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ThermoFisher Scientific QuantStudio 1, Installation, Use And Maintenance Manual

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ThermoFisher Scientific QuantStudio 1 Installation, Use And Maintenance Manual Download Page 85

Networking

IMPORTANT! 

This section provides general networking information. It 

does not

 provide adequate

detail to integrate the instrument into all possible network architectures. Because a network may
contain advanced features (such as a firewall or network domains), 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 Thermo Fisher

™

 Connect

configurations. Configurations other than those listed are not recommended. Select a configuration that
meets the needs of your laboratory's instrument, software, and workflow requirements.

IMPORTANT! 

Do 

not

 connect 

both

 an Ethernet cable and the Wi

‑

Fi module (Cat. No. A26774) to

the instrument. Configuring the instrument for both wired and wireless connection can interfere with
instrument operation.

Note: 

For detailed information about networking your instrument, see the 

QuantStudio

™

 1 Plus Real-

Time PCR System IT Checklist

 (Pub. No. MAN0017226).

Direct configuration option

• A computer provided by Thermo Fisher Scientific with the QuantStudio

™

 Design and Analysis SC Software

v1.0

• Computer

‑

to

‑

instrument connection:

– Direct, wired connection between the computer and the instrument

using an Ethernet cable

IMPORTANT! 

A direct instrument

‑

to

‑

computer connection 

cannot 

 be

combined with the LAN or the Thermo Fisher

™

 Connect configurations.

Networked configuration option

• A computer provided by Thermo Fisher Scientific with the QuantStudio

™

 Design and Analysis SC Software

v1.0

• The computer and instrument must have the same subnet mask within the same network.

• Computer

‑

to

‑

LAN connection 

(select an option)

:

– Wired connection to the network using an Ethernet cable – 

or 

–

– Wireless connection to the network

LAN

LAN

Appendix A 

Install and connect the instrument to a network

Networking

A

QuantStudio

™

 1 Plus Real-Time PCR System Installation, Use, and Maintenance Guide

85

Summary of Contents for QuantStudio 1

Page 1: ...For Research Use Only Not for use in diagnostic procedures QuantStudio 1 Plus Real Time PCR System INSTALLATION USE AND MAINTENANCE Publication Number MAN0024786 Revision A 0 ...

Page 2: ...4786 Revision Date Description A 0 8 April 2021 New document for the QuantStudio 1 Plus Real Time PCR System Important Licensing Information This product may be covered by one or more Limited Use Label Licenses By use of this product you accept the terms and conditions of all applicable Limited Use Label Licenses Trademarks All trademarks are the property of Thermo Fisher Scientific and its subsid...

Page 3: ...ument 22 Power off the instrument 22 Sign in 22 Sign out 23 Load and unload a plate in the QuantStudio 1 Plus Real Time PCR Instrument 23 Transfer view or manage files and results 24 Transfer EDS files from the instrument home screen 24 View run history and delete or transfer files from the instrument 24 Manage templates EDT files 25 CHAPTER 3 Configure the instrument and manage instrument profile...

Page 4: ...strator only 38 Manage the Sign Out Timer Administrator only 38 Manage instrument profiles 38 Link an instrument profile to Thermo Fisher Connect 39 Link an existing instrument profile to Thermo Fisher Connect 40 Create a new instrument profile and link to Thermo Fisher Connect 40 CHAPTER 4 Create and run experiments on the instrument 41 Workflow 41 Run an experiment 42 Create and run an experimen...

Page 5: ...on description 61 RNase P instrument verification plate 61 Performance specifications pass criteria 62 Prepare an RNase P plate 62 Perform RNase P verification 63 Troubleshoot verification failure 64 Calibrate custom dyes 65 Custom dyes overview 65 Use a dilution series to determine an optimal custom dye concentration 65 Calibrate the custom dye 67 Calibrate for a custom melt curve experiment 70 C...

