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Thermo Scientific Applied Biosystems QuantStudio 6 Pro, User Manual

The Thermo Scientific Applied Biosystems QuantStudio 6 Pro is a cutting-edge scientific instrument. It is essential to have the User Manual to fully utilize its features. Download the comprehensive and free User Manual from our website to maximize the potential of this exceptional product.

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For descriptions of symbols on product labels or product documents, go to 

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.

The information in this guide is subject to change without notice.

DISCLAIMER: TO THE EXTENT ALLOWED BY LAW, THERMO FISHER SCIENTIFIC INC. AND/OR ITS AFFILIATE(S) WILL NOT BE
LIABLE FOR SPECIAL, INCIDENTAL, INDIRECT, PUNITIVE, MULTIPLE, OR CONSEQUENTIAL DAMAGES IN CONNECTION WITH OR
ARISING FROM THIS DOCUMENT, INCLUDING YOUR USE OF IT.

Revision history

: 

Pub. No. MAN0018045

Revision

Date

Description

G.0

17 February 2021

v1.4.0
Updated centrifuges for the TaqMan

™

 Array Card.

F.0

6 November 2020

v1.4.0

•

Specified that the instrument and the desktop software must be connected to the same SAE server
for an account password to be updated on both applications.

•

Provided the option of a static IP address or a dynamic IP address to connect to the SAE server.

•

Corrected standards on 384-well RNase P plate (Figure 14

 on page 105

).

•

Added a TaqMan

™

 Array Card block, including system template file names, calibration workflow,

instructions to edit the plate file, and instructions to load and unload from the instrument
(QuantStudio

™

 7 Pro System only).

•

Added instructions to review the calibration status in the QuantStudio

™

 Design and Analysis

Software v2.

•

Added a peripheral self-test and updated the previous self-verification test to a hardware test.

•

Added instructions to upload a certificate for a TaqMan

™

 Array Plate with RFID.

•

Added the option of a voice recording for Smart Help.

•

Added remote support.

•

Updated the RFID labels (Figure 27

 on page 215

 and Figure 28

 on page 216

).

E.0

27 April 2020

v1.3.0

•

Added protein thermal shift experiments to the instrument functions.

•

Added a 96-well 0.1-mL block.

•

Updated instructions to export data files when setting up a run and added instructions to import or
delete export settings.

•

Updated instructions to save an edited run method.

•

Updated instructions to add or edit reagents and then to apply the reagents to the plate.

•

Updated instructions to view the amplification plot after a run.

•

Added instructions to view QC Check status after the run.

•

Added information about a locked template file.

•

Added functions for using the instrument with the SAE Administrator Console.

D.0

7 January 2020

v1.2.1

•

Added information about position to set up facial authentication and to sign in with facial
authentication.

•

Added instructions to test the connection to the Connect cloud-based platform and to view the
privacy policy for the Connect platform.

•

Added instructions to repair the software after a software update.

•

Changed port 7000 to 7443 for the instrument-to-computer connection.

•

Corrected C

t

 to C

q

 in description of instrument verification.

C.0

3 December 2019

v1.2.0

•

Added a 384-well plate block.

•

Updated instructions to set up facial authentication.

•

Added a new voice command for calibration.

•

Added custom melt curve run calibration.

Summary of Contents for Applied Biosystems QuantStudio 6 Pro

Page 1: ...For Research Use Only Not for use in diagnostic procedures QuantStudio 6 Pro Real Time PCR System and QuantStudio 7 Pro Real Time PCR System USER GUIDE Publication Number MAN0018045 Revision G 0 ...

Page 2: ...updated the previous self verification test to a hardware test Added instructions to upload a certificate for a TaqMan Array Plate with RFID Added the option of a voice recording for Smart Help Added remote support Updated the RFID labels Figure 27 on page 215 and Figure 28 on page 216 E 0 27 April 2020 v1 3 0 Added protein thermal shift experiments to the instrument functions Added a 96 well 0 1 ...

Page 3: ...tication Radio compliance standards and RF transceiver specifications Corrected the following items Indicators for voice commands Voice commands are only available in select countries Instructions to remove VeriFlex Zones and the Auto Delta setting Excitation and emission wavelengths of the filters in the calibration instructions Add a four digit PIN when signing into the instrument for the first ...

Page 4: ...ered trademark of GE Healthcare Amazon Alexa and all related logos are trademarks of Amazon com Inc or its affiliates Windows is a trademark of Microsoft Corporation Chrome is a trademark of Google LLC Pentium is a trademark of Intel Corporation or its subsidiaries in the U S and or other countries Macintosh is a trademark of Apple Inc registered in the U S and other countries 2021 Thermo Fisher S...

Page 5: ...free features 22 Facial authentication 22 Voice commands 22 Indicators for the hands free features 23 Software description 24 Parts of the home screen 24 Connect and Cloud definitions 26 Instrument desktop software and Connect platform features 26 Overview of file locations and files 27 Components of the files 30 Third party software 31 Network connection options 31 Types of runs 31 Standard curve...

Page 6: ...un a plate 47 Create and run a plate from a system template or a saved plate file 47 Repeat the last run 49 Overview of customized data export 50 Optional Scan a barcode using a barcode scanner 51 Load a plate into the instrument 51 Load a TaqMan Array Card into the instrument 52 Unload a plate or a TaqMan Array Card from the instrument 52 CHAPTER 4 Edit a plate before starting a run 54 Overview o...

Page 7: ...Pause an instrument run 72 Stop an instrument run 72 View the method during a run 73 View real time data and plots during a run 73 Adjust the display of real time plots during a run 74 View the time remaining during a run 74 Lock the touchscreen during a run 74 Unlock the touchscreen during a run 75 Instrument Schedule 75 Overview of the instrument schedule 75 Schedule a run 75 Cancel a scheduled ...

Page 8: ...y background dye and normalization calibrations for the TaqMan Array Card block 97 Calibration workflow 97 Prepare a calibration TaqMan Array Card 98 Perform calibrations 100 View the calibration images 101 Troubleshoot normalization calibration failure 102 Perform verification using RNase P plates 103 Instrument verification description 104 RNase P instrument verification plate 104 Performance sp...

Page 9: ...nstrument profile 133 Change the PIN for a Connect profile 133 Manage all instrument profiles as an administrator 133 View all instrument profiles 133 Reset the PIN for a profile 134 Add a profile 134 Enable or disable administrator privileges 135 Delete a profile 135 CHAPTER 9 Use the instrument with the Security Auditing and E signature SAE v2 0 module 136 Overview of the Security Auditing and E...

Page 10: ...quirements to start a run 154 Signing in after automatic screen locking 155 SAE error messages and actions 155 CHAPTER 10 Maintain the instrument 156 Install a block 156 Change the block 157 Remove the block 158 Decontaminate the sample block 159 Materials required 159 Clean the sample block 159 Detailed procedures for cleaning the sample block 160 Replace the instrument fuses 161 Materials requir...

Page 11: ... instrument statistics 179 Enable or disable remote monitoring 180 Update the software 180 Repair the software 181 Back up the instrument 181 Restore a backup of the instrument 182 Upload a certificate for a TaqMan Array Plate with RFID 182 Overview of an instrument reset restore factory default 183 Reset the instrument restore factory default 183 Request remote support 183 Configure the instrumen...

Page 12: ...ces 200 Firewall ports that must be open 200 Ethernet port overview 201 Third party software 201 APPENDIX C Detailed procedures for preparation of a TaqMan Array Card 202 Guidelines for preparation of a card 202 TaqMan Array Card diagram 203 Load the PCR reaction mix 204 Centrifuge the card 204 Seal the card 206 APPENDIX D Parts and materials 209 Kits consumables accessories and reagents 209 96 we...

Page 13: ...disposal 224 Safety and electromagnetic compatibility EMC standards 224 Safety standards 225 EMC standards 225 Environmental design standards 226 Radio compliance standards 226 RF transceiver specifications 228 Chemical safety 229 Biological hazard safety 231 APPENDIX F Documentation and support 232 Related documentation 232 Customer and technical support 233 Limited product warranty 233 Index 234...

Page 14: ...s are connected to the software it is the responsibility of your IT personnel to ensure that such drives are configured and secured correctly to prevent data corruption or loss It is the responsibility of your facility administrator IT and security personnel to prevent the use of any unsecured ports such as USB Ethernet and ensure that the system security is maintained Password security Thermo Fis...

Page 15: ...ngeable block The following blocks are available 96 well 0 2 mL block 96 well 0 1 mL block 384 well block TaqMan Array Card block QuantStudio 7 Pro System only The instrument can be used directly from the touchscreen to create and start runs To design runs or to analyze data the instrument can be integrated with the desktop software or the Connect platform Each instrument has the following feature...

Page 16: ...y six color filter set For more information about available spectral dye calibration kits contact Support Peak filter Color Filter wavelength nm 1 System dyes Example custom dyes Excitation Emission x1 m1 Blue 470 15 520 15 FAM dye SYBR GREEN dye SYT09 x2 m2 Green 520 10 558 11 VIC dye JOE dye HEX dye TET dye 2 x3 m3 Yellow 550 11 586 10 NED dye TAMRA dye ABY dye Cy 3 dye x4 m4 Orange 580 10 623 1...

Page 17: ... use a custom dye on the instrument review the following requirements Calibrate the instrument for the custom dye see Calibrate custom dyes on page 113 Ensure that the custom dye excites between 455 672 nm and emits between 505 723 nm Select a custom dye that does not overlap with other dyes used in the run see System dyes on page 16 The custom dye for use in calibration must be attached to the 5 ...

Page 18: ...rmal cycling protocol Collecting data during the run can confirm genotyping results by viewing traces in allelic discrimination plots or viewing genotyping calls at earlier cycles VeriFlex Zones VeriFlex Zones provide independent temperature zones that offer enhanced functionality and precise control over your real time PCR runs The independent zones are ideal for real time PCR optimization They a...

Page 19: ...files on page 29 AutoDelta settings AutoDelta enables an incremental increase or decrease in the temperature or time in a PCR cycle To use AutoDelta specify a difference in the time and the temperature Specify the PCR cycle for this change to be applied Chapter 1 Product information Instrument hardware description 1 QuantStudio 6 Pro Real Time PCR System and QuantStudio 7 Pro Real Time PCR System ...

Page 20: ...2 Touchscreen 3 Microphones 4 USB port 5 Indicator light 6 Proximity sensor 7 Access door for block change 8 Speakers 9 Drawer Chapter 1 Product information Instrument hardware description 1 20 QuantStudio 6 Pro Real Time PCR System and QuantStudio 7 Pro Real Time PCR System User Guide ...

Page 21: ...e Note The instrument recognizes only one external storage device at a time for data transfer The USB ports at the rear of the instrument can be used for external devices for example a mouse or a keyboard Chapter 1 Product information Instrument hardware description 1 QuantStudio 6 Pro Real Time PCR System and QuantStudio 7 Pro Real Time PCR System User Guide 21 ...

