminders e. Click Test Configuration to test the mail server settings. Confirm that the email account you specified in substep 5d received the test ™ messages from the QuantStudio Real-Time PCR Software. If not, consult your network administrator to confirm that the mail server settings are defined correctly.
  • Page 35 Chapter 2 Calibrate the instrument Enable or change the calibration reminders Figure 3 Calibration reminders screen for the instrument with a 96-well plate block or a 384-well plate block QuantStudio 6 and 7 Flex Real-Time PCR Systems v1.6 Maintenance and Administration Guide ™...

  • Page 36: Guidelines For Preparing Calibration Plates And Array Cards

    Chapter 2 Calibrate the instrument Guidelines for preparing calibration plates and array cards ® Figure 4 Calibration reminders screen for the instrument with a TaqMan Array Card block Guidelines for preparing calibration plates and array cards Observe the following guidelines when preparing calibration plates and array cards: •...

  • Page 37: Preparing Array Cards For Instrument Calibration

    Chapter 2 Calibrate the instrument Preparing array cards for instrument calibration • Store calibration plates or array cards in a dark place until you are ready to use them. The fluorescent dyes in the wells of calibration consumables are photosensitive. Prolonged exposure to light can diminish the fluorescence of the dyes.
  • Page 38 Chapter 2 Calibrate the instrument Preparing array cards for instrument calibration 3. Mark the side of the empty array ™ cards with: Background, FAM , ROI, ™ ™ ™ ™ , VIC , FAM /ROX , and ™ /ROX ™ 4.
  • Page 39 Chapter 2 Calibrate the instrument Preparing array cards for instrument calibration b. Place the filled carrier clips into the centrifuge buckets. Make sure that the array card fill reservoirs and bucket and clip labels face outward when loaded into the centrifuge. IMPORTANT! You must run the centrifuge with all four buckets in place and each of the two carriers filled with array cards.
  • Page 40 Chapter 2 Calibrate the instrument Preparing array cards for instrument calibration 8. Seal the array card(s): a. With the carriage (roller ® assembly) of the TaqMan Array Card Sealer in the Start position, place a filled array card into the fixture with the foil side up so that the fill reservoirs are the farthest away from the carriage.

  • Page 41: Roi Calibration

    Chapter 2 Calibrate the instrument ROI calibration Correct trim Incorrect trim 9. Repeat step 8 to seal the remaining array cards. IMPORTANT! If an array card is sealed improperly, it can leak and contaminate the sample block and/or it can cause the associated calibration or RNase P test to fail. IMPORTANT! As you seal the remaining filled array cards, store them in a dark place.

  • Page 42: About The Calibration Data

    Chapter 2 Calibrate the instrument ROI calibration About the During the ROI calibration, the instrument software captures images of the ROI calibration plate or array card at each instrument filter. An ROI calibration passes if calibration data the collected image for each filter distinguishes all wells of the ROI plate or array card. Each well in the image must be distinct and visible at the same luminosity relative to the other wells in the image.

  • Page 43: Perform The Roi Calibration

    Chapter 2 Calibrate the instrument ROI calibration Prepare the plate IMPORTANT! Wear powder-free gloves and safety glasses when you prepare the plate. 1. Remove the ROI calibration plate from the freezer, then thaw it at room temperature for approximately 30 minutes. IMPORTANT! Use the calibration plate within 2 hours of defrosting it.
  • Page 44 Chapter 2 Calibrate the instrument ROI calibration 4. Click Next, then prepare for the calibration as instructed. 5. From the bottom of the Setup tab, enter the reagent information for the ROI plate or array card that you are using. 6.

  • Page 45: Background Calibration

    Chapter 2 Calibrate the instrument Background calibration Note: Before starting the calibration, the instrument may pause (up to 10 minutes) to allow the heated cover to reach the required temperature. 8. When the run is complete and the software displays the Analysis screen, select each filter from the Filter Set drop-down list, then confirm that the corresponding ROI Image displays a green circle around each well area.

  • Page 46: When To Perform The Calibration

    Chapter 2 Calibrate the instrument Background calibration When to perform Perform the background calibration monthly. the calibration About the During the background calibration, the software captures a series of images of the background plate or array card using each instrument filter. The software compares calibration data the fluorescence from each well to the average for the plate or array card.

  • Page 47: Perform The Background Calibration

    Chapter 2 Calibrate the instrument Background calibration 2. Remove the background calibration plate from its packaging. Do not remove the optical film. 3. Vortex and centrifuge the plate: a. Vortex the background calibration plate for 5 seconds. b. Centrifuge the plate for 2 minutes at <1500 rpm. IMPORTANT! The background calibration plate must be well mixed and centrifuged.
  • Page 48 Chapter 2 Calibrate the instrument Background calibration 5. At the bottom of the Setup tab, enter the reagent information for the background plate or array card that you are using. 6. Load the calibration plate or array card into the instrument: a.

  • Page 49: Uniformity Calibration

    Chapter 2 Calibrate the instrument Uniformity calibration 8. When the run is complete and the QuantStudio ™ Real-Time PCR Software displays the Analysis screen, confirm the status of the calibration. The analysis status indicates the success of the calibration, where passed indicates that the run produced viable calibration data, and failed indicates that the run did not produce data or that the data it collected is unusable.

  • Page 50: Preparing The Calibration Plate Or Array Card

    Chapter 2 Calibrate the instrument Uniformity calibration Preparing the IMPORTANT! Wear powder-free gloves and safety glasses when you prepare plates calibration plate or array cards. or array card Prepare the calibration consumable appropriate for your QuantStudio ™ 6 or 7 Flex System: •...

  • Page 51: Perform The Uniformity Calibration

    Chapter 2 Calibrate the instrument Uniformity calibration c. Confirm that the liquid in each well of the ROI calibration plate is at the bottom of the well. If not, centrifuge the plate again at a higher rpm and for a longer period of time. 1.
  • Page 52 Chapter 2 Calibrate the instrument Uniformity calibration b. Load the calibration plate or array card into the plate holder so that: • Well A1 of the plate or array card is in the top-left corner of the plate adapter. • The barcode faces the front of the instrument. IMPORTANT! Plates or array cards should be loaded and unloaded by operators who have been warned of the moving parts hazard and have been adequately trained.