Page 6: ...ument specification and layout 90 Configured system dimensions 91 Instrument clearances 92 Electrical requirements 92 Environmental requirements 93 Network requirements 93 APPENDIX D Parts and materials 95 Kits consumables accessories and reagents 95 Consumables 96 well 0 2 mL format 95 Accessories 96 General use materials and consumables 96 APPENDIX E Safety 98 Symbols on this instrument 98 Confo...

Page 7: ...mental design 103 Chemical safety 104 Biological hazard safety 105 APPENDIX F Documentation and support 106 Related documentation 106 Customer and technical support 106 Limited product warranty 106 Index 107 Contents QuantStudio 1 Plus Real Time PCR System Installation Use and Maintenance Guide 7 ...

Page 8: ...ng the QuantStudio 1 Plus Real Time PCR System For information and instructions on performing experiments on this system see the QuantStudio Design and Analysis SC Software v1 0 User Guide Pub No MAN0024784 8 QuantStudio 1 Plus Real Time PCR System Installation Use and Maintenance Guide ...

Page 9: ... sequences targets Qualitative detection of targets Qualitative analysis of the PCR product For more information see Experiment types on page 19 The instrument is configured with a 96 well 0 2 mL fixed block and a 4 color coupled filter set The instrument can be run directly from the touchscreen to create and start experiments To design experiments or to analyze data the instrument can be integrat...

Page 10: ...ed 640 10 nm 682 14 nm MUSTANG PURPLE dye Cy 5 LIZ dye 1 The central wavelengths are the optimized wavelengths 2 The HEX and TET dyes from Thermo Fisher Scientific fall within the emission wavelength range of the system therefore they can be added and adapted for use on the instrument Filters Wavelength nm 1 2 3 4 x1 m1 x2 m2 x4 m4 x5 m5 Emission Spectra 1 x1 m1 FAM dye SYBR GREEN dye 2 x2 m2 VIC ...

Page 11: ... run see Table 1 on page 10 Parts of the instrument 1 2 3 1 Touchscreen Controls the instrument 2 USB port For connection to an external network drive or external data storage device 3 Instrument drawer Holds the sample plate The instrument includes three additional USB ports on the back of the instrument Note The instrument recognizes only one external storage device at a time for data transfer C...

Page 12: ...ofile button Table 2 Parts of the home screen Part of the home screen Function More information Instrument name Set by the administrator to uniquely identify instrument Manage the instrument name Administrator only on page 32 Help icon Touch to launch the touchscreen Help system to access step by step instructions Chapter 1 Product information Instrument hardware description 1 12 QuantStudio 1 Plu...

Page 13: ...is signed in the instrument defaults to the Guest profile Settings button Touch Settings to configure calibrate or learn about the instrument Chapter 3 Configure the instrument and manage instrument profiles Buttons for accessing experiment and template files Load Experiment Touch to open a user created EDT file from a Thermo Fisher Connect account USB instrument folder or network drive Run an exp...

Page 14: ...nk to a Thermo Fisher Connect account or lock the instrument during a run Sign in on page 22 Software description Features of the instrument desktop and Thermo Fisher Connect software The instrument and the software desktop and Thermo Fisher Connect include the features described in the following table Software feature Instrument Desktop Thermo Fisher Connect Use as guest no sign in Create templat...

Page 15: ... Analyze results Set calibration reminders Review exported calibration or RNase P verification results only RNase P Folders templates experiments and projects Term Definition Supported in Folders in Load Experiment Location in which you can store templates EDT files on the instrument My Instrument Displayed if you are signed in Public Location in which all experiments run by guest users are stored...

Page 16: ...ode Lot Plate barcode Data destination location for auto transfer of data Comments Tags are not used at this time Experiment file name Plate barcode User name Instrument type Block type Experiment type Chemistry reagent information Run mode Comments Thermo Fisher Connect only Notifications Method Thermal cycling conditions Thermal cycling conditions Plate Sample names You cannot edit targets SNP a...