Page 22: ...free facial authentication to sign in a user The instrument camera detects a face The instrument will sign in the user after the face is matched to the photo associated with a profile Voice commands The instrument recognizes a set of commands for hands free operation For list of supported voice commands see Use voice commands on page 45 Voice commands are only available when a user is signed in wi...

Page 23: ...d by the user and the proximity sensor does not detect a person The icon will return to a red state when the proximity sensor detects a person Amber The instrument is preparing to accept voice commands Note The amber display is an intermediate state and will only appear for several seconds Blue The voice command function is available if all of these conditions are true The voice command function f...

Page 24: ...screen Function Instrument name Set by the administrator to identify the instrument Calendar Schedule time for a run or see runs that are scheduled Microphone Shows the status of the microphone see Indicators for voice commands on page 23 and Enable or disable the microphone on page 44 Help Access the Help Eject Open or close the drawer to insert or remove a plate or a TaqMan Array Card Chapter 1 ...

Page 25: ...relessly connected The instrument is connected to a wired network A USB drive is plugged into the instrument The instrument is connected to a network drive The instrument is connected to a Connect account Buttons to access plate files 1 Access a plate file to edit it or start a run Set up run Open a system template or a saved plate file Load plate file Open a system template or a saved plate file ...

Page 26: ...Connect Use as guest no sign in Schedule a run Open system templates Open system templates edit them and save them as plate files Open plate files created on the desktop software Open plate files created on the Connect platform Open plate file created on the instrument Send plate files to the instrument run queue Access the plate file associated with last run on the instrument Load plate in instru...

Page 27: ...Plate files can be retrieved from a Connect profile Data files can be saved to a Connect profile You must have a Connect profile Network drive Plate files can be retrieved from a network drive Data files can be saved to a network drive The instrument must be connected to a network or a computer USB drive Plate files can be retrieved from a USB drive Data files can be saved to a USB drive A USB dri...

Page 28: ...ontains the thermal protocol for the real time PCR Does not contain the sample information Does not contain the target information Sample information and target information must be added saved as a separate plate file The sample information and target information can be added on the desktop software or on the Connect platform after the run is complete Instrument Desktop Connect Plate File From Loa...

Page 29: ...or the last run were added on the desktop software or on Connect after the run was complete they will not be included on the plate file that is on the instrument Instrument Data file Contains the real time PCR data Can be viewed on the instrument only immediately after the run is complete Transfer to Connect or to the desktop software to view and analyze data Instrument limited Desktop Connect Com...

Page 30: ...Flex Zones Auto Delta settings Thermal cycling conditions Plate Sample names Targets SNP assays Define and assign samples targets or SNP assays and tasks in the Plate setup screen Run Monitor a run in progress View time remaining temperature method and amplification plots Pause resume or stop a run Monitor a run in progress View time remaining Monitor a run in progress link to Connect Instrument D...

Page 31: ...ction Local area network LAN connection Connect platform connection wired wired or wireless wired or wireless Types of runs Standard curve run A standard curve run determines the absolute target quantity in samples 1 The software measures amplification of the target in a standard dilution series and in test samples 2 The software generates a standard curve using data from the standard dilution ser...

Page 32: ...quantity 4 To determine the relative quantity of the target in test samples the software divides the normalized target quantity in the sample by the normalized target quantity in the reference sample Comparative Ct DDCt run A comparative Ct DDCt run determines the relative target quantity in samples 1 The software measures amplification of the target of interest and of an endogenous control target...

Page 33: ...to the samples of each cluster according to its position on the plot Presence absence run Presence absence run determines the presence or absence of a target nucleic acid sequence in a sample The software calls the target present or absent based on an algorithmically determined call threshold The call threshold is different from the Ct threshold the Ct threshold is not used to make calls Melt curv...

Page 34: ...ng mode QS7Pro 96 Well 0 2ml_Melt_Std edt Melt curve run no PCR stage 96 well 0 2 mL Standard plate Standard cycling mode QS7Pro 96 Well 0 2ml_PA_Fast edt Presence absence run 96 well 0 2 mL Standard plate Fast cycling mode QS7Pro 96 Well 0 2ml_PA_Std edt Presence absence run 96 well 0 2 mL Standard plate Standard cycling mode QS7Pro 96 Well 0 2ml_PCR_Melt_Fast edt Melt curve run with PCR stage 96...

Page 35: ...run 96 well 0 2 mL Standard plate Standard cycling mode System template file names for the 96 well 0 1 mL block System template name Run type QS7Pro 96 Well 0 1ml_GT_Fast edt Genotyping run 96 well 0 1 mL Standard plate Fast cycling mode QS7Pro 96 Well 0 1ml_GT_Std edt Genotyping run 96 well 0 1 mL Standard plate Standard cycling mode QS7Pro 96 Well 0 1ml_Melt_Fast edt Melt curve run no PCR stage ...

Page 36: ...run 96 well 0 1 mL Standard plate Fast cycling mode QS7Pro 96 Well 0 1ml_RQ_Std edt Comparative Ct run 96 well 0 1 mL Standard plate Standard cycling mode QS7Pro 96 Well 0 1ml_RSC_Fast edt Relative standard curve run 96 well 0 1 mL Standard plate Fast cycling mode QS7Pro 96 Well 0 1ml_RSC_Std edt Relative standard curve run 96 well 0 1 mL Standard plate Standard cycling mode QS7Pro 96 Well 0 1ml_S...

Page 37: ...esence absence run 384 well plate Fast cycling mode QS7Pro 384 Well PA Std edt Presence absence run 384 well plate Standard cycling mode QS7Pro 384 Well PCR Melt Fast edt Melt curve run with PCR stage 384 well plate Fast cycling mode QS7Pro 384 Well PCR Melt Std edt Melt curve run with PCR stage 384 well plate Standard cycling mode QS7Pro 384 Well RQ Fast edt Comparative Ct run 384 well plate Fast...

Page 38: ...e TaqMan Array Card is only available for the QuantStudio 7 Pro System System template name Run type QS7Pro TAC PA Fast edt Presence absence run TaqMan Array Card Fast cycling mode QS7Pro TAC PA Std edt Presence absence run TaqMan Array Card Standard cycling mode QS7Pro TAC RQ Fast edt Comparative Ct run TaqMan Array Card Fast cycling mode QS7Pro TAC RQ Std edt Comparative Ct run TaqMan Array Card...

Page 39: ...t Std edt Comparative Ct run with melt curve TaqMan Array Card Standard cycling mode QS7Pro TAC SC Melt Fast edt Standard curve run with melt curve TaqMan Array Card Fast cycling mode QS7Pro TAC SC Melt Std edt Standard curve run with melt curve TaqMan Array Card Standard cycling mode Chapter 1 Product information System template file names 1 QuantStudio 6 Pro Real Time PCR System and QuantStudio ...

Page 40: ...trument Start the run Unload the plate from the instrument Optional Transfer the data file A location to transfer the data file might have been selected before the run The data file only needs to be transferred manually after the run in order to transfer to a new location Chapter 1 Product information Workflow 1 40 QuantStudio 6 Pro Real Time PCR System and QuantStudio 7 Pro Real Time PCR System U...

Page 41: ...n against the risk of fire replace fuses only with listed and certified fuses of the same type and rating as those currently in the instrument CAUTION PHYSICAL INJURY HAZARD During instrument operation the sample block temperature can reach 100 C Allow it to cool to room temperature before handling CAUTION Before using a cleaning or decontamination method other than those recommended by Thermo Fis...

Page 42: ...e following limits are in place if you do not sign in to the instrument All actions are recorded to the guest profile You have access only to the public folder for selecting and storing experiments You cannot transfer data files to Connect Data files can only be transferred to a USB drive or a network drive The instrument can be configured so that guest access is not permitted see Require sign in ...

Page 43: ... OFF switch Note The length of time that the instrument is inactive before going into sleep mode can be customized see Enable and edit sleep mode on page 163 Sign in Sign in with a PIN Create an instrument profile before signing into the instrument see Create a new local instrument profile on page 127 and Link the instrument to your Connect account on page 126 1 In the Sign In screen tap the PIN f...

Page 44: ... in as when you took the photos to set up facial authentication 2 Wait while the instrument searches for a match with the photos associated with profiles 3 Optional Reposition yourself if the instrument indicates that the face is out of position Ensure that you are centered in front of the instrument Move away from the instrument and towards the instrument to find the correct position The user is ...

Page 45: ...Voice command Instrument audio output Instrument action Home The home screen is displayed Open door Instrument drawer opens Shut door Instrument drawer closes Begin Run Are you sure you want to start the run Yes or no If yes the instrument starts the run If no the Plate properties screen is displayed End run Are you sure you want to stop the run Yes or no If yes the instrument stops the run and di...

Page 46: ...ap Profile 2 Tap Sign out then tap Yes to confirm You are signed out and the Sign In screen is displayed Chapter 2 Get started Sign out 2 46 QuantStudio 6 Pro Real Time PCR System and QuantStudio 7 Pro Real Time PCR System User Guide ...

Page 47: ...e It can be edited and saved as a new custom plate file Plate files can be edited in Connect or the desktop software The Run Queue folder contains plate files sent to the instrument from the desktop software 1 In the home screen tap one of the following options Load plate file Set up run 2 Tap the location of the system template or the plate file in the left column Run Queue Public My Instrument N...

Page 48: ...elected to save the data file is interrupted the instrument completes the run The data file is saved on the instrument The data file must be transferred to another location manually see Transfer data files at a later time on page 81 7 Optional Select the Export run results with checkbox For more information about this setting see Overview of customized data export on page 50 To import a different ...

Page 49: ...lt file name see Manage the file name convention of the data file on page 185 3 Optional Use the barcode scanner See Optional Scan a barcode using a barcode scanner on page 51 4 Tap the location to send the data Connect platform Note You must be signed in with a Connect profile USB drive Network drive This instrument Note This option is not available if you are using the instrument as a guest You ...

Page 50: ...l is displayed The status dial contains the following information The block temperature The elapsed time of the run The status of the run See Figure 7 on page 49 For options during a run see Chapter 5 Options for a run Overview of customized data export The instrument can perform the primary analysis and the secondary analysis of the data then export the results The instrument has a default export...

Page 51: ...uivalent of the barcode to the Barcode field Transmits other reagent information For more information about the hand held barcode scanner see the user documentation provided with the barcode scanner Load a plate into the instrument IMPORTANT The instrument should be used by trained operators who have been warned of the moving parts hazard CAUTION Use flat caps for 0 2 mL tubes and 0 1 mL tubes Rou...

Page 52: ... the guides for the position of the array card 3 Tap Eject to close the drawer Unload a plate or a TaqMan Array Card from the instrument CAUTION PHYSICAL INJURY HAZARD During instrument operation the plate temperature can reach 100 C Allow it to cool to room temperature before handling CAUTION PHYSICAL INJURY HAZARD During instrument operation the TaqMan Array Card temperature can reach 100 C Allo...

Page 53: ...en the instrument drawer then remove the plate 2 Tap Eject to close the instrument drawer For information on plate disposal see Chemical safety on page 229 and Biological hazard safety on page 231 Chapter 3 Create and run plates on the instrument Unload a plate or a TaqMan Array Card from the instrument 3 QuantStudio 6 Pro Real Time PCR System and QuantStudio 7 Pro Real Time PCR System User Guide ...