  • Page 53: Dye Calibration

    Chapter 2 Calibrate the instrument Dye calibration 10. Unload the calibration plate or array card: a. After the calibration, tap on the touchscreen to eject the plate or array card. Note: If the instrument does not eject the plate or array card, remove it as explained in “Troubleshooting“.

  • Page 54: Preparing The Calibration Plate Or Array Card

    Chapter 2 Calibrate the instrument Dye calibration within the same filter as their group, but diverge slightly at other wavelengths (see below). Acceptable spectra Unacceptable spectra Spectra peak at the same wavelength and Spectra peak at the different wavelengths do not diverge significantly Note: Because the wells of a calibration plate or array card contain identical concentrations of a dye, the resulting signals for the wells should be similar.
  • Page 55 Chapter 2 Calibrate the instrument Dye calibration Block Plate ™ ™ ™ ™ ™ QuantStudio 3/5 Spectral Calibration Plate 1, (FAM , VIC , ROX , and SYBR dyes), 96-well, 0.1 mL QuantStudio ™ 3/5 Spectral Calibration Plate 2 (ABY ™...

  • Page 56: Perform The Dye Calibration

    Chapter 2 Calibrate the instrument Dye calibration Perform the dye IMPORTANT! The software guides you through the calibration of each dye calibration separately. You must set up, run, and analyze each dye independently. 1. In the QuantStudio ™ Real-Time PCR Software Home tab, click Instrument Console.
  • Page 57 Chapter 2 Calibrate the instrument Dye calibration b. Confirm that the dye plate or array card matches the dye selected in the software, then load it into the plate holder. Load the plate or array card so that: • Well A1 of the plate or array card is in the top-left corner of the plate adapter.
  • Page 58 Chapter 2 Calibrate the instrument Dye calibration 8. When the run is complete and the software displays the Analysis screen, confirm the grouping of the dye spectra: a. Select the Plate Layout tab, then review the raw data. For each spectrum, confirm that the peak is: •...

  • Page 59: Normalization Calibration (Taqman ® Array Card Only)

    Chapter 2 Calibrate the instrument Normalization calibration (TaqMan Array Card only) ® 12. Repeat the calibration to calibrate the instrument for the remaining dyes that are present in the experiments that you will be running. 13. (Optional) Click Print Report in the upper right corner of the screen to print a summary of the calibration results for your records.
  • Page 60 Chapter 2 Calibrate the instrument Normalization calibration (TaqMan Array Card only) ® 5. At the bottom of the Setup tab, enter the reagent information for the array card that you are using. 6. Load the array card into the instrument: a.
  • Page 61 Chapter 2 Calibrate the instrument Normalization calibration (TaqMan Array Card only) ® b. In the Run screen, click Start Run. IMPORTANT! Do not attempt to open the access door during the run. The door is locked while the instrument is in operation. Note: Before starting the calibration, the instrument may pause (up to 10 minutes) to allow the heated cover to reach the required temperature.

  • Page 62: Verify The Instrument Performance

    Chapter 2 Calibrate the instrument Verify the instrument performance Verify the instrument performance When necessary, you can perform the RNase P instrument verification test to confirm the performance of the QuantStudio ™ 6 and 7 Flex Systems. When to perform We recommend performing an RNase P instrument verification test: the test •...

  • Page 63: Analytical Performance

    Chapter 2 Calibrate the instrument Verify the instrument performance Array card RNase P kits The RNase P Kits include one empty array card and eight tubes of solution. Each tube ™ contains reaction mix (PCR master mix, RNase P primers, and FAM -MGB dye- labeled probe) and a known concentration of human genomic DNA template.

  • Page 64: Installation Specification

    Chapter 2 Calibrate the instrument Verify the instrument performance Installation The QuantStudio ™ 6 or 7 Flex System passes the installation specification if the inequality holds and the instrument successfully distinguishes between unknown specification populations A and B with a statistical confidence level of 99.7%. As shown in the following table, you can omit a limited number of outlier wells from the unknown populations to meet the installation specification.

  • Page 65: Preparing An Array Card For Instrument Verification

    Chapter 2 Calibrate the instrument Verify the instrument performance b. Centrifuge the reaction plate for 2 minutes at < 1500 rpm. IMPORTANT! The reaction plate must be well mixed and centrifuged. c. Confirm that the liquid is at the bottom of each well of the reaction plate. If not, centrifuge the reaction plate again at a greater rpm and for a longer period of time.
  • Page 66 Chapter 2 Calibrate the instrument Verify the instrument performance 3. Using a permanent marker, mark the side of the empty array card with RNase P. Mark here 4. Transfer 100 µL of each solution into the appropriate port of the array card: For each transfer: a.

  • Page 67: Run The Rnase P Plate Or Array Card

    Chapter 2 Calibrate the instrument Verify the instrument performance d. Dispense the fluid so that it sweeps in and around the fill reservoir toward the vent port. Pipet the entire 100 µL into the reservoir, but do not go past the first stop of pipettor plunger or you may blow the solution out of the port.
  • Page 68 Chapter 2 Calibrate the instrument Verify the instrument performance 6. Load the RNase P plate or array card into the instrument: a. From the instrument touchscreen, tap to eject the instrument tray. b. Load the plate or array card into the plate holder so that: •...
  • Page 69 Chapter 2 Calibrate the instrument Verify the instrument performance 8. When the run is complete and the software displays the Analysis screen, confirm the status of the run. Analysis status Action Passed The system passed the RNase P run. The system failed the RNase P run. Review the data for outliers.
  • Page 70 Chapter 2 Calibrate the instrument Verify the instrument performance 12. Review the Results Table for quality flags generated by the test: a. Select the Results Table tab. b. Review the Flag column for wells that generated quality flags. c. Troubleshoot each well that generated a flag as explained in “Troubleshooting“.
  • Page 71 Chapter 2 Calibrate the instrument Verify the instrument performance 16. Click Finish, then click Yes when prompted to save the test. 17. (Optional) Click Print Report in the upper right corner of the screen to print a summary of the RNase P test results for your records. QuantStudio 6 and 7 Flex Real-Time PCR Systems v1.6 Maintenance and Administration Guide ™...