Page 17: ... computer connections We support the following direct networked LAN local area network or Thermo Fisher Connect configurations Configurations other than those listed are not recommended Select a configuration that meets the needs of your laboratory s instrument software and workflow requirements IMPORTANT Do not connect both an Ethernet cable and the Wi Fi module Cat No A26774 to the instrument Co...

Page 18: ... connection select an option Wired connection to the network using an Ethernet cable or Wireless connection to the network LAN LAN 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 Thermo Fisher Connect configuration option Internet access and a computer with the Chrome web b...

Page 19: ...e standard curves to interpolate the quantities of the target of interest and the endogenous control in each sample The target quantity in each sample is then normalized to the sample s endogenous control 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 sa...

Page 20: ...gns a genotype call to the samples of each cluster according to its position on the plot Presence absence experiment 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 Mel...

Page 21: ...IRE 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 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 th...

Page 22: ...completely so that the components use no power Note To power off the instrument for 1 week see Prepare the instrument to store move or ship on page 78 1 Power off the instrument using the power switch on the back of the instrument 2 Power off the computer Sign in Create an instrument profile before signing into the instrument See Create a new instrument profile on page 28 Note An instrument profil...

Page 23: ... the plate adapter The barcode faces the front of the instrument Note Do not remove the black plate adapter before loading a plate or tube strips If used tube strips can fit loosely in the adapter but the heated cover will apply the appropriate pressure to seat the tube strips securely in the adapter c Close the instrument drawer 2 When the run ends unload the plate a Open the instrument drawer b ...

Page 24: ...en complete one of the following actions Touch Delete to delete the run record Touch Transfer to export the run data Touch Manage to select multiple run records for simultaneous viewing deletion or transfer Note Guests users not signed in can only view guest run records Users signed into their instrument profiles can also view their own run records Administrators can view all run records Note If t...

Page 25: ...gate through the My Instrument Public USB and Post Read folders to access an EDT file Folder availability depends on your sign in status 5 Touch one or more files to select for managing 6 Delete or copy the files Touch Delete Files then confirm deletion Touch Copy Files select a file destination then touch Paste Files 7 Touch Done Chapter 2 General procedures to operate the instrument Transfer vie...

Page 26: ...ring initial instrument start up or after you restore factory defaults see Restore factory defaults on page 35 1 Optional Select one of the following options Configure the instrument for either wired connection or wireless network connection see Configure the network on page 33 Touch Neither Decide Later 2 Optional Enter an instrument name see Manage the instrument name Administrator only on page ...

Page 27: ... Use the instrument without signing in If the instrument is configured by an Administrator to allow guest access Settings4Manage Users4Sign In Required set to off you can use the instrument without signing in The following limits are in place if you do not sign in to the instrument All actions are recorded to Guest user profile You have access only to the Public folder for selecting and storing ex...

Page 28: ...hen touch Done 3 Touch PIN Code enter a four digit numerical password then touch Enter Note Touch the Show PIN checkbox to switch PIN display on or off 4 Touch Confirm PIN then repeat step 2 5 Touch Create profile 6 Sign in to the profile you just created See Sign in Note To enable access to Thermo Fisher Connect see Link an instrument profile to Thermo Fisher Connect on page 39 Chapter 3 Configur...

Page 29: ...Enable the instrument to enter a standby mode after a set length of inactivity Heated Cover Temperature Set the idling temperature for the heated cover before it enters sleep mode Network Drive 1 Specify a default network drive for transferring files from the instrument Insert Plate Reminder Enable a reminder to insert a plate before starting a run from the instrument Chapter 3 Configure the instr...

Page 30: ...nd and system dye calibrations are not deleted Language Specify the language to display on the touchscreen About Instrument About Instrument Displays the instrument Model Name Block Serial Number and Firmware Version License Agreement Displays the End User Software License Agreement and the Limited Product Warranty You can export the License Agreement to a USB drive Notifications Enable home scree...