Page 54: ...ricted editing only certain parts of the template file can be edited The parts of the template file that cannot be edited are defined by the user in QuantStudio Design and Analysis Software v2 A user cannot set up the restricted editing properties on the instrument If a template file has restricted editing it is noted in the following locations The top of the screen Under the Data file properties ...

Page 55: ...ort sample setup 2 In the Import Sample Setup screen tap the appropriate folder then tap the appropriate file Import an auto export setting The export settings can be customized For more information about the export settings see Overview of customized data export on page 50 The export settings file is in a JSON file format The export settings must be customized in the QuantStudio Design and Analys...

Page 56: ... file associated with the last run see Repeat the last run on page 49 The following items can be edited in the Methods tab Time and temperature for each PCR step see page 57 Cover temperature and volume see page 57 Number of cycles see page 57 Steps see page 58 Stages see page 58 Data collection points see page 58 VeriFlex Zones see page 59 Auto Delta see page 61 Ramp rates see page 62 Pauses see ...

Page 57: ...Tap a field then enter the changes Cover temperature Volume Temperature for any steps Time for any steps Number of PCR cycles 3 Tap Save 4 Enter a name for the plate file then tap Done 5 In the Save Template screen select a storage location for the plate file then tap Done A confirmation is displayed 6 Tap Close Chapter 4 Edit a plate before starting a run Options to edit the method of a plate fil...

Page 58: ...e Use or to navigate through the method if it is not all displayed 2 Tap Add Stage then tap Add in the location of the stage to be added 3 Tap the type of stage Hold Pre Read Post Read Infinite PCR Melt Curve The new stage is added The time and temperature must be edited as part of the method see Edit the method on page 57 4 Tap Remove stage then tap Remove 5 Tap Done Add or remove data collection...

Page 59: ...tem has six VeriFlex Zones Note For more information about compatibility of plate files with VeriFlex Zones between the two instruments see VeriFlex Zones on page 18 1 In the Method tab tap Edit4Advanced4 VeriFlex Zones Auto Delta Note Use or to navigate through the method if it is not all displayed Note The PCR stage provides the option of VeriFlex Zones or the Auto Delta feature Ensure that the ...

Page 60: ...th a icon 5 In the Method tab tap 4Remove4Done to remove the VeriFlex Zones Note The VeriFlex Zones setting is removed from the Method tab 1 2 1 Indicates that this is the Method tab where the VeriFlex Zones settings can be removed 2 Indicates that VeriFlex Zones are assigned Tap to remove the VeriFlex Zones Chapter 4 Edit a plate before starting a run Options to edit the method of a plate file 4 ...

Page 61: ...n the temperature 6 Set the Delta time slider to the position or the position then enter the numerical value for the difference in the time 7 Tap Done A PCR step with an Auto Delta setting applied to it is denoted with an 8 In the Method tab tap 4Remove4Done to remove the Auto Delta setting Note The Auto Delta setting is removed from the Method tab 1 2 1 Indicates that this is the Method tab where...

Page 62: ...temperature and the cycle A pause in the thermal cycling protocol is denoted with a The cycle of the pause and the temperature of the pause are also denoted 4 Tap Pause to remove the pause 5 Tap Done Options to edit the well details of a plate file The following files can be edited A system template see page 47 A system template that is edited must be saved as a plate file A system template cannot...

Page 63: ...to view a plate layout The following views are available for a plate layout Plate view Shows each well on the plate Tap to provide information about the sample name sample type target name reporter dye or quencher dye An individual well Multiple wells tap each individual well A row tap the letter A column tap the number Tap Select all to select all of the wells in the plate Well table view Shows t...

Page 64: ...e plate 1 In the region of the 384 well plate that you want to zoom in on pinch outwards with two fingers 2 Optional To change the region that you are zoomed in on use two fingers to drag the plate in the appropriate direction The 384 well plate can zoom in on any 96 well section It is not limited to specific 96 well quadrants Chapter 4 Edit a plate before starting a run Options to edit the well d...

Page 65: ...ts cannot be edited on the instrument touchscreen 1 Figure 9 Plate tab for a TaqMan Array Card 1 Port Assign or edit a well for a plate A target or an assay must be defined see Add a target or an assay on page 66 A sample setup file can be imported instead of assigning or editing a well manually see Import a sample setup on page 55 1 In the Plate tab tap a well or multiple wells 2 Tap the Sample I...

Page 66: ...9 Targets cannot be assigned on the instrument touchscreen A sample can only be edited by port It cannot be edited by individual well A sample setup file can be imported instead of assigning or editing a well manually see Import a sample setup on page 55 1 In the Plate tab tap a port See Figure 9 on page 65 2 Tap the Legend pane then tap Samples 3 Enter a sample name 4 Select a sample type from th...

Page 67: ...le Information pane then tap Reagents Note If no wells are selected the pane is labeled Legend 3 Tap a row in the table to apply it to the plate 4 Tap Done Delete the reagent details 1 In the Plate tab tap one of the following items A single well Multiple wells Select all 2 Tap the Sample Information pane then tap Reagents Note If no wells are selected the pane is labeled Legend 3 Optional Tap Cle...

Page 68: ...are applied to a plate see Add or edit the reagent details for a TaqMan Array Card on page 68 A reagent can only be applied by port It cannot be applied by individual well 1 In the Plate tab tap a port See Figure 9 on page 65 2 Tap the Legend pane then tap Reagents 3 Tap a row in the table to apply it to the port 4 Tap Done Edit a passive reference dye A passive reference dye normalizes the fluore...

Page 69: ... users The XML or the TXT format is imported For a detailed description of the AIF see Understanding Your Shipment Pub No MAN0017153 1 In the Plate tab tap Actions4Import AIF file 2 In the Import AIF file screen tap the appropriate folder then tap the appropriate file Chapter 4 Edit a plate before starting a run Options to edit the well details of a plate file 4 QuantStudio 6 Pro Real Time PCR Sys...

Page 70: ... a run 75 Instrument Schedule 75 Screens available during a run From the home screen you can swipe or tap the arrows to navigate to different screens The following screens are available A screen displaying the method swipe left once or tap the right arrow once The real time amplification plot swipe left twice or tap the arrow right twice The time remaining in the run swipe left three times or tap ...

Page 71: ...e view to edit or assign a well see Options to view a plate layout on page 63 4 Tap the Sample Information pane then tap Samples Note If no wells are selected the pane is labeled Legend 5 Enter a sample name then select a sample type from the dropdown list Unknown Standard No template control NTC 6 Tap Target SNP then select Target or Assay from the dropdown list 7 Tap a row in the table then tap ...

Page 72: ...rature as the pause temperature and allow the plate to cool to room temperature before handling Stop an instrument run CAUTION PHYSICAL INJURY HAZARD During instrument operation the plate temperature can reach 100 C If you want to access the plate during a run pause enter room temperature as the pause temperature and allow the plate to cool to room temperature before handling 1 In the home screen ...

Page 73: ...ime 4 Time remaining 2 Swipe right once or tap the left arrow once to return to the home screen View real time data and plots during a run 1 In the home screen during a run swipe left twice or tap the right arrow twice Chapter 5 Options for a run View the method during a run 5 QuantStudio 6 Pro Real Time PCR System and QuantStudio 7 Pro Real Time PCR System User Guide 73 ...

Page 74: ...es or tap the right arrow three times The time remaining in the run is displayed 2 Swipe right three times or tap the left arrow three times to return to the home screen Lock the touchscreen during a run After you have started a run you can lock the touchscreen so that other users cannot interfere with instrument operation Note You must be signed in 1 In the home screen during a run tap Profile 2 ...

Page 75: ...required The instrument is not locked to prevent any other users at the time Schedule a run 1 In the home screen tap Calendar 2 Select a view Day Week Month 3 Tap a time The day on the calendar can be selected in the month view The day view and the week view show the schedule in 30 minute increments 4 Edit the start date end date start time and end time 5 Optional Add notes 6 Tap Save then tap Don...

Page 76: ...The Edit Reservation screen is displayed 4 Tap Cancel Reservation then tap Yes Chapter 5 Options for a run Instrument Schedule 5 76 QuantStudio 6 Pro Real Time PCR System and QuantStudio 7 Pro Real Time PCR System User Guide ...

Page 77: ... appropriate folder Run Queue Public Connect Network Drive USB Drive 3 Tap Manage 4 Tap the file then tap Copy files Multiple files can be selected 5 Select the destination folder Public Connect Network Drive USB Drive 6 Tap Paste Tap Back to return to the home screen 6 QuantStudio 6 Pro Real Time PCR System and QuantStudio 7 Pro Real Time PCR System User Guide 77 ...

Page 78: ...les can be selected 5 Tap Yes to confirm Tap Back to return to the home screen Manage data files View QC Check status after a run The status dial displays Run complete when a run is complete After Done is tapped the amplification plot can no longer be viewed on the instrument 1 In the home screen after a run is complete see the status of the QC Check The status of the QC Check is displayed under t...

Page 79: ...Check 1 QC Check 2 See the QC data in the QuantStudio Design and Analysis Software v2 or the QuantStudio Design and Analysis v2 Chapter 6 View and manage files Manage data files 6 QuantStudio 6 Pro Real Time PCR System and QuantStudio 7 Pro Real Time PCR System User Guide 79 ...

Page 80: ...he display can be adjusted see Adjust the display of real time plots during a run on page 74 2 Optional On the Details screen tap the Plot Types dropdown list then select a plot type Rn vs Cycle dRn vs Cycle 3 Optional On the Details screen tap the Y Scales dropdown list then select the view for the plot Linear Log 10 4 Optional Tap Well details then tap Samples or Targets 5 Select an amplificatio...

Page 81: ... a later time on page 81 Data files will be transferred to the location that was selected before the run was started even if the user was automatically signed out 1 In the home screen after a run is complete tap Transfer file 2 Select the destination for the data file Public Connect Note You must be signed in with a Connect profile Network Drive USB Drive My Instrument Note This option is not avai...

Page 82: ...istrators can view all data files 1 In the home screen tap Settings 4Run history The Run History screen is displayed 2 Tap an individual run record then tap View The following details are displayed The file name The run status The user name The start time and the end time The duration of the run The reaction volume The cover temperature 3 Optional Tap Transfer to transfer the data file 4 Optional ...

Page 83: ... the runs performed 2 Optional Tap the table header to sort by that parameter Run name Date Transferred User Administrator only 3 Tap the data files to be deleted or tap Select all Multiple data files can be selected 4 Tap Delete then tap Yes to confirm Chapter 6 View and manage files Manage data files 6 QuantStudio 6 Pro Real Time PCR System and QuantStudio 7 Pro Real Time PCR System User Guide 8...

Page 84: ...dio 6 Pro System and the QuantStudio 7 Pro System have interchangeable blocks The calibration status applies to the combination of the instrument and the block If a block is moved to an instrument that it has not been calibrated on that combination of block and instrument needs to be calibrated This applies even if the block has previously been calibrated on a different instrument If a block is mo...