  • Page 72: Troubleshooting

    Troubleshooting The tables in this section describe how to troubleshoot failed calibrations and RNase P instrument verification tests. Table 3 ROI calibration troubleshooting Problem/symptom Possible cause Action • Plate or array card was ROI calibration failed. CAUTION! PHYSICAL INJURY HAZARD. During operation, the sample block can centrifuged •...
  • Page 73 Problem/symptom Possible cause Action Instrument does not eject The adhesive cover may have Remove the plate or array card from the instrument as explained in “Remove a plate stuck the ROI plate or array card (it adhered the plate or array within the instrument“...
  • Page 74 Table 4 Background calibration troubleshooting Problem/symptom Possible cause Action • Plate or array card was Background calibration failed. CAUTION! PHYSICAL INJURY HAZARD. During operation, the centrifuged insufficiently. sample block can reach 100℃. Before removing the plate or array • Plate or array card contains old card, wait until the block reaches room temperature.
  • Page 75 Table 5 Uniformity calibration troubleshooting Problem/symptom Possible cause Action • Plate or array card was Uniformity calibration failed. CAUTION! PHYSICAL INJURY HAZARD. During operation, the centrifuged insufficiently. sample block can reach 100℃. Before removing the plate or array • Plate or array card contains old card, wait until the block reaches room temperature.
  • Page 76 Problem/symptom Possible cause Action Instrument does not eject the ROI The adhesive cover may have Remove the plate or array card from the instrument as explained in plate or array card (the consumable adhered the plate or array card to “Remove a plate stuck within the instrument“...
  • Page 77 Table 7 Normalization calibration troubleshooting (TaqMan ® Array Card block only) Problem/symptom Possible cause Action Normalization calibration failed. Abnormally low spectra across all CAUTION! PHYSICAL INJURY HAZARD. During operation, the wells of the array card. sample block can reach 100°C. Before removing the array card, wait until the block reaches room temperature.
  • Page 78 Table 8 RNase P test troubleshooting Problem/symptom Possible cause Action • Contamination RNase P plate or array card CAUTION! PHYSICAL INJURY HAZARD. During operation, the verification run failed. • Defective seal sample block can reach 100℃. Before removing the plate or array •...
  • Page 79 Problem/symptom Possible cause Action • Amplification too late Well displays the BLFAIL flag, If a well is flagged, confirm the results: indicating that the software cannot • No amplification 1. Select the flagged well(s) in the plate layout or well table. calculate the best fit baseline for the 2.
  • Page 80 Problem/symptom Possible cause Action Well displays the NOSIGNAL flag, Missing reaction mix resulting from If a well is flagged, confirm the results: indicating that the well produced pipetting error. 1. Consider omitting the well from the analysis. very low or no fluorescence signal. 2.

  • Page 81: How To Identify Contamination

    Chapter 2 Calibrate the instrument How to identify contamination How to identify contamination Signals that exceed the limit of normal background fluorescence may indicate fluorescent contaminants on the calibration plate or array card or the sample block. Common contaminants include ink residue from permanent pens, powder from disposable gloves, and dust.

  • Page 82: Appendix A Manual Instrument Operation

    Manual instrument operation ■ Overview of instrument touchscreen functions ......82 ■ Operate the instrument from the touchscreen ......83 ■...

  • Page 83: Operate The Instrument From The Touchscreen

    Appendix A Manual instrument operation Operate the instrument from the touchscreen Available Category Function in secure mode? Define the system shortcuts Enable or disable instrument security Administration Review the instrument statistics Review the instrument version information View the system log See “Enable or disable instrument security“...

  • Page 84: Run An Experiment

    Appendix A Manual instrument operation Operate the instrument from the touchscreen 5. In the Create New Experiment screen, tap each field to set the following items: • Tap the New Experiment Name field and use the keypad to enter a name (up to 100 characters) for the experiment.

  • Page 85: Transfer Experiments, Templates, And Results Data

    Appendix A Manual instrument operation Operate the instrument from the touchscreen 6. Modify the experiment parameters as needed. • Add a stage or step to the thermal profile, tap the stage or step to the left of where you want to add the stage or step, then tap Add.
  • Page 86 Appendix A Manual instrument operation Operate the instrument from the touchscreen 4. In the Browse Experiments screen, select the template: a. Touch , then touch USB. b. Touch the desired template, then touch Save. 5. In the Save Experiment As screen, set the name for the file. a.

  • Page 87: Maintain The Instrument From The Touchscreen

    Appendix A Manual instrument operation Maintain the instrument from the touchscreen 7. Touch to return to the Main Menu. 8. Unplug the USB drive. Note: After the results from a completed run have been collected, the corresponding experiment displays “Collected” and it can be deleted. Delete results ™...
  • Page 88 Appendix A Manual instrument operation Maintain the instrument from the touchscreen The QuantStudio ™ 6 and 7 Flex Systems back up to and restores instrument settings from a USB flash drive. Before backing up or restoring settings, you must plug the drive into one of the USB ports below the touchscreen.

  • Page 89: Perform An Instrument Self Test

    USB drive. firmware 1. Download the firmware update: a. Go to thermofisher.com/qpcrsoftware. b. In the Real-Time PCR section, select Applied Biosystems ™ QuantStudio ™ and 7 Flex Real-Time PCR Systems. c. In the Software Downloads page, click Updates - Patches.

  • Page 90: Administrate The Instrument From The Touchscreen

    Appendix A Manual instrument operation Administrate the instrument from the touchscreen d. Download the firmware to a USB drive. 2. Plug a USB drive into the USB port below the touchscreen. IMPORTANT! Do not use the USB ports on the rear panel of the QuantStudio ™...

  • Page 91: Define The Date And Time

    Appendix A Manual instrument operation Administrate the instrument from the touchscreen Note: The touchscreen does not provide access to all instrument functions. Features such as instrument calibration and remote notification are available only through the ™ QuantStudio Real-Time PCR Software. Define the date IMPORTANT! If your laboratory is subject to daylight savings time changes, you and time...
  • Page 92 Appendix A Manual instrument operation Administrate the instrument from the touchscreen 3. Upload the instrument icon: The instrument icon is the graphic used to represent the instrument in the ™ QuantStudio Real-Time PCR Software Instrument Console: a. Save the replacement graphic to a USB drive, then plug the drive into the USB port below the touchscreen.

  • Page 93: Define The Maintenance Reminders

    Appendix A Manual instrument operation Administrate the instrument from the touchscreen ™ Define the You can use the QuantStudio 6 or 7 Flex System touchscreen screen to: maintenance • Set the expiration period for instrument calibrations and lamp replacement. reminders •...