Page 31: ...k including accessing Settings Enabling this feature disables the guest profile access to the instrument Note Instrument runs must be started from the desktop software and actions during an instrument run are automatically logged to the guest instrument profile even if a user was signed into the instrument Sign Out Timer Administrator only Set the time length of inactivity before a user is automat...

Page 32: ...activity before the instrument enters sleep mode 4 Touch Enter then touch OK Set the idling temperature for the heated cover 1 In the home screen touch Settings4Instrument Settings4Heated Cover Idle Temperature 2 Slide the control On to set the idling temperature for the heated cover 3 Touch the Edit Temperature field then enter the desired idling temperature 4 Touch Enter then touch OK Configure ...

Page 33: ... Administrator only 1 In the home screen touch Settings4Instrument Settings4Date Time 2 Select a time zone from the dropdown list 3 Select a date format a Touch Date Format then select the preferred date format b Touch Next touch the date field then enter the date c Touch Enter then touch Done 4 Select a time format a Touch Time Format b Slide the control to select a 12 hour or 24 hour clock c Tou...

Page 34: ...ically For static addresses you need to know the IP address for the instrument the Subnet Mask and the Default Gateway 3 Touch OK Set up a wireless connection 1 In the home screen touch Settings4Instrument Settings4Network Connection4 Wireless to display a list of the available networks 2 Select a network or touch Join other network enter the network password then touch Enter If you select Join ot...

Page 35: ... start up tasks See Initial start up on page 26 Select a language 1 In the home screen touch Settings4Instrument Settings4Language 2 Touch the desired language selection 3 Touch OK Learn about the instrument In the home screen touch Settings4About Instrument to access the following information View instrument specifications on page 35 View and export the License Agreement on page 36 View instrumen...

Page 36: ...ervice to access the following functions Update instrument software Administrator only on page 36 Enable remote instrument monitoring Administrator only on page 37 View instrument statistics on page 37 Chapter 5 Calibrate and verify instrument performance View instrument logs on page 37 Backup or restore the instrument on page 73 Prepare the instrument to store move or ship on page 78 Update instr...

Page 37: ...the Thermo Fisher Connect dashboard cloud based platform 3 Touch OK View instrument statistics In the home screen touch Settings4Maintenance and Service4Instrument Statistics to view the following statistics Disk Space Remaining MB Block Cycle Count Block Degrees Climbed LED Life RNase P Status View instrument logs 1 In the home screen touch Settings4Maintenance and Service4Log 2 Touch Instrument ...

Page 38: ...t Timer 2 Touch the Edit Time field then enter the desired duration of inactivity before automatic user sign out 3 Touch Enter then touch Done Manage instrument profiles Note An instrument profile is a user account specifically for the instrument It is not related to any other user account for the system or software To See Create a profile Create an administrator instrument profile during initial ...

Page 39: ...next sign in To enable or disable administrative privileges slide the control to Administrator or Standard respectively 4 Touch Done Link an instrument profile to Thermo Fisher Connect Linking your instrument profile to Thermo Fisher Connect allows you to access the following functions View an instrument status from Thermo Fisher Connect Download templates from your Thermo Fisher Connect storage t...

Page 40: ...o create a new instrument profile Create an administrator profile see Create an administrator instrument profile during initial start up on page 27 Create an instrument profile see Create a new instrument profile on page 28 2 In the Get Started Thermo Fisher Connect screen enter your username and password 3 Touch Link Account Your instrument profile is linked to Thermo Fisher Connect Chapter 3 Con...

Page 41: ...al Link to your Thermo Fisher Connect account Load an existing experiment template EDT file or Create an experiment template EDT file Modify experiment settings as needed Load the plate in the instrument Start the run from the instrument or the desktop software Optional Monitor the run from Thermo Fisher Connect Transfer results EDS file to the desktop software or Thermo Fisher Connect then analyz...