Page 85: ... prompted to run a Background calibration after the ROI Uniformity calibration is complete The ROI Uniformity calibration and the Background calibration must pass in order to accept the results It is recommended to transfer the files if the calibration fails in order to troubleshoot Note Performing an ROI Uniformity calibration invalidates all other calibrations Background Every month recommended ...

Page 86: ...age is distinct Background The software captures background images for each optical filter in the absence of sample and reagent and it checks that the fluorescence from each well is below a fluorescence threshold The software uses calibration data to remove background fluorescence during a run Note You can also run this calibration to determine if contamination is related to the sample block or th...

Page 87: ... images see page 93 1 In the home screen tap Settings 4Maintenance and service4Calibration4Status and reminders The Status and Reminders screen is displayed It shows the following information Type of calibration Note For dye calibration the type of calibration is listed as the dye that was calibrated for example FAM Normalization calibration is required for a TaqMan Array Card block The type of ca...

Page 88: ...ature requires a connection between the instrument and a computer network 1 Sign in to Connect on a browser 2 Tap Instrument to open InstrumentConnect 3 Select any of your registered instruments 4 In the Summary tab Tap Calibrations to view the status of each calibration type Optional Tap Calibration Reminders to set the calibration reminder time table and enter the notification email address or a...

Page 89: ...xported as a TXT file 1 In the home screen tap Settings 4Maintenance and service4Calibration4Status and reminders 2 Tap Export then select a destination Connect Network Drive USB Drive The connectivity status of each location is displayed 3 Tap Done Perform ROI uniformity background and dye calibrations for plate blocks To calibrate the TaqMan Array Card block see Perform ROI uniformity background...

Page 90: ...Dye Calibrations Plates available for your block configuration even if you are not using all the dyes in the plates This is recommended for optimal system performance Unless otherwise indicated all materials are available through thermofisher com MLS indicates that the material is available from fisherscientific com or another major laboratory supplier Item Source Calibration plates ROI Uniformity...

Page 91: ... C The plate is used within 6 months after opening The plate is used before the plate expiry date 3 Vortex the plate for 5 seconds then centrifuge at 750 1 000 g for 2 minutes 4 Confirm that the liquid in each well is at the bottom of the well and free of bubbles If it is not centrifuge the plate again IMPORTANT Keep the bottom of the plate clean Fluids and other contaminants on the bottom of the ...

Page 92: ... results The calibration file is saved If the results are accepted and the calibration file is saved previous calibration files associated with the combination of the instrument and the block will no longer be used 8 For calibrations that fail Select an option Option Description Details View the calibration images Transfer EDS Transfer the calibration file to Connect a USB drive or a network drive...

Page 93: ...inders The Status and Reminders screen is displayed 2 Tap a calibration type in the table then tap View 3 Tap a calibration date in the table then tap View The following details are displayed Calibration name Result Date Whether this calibration is current The operator Reagent name part number lot number and expiration date Comments 4 Tap Detail Calibration Example results indicating successful ca...

Page 94: ... 3 Tap Export Transfer calibration data files This section describes transferring calibration files if the calibration passed If the calibration fails the calibration data file is not saved The data file can only be transferred immediately after the calibration see Perform calibrations on page 91 1 In the home screen tap Settings 4Maintenance and service4Calibration4Status and reminders The Status...

Page 95: ...te was used for calibration performed Use the plate that matches the calibration performed The plate was improperly prepared Repeat the calibration with the plate properly prepared If the calibration fails again order a replacement plate Use Smart Help if the replacement plate fails see Request technical support with Smart Help on page 172 Identify contamination Signals that exceed the limit of no...

Page 96: ...d for PCR and therefore produces high quality calibration data If a background plate is not available you can create one as described below Required materials MicroAmp optical 96 well reaction plate Optical adhesive cover or optical flat caps Pipettor 200 µL with pipette tips Powder free gloves Safety glasses Deionized water IMPORTANT Wear powder free gloves while creating the background plate 1 R...

Page 97: ... Calibration workflow Perform an ROI uniformity calibration You are automatically prompted to perform background calibration Perform a background calibration Perform any time that ROI uniformity calibrations are current Perform system dye calibrations Perform any time that ROI uniformity and background calibrations are current Perform normalization calibration Perform after a dye calibration Optio...

Page 98: ...l centrifuge Multifuge centrifuge Megafuge centrifuge Contact your local sales office TaqMan Array Card Sealer Contact your local sales office Blank balance TaqMan Array Cards Contact your local sales office Pipette 200 µL with tips MLS Permanent marker or pen MLS Powder free gloves MLS Safety glasses MLS Fill the calibration TaqMan Array Cards For detailed instructions to prepare a TaqMan Array C...

Page 99: ...µL of the appropriate calibration solution into each of the eight reservoirs in the array card See Load the PCR reaction mix on page 204 5 Centrifuge the array cards then check each array card for the correct fill See Centrifuge the card on page 204 6 Seal the array cards See Seal the card on page 206 IMPORTANT If an array card is sealed improperly it can leak and contaminate the sample block and ...

Page 100: ...Follow the instructions on the screen to start the calibration 6 Load the TaqMan Array Card into the instrument See Load a TaqMan Array Card into the instrument on page 52 CAUTION The instrument should be used by trained operators who have been warned of the moving parts hazard 7 Tap Start When the ROI Uniformity run is complete you will be prompted to perform a background calibration When the Bac...

Page 101: ... CAUTION PHYSICAL INJURY HAZARD During instrument operation the TaqMan Array Card temperature can reach 100 C Allow it to cool to room temperature before handling Note Use Smart Help if the instrument does not eject the array card see Request technical support with Smart Help on page 172 View the calibration images The instrument performs the ROI uniformity and background calibrations in sequence ...

Page 102: ... failed Abnormally low spectra across all wells of the array card CAUTION PHYSICAL INJURY HAZARD During instrument operation the TaqMan Array Card temperature can reach 100 C Allow it to cool to room temperature before handling 1 Confirm that you loaded the correct array card into the instrument If not perform the calibration again using the correct consumable 2 If you are using the correct array ...

Page 103: ...card is contaminated Discard the consumable then perform the normalization calibration using a new normalization array card 4 If the calibration fails again contact Support Perform verification using RNase P plates Verification should be performed under the following circumstances After installation and before first use of the instrument and the block After performing instrument and block calibrat...

Page 104: ... deviation of unknown population B RNase P instrument verification plate The RNase P plate contains the reagents necessary for the detection and quantitation of genomic copies of the human RNase P gene a single copy gene encoding the RNase moiety of the RNase P enzyme Each well contains the following components PCR Master Mix RNase P primers A FAM dye labeled probe A known concentration of human g...

Page 105: ... of unknown population A σCqA Standard deviation of unknown population A CqB Average Cq of unknown population B σCqB Standard deviation of unknown population B The software automatically adjusts the threshold and omits a defined number of wells from the unknown populations to meet the performance specifications To view any omitted wells open the data file for the verification in the desktop softwa...

Page 106: ...or 2 minutes 5 Confirm that the liquid in each well is at the bottom of the well and free of bubbles If it is not centrifuge the plate again IMPORTANT Keep the bottom of the plate clean Fluids and other contaminants on the bottom of the plate can contaminate the sample block and cause an abnormally high background signal Perform RNase P verification 1 In the home screen tap Settings 4Maintenance a...

Page 107: ...echnical support with Smart Help on page 172 The status of the RNase P verification is displayed on the Status and Reminders screen see View the calibration status on the instrument on page 87 IMPORTANT RNase P plates can only be used one time Do not reuse the RNase P plate Troubleshoot verification failure Observation Possible cause Recommended action Verification failed The plate was improperly ...

Page 108: ...fy contamination on page 95 Verification failed but plate is undamaged The incorrect plate was used for verification Use the correct RNase P plate for verification The plate was improperly prepared Repeat the verification with a new properly prepared plate Note Each RNase P plate can only be used once Open the data file for verification in the desktop software or the Connect platform to view the f...

Page 109: ...form an instrument verification run each solution is loaded into the empty array card When complete the array card contains five replicate groups of standards 200 400 800 1600 and 3200 copies two of unknown populations 800 and 1600 copies and one that serves as a no template control NTC See Figure 15 on page 109 1 2 3 4 5 6 7 8 Figure 15 RNase P standards layout 1 Port 1 No Template Control 2 Port...

Page 110: ... PCR master mix RNase P primers A FAM dye labeled probe A known concentration of human genomic DNA template 4432265 Equipment and consumables Centrifuge with custom buckets and card holders one of the following Sorvall centrifuge Multifuge centrifuge Megafuge centrifuge Contact your local sales office TaqMan Array Card Sealer Contact your local sales office Blank balance TaqMan Array Cards Contact...

Page 111: ...emperature for approximately 15 minutes IMPORTANT You must fill and run the RNase P array card within 60 minutes of thawing the kit 2 Remove an array card from its box and place it on a clean dry surface 3 Using a permanent marker mark the side of the empty array card with RNase P 1 1 Location to mark each TaqMan Array Card Chapter 7 Calibrate and verify instrument performance Perform verification...

Page 112: ...fuge the card on page 204 6 Seal the array card See Seal the card on page 206 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 7 Run the prepared array card as soon as possible after filling it Perform RNase P verification 1 In the home screen tap Settings 4Maintenance and service4RNa...

Page 113: ...tion the TaqMan Array Card temperature can reach 100 C Allow it to cool to room temperature before handling Note Use Smart Help if the instrument does not eject the plate see Request technical support with Smart Help on page 172 The status of the RNase P verification is displayed on the Status and Reminders screen see View the calibration status on the instrument on page 87 IMPORTANT An RNase P Ta...

Page 114: ...lution guidelines Prepare a dilution series for each custom dye Target several dye concentrations within a range of 100 2 000 nM The custom dye for use in calibration must be attached to the 5 end of a short DNA oligonucleotide consisting of the first two bases of the probe sequence without a quencher at the 3 end Choose a 2 or 3 fold difference in dilution points Dispense 10 20 µL per well for 96...

Page 115: ...M 1600 nM 3 Vortex the plate for 5 seconds then centrifuge at 750 1 000 g for 2 minutes 4 Confirm that the liquid in each well is at the bottom of the well and free of bubbles If it is not centrifuge the plate again IMPORTANT Keep the bottom of the plate clean Fluids and other contaminants on the bottom of the plate can contaminate the sample block and cause an abnormally high background signal Ch...

Page 116: ...data files at a later time on page 81 7 Unload the plate from the instrument CAUTION PHYSICAL INJURY HAZARD During instrument operation the plate temperature can reach 100 C Allow it to cool to room temperature before handling Note Use Smart Help if the instrument does not eject the plate see Request technical support with Smart Help on page 172 Determine the optimal dye concentration Use the Conn...

Page 117: ...ile creating the dye plate Create a full plate of the custom dye diluted to the optimal concentration 1 Dilute the custom dye to the optimal concentration in buffer Prepare an adequate volume using a volume range of 10 20 µL well for a 96 well plate 2 Pipet the appropriate volume of the diluted custom dye to the plate wells 3 Seal the plate 4 Vortex the plate for 5 seconds then centrifuge at 750 1...