  • Page 94: Define The System Shortcuts

    Appendix A Manual instrument operation Administrate the instrument from the touchscreen 4. Set the Internet Protocol (TCP/IP) Properties for either DHCP or Static IP communication. Network service Action DHCP Tap Obtain an IP address automatically. 1. Tap Use the following IP address. 2.

  • Page 95: Review The Instrument Version Information

    Appendix A Manual instrument operation Administrate the instrument from the touchscreen ™ Review the You can use the QuantStudio 6 or 7 Flex System touchscreen to view instrument version data, such as instrument serial number and version numbers for most instrument instrument components and firmware.

  • Page 96: View The Instrument Log

    Appendix A Manual instrument operation Administrate the instrument from the touchscreen ™ View the You can use the QuantStudio 6 or 7 Flex System touchscreen to view a log that summarizes instrument activity from the last 6 months. For each recorded activity, the instrument log activity log provides a description of the activity and the date/time when it occurred.

  • Page 97: Appendix B Maintenance

    Maintenance ■ Decontaminate the sample block ........97 ■...

  • Page 98: Materials Required

    Appendix B Maintenance Decontaminate the sample block Materials required • Bleach, 10% solution • Tissue, lint-free • Cotton or nylon swabs and lint-free cloths • Ethanol, 95% solution • Safety glasses • Pipette (100-µL) with pipette tips • Powder-free gloves •...
  • Page 99 Appendix B Maintenance Decontaminate the sample block 4. Firmly press down on the handle of the sample block, then remove it from the system. Place the sample block on a clean, dry surface. 5. Clean the contaminated wells of the sample block using deionized water: a.

  • Page 100: Replace The Halogen Lamp

    Appendix B Maintenance Replace the halogen lamp 10. If the contamination remains, repeat steps 2–5, then clean the contaminated wells of the sample block using a 95% ethanol solution: a. Pipet a small volume of 95% ethanol solution into each contaminated well. b.

  • Page 101: Materials Required

    Appendix B Maintenance Replace the halogen lamp Materials required • Safety glasses • Powder-free gloves • Halogen bulb (12 V, 75 W) Halogen lamp The QuantStudio ™ Real-Time PCR Software can display the following warnings before or during an experiment: warnings •...
  • Page 102 Appendix B Maintenance Replace the halogen lamp 3. Open the access door. 4. Remove the lamp from the system: a. Slide the lamp release lever downward. b. Firmly grasp the lamp and lift it up and out of the slotted mount. 5.

  • Page 103: Replace The Instrument Fuses

    Appendix B Maintenance Replace the instrument fuses 7. Close the access door. 8. Plug in and power on the QuantStudio ™ 6 or 7 Flex Real-Time PCR System. IMPORTANT! Confirm that the access door is completely closed. The QuantStudio ™ Real-Time PCR Software displays an error message if the door is not completely closed and latched, or if the lamp is not seated correctly.

  • Page 104: Replace The Fuses

    1. Go to thermofisher.com/qpcrsoftware. Install the software 2. In the Real-Time PCR section, click Applied Biosystems QuantStudio 6 & 7 Flex Real-Time PCR Systems. 3. Click Download, then follow the instructions. QuantStudio 6 and 7 Flex Real-Time PCR Systems v1.6 Maintenance and Administration Guide...

  • Page 105: Software Licenses

    Appendix B Maintenance Software licenses Software licenses The base QuantStudio ™ Real-Time PCR Software v1.6 does not require a license. The High Resolution Melting (HRM) Software and the SAE module require licenses. Activate a license A valid license key is required for the High Resolution Melting (HRM) Software or the SAE module.

  • Page 106: Update The Quantstudio

    For the latest services and support information for the QuantStudio 6 or 7 Flex Real- Time PCR System: 1. Go to thermofisher.com/qpcrsoftware. 2. On the Software Downloads page, select Applied Biosystems ™ QuantStudio ™ and 7 Flex Systems from the menu.

  • Page 107: Update The Microsoft

    Windows operating system may conflict with the software. 1. Go to thermofisher.com/qpcrsoftware. 2. In the Real-Time PCR section, click Applied Biosystems QuantStudio 6 & 7 Flex Real-Time PCR Systems. 3. Click Read Me. 4. If the release notes do not contain the information of interest, contact Technical Support.

  • Page 108: Change The Sample Block

    Appendix B Maintenance Change the sample block Change the 1. Power off and unplug the QuantStudio ™ 6 or 7 Flex Real-Time PCR System, then allow it to cool for 15 minutes. sample block 2. Open the access door. 3. Firmly press down on the handle of the sample block, then remove it from the system.

  • Page 109: Change The Heated Cover

    Appendix B Maintenance Change the heated cover 10. Check the calibration status of the system (see “View the calibration status of an instrument“ on page 29). If the calibrations for the new sample block/heated cover have expired, perform the following calibrations in the specified order: a.

  • Page 110: Change The Heated Cover

    Appendix B Maintenance Change the heated cover Change the heated Note: Confirm that the replacement heated cover supports the plate or array card format that you want to use. Some heated covers support more than one consumable cover type. 1. Power off and unplug the QuantStudio ™...

  • Page 111: Change The Plate Adapter

    Appendix B Maintenance Change the plate adapter 6. Close the access door and ensure it is completely closed. Note: The QuantStudio ™ Real-Time PCR Software displays an error message if the door is not completely closed and latched, or if the sample block is not seated correctly.

  • Page 112: Materials Required

    Appendix B Maintenance Change the plate adapter Materials required • Safety glasses • Powder-free gloves • Plate adapter Change the plate 1. Touch the instrument touchscreen to activate it, then press adapter 2. From the Main Menu, touch 3. When the tray arm opens, pull the latch, then lift and remove the plate adapter. 4.

  • Page 113: Appendix C Networking

    Networking ■ Networking overview ..........113 ■...

  • Page 114: About The Ethernet Port

    Appendix C Networking Networking overview About the The QuantStudio ™ 6 or 7 Flex Real-Time PCR System features a Gigabit Ethernet port for direct communication with the system computer and for network communication. ethernet port When the system is connected to a network, computers on the network that run the QuantStudio ™...