Page 42: ...load a plate in the QuantStudio 1 Plus Real Time PCR Instrument on page 23 8 Touch Start Run When prompted confirm that you inserted a plate Note To disable this reminder select Do not show again or select Settings4Insert Plate Reminder in the home screen Run an experiment from a saved file 1 In the home screen touch Load Experiment 2 Touch the appropriate icon to navigate to your file location Fo...

Page 43: ... last run from your instrument profile 1 In the home screen touch Run Last 2 Optional Enter or edit template properties including Run File Name EDS file name Plate Barcode Reagent Information and Data Destination see Enter or edit template properties 3 Optional Edit the run method see Edit the run method on page 45 Add remove or edit a step stage melt curve or data collection point Adjust the heat...

Page 44: ...ate barcode then touch Done Record reagents and their expiration dates a Touch Reagent Information b Touch Add or touch an existing reagent then touch Edit or Delete c Touch the Name Type Lot Reagent Barcode Part or Expiration Date field to enter individual reagent information d Touch Done Automatically transfer run data EDS file when an instrument run ends a Touch Data Destination b Touch the app...

Page 45: ...n provided with the barcode scanner Edit the run method Access a template EDT file For more information see the following sections Create and run an experiment from a template on page 42 Run an experiment from a saved file on page 42 Repeat the last instrument run on page 43 For an overview of the method as it is graphically represented on the touchscreen see Method elements on page 46 1 In the Me...

Page 46: ... settings from the Manage Steps screen see Configure ramp rates and pause settings on page 48 In the Method screen touch Edit4Manage Steps Option Procedure Add a step 1 Touch Add Remove steps4Add steps 2 Touch on the left or right border of a step to add a step before or after the step respectively 3 Enter parameters for the new step then touch Enter 4 Touch Done Remove a step 1 Touch Add Remove s...

Page 47: ... of a step to add a melt curve before or after the step respectively 3 Select Continuous or Step and hold 4 Touch melt curve parameters to edit then touch Done 5 Touch Done Note Depending on the experiment type there can be restrictions on the addition or placement of melt curves Remove a melt curve 1 Touch Remove melt curve 2 Touch on the melt curve to be removed then touch Done Add or remove dat...

Page 48: ... an experiment from a template on page 42 Run an experiment from a saved file on page 42 Repeat the last instrument run on page 43 2 In the Plate screen define assign and view well details Option Procedure Define and assign samples in the plate layout view 1 Touch 2 Touch Manage or touch an individual well 3 Touch the Samples subtab 4 Select one or more wells then touch Edit 5 Enter sample names f...

Page 49: ...ata and plots Pause or stop an instrument run see Pause or stop an instrument run on page 50 View real time data and plots on the instrument touchscreen 1 In the instrument home screen during an instrument run touch or swipe left twice 2 Touch Well details 3 Touch Samples Targets or Tasks to select a graphical representation of each selection 4 Touch Close to return to the home screen Adjust the d...

Page 50: ...ng 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 to use this feature 1 Lock the touchscreen a In the home screen touch My Profile b Touch Lock Screen then touch Lock 2 Unlock the touchscreen a Touch anywhere on the touchscreen b Touch the PIN Code field then enter your PIN Note The touchscre...

Page 51: ...tory to transfer EDS files at any time Chapter 4 Create and run experiments on the instrument Transfer EDS files from the instrument home screen 4 QuantStudio 1 Plus Real Time PCR System Installation Use and Maintenance Guide 51 ...

Page 52: ...strument verification using the provided RNase P plate IMPORTANT Perform calibrations and instrument runs under the environmental conditions that are specified in Environmental requirements on page 93 Exposure to extreme temperatures can adversely affect the instrument performance and shorten the life span of the instrument components To set the calibration frequency for the instrument touch Setti...

Page 53: ...es on page 65 Calibration descriptions Calibration description and purpose Pass Criteria ROI Uniformity The software captures images for each optical filter The software uses calibration data to map the increase in fluorescence to the plate wells during subsequent runs and to evaluate well to well consistency of the signals The image for each filter distinguishes all wells of the plate Each well i...