Page 118: ...e must also be added to the desktop software library before creating running or analyzing experiments that use custom dyes Perform a custom dye calibration 1 In the instrument home screen tap Settings 4Maintenance and service4Calibration4Custom dye The Custom Dye screen is displayed 2 Tap a custom dye 3 Review the information then tap Update 4 Enter the calibration temperature Note The default cal...

Page 119: ...assed or failed Calibration status Action Passed 1 Tap Accept Results or Reject Results Note Accepting the results saves the calibration data to the instrument and overwrites existing data 2 Optional Tap Transfer to EDS to transfer the calibration data to a USB drive Failed 1 Perform the calibration again using a new custom dye plate Create the plate using the next dye concentration greater than t...

Page 120: ...ce and service4Calibration4Custom melt 2 Select the option for the kit that you are using PCR Melt Melt only 3 Select or add a dye then select a filter set appropriate for your dye s wavelength see filter wavelength table below Note See your reagent kit documentation for dye name and wavelength information Peak filter Filter wavelength nm 1 Excitation Emission x1 m1 470 15 520 15 x2 m2 520 10 558 ...

Page 121: ...sfer the calibration data to a USB drive Failed 1 Perform the calibration again using a new custom dye plate Create the plate using the next dye concentration greater than the optimal dye concentration see Determine the optimal dye concentration on page 116 2 For more information see Troubleshoot calibration failure on page 95 10 Unload the plate from the instrument Note You must also add the cust...

Page 122: ...If you link when you are signed in to the instrument 129 If you link when you are not signed in to the instrument 130 Manage individual instrument profiles 131 Manage all instrument profiles as an administrator 133 Require sign in 1 In the home screen tap Settings 4Instrument settings4Sign in required The Sign In Required screen is displayed 2 Set the slider Option Description Off The instrument w...

Page 123: ... a Connect profile Sign in with a Connect profile Connect enabled features are available Assign additional instrument administrators Any of the profiles can be assigned the role of instrument administrator The local profile must be created first or the Connect profile must be linked first Overview of local instrument profiles and Connect profiles Local instrument profile Plate files and data files...

Page 124: ...tor Connect All the permissions of a local administrator profile plus the following functions performed in Connect See a list of all the Connect profiles that are linked to the instrument Assign Connect administrator roles to one or more users Remove a user from an instrument Disconnect the instrument from Connect Change the instrument name Test the connection to the Connect platform 1 In the home...

Page 125: ...Connect platform will be displayed If the connection cannot be established Unable to connect will be displayed 3 Tap Close Chapter 8 Manage profiles Test the connection to the Connect platform 8 QuantStudio 6 Pro Real Time PCR System and QuantStudio 7 Pro Real Time PCR System User Guide 125 ...

Page 126: ...130 1 In the Sign In screen tap Get started4Connect 2 Optional Select the appropriate region Option Description China For users in China U S For users in any country other than China 3 Tap a connection option Option Action Mobile devices Note Before selecting this option install and sign in to the Connect application on your mobile device On the instrument 1 Tap Mobile devices 2 Hold the camera on...

Page 127: ...uthentication at the initial creation of an instrument profile on page 131 or tap Skip to set up facial authentication at a later time Link a local profile to a Connect profile This section describes linking a local instrument profile to a Connect profile if a local instrument profile was created first The first time you use your Connect account on an instrument you will be prompted to create a fo...

Page 128: ...e camera on your mobile device over the QR code that is displayed on the touchscreen 3 Tap Close PC A link code is displayed on the instrument On a computer 1 Access the Connect platform 2 Click Add instrument 3 Select QuantStudio 4 Enter the link code Instrument Enter your Connect account information then tap Link account 5 Optional In the Enter PIN screen tap the PIN 4 digits required field ente...

Page 129: ...sible only when you are signed in with your local instrument profile When you link You link your local instrument profile see Link a local profile to a Connect profile on page 127 If this is the first time you link a Connect instrument profile is created using the FirstNameLastInitial of the user name from your thermofisher com account Example User1 thermofisher com First name is User Last name is...

Page 130: ...the Sign In screen you tap Get Started4Connect When you link You link your profile see Link the instrument to your Connect account on page 126 If this is the first time you link a Connect instrument and a local instrument profile with standard role are created with the same name using the FirstNameLastInitial of the user name from your thermofisher com account Example User1 thermofisher com First ...

Page 131: ... profile that is created during installation is assigned the role of an instrument administrator Administrators can grant administrative privileges to other users see Enable or disable administrator privileges on page 135 Note An instrument administrator is separate from a Connect administrator see Recommended order to set up profiles on page 123 1 Tap Name enter a user name then tap Done 2 Tap PI...

Page 132: ...gning in 1 Sign in See Sign in with a PIN on page 43 2 In the home screen tap Profile 4Facial profile4Set up now Note The instrument must be configured for facial authentication see Configure the instrument for the hands free features on page 185 The Facial profile button will not display if the instrument is not configured for facial authentication 3 Prepare for the photographs then tap Next 4 Ce...

Page 133: ...ange the PIN for an instrument profile on page 133 1 Sign in to Connect on a browser 2 Click Update PIN number 3 In the Update PIN number dialog box enter a new PIN then enter the new PIN a second time to confirm it 4 Click Send The 4 digit PIN to sign in to instruments with your Connect profile is updated This change applies to all of the instruments that you access with your Connect profile Mana...

Page 134: ...ed 2 Tap All accounts 3 Tap Add profile 4 Tap the User name field enter a user name then tap Enter 5 Tap the PIN 4 digits required field enter a four digit numerical PIN then tap Enter Tap the Show PIN checkbox to show or hide the PIN 6 Tap the Confirm PIN field enter the four digit numerical PIN again then tap Enter 7 Tap Create profile The new profile is displayed on the My Profile screen The ne...

Page 135: ...ccount screen is displayed 4 Set the Grant admin rights slider to No or Yes 5 Tap Done The user role will be updated on the My Profile screen Delete a profile 1 In the home screen tap Profile The My Profile screen is displayed 2 Tap All accounts 3 Tap a profile The Manage Account screen is displayed 4 Tap Delete account 5 Tap Yes to confirm The profile is deleted and it is not listed on the My Pro...

Page 136: ...enabled 146 Sign in with SAE enabled 147 Sign out with SAE enabled 148 Change your SAE account password on the instrument 149 Sign a plate setup 150 Enter an audit reason 151 View signing records for a plate file 152 View audit records 153 Use the instrument when the SAE server is offline 154 E signature requirements to start a run 154 Signing in after automatic screen locking 155 SAE error messag...

Page 137: ...nd access to functions Auditing Tracks changes and actions performed by users E signature Allows users to provide an electronic signature user name and password when performing certain functions Overview of the instrument features when the SAE module is enabled The following instrument features are not available when the SAE module is enabled Facial authentication Voice commands Linking to the Con...

Page 138: ... Start and stop an instrument run Calibration runs and RNase P verification runs Instrument configuration including the following functions Software update Network configuration Instrument name change Date and time change SAE module setting modification Sleep setting modification Instrument access modification Disk management setting modification Instrument back up and restore a back up Log into t...

Page 139: ...signed Certain instrument functions can be signed This depends on how the SAE administrator has configured the e signature settings The following functions can be signed with an e signature Start an instrument run Plate setup Plate results Security Auditing and E signature SAE v2 0 module roles Role name Description Administrator Has all the available privileges Scientist Has all the privileges ex...

Page 140: ...g and requires you to specify a reason for the action An action is set up for electronic signature and allows you to enter your password to allow the action If you do not have access to a function you will not be able to select it For example the buttons to start any of the calibrations are inactive if your role is not able to perform a calibration Chapter 9 Use the instrument with the Security Au...

Page 141: ...created in the QuantStudio Design and Analysis Software v2 with SAE enabled If SAE is enabled in the QuantStudio Design and Analysis Software v2 you can only create plate files for the QuantStudio 7 Pro Real Time PCR System If SAE is enabled on the QuantStudio 7 Pro Real Time PCR System you cannot create or edit a plate file from the instrument touchscreen QuantStudio 7 Pro Real Time PCR System da...

Page 142: ...n invalid SAE file only 1 QuantStudio 7 Pro Real Time PCR System forbidden The file cannot be opened The file can be opened edited and saved QuantStudio 7 Pro Real Time PCR System with SAE enabled The file can be opened from the run queue a USB drive or other sources 2 The file cannot be edited The audit record is continued The file cannot be opened QuantStudio 7 Pro Real Time PCR System with SAE ...

Page 143: ...llowing applications 1 QuantStudio 7 Pro Real Time PCR System 2 QuantStudio Design and Analysis Software v2 Note The QuantStudio 7 Pro Real Time PCR System profile must be installed before the QuantStudio Design and Analysis Software v2 profile For information on configuring application profiles see SAE Administrator Console v2 0 User Guide Pub No MAN0017468 Enable SAE on the instrument and specif...

Page 144: ...iles Note Connect the software and any instruments to the same SAE server to ensure that audit records are maintained across system components 1 In the menu bar click System4SAE Connection Settings 2 Enter the IP address and port number of the SAE server Note If using a dynamic IP address enter the hostname instead of the IP address to prevent the loss of a connection 3 Optional Click Test Connect...

Page 145: ...rner of the software menu bar Disable SAE on the instrument administrator only This procedure requires a local administrator profile and an SAE administrator account Sign in with a local administrator account see Sign in as a local administrator with SAE enabled on page 146 1 In the home screen tap Settings 4SAE The SAE Mode screen is displayed 2 In the SAE Mode screen set the SAE Mode slider to t...

Page 146: ... in for administrator The Local Administrator Sign In screen is displayed 2 In the Local Administrator Sign In screen select your local administrator profile 3 Enter your PIN then tap Enter The Settings screen is displayed Chapter 9 Use the instrument with the Security Auditing and E signature SAE v2 0 module Sign in as a local administrator with SAE enabled 9 146 QuantStudio 6 Pro Real Time PCR S...

Page 147: ...an SAE account The SAE Sign In screen is displayed 2 In the SAE Sign In screen enter your SAE user name and your SAE password then tap Sign in Figure 19 SAE Sign In screen The home screen is displayed Chapter 9 Use the instrument with the Security Auditing and E signature SAE v2 0 module Sign in with SAE enabled 9 QuantStudio 6 Pro Real Time PCR System and QuantStudio 7 Pro Real Time PCR System Us...

Page 148: ...1 2 Figure 21 My Profile screen 1 SAE button is active 2 Profile that is signed in 2 Tap Sign out then tap Yes to confirm You are signed out and the Sign in screen is displayed Chapter 9 Use the instrument with the Security Auditing and E signature SAE v2 0 module Sign out with SAE enabled 9 148 QuantStudio 6 Pro Real Time PCR System and QuantStudio 7 Pro Real Time PCR System User Guide ...