  • Page 115: Networking Guidelines And Best Practices

    Appendix C Networking Networking overview Example 2 ™ In the example shown below, the QuantStudio 6 or 7 Flex Real-Time PCR System is connected directly to the computer, which is also connected to the local area network. In this configuration, the computers on the network can exchange experiments with the system computer.

  • Page 116: Network Setup Workflow

    Appendix C Networking Network setup workflow • Confirm the uniqueness of the instrument name. The QuantStudio ™ 6 or 7 Flex Real-Time PCR System does support name resolution but the instrument name must be unique within the subnet. The ™ QuantStudio Real-Time PCR Software can automatically discover systems on the link-local network that are configured for Autodiscovery.

  • Page 117: Connect The Quantstudio

    Appendix C Networking Connect the QuantStudio 6 or 7 Flex System to the network ™ ™ Connect the QuantStudio 6 or 7 Flex System to the network After deciding how to connect the QuantStudio ™ 6 or 7 Flex System to a network, set up the QuantStudio ™...

  • Page 118: Connect The Computer To The Network

    Appendix C Networking Connect the computer to the network 7. Tap Save to save the settings, then tap OK when prompted. 8. Tap to return to the main menu. Connect the computer to the network Materials required Ethernet cable with RJ45 connectors Computer If you are connecting a computer that you provided to a network, confirm that the computer contains a free network port.

  • Page 119: Install The Quantstudio ™ Real-Time Pcr Software

    Appendix C Networking Monitor the QuantStudio 6 or 7 Flex Real-Time PCR System ™ 6. Set the Internet Protocol (TCP/IP) Properties for either DHCP or Static IP communication: Network Action configuration 1. Select Obtain an IP address automatically. 2. Set the DNS address. If the computer obtains DNS addresses: •...

  • Page 120: About Remote Monitoring

    Appendix C Networking Monitor the QuantStudio 6 or 7 Flex Real-Time PCR System ™ About remote When the QuantStudio ™ 6 or 7 Flex Real-Time PCR System is connected to the ™ network, any computer on the network that is running the QuantStudio Real-Time monitoring PCR Software can:...

  • Page 121: Enable Or Change The Calibration Reminders

    Appendix C Networking Monitor the QuantStudio 6 or 7 Flex Real-Time PCR System ™ Enable or change The calibration reminder settings allow you to configure the QuantStudio ™ Real-Time ™ PCR Software to alert you by email when the QuantStudio 6 or 7 Flex Real-Time the calibration PCR System requires calibration.
  • Page 122 Appendix C Networking Monitor the QuantStudio 6 or 7 Flex Real-Time PCR System ™ b. In the Instrument Console, select your instrument from the list of instruments on the network, then click Add to My Instruments. Note: You must add a system to your list before you can manage it. c.

  • Page 123: Appendix D Power On Or Off, Store, And Move

    Power on or off, store, and move ■ ™ Place the QuantStudio 6 or 7 Flex Real-Time PCR System on standby ..123 ■ ™ Power on the QuantStudio 6 or 7 Flex Real-Time PCR System ... 123 ■...
  • Page 124 Appendix D Power on or off, store, and move Power on the QuantStudio 6 or 7 Flex Real-Time PCR System ™ 3. (QuantStudio ™ 7 Flex System only) If you have a Twister ™ Robot, toggle the power ™ button on the rear of the Twister Robot.

  • Page 125: Store The Quantstudio ™ 6 Or 7 Flex System

    Appendix D Power on or off, store, and move Power off the QuantStudio 6 or 7 Flex Real-Time PCR System ™ ™ Power off the QuantStudio 6 or 7 Flex Real-Time PCR System The systems operate in low-power mode when not in use. The system can be powered off completely so that the components draw no power.

  • Page 126: Prepare The Quantstudio

    Appendix D Power on or off, store, and move Move the QuantStudio 6 or 7 Flex System ™ Prepare the 1. If you plan to store the QuantStudio ™ 6 or 7 Flex Real-Time PCR System for more than a week or you plan to move it, load an unused plate or array card into the QuantStudio ™...

  • Page 127: How To Handle The Sample Block And Heated Cover

    Appendix D Power on or off, store, and move Move the QuantStudio 6 or 7 Flex System ™ How to handle the To prevent damaging or contaminating the sample block or the heated cover, handle the assemblies as shown below. After you remove each assembly from the sample block and ™...

  • Page 128: Move The Quantstudio ™ 6 Or 7 Flex System

    Appendix D Power on or off, store, and move Move the QuantStudio 6 or 7 Flex System ™ d. Package the sample block and heated cover assemblies in a clean, dust-free container. Move the ™ Move the QuantStudio 6 or 7 Flex System according to the following guidelines: QuantStudio ™...
  • Page 129 Appendix D Power on or off, store, and move Move the QuantStudio 6 or 7 Flex System ™ b. Background c. Uniformity d. Dye e. Normalization (TaqMan ® Array Card block only) QuantStudio 6 and 7 Flex Real-Time PCR Systems v1.6 Maintenance and Administration Guide ™...

  • Page 130: Appendix E Security, Audit, And Electronic Signature

    Security, audit, and electronic signature ■ Administrator overview ..........130 ■...

  • Page 131: Example Applications

    Appendix E Security, audit, and electronic signature Configure the security system • Electronic signature (e-sig)—Determines if users are required to provide a user name and password when performing certain functions. You can configure e-sig so that a user can print a report or start a run only if the associated data are signed.

  • Page 132: Set Account Setup And Security Policies

    Appendix E Security, audit, and electronic signature Configure the security system Set account setup Note: Security policies apply to all user accounts. and security 1. In the QuantStudio ™ Real-Time PCR Software, select Tools4Security4Settings. policies 2. In Account Setup, specify User Name limits. IMPORTANT! The software allows spaces in user names.
  • Page 133 Appendix E Security, audit, and electronic signature Configure the security system 3. Select the events for notification: • System security enabled or disabled—Security has been enabled or disabled. • User did not enter correct password—A user attempts to log in with an incorrect password.

  • Page 134: User Account Management

    Appendix E Security, audit, and electronic signature User account management User account management Create or edit The software includes a default Administrator user account with permissions (defined by the account user role) to perform all functions in the software. You cannot modify user accounts this account.