Page 54: ...ration type 3 Optional Touch a calibration row to view the history of that specific calibration type then touch Done 4 Touch Edit to set the calibration reminder settings For each calibration type a Slide the control On to enable the calibration reminder b Edit the Exp interval and Remind me fields c Touch Save 5 Optional To transfer the calibration report touch Export then follow the directions o...

Page 55: ...uniformity background and dye calibrations Workflow Calibration Note The ROI and uniformity calibrations use the same calibration plate Perform an ROI calibration Perform a uniformity calibration You are automatically prompted to perform background calibration Perform a background calibration Perform any time that ROI calibrations are current Perform system dye calibrations Perform any time that R...

Page 56: ...d centrifuge a calibration plate 1 Remove the calibration plate from the freezer then thaw the plate in its packaging Keep plates protected from light until you perform the calibration Thaw each plate for 30 minutes Use each plate within 2 hours of thawing IMPORTANT Do not remove the plate from its packaging until you are ready to use it The fluorescent dyes in the wells of calibration plates are ...

Page 57: ...lete and the screen displays Calibration Complete touch View Results to check the calibration status Calibration status Action Passed Touch Next to proceed to the next required calibration Failed See Troubleshoot calibration failure on page 59 Note You can view the calibration images only after the ROI Uniformity and Background calibrations pass 6 Unload the plate from the instrument CAUTION PHYSI...

Page 58: ...les around all wells and bright well centers Uniformity Signals from each well following a uniform trend Background Few if any signals with abnormally high fluorescence Dye Signals from each well following a uniform trend and each dye peaks at the correct filter 3 In the Calibration Status screen touch Accept Results or Reject Results Accepting the results saves the calibration data to the instrum...

Page 59: ...he incorrect plate 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 If the replacement plate fails contact Support Identify contamination Signals that exceed the limit of normal fluorescence may indicate fluorescen...

Page 60: ...n 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 Remove a reaction plate from its box and place it on a clean dry surface 2 Aliquot 50 µL of deionized water to each well of the reaction plate 3 Seal the plate using an optical adhesive cover ...

Page 61: ...nown population A CtB Average Ct of unknown population B σCtB Standard 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 PCR master mix RNase P primers FAM dye lab...

Page 62: ...s required for RNase P plate preparation RNase P instrument verification plate Centrifuge with plate adapter buckets cleaned before use Powder free gloves Safety glasses Thaw vortex and centrifuge an RNase P plate IMPORTANT Expose the RNase P plate to room temperature for no more than 45 minutes inclusive of thawing and preparation time After thawing the RNase P plate cannot be refrozen 1 Remove t...

Page 63: ... confirm the status of the run Calibration status Action Passed Instrument is ready for use Failed See Troubleshoot verification failure on page 64 5 In the RNase P Verification Status screen touch one of the following options Accept Results Save the results to the instrument Reject Results Delete the RNase P verification results Export Results Export the calibration results to a USB 6 Unload the ...

Page 64: ...e sample block Examine the bottom of the reaction plate If there is contamination prepare a new plate and run the experiment again Identify the location of contamination on the plate or sample block 1 Obtain or prepare a background plate see page 60 2 Follow the procedures that are described in Identify contamination on page 59 Verification failed but plate is undamaged The incorrect plate was use...

Page 65: ...ine the optimal dye concentration on page 67 Calibrate the custom dye using the optimal concentration Create a custom dye calibration plate Add a custom dye to the instrument Perform a custom dye calibration on page 69 Use a dilution series to determine an optimal custom dye concentration Custom dye dilution guidelines Prepare a dilution series for each custom dye Target several dye concentrations...

Page 66: ... 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 Run the dilution plate as an experiment 1 Load the plate into the instrument 2 Set up a genotyping experiment on the instrument Load an experimen...

Page 67: ...al wells Note The Raw Data Plot cannot be viewed on the instrument touchscreen 2 For each replicate population of dilutions select the wells in the Plate Layout to view in the plot 3 Examine