Page 149: ...nabled on page 147 1 In the home screen tap Profile The My Profile screen is displayed The SAE button is selected and the profile that is signed in is listed 1 2 Figure 22 My Profile screen 1 SAE button is active 2 Profile that is signed in 2 Tap Edit The Edit My Profile screen is displayed Chapter 9 Use the instrument with the Security Auditing and E signature SAE v2 0 module Change your SAE acco...

Page 150: ... and Analysis Software v2 if the instrument and the software are connected to the same SAE server Sign a plate setup 1 In the home screen tap one of the following options Load plate file Set up run 2 Tap the location of the system template or the plate file in the left column Run Queue Public My Instrument Network Drive USB Drive 3 Tap the template file name in the right column The Plate Propertie...

Page 151: ...Enter an audit reason Depending on the way that your SAE administrator configures audit settings the Enter Audit Reason screen may be displayed when you make changes to one of the following items Plate file Calibration RNase P run Chapter 9 Use the instrument with the Security Auditing and E signature SAE v2 0 module Enter an audit reason 9 QuantStudio 6 Pro Real Time PCR System and QuantStudio 7 ...

Page 152: ...Tap the template file name in the right column The Plate Properties screen is displayed 4 In the Plate Properties screen tap Actions The Actions screen is displayed 5 Tap View signing records The Signing records screen is displayed Chapter 9 Use the instrument with the Security Auditing and E signature SAE v2 0 module View signing records for a plate file 9 152 QuantStudio 6 Pro Real Time PCR Syst...

Page 153: ... instrument touchscreen The audit records are viewed on the QuantStudio Design and Analysis Software v2 or on the SAE Administrator Console Chapter 9 Use the instrument with the Security Auditing and E signature SAE v2 0 module View audit records 9 QuantStudio 6 Pro Real Time PCR System and QuantStudio 7 Pro Real Time PCR System User Guide 153 ...

Page 154: ...o the SAE server SAE records are uploaded to the server The following functions are not available when the SAE server is offline Account lockout password reminder mandatory password change Disable SAE Change Password E signature requirements to start a run Depending on the way your SAE administrator has configured your instrument E signatures may be required when you start a run If starting a run ...

Page 155: ...with a local administrator account 3 Set the correct IP address see Enable SAE on the instrument and specify the SAE server administrator only on page 143 There is a problem with the computer on which the SAE Administrator Console is installed or a problem with the network Troubleshoot computer or network problems The computer on which the SAE Administrator Console has a dynamic IP address that is...

Page 156: ... block and an instrument has its own calibration status To determine the calibration status of a block on an instrument see View the calibration status and set reminders on page 87 To calibrate a block on a specific instrument see Chapter 7 Calibrate and verify instrument performance 1 Tap Settings 4Change block 2 Insert the block and heated cover into the instrument drawer The instructions are di...

Page 157: ...ted cover This step takes approximately one minute The drawer opens with the block and the heated cover 3 Use the handles to remove the block and the heated cover The instructions are displayed on the screen The block and the heated cover are removed together IMPORTANT Only touch the block and the heated cover at the handles 1 2 1 Heated cover handle 2 Block handle 4 Insert the new block and the h...

Page 158: ...e 3 Tap OK The instrument unlocks the block and the heated cover This step takes approximately one minute The drawer opens with the block and the heated cover 4 Use the handles to remove the block and the heated cover The block and the heated cover are removed together IMPORTANT Only touch the block and the heated cover at the handle 1 2 1 Heated cover handle 2 Block handle 5 Tap Eject to close th...

Page 159: ...ed method will not damage the equipment Materials required Safety glasses Powder free gloves Tissue lint free Cotton or nylon swabs and lint free cloths Pipette 100 µL with pipette tips Deionized water Ethanol 95 solution Bleach 10 solution Clean the sample block CAUTION PHYSICAL INJURY HAZARD During instrument operation the sample block temperature can reach 100 C Allow it to cool to room tempera...

Page 160: ...d procedures for cleaning the sample block on page 160 IMPORTANT Always use deionized water to rinse wells after cleaning with bleach or ethanol solution 9 Use Smart Help if the contamination remains see Request technical support with Smart Help on page 172 Detailed procedures for cleaning the sample block IMPORTANT Use these cleaning procedures only in conjunction with the complete decontaminatio...

Page 161: ...ipet the bleach solution to a waste beaker IMPORTANT Always use deionized water to rinse wells after cleaning with bleach or ethanol solution Replace the instrument fuses CAUTION FIRE HAZARD For continued protection against the risk of fire replace fuses only with listed and certified fuses of the same type and rating as those currently in the instrument Materials required Fuses 2 10A Time Lag T 2...

Page 162: ...he fuse holder back into the instrument 8 Plug in then power on the instrument The installation is successful if the instrument powers on Note Fuse failure can result from fluctuations in the supplied power to the system To prevent further failures consider installing an electrical protective device such as a UPS or a surge protector If issues with the fuse persist use Smart Help see Request techn...

Page 163: ...reen tap Settings 4Instrument settings4Sleep mode 2 Set the slider Option Description Off The instrument will not go into sleep mode On The instrument will go into sleep mode after a period if inactivity 3 Tap the Idle time before sleep mode field then enter a time 4 Tap Done Chapter 10 Maintain the instrument Power on or off store and move 10 QuantStudio 6 Pro Real Time PCR System and QuantStudio...

Page 164: ...on the rear panel 1 Figure 24 Location of the ON OFF switch 1 ON OFF switch Note The length of time that the instrument is inactive before going into sleep mode can be customized see Enable and edit sleep mode on page 163 Power off the instrument 1 Power off the instrument using the ON OFF switch on the back of the instrument For the location of the ON OFF switch see Figure 6 on page 43 2 Power of...

Page 165: ... Use proper lifting techniques when lifting or moving the instrument At least two people are required to lift it IMPORTANT Moving your instrument can create subtle changes in the alignment of the instrument optics Recalibrate the instrument if necessary Ensure that the surface on which you place the instrument can support at least 35 85 kg 79 lbs Ensure that the path to transport the instrument is...

Page 166: ...ata file 185 View the notifications 186 Enable and disable home screen notifications 186 Set up email notifications 187 Clear the notifications 187 View the instrument details 1 In the home screen tap Settings 4About instrument The About Instrument screen displays the following information Model name Wired IP address Wireless IP address Instrument serial number Block serial number Heated cover ser...

Page 167: ...View the license agreement 1 In the home screen tap Settings 4About instrument The About Instrument screen is displayed 2 Tap EULA The end user license agreement EULA is displayed 3 Optional Tap Export 4 Tap Close View the privacy policy for the Connect cloud based platform 1 In the home screen tap Settings 4Maintenance and service4Connect services The Connect Services screen is displayed Chapter ...

Page 168: ...ly 1 In the home screen tap Settings 4Instrument settings4Instrument name 2 Tap the Instrument name field then enter or edit the instrument name The instrument name must be unique if it is connected to a network 3 Tap Done Set the date and the time The date and time can be set manually or automatically The instrument must be connected to the internet to set the date and time automatically 1 In the...

Page 169: ...ct profile is linked to the instrument the default speaker volume is set to the maximum 1 In the home screen tap Settings 4Instrument settings4Speaker volume The Volume Control screen is displayed 2 Slide the control to the adjust the volume The speakers are muted when the slider is at the far left side of the bar 3 Tap Done Configure the network For detailed instructions see Appendix B Connect th...

Page 170: ...erver The Network Configuration screen is displayed 2 Tap each field to enter the required information Proxy server Proxy port User name Password 3 Tap Done The instrument is connected to the specified proxy server Select the region for the Connect platform Note The instrument restarts when the region for the Connect platform is changed 1 In the home screen tap Settings 4Instrument settings4Connec...

Page 171: ...utomatic sign out The automatic sign out feature signs out a user after a period of inactivity A run in progress is not considered inactivity The period of inactivity begins after the run is complete The period of inactivity before a user is signed out automatically can be customized 1 In the home screen tap Settings 4Instrument settings4Auto sign out 2 Set the slider Option Description Off The in...

Page 172: ...chnical support with Smart Help Request technical support with Smart Help for any technical problem with the instrument A Connect profile is required Note A recording to describe the technical problem is not stored on the instrument 1 In the home screen tap Settings 4Maintenance and service4Smart Help The Smart Help screen is displayed 2 Tap Edit then enter a description in the Description field 3...

Page 173: ...kbox The log file is not required but it is recommended for troubleshooting 7 Optional Tap Attach run files select run files then tap Attach files 8 Optional Tap to record a description of the technical issue 9 Tap Done A confirmation email is sent It is sent even if email was not selected as the preferred contact method Perform and view self verification tests Perform a hardware test There will b...

Page 174: ... Last test The Self Verification Test screen displays the functions that pass and fail Use Smart Help if any hardware functions fail see Request technical support with Smart Help on page 172 Perform a peripheral test The peripheral test takes approximately 5 minutes Tap Close on any screen to exit the peripheral test The peripheral test checks the following functions Touchscreen accuracy Speaker M...

Page 175: ...you tap 5 Tap Yes to proceed 6 In the Speaker Test screen tap Play A soundtrack is played 7 Tap Yes to proceed Chapter 11 Configure the instrument settings Configure maintenance and service settings 11 QuantStudio 6 Pro Real Time PCR System and QuantStudio 7 Pro Real Time PCR System User Guide 175 ...

Page 176: ...t screen tap Yes to confirm that the camera detects a face 12 In the Camera Test screen tap Capture to capture an image then tap Yes to confirm that an image was captured The image should appear clear and in focus Chapter 11 Configure the instrument settings Configure maintenance and service settings 11 176 QuantStudio 6 Pro Real Time PCR System and QuantStudio 7 Pro Real Time PCR System User Guid...

Page 177: ...confirm that the depth map is displayed on the screen Chapter 11 Configure the instrument settings Configure maintenance and service settings 11 QuantStudio 6 Pro Real Time PCR System and QuantStudio 7 Pro Real Time PCR System User Guide 177 ...

Page 178: ...isplayed It shows a Pass or Fail result for each test 16 Optional Tap Export to export the results View the instrument log 1 In the home screen tap Settings 4Maintenance and service4Instrument log The Instrument Log screen lists the instrument event types with a time stamp Chapter 11 Configure the instrument settings Configure maintenance and service settings 11 178 QuantStudio 6 Pro Real Time PCR...

Page 179: ... exported 3 Tap Export 4 Select a destination to save the instrument log files Connect Network Drive USB Drive Note You must be signed in with a Connect profile in order to export the instrument log to Connect 5 Tap Done View the instrument statistics 1 In the home screen tap Settings 4Maintenance and service4Instrument statistics The Instrument Statistics screen is displayed Disk Space Remaining ...

Page 180: ...on the home screen see Enable and disable home screen notifications on page 186 1 In the home screen tap Settings 4Maintenance and service4Software update The Software Update screen is displayed It indicates whether a software update is available 2 Tap Update now The software will update The Software Update screen will display Update is complete when the software update is complete The instrument ...