  • Page 135: Determine The Name Of The Logged-In User

    Appendix E Security, audit, and electronic signature User account management To… Action 1. In the Users screen, select the affected user account, then click Edit. 2. Enter a replacement password for the user, then re-enter the password for confirmation. Reset a forgotten password 3.
  • Page 136 Appendix E Security, audit, and electronic signature User account management Permissions and default user roles Note: To determine the permissions for a default role or to edit it, select the role, then click Edit. The following table shows all user-configurable permissions and the settings for the default user accounts.

  • Page 137: View Or Print A User Report

    Appendix E Security, audit, and electronic signature User account management Permissions Default user roles Category Function Scientist Technologist Administrator Study Remove experiments from study Preferences Edit the system preferences Calibrations Perform calibrations RNaseP Perform an RNase P run Instrument Add and remove instruments from Configuration monitoring Instrument...

  • Page 138: Audit Trail Management

    Appendix E Security, audit, and electronic signature Audit trail management 5. Click (Print) to print the report, or click (Save) to save the report electronically (PDF). 6. Close the report. Audit trail management Access the audit Use the Audit screen to control the auditing state (disabled or enabled), the events that are audited, and the reasons available to users when audit mode is set to Prompt screen and enable or Required.

  • Page 139: Modify The Auditing Settings

    Appendix E Security, audit, and electronic signature Audit report generation Modify the To… Action auditing settings 1. In the Audit Settings group of the Audit tab, select the objects to audit and the mode for each enabled item (Experiments, Experiment Templates, or Study). 2.
  • Page 140 Appendix E Security, audit, and electronic signature Audit report generation From the Audit Reports dialog box, you can perform the actions in the following table: To… Action 1. Select a tab to display: • System Configuration History—Security, audit, and electronic signature configuration records, including audit history for each user account.
  • Page 141 Appendix E Security, audit, and electronic signature Audit report generation To… Action The audit archive function makes a copy of audit records. Purge makes a copy of audit records, and then deletes them. You can use the Restore function to restore purged audit records.

  • Page 142: Viewing Audit Histories From An Experiment, Template, Or Study

    Appendix E Security, audit, and electronic signature Audit report generation Record type Action Corresponds to… Create Create new user account User Account Update Edit or suspend a user account Delete Assign a different user role to an existing user account Role Assignment Create a user account, or assign a different user role to an Update...

  • Page 143: Manage Electronic Signature

    Appendix E Security, audit, and electronic signature Manage electronic signature From the Audit Records screen of the open file, you can perform the actions in the following table: To… Action (Optional) Filter the table. 1. Check the Filter by check box. 2.

  • Page 144: Configure The Meanings Of The Electronic Signatures

    Appendix E Security, audit, and electronic signature Manage electronic signature 3. Select or deselect Enable e-Signature. IMPORTANT! Enabling the electronic signature feature can substantially increase the size of experiment, template, and study files. IMPORTANT! If you disable security, you inactivate audit and electronic signature functions.

  • Page 145: Select The Actions That Require Signature

    Appendix E Security, audit, and electronic signature Manage electronic signature Select the actions IMPORTANT! Do not change electronic signature settings during calibration. that require signature 1. In the Signature Required column, select the check box next to each action for which you want to require electronic signatures (see Figure 8 on page 145).

  • Page 146: How The Software Prompts Electronic Signature

    Appendix E Security, audit, and electronic signature Generate e-signature reports How the software If the system is configured to check for a signature before starting a run or printing a ™ report and the data are not signed, the QuantStudio Real-Time PCR Software prompts displays a message when the user clicks Start Run or Print Report.
  • Page 147 Appendix E Security, audit, and electronic signature Generate e-signature reports Task Description Save or print e-sig 1. In the QuantStudio ™ Real‑Time PCR Software, open an records experiment or template file. 2. From the open experiment, click Audit then click E- Signatures.

  • Page 148: Export And Import User, Security, Audit, And E-Signature Settings

    Appendix E Security, audit, and electronic signature Export and import user, security, audit, and e-signature settings Export and import user, security, audit, and e-signature settings Note: The export/import feature can be used to replicate identical security, audit, and e-signature settings across multiple computers. The feature allows you to create a ™...

  • Page 149: Account Suspension

    Appendix E Security, audit, and electronic signature User overview Account If the QuantStudio ™ Real-Time PCR Software is configured to suspend a user account for failed logins, and if you repeatedly enter an incorrect user name and/or password, suspension your user account is suspended, and the Log In dialog box indicates that your account is inactive.
  • Page 150 Appendix E Security, audit, and electronic signature User overview Task Description Perform an If your system is configured for electronic signature, you may be electronic signature required to have the experiment signed by other users before you can print a report or start a run. If an item is set to require multiple signatures, all approvers must sign the associated data before the action can be completed.

  • Page 151: Appendix F Calibration Consumable Preparation

    Calibration consumable preparation ■ Create a background plate or array card ....... . 151 ■...

  • Page 152: Create A Background Plate

    Appendix F Calibration consumable preparation Create a background plate or array card Create a IMPORTANT! Wear powder-free gloves while creating the background plate. background plate 1. Remove a MicroAmp ™ 96/384-Well Optical Reaction Plate from its box and place it on a clean, dry surface. 2.

  • Page 153: Create A Custom Dye Plate For Calibration

    Appendix F Calibration consumable preparation Create a custom dye plate for calibration d. Dispense the fluid so that it sweeps in and around the fill reservoir toward the vent port. When pipetting the reagents into the array card, pipet the entire 100-µL volume into the fill reservoir, but do not go past the first stop of pipettor plunger or...
  • Page 154 Appendix F Calibration consumable preparation Create a custom dye plate for calibration c. Load the prepared reaction plate. 2. Start the calibration wizard: a. In the Home screen of the QuantStudio ™ Real-Time PCR Software, click Instrument Console. b. In the Instrument Console, select your system, then click Add to My Instruments.

  • Page 155: Create A Custom Dye Plate

    Appendix F Calibration consumable preparation Create a custom dye plate for calibration Create a custom IMPORTANT! Wear powder-free gloves while creating the dye plate. dye plate 1. Prepare 2 mL of the custom dye at the concentration determined in “Determine optimum dye concentration“...
  • Page 156 Appendix F Calibration consumable preparation Create a custom dye plate for calibration c. Complete the New Dye dialog box, then click OK. Field/option Action Name Enter a name for the custom dye. Wavelength Enter the wavelength at which the dye fluoresces. Select: •...
  • Page 157 Appendix F Calibration consumable preparation Create a custom dye plate for calibration b. Enter any comments you have in the Comments field, click Finish, then click Yes when prompted to save the calibration results. Failed—Create another custom dye plate using the next dye concentration greater than the concentration determined in “Determine optimum dye concentration“...