Page 181: ...med by an administrator IMPORTANT A back up of the instrument includes instrument profiles and settings It does not include plate files or data files Plate files and data files must be transferred separately See Chapter 6 View and manage files 1 In the home screen tap Settings 4Maintenance and service4Back up Restore4Back up instrument The Back Up Restore screen is displayed 2 Select a location to...

Page 182: ...en a backup of the instrument is restored 1 In the home screen tap Settings 4Maintenance and service4Back up Restore4Restore a backup The Restore a Backup screen is displayed 2 Select the backup to restore 3 Tap Restore Your instrument has been restored is displayed on the Restore a Backup screen 4 Tap Done Upload a certificate for a TaqMan Array Plate with RFID 1 In the home screen tap Settings 4...

Page 183: ...nformation that is deleted and the information that is retained during an instrument reset see Overview of an instrument reset restore factory default on page 183 1 In the home screen tap Settings 4Maintenance and service4Restore factory default 2 Restart the instrument when prompted Request remote support Remote support grants a support representative the ability to access the instrument remotely...

Page 184: ...indicate that the session is active 5 Tap Remote Session to return to the remote support session The Remote Support screen is displayed 6 In the Remote Support screen tap the active session listed in the table then tap one of the following options Disconnect to end the remote support session View to return to the chat The remote session can also be disconnected from the chat screen A Support repre...

Page 185: ... on page 81 To delete the run history see Delete data files from the instrument on page 82 Manage the file name convention of the data file 1 In the home screen tap Settings 4File name convention The Data File Naming Convention screen is displayed 2 Tap Attributes The list of available attributes for the data file name is displayed 3 Select any of the following attributes to add to the data file n...

Page 186: ...is displayed It lists the notification and the date and the time that it was received 2 Tap Close Enable and disable home screen notifications When home screen notifications are enabled the number of notifications appears on the Settings button 1 In the home screen tap Settings 4Notifications The Notifications screen is displayed 2 Set the slider to the On or the Off position 3 Tap Close Chapter 1...

Page 187: ...opped Run is about to end Run is complete Instrument error Note Deselect all of the event types in order to not receive email notifications 3 Tap Done Clear the notifications 1 In the home screen tap Settings 4Notifications The Notifications screen is displayed 2 Clear the notifications Option Description Clear a single notification Tap a single notification in the table then tap Clear Clear all t...

Page 188: ...al requirements 191 Environmental requirements 192 Instrument dimensions The instrument including a block has a total weight of 35 85 kg 1 2 1 Height 54 7 cm 2 Width 33 7 cm A 188 QuantStudio 6 Pro Real Time PCR System and QuantStudio 7 Pro Real Time PCR System User Guide ...

Page 189: ...tate the instrument for access IMPORTANT For safety the power outlet for the instrument must be accessible Component Top Front Sides Back Instrument 30 5 cm 12 in 30 5 cm 12 in 15 25 cm 6 in Computer 1 15 25 cm 6 in 15 25 cm 6 in 1 Co locating the computer with the instrument is optional Appendix A Instrument specifications and layout Instrument dimensions A QuantStudio 6 Pro Real Time PCR System ...

Page 190: ... computer 1 2 1 Top clearance for the instrument 30 5 cm 2 Width of system 185 cm 1 4 2 3 1 Back clearance for the computer 15 25 cm 2 Back clearance for the instrument 15 25 cm 3 Front clearance for the instrument 30 5 cm 4 Front clearance for the computer 15 25 cm Appendix A Instrument specifications and layout Instrument dimensions A 190 QuantStudio 6 Pro Real Time PCR System and QuantStudio 7 ...

Page 191: ...all the equipment Allow adequate space between the wall and the equipment so that the power cords can be disconnected in case of emergency Electric receptacle required Grounding capability required Maximum power dissipation 417 VA 371 W not including computer and monitor Mains AC line voltage tolerances must be up to 10 percent of nominal voltage Device Rated voltage Circuit required Rated frequen...

Page 192: ...ry Installation categories II Overvoltage category Installation categories II Vibration The instrument is not adjacent to strong vibration sources such as a centrifuge pump or compressor Excessive vibration will affect instrument performance Pollution degree II Install the instrument in an environment that has nonconductive pollutants such as dust particles or wood chips Typical environments with ...

Page 193: ...rect wired connection of the computer provided by Thermo Fisher Scientific to the instrument or to a LAN Do not connect a customer provided computer to the instrument 1 Connect an Ethernet cable from the instrument or a LAN to the computer 2 Power on the computer then log in using a Windows Administrator account 3 In the Windows desktop right click My Network Places4Properties 4 Right click Local ...

Page 194: ...P IP Properties dialog box b Define the IP Settings DNS and WINS tabs as instructed by your systems administrator then click OK 8 Close all dialog boxes by clicking OK then re start the computer The computer is now visible to other computers on the network Connect the instrument to a wired network 1 In the home screen tap Settings 4Instrument settings4Network configuration The Network Connections ...

Page 195: ...ields found under the Wireless option 4 Select a wireless network to connect to the instrument 5 Optional Tap Refresh to prompt the instrument to search for available wireless networks 6 Tap Done The Network Connections screen is displayed The Status Network and IP Address fields under the Wireless option are filled with the information from the selected wireless network 7 Tap Done This instrument...

Page 196: ...s 2 Wi Fi dongle port 3 Ethernet port 4 RS 232 port service use only 5 ON OFF switch 6 Power inlet receptacle Appendix B Connect the instrument to a network Instrument and computer connections B 196 QuantStudio 6 Pro Real Time PCR System and QuantStudio 7 Pro Real Time PCR System User Guide ...

Page 197: ...customer provided computer The following list contains the minimum software requirements for a customer provided computer Operating system Windows 10 64 bit or Macintosh OS 10 01 Processor Pentium 4 processor or comparable Memory 4 GB RAM Hard drive 10 GB Monitor 1280 1024 resolution Download the desktop software 1 Go to thermofisher com qpcrsoftware 2 Select the link for the QuantStudio 6 Pro and...

Page 198: ...ns we recommend that you consult a network administrator before connecting the instrument to your laboratory network Supported options for instrument and computer connections We support the following direct networked LAN local area network or Connect cloud based platform configurations Configurations other than those listed are not recommended Select a configuration that meets the needs of your la...

Page 199: ...reless connection to the network Instrument to LAN connection select an option Wired connection to the network using an Ethernet cable or Wireless connection to the network using the instrument Wi Fi module Direct connection A computer provided by Thermo Fisher Scientific with the QuantStudio Design and Analysis Desktop Software Computer to instrument connection Direct wired connection between the...

Page 200: ...struments to be discovered See Firewall ports that must be open on page 200 Observe the restrictions to mDNS and Autodiscovery The instrument supports mDNS but only when the instrument and computer share a direct network connection and are within the same subnet Network computers that are separated from the instrument by a router hub or another network device may not be able to access the instrume...

Page 201: ...4LL in the RFC also known as Automatic Private IP Addressing APIPA or Internet Protocol Automatic Configuration IPAC Note When an instrument is set for DHCP APIPA is automatically enabled and the instrument provides an IP address when no address is supplied by the DHCP server Third party software Before installing third party software on the computer running the desktop software confirm that the t...

Page 202: ...mple specific PCR reaction mix Allow the card to reach room temperature Load each fill reservoir with 100 µL of sample specific PCR reaction mix Each fill reservoir contains a single sample as determined by the card layout The 100 µL volume ensures adequate filling of each reaction well Volumes smaller than 100 µL result in insufficiently filled cards Do not allow the micropipette tip to contact t...

Page 203: ...t from light and store at 2 8 C TaqMan Array Card diagram A TaqMan Array Card includes 8 fill reservoirs and 384 reaction wells 1 2 3 4 5 1 Fill reservoirs 8 total 2 Fill reservoir strip 3 Array card carrier 4 Array card barcode 5 Reaction well 384 total 1 2 2 1 Foil 2 Array card feet The fill reservoir includes a fill port and a vent port Use the fill port to load PCR reaction mix into the card A...

Page 204: ... so that it sweeps in and around the fill reservoir toward the vent port Centrifuge the card 1 Load the cards into the centrifuge buckets a Place the bucket on the benchtop with its label facing the front of the bench b Insert the cards into the card holder ensuring that The fill reservoirs extend upwards out of the card holder The reaction wells face the label side of the card holder c Insert bla...

Page 205: ... can deform the card 3 Load the buckets into the centrifuge a Press on the centrifuge control panel to open the centrifuge cover b Place each loaded bucket onto an open rotor arm of the centrifuge Ensure that each bucket can swing easily within its slotted position on the rotor arm c If there are empty rotor arms prepare buckets with blank balance cards as described in step 1 Place the balance buc...

Page 206: ...istent filling Seal the card The TaqMan Array Card Sealer isolates the wells of an array card after it is loaded with PCR reaction mix and centrifuged The sealer uses a precision stylus assembly under the carriage to seal the main fluid distribution channels of the array card Note In some documents the TaqMan Array Card Sealer is referred to as a Stylus Staker 1 Position the TaqMan Array Card Seal...

Page 207: ...he alignment pins of the sealer 2 2 1 1 Alignment pins 2 Spring clips d Gently place the card on top of the sealer e Gently push the card until it is seated securely in the sealer When properly seated the foil surface of the card is level with the base of the sealer and the spring clips hold the card securely in place 3 Slowly and steadily push the carriage across the sealer in the direction of th...

Page 208: ...s damaged do not use the card 6 Use scissors to trim the fill reservoir strip from the card Use the edge of the card carrier as a guide IMPORTANT Completely remove the fill reservoir strip Any remaining plastic that extends beyond the card edge can prevent the card from seating properly on the sample block and can affect amplification Correct trim Incorrect trim The card is now ready to run on the...

Page 209: ...EnduraPlate Optical 96 Well Clear GPLE Reaction Plates with Barcode 20 plates 4483348 500 plates 4483351 Instrument verification or calibration plate Cat No TaqMan RNase P Instrument Verification Plate 96 Well 0 2 mL 4432382 Region of Interest ROI and Background Plates 96 Well 0 2 mL 2 plates 4432364 QuantStudio 3 5 10 Dye Spectral Calibration Kit 96 Well 0 2 mL contains all 3 spectral calibration...

Page 210: ...Calibration Kit 96 well 0 1 mL A26342 QuantStudio 3 5 Spectral Calibration Plate 1 FAM VIC ROX and SYBR dyes 96 well 0 1 mL A26336 QuantStudio 3 5 Spectral Calibration Plate 2 ABY JUN MUSTANG PURPLE dyes 96 well Fast 0 1 mL Plate A26337 QuantStudio 3 5 Spectral Calibration Plate 3 TAMRA NED and Cy 5 dyes 96 well Fast 0 1 mL Plate A26340 TaqMan RNase P Instrument Verification Plate Fast 96 Well 435...

Page 211: ...says and order TaqMan Array Cards Item Source Calibration kit ViiA 7 Array Card Spectral Calibration Kit includes the following components Empty TaqMan Array Cards FAM dye VIC dye ROX dye ROI dye mix Background buffer FAM ROX dye VIC ROX dye 4432314 Verification kit ViiA 7 Array Card RNaseP Verification Kit includes the following components TaqMan Array Card Eight 8 vials of RNase P detection reag...

Page 212: ...nner 1 scanner 4488442 The following accessories are required for TaqMan Array Cards Contact your local sales office for details Centrifuge with custom buckets and card holders one of the following Sorvall centrifuge Multifuge centrifuge Megafuge centrifuge TaqMan Array Card Sealer referred to as the Stylus Staker in some documents Blank balance TaqMan Array Cards included with the instrument bloc...

Page 213: ...ndling chemicals read and understand all applicable Safety Data Sheets SDSs and use appropriate personal protective equipment gloves gowns eye protection and so on To obtain SDSs see the Documentation and Support section in this document Symbols on this instrument Symbols may be found on the instrument to warn against potential hazards or convey important safety information In this document the ha...

Page 214: ...olet light Symbole et description MISE EN GARDE Risque de danger Consulter le manuel pour d autres renseignements de sécurité MISE EN GARDE Risque de choc électrique MISE EN GARDE Surface chaude MISE EN GARDE Danger biologique potentiel MISE EN GARDE Rayonnement ultraviolet Appendix E Safety Symbols on this instrument E 214 QuantStudio 6 Pro Real Time PCR System and QuantStudio 7 Pro Real Time PCR...

Page 215: ...rument contains warnings at the locations shown in the figures below 3 2 1 Figure 27 Labels on the back of the instrument QuantStudio 6 Pro Real Time PCR System 1 Electrical rating label 2 RFID label 3 Safety label Appendix E Safety Symbols on this instrument E QuantStudio 6 Pro Real Time PCR System and QuantStudio 7 Pro Real Time PCR System User Guide 215 ...

Page 216: ...Real Time PCR System 1 Electrical rating label 2 RFID label 3 Safety label 1 Figure 29 Labels on the drawer 1 Moving parts label Appendix E Safety Symbols on this instrument E 216 QuantStudio 6 Pro Real Time PCR System and QuantStudio 7 Pro Real Time PCR System User Guide ...

Page 217: ...e top of the block 1 Hot surface label Figure 31 Labels on the bottom of the block Appendix E Safety Symbols on this instrument E QuantStudio 6 Pro Real Time PCR System and QuantStudio 7 Pro Real Time PCR System User Guide 217 ...

Page 218: ...k 1 Hot surface label 2 Moving parts label 1 Figure 33 Labels on the top of the heated cover 1 Hot surface label Appendix E Safety Symbols on this instrument E 218 QuantStudio 6 Pro Real Time PCR System and QuantStudio 7 Pro Real Time PCR System User Guide ...

Page 219: ... requirements for Canada and U S A Indicates conformity with China RoHS requirements Indicates conformity with European Union requirements Indicates conformity with Australia New Zealand standards for electromagnetic compatibility and radio frequency requirement Appendix E Safety Symbols on this instrument E QuantStudio 6 Pro Real Time PCR System and QuantStudio 7 Pro Real Time PCR System User Gui...

Page 220: ...ve instrument panels or disable interlock devices you may be exposed to serious hazards including but not limited to severe electrical shock laser exposure crushing or chemical exposure CAUTION Solvents and Pressurized fluids Wear eye protection when working with any pressurized fluids Use caution when working with any polymeric tubing that is under pressure Extinguish any nearby flames if you use...

Page 221: ...he instrument or accessory Make sure that the path from where the object is to where it is being moved is clear of obstructions Do not lift an object and twist your torso at the same time Keep your spine in a good neutral position while lifting with your legs Participants should coordinate lift and move intentions with each other before lifting and carrying For smaller packages rather than lifting...

Page 222: ...ERTISSEMENT Veiller à utiliser une alimentation électrique appropriée Pour garantir le fonctionnement de l instrument en toute sécurité Brancher le système sur une prise électrique correctement mise à la terre et de puissance adéquate S assurer que la tension électrique est convenable Ne jamais utiliser l instrument alors que le dispositif de mise à la terre est déconnecté La continuité de la mise...

Page 223: ...s defeated for servicing DO NOT operate the laser when it cannot be cooled by its cooling fan an overheated laser can cause severe burns on contact 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 is a Class 2 laser To avoid damage to eyes do not stare direct...

Page 224: ...nts de nettoyage ou de décontamination susceptibles de réagir avec certaines parties de l appareil ou avec les matières qu il contient et de constituer de ce fait un DANGER L instrument doit être correctement décontaminé a si des substances dangereuses sont renversées sur ou à l intérieur de l équipement et ou b avant de le faire réviser sur site ou de l envoyer à des fins de réparation de mainten...

Page 225: ...ety requirements for electrical equipment for measurement control and laboratory use Part 2 081 Particular requirements for automatic and semi automatic laboratory equipment for analysis and other purposes EMC standards Reference Description EMC Directive 2014 30 EU European Union EMC Directive IEC 61326 1 Electrical Equipment for Measurement Control and Laboratory Use EMC Requirements Part 1 Gene...

Page 226: ...s device may not cause harmful interference and 2 This device must accept any interference received Including interference that may cause undesired operation Changes and modifications not expressly approved by Thermo Fisher Scientific can void your authority to operate this equipment under Federal Communications Commissions rules Note This equipment has been tested and found to comply with the lim...

Page 227: ...complies with ISED IC radiation exposure limits set forth for an uncontrolled environment and meets the ESS 102 of the ISED IC radio frequency RF Exposure rules IMDA Infocomm Media Development Authority Singapore Complies with IMDA standards DA107256 ANATEL Agencia Nacional de Telecomunicacoes Brazil Módulo Modelo ID ISC MRM102 A 06094 19 08681 Este equipamento não tem direito à proteção contra in...

Page 228: ... ASK Transmit power 54 5 dBuV m at 10m Antenna 3674 000 00 ID ISC ANT40 30 HF PCB Antenna Dimensions 40 mm x 30 mm 1 57 inches x 1 18 inches Antenna 50 Ohm Supply voltage 12 Vdc Appendix E Safety Safety and electromagnetic compatibility EMC standards E 228 QuantStudio 6 Pro Real Time PCR System and QuantStudio 7 Pro Real Time PCR System User Guide ...

Page 229: ...ransported and disposed of according to all local state provincial and or national regulations IMPORTANT Radioactive or biohazardous materials may require special handling and disposal limitations may apply AVERTISSEMENT PRÉCAUTIONS GÉNÉRALES EN CAS DE MANIPULATION DE PRODUITS CHIMIQUES Pour minimiser les risques veiller à ce que le personnel du laboratoire lise attentivement et mette en œuvre les...

Page 230: ...blement stockés transférés transportés et éliminés en respectant toutes les réglementations locales nationales et ou communautaires en vigueur IMPORTANT Les matériaux représentant un danger biologique ou radioactif exigent parfois une manipulation spéciale et des limitations peuvent s appliquer à leur élimination WARNING HAZARDOUS WASTE from instruments Waste produced by the instrument is potentia...

Page 231: ...e trained according to applicable regulatory and company institution requirements before working with potentially biohazardous materials Follow all applicable local state provincial and or national regulations The following references provide general guidelines when handling biological samples in laboratory environment U S Department of Health and Human Services Biosafety in Microbiological and Bi...

Page 232: ...nalysis Software v2 Standard Curve Analysis Module User Guide MAN0018746 QuantStudio Design and Analysis Software v2 Relative Quantification Analysis Module User Guide MAN0018747 QuantStudio Design and Analysis Software v2 Presence Absence Analysis Module User Guide MAN0018748 QuantStudio Design and Analysis Software v2 Genotyping Analysis Module User Guide MAN0018749 QuantStudio Design and Analys...

Page 233: ...as MSDSs Note For SDSs for reagents and chemicals from other manufacturers contact the manufacturer 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 Technologi...

Page 234: ...on create plate 96 plate prepare 91 Background calibration Description 86 Frequency 88 Reminders 88 Run 91 100 Status 87 When to perform 85 Barcode scan 51 biohazard safety 231 Block Change 157 Clean 159 Remove 158 Block calibration 84 C calibration plate prepare 91 Calibration Background 91 100 Custom dye Dilution guidelines 114 Optimal concentration 116 Perform 118 Prepare plate 117 Run dilution...

Page 235: ...57 Create and run a plate 47 Custom dye Add to instrument 118 Custom dye calibration Dilution Guidelines 114 Dilution plate Prepare plate 115 Run 116 Optimal concentration 116 Perform 118 Prepare plate 117 Workflow 114 Custom dyes Overview 113 Custom melt curve Calibrate 120 Cycles 57 D Data View during run 73 Zoom 74 Data collection 18 Data collection location Add 58 Remove 58 Data file Delete 82...

Page 236: ... 27 File name convention Data file 185 File names System templates 34 35 37 38 Files Description 30 Features 28 firewall ports 200 fluorescence high Functions SAE 138 139 Fuses Replace Materials required 161 G Genotyping run 33 Guest access Edit 122 Overview 42 H Hands free Configure 185 Hands free features Facial authentication 22 Indicators 23 Voice activation 22 Home screen Parts of 24 Home scr...

Page 237: ...itions 57 Edit 57 Files 30 Pause Add 62 Remove 62 Ramp rates 62 Stage Add 58 Remove 58 Step Add 58 Remove 58 VeriFlex Zone Remove 59 Set up 59 View during run 73 Method elements 57 Method tab Actions Edit method 57 Move instrument 165 My instrument 27 N network configurations supported 198 guidelines and best practices 200 network configuration and security 14 Network connections 31 Network drive ...

Page 238: ...57 Reagents Add 66 68 Apply 67 68 Delete 67 Edit 66 68 Region Connect platform 170 related documentation 232 Relative standard curve run 32 Remote monitoring 180 Remove Auto Delta 61 Remove block 158 Remove data collection location 58 Remove pause 62 Remove PCR stage 58 Remove PCR step 58 Remove VeriFlex Zones 59 Repair software 181 Repeat last run 49 Replace fuses Materials required 161 Required ...

Page 239: ...vice 173 Technical support 172 183 Software Repair 181 Software features 26 Speaker volume Adjust 169 Standard 65 66 Standard curve run 31 Standard profile 124 Statistics View 179 Stop run 72 Storage space 171 Store instrument 165 support customer and technical 233 symbols conformity 219 control and connection 219 safety 214 215 system components SAE enabled 141 System dyes 16 System template Crea...

Page 240: ...ata during run Zoom 74 View EULA 167 View instrument details 166 View instrument log 178 View license agreement 167 View method during run 73 View notifications 186 View plots during run Zoom 74 View privacy policy 167 View time remaining during run 74 Voice commands Indicators 23 Overview 22 Supported 45 W warranty 233 Well Add assay 66 Add target 66 Assign 65 66 Edit 65 66 Wells View 63 Wired co...

Page 241: ... GT_Instrument UG_RUO_MAN0018045 v22 GUID 6E25F81A D9AF 47D4 873C 29498B895347 2021 02 13 01 49 02 en 23 54 02 06Z thermofisher com support thermofisher com askaquestion thermofisher com 17 February 2021 ...

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