  • Page 158: Appendix G Parts And Materials

    Parts and materials ■ How to order ............158 ■...

  • Page 159: Kits, Consumables, And Accessories

    Appendix G Parts and materials Kits, consumables, and accessories 2. Check that the Experiment Shopping List contains the desired materials, other than the assay selected in the previous step, and that the quantities are correct, then click Order Materials in List. 3.

  • Page 160: Standard 96-Well Consumables

    Appendix G Parts and materials Kits, consumables, and accessories Standard 96-well consumables Shelf life at Consumable Cat. No. Storage storage temperature QuantStudio ™ 3/5 10‑Dye Spectral Calibration Kit, 96‑Well 0.2‑mL A26343 (Contains all 3 spectral calibration plates listed below) QuantStudio ™...

  • Page 161: 384-Well Consumables

    Appendix G Parts and materials Kits, consumables, and accessories 384-well consumables Shelf life at Consumable Cat. No. Storage storage temperature QuantStudio ™ 5 10-Dye Spectral Calibration Kit, 384-well A26341 (Contains the 2 spectral calibration plates listed below) QuantStudio ™ 5 Spectral Calibration Plate 1, A26334 Use the (FAM...

  • Page 162: Quantstudio ™ 6 And 7 Flex Systems Accessories

    Appendix G Parts and materials Kits, consumables, and accessories Note: The Array Card block consumables are applicable only to the QuantStudio ™ Flex System. QuantStudio ™ Accessory Cat. No. and 7 Flex 384-Well Plate/Array Card Heated Cover 4454163 Systems accessories 384-Well Plate Sample Block 4454165 96-Well Plate Heated Cover...

  • Page 163: General-Use Materials And Consumables

    Appendix G Parts and materials General-use materials and consumables General-use materials and consumables The following general-use materials and consumables are required to calibrate, ™ maintain, and operate the QuantStudio 6 and 7 Flex Systems. MLS: Fisher Scientific (fisherscientific.com) or other major laboratory supplier. Material/consumable Source Bleach, 10% solution...

  • Page 164: Appendix H Instrument Specification And Layout

    Instrument specification and layout ■ ™ QuantStudio 6 and 7 Flex Systems specifications ..... . . 164 ■ ™ QuantStudio 6 and 7 Flex Systems layout and connections .

  • Page 165: Required Clearances

    Appendix H Instrument specification and layout QuantStudio 6 and 7 Flex Systems specifications ™ Required The QuantStudio ™ 6 and 7 Flex Systems require the following additional clearances: clearances Component Front Sides Back 30.5 cm 51.0 cm Instrument 122 cm (48.0 in.) 15.2 cm (6.0 in.) (12.0 in.) (20.0 in.)

  • Page 166: Environmental Requirements

    Appendix H Instrument specification and layout QuantStudio 6 and 7 Flex Systems specifications ™ The following table provides electrical specifications for the instrument and associated devices. For all indicated input voltages, a 15 A circuit is required. Rated Device Rated current Rated power Rated voltage frequency...

  • Page 167: Network Requirements

    Appendix H Instrument specification and layout QuantStudio 6 and 7 Flex Systems layout and connections ™ Network The computer is factory-configured for the TCP/IP protocol. The product includes a fast Ethernet adapter (10/100 Mbps) with an RJ45-type connector and one 3-m (9.8-ft) requirements crossover Ethernet cable that connects the computer and the instrument.
  • Page 168 Appendix H Instrument specification and layout QuantStudio 6 and 7 Flex Systems layout and connections ™ Connection Description ™ Supply power to the computer and the QuantStudio 6 and 7 Power cables Flex Systems. Connects the QuantStudio ™ 6 and 7 Flex Systems (Ethernet LAN connection or port) to the Ethernet port on the network interface card in the Ethernet cable...

  • Page 169: Symbols On This Instrument

    Safety ■ Symbols on this instrument ......... . . 169 ■...

  • Page 170: Standard Safety Symbols

    Appendix I Safety Symbols on this instrument Standard safety Symbol and description symbols CAUTION! Risk of danger. Consult the manual for further safety information. CAUTION! Risk of electrical shock. CAUTION! Hot surface. CAUTION! Potential biohazard. CAUTION! Ultraviolet light. Symbole et description MISE EN GARDE ! Risque de danger.

  • Page 171: Additional Safety Symbols

    Appendix I Safety Symbols on this instrument Additional safety Symbol and description symbols CAUTION! Laser radiation CAUTION! Moving parts. CAUTION! Potential slipping hazard. Symbole et description MISE EN GARDE ! Laser radiation MISE EN GARDE ! Parties mobiles. MISE EN GARDE ! Danger de glisser potentiel. QuantStudio 6 and 7 Flex Real-Time PCR Systems v1.6 Maintenance and Administration Guide ™...

  • Page 172: Location Of Safety Labels

    Appendix I Safety Symbols on this instrument Location of safety Label and location labels E th e rn E th e rn Control and Symbols and connection descriptions symbols On (Power) Off (Power) QuantStudio 6 and 7 Flex Real-Time PCR Systems v1.6 Maintenance and Administration Guide ™...

  • Page 173: Conformity Symbols

    Appendix I Safety Symbols on this instrument Symbols and descriptions On/Off Standby Earth (ground) terminal Protective conductor terminal (main ground) Alternating current Both direct and alternating current Conformity Conformity mark Description symbols Indicates conformity with safety requirements for Canada and U.S.A. Indicates conformity with European Union requirements for safety and electromagnetic compatibility.

  • Page 174: Safety Information For Instruments Not Manufactured By Thermo Fisher Scientific

    Appendix I Safety Safety information for instruments not manufactured by Thermo Fisher Scientific Safety information for instruments not manufactured by Thermo Fisher Scientific Some of the accessories provided as part of the instrument system are not designed or built by Thermo Fisher Scientific. Consult the manufacturer's documentation for the information needed for the safe use of these products.

  • Page 175: Electrical Safety

    Appendix I Safety Instrument safety Electrical safety WARNING! Fuse Installation. Before installing the instrument, verify that the fuses are properly installed and the fuse voltage matches the supply voltage. Replace fuses only with the type and rating specified for the unit. Improper fuses can damage the instrument wiring system and cause a fire.

  • Page 176: Cleaning And Decontamination

    Appendix I Safety Laser safety—barcode scanner Cleaning and CAUTION! Cleaning and Decontamination. Use only the cleaning and decontamination decontamination methods that are specified in the manufacturer user documentation. It is the responsibility of the operator (or other responsible person) to ensure that the following requirements are met: ·...

  • Page 177: Workstation Safety

    Appendix I Safety Workstation safety The following table lists laser safety symbols and alerts that may be present on the instrument. Alert CAUTION! LASER HAZARD, Bar Code Scanner. The bar code scanner included with the instrument system is a Class 2 laser. To avoid damage to eyes, do not stare directly into the beam or point into another person's eyes.

  • Page 178: Safety Standards

    Appendix I Safety Safety and electromagnetic compatibility (EMC) standards Safety standards Reference Description EU Directive 2014/35/EU European Union “Low Voltage Directive” Safety requirements for electrical equipment for measurement, control, and laboratory IEC 61010-1 use – Part 1: General requirements EN 61010-1 UL 61010-1 CAN/CSA C22.2 No.

  • Page 179: Chemical Safety

    Appendix I Safety Chemical safety Chemical safety WARNING! GENERAL CHEMICAL HANDLING. To minimize hazards, ensure laboratory personnel read and practice the general safety guidelines for chemical usage, storage, and waste provided below. Consult the relevant SDS for specific precautions and instructions: ·...
  • Page 180 Appendix I Safety Chemical safety · Vérifier régulièrement l’absence de fuite ou d’écoulement des produits chimiques. En cas de fuite ou d’écoulement d’un produit, respecter les directives de nettoyage du fabricant recommandées dans la FDS. · Manipuler les déchets chimiques dans une sorbonne. ·...

  • Page 181: Biological Hazard Safety

    Appendix I Safety Biological hazard safety Biological hazard safety WARNING! Potential Biohazard. Depending on the samples used on this instrument, the surface may be considered a biohazard. Use appropriate decontamination methods when working with biohazards. WARNING! BIOHAZARD. Biological samples such as tissues, body fluids, infectious agents, and blood of humans and other animals have the potential to transmit infectious diseases.

  • Page 182: Appendix J Documentation And Support

    Documentation and support Related documentation Document Pub. No. QuantStudio 6 and 7 Flex Real-Time PCR Systems Site Preparation Guide ™ 4489824 QuantStudio 6 and 7 Flex Real-Time PCR System Software Getting Started Guide ™ 4489822 High Resolution Melt Module for QuantStudio ™...

  • Page 183: Limited Product Warranty

    Appendix J Documentation and support Limited product warranty Limited product warranty Life Technologies Corporation and/or its affiliate(s) warrant their products as set forth in the Life Technologies' General Terms and Conditions of Sale at www.thermofisher.com/us/en/home/global/terms-and-conditions.html. If you have any questions, please contact Life Technologies at www.thermofisher.com/support. QuantStudio 6 and 7 Flex Real-Time PCR Systems v1.6 Maintenance and Administration Guide ™...

  • Page 184: Glossary

    Glossary Glossary aligned melt curve Plot of the re-scaled melt curve. plot allele In a diploid organism, one of two DNA sequences found at the same locus (for example, a particular gene), but located on homologous chromosomes. Two corresponding alleles may have the identical sequence, or they may differ somewhat, often at one or more single-base sites (SNPs).
  • Page 185 Limited product warranty assay mix PCR reaction component in assays. The assay mix contains primers designed to amplify a target and a probe designed to detect amplification of the target. automatic An analysis setting in which the software calculates the baseline start and end cycles for the amplification plot.
  • Page 186 Limited product warranty cycling stage In the thermal profile, a stage that is repeated. A cycling stage is also called an amplification stage. See also “amplification stage“ on page 184. data collection During the instrument run, a process in which an instrument detects fluorescence data from each well of the plate or array card.
  • Page 187 Limited product warranty forward primer Oligonucleotide that flanks the 5′ end of the amplicon. The reverse primer and the forward primer are used together in PCR reactions to amplify the target. heterozygote Samples having both allele 1 and allele 2. holding stage In the thermal profile, the stage that holds the temperature constant for a defined period of time.
  • Page 188 Limited product warranty negative control- In presence/absence experiments, wells that contain IPC blocking agent instead of sample in the PCR reaction. No amplification should occur in negative control- blocked IPC wells blocked IPC wells because the reaction contains no sample and amplification of the IPC is blocked.
  • Page 189 Limited product warranty From the software, you can use the plate layout as a selection tool to assign well contents, to view well assignments, and to view results. The plate layout can be printed, included in a report, exported, and saved as a slide for a presentation. point One standard in a standard curve.
  • Page 190 Limited product warranty regression Values calculated from the regression line in standard curves, including the R value, slope, and y-intercept. You can use the regression coefficients to evaluate the quality coefficients of results from the standards. See also “standard curve“ on page 191. regression line In standard curve and relative standard curve experiments, the best-fit line from the standard curve.
  • Page 191 Limited product warranty sample definition A tab-delimited file (.txt) or Microsoft ™ Excel ™ file (.xls or .xlsx) that contains the sample name and custom sample properties for a single experiment. file security, auditing A separately licensed software module that provides: and e-signature •...
  • Page 192 Limited product warranty standard curve Method for determining absolute target quantity in samples. With the standard curve method, the software measures amplification of the target in samples and in a method standard dilution series. Data from the standard dilution series are used to generate the standard curve.
  • Page 193 Limited product warranty thermal profile Part of the run method that specifies the temperature, time, ramp, and data collection points for all steps and stages of the instrument run. experiment document file (.eds) The Thermo Fisher Scientific name for the electronic records that comprise all information about a particular plate or array card, including metadata (name, barcode, comments), plate setup (well contents, assay definitions), run method (thermal cycling protocol), run results, analysis protocol, analysis results, audit...
  • Page 194 thermofisher.com/support | thermofisher.com/askaquestion thermofisher.com 30 September 2019...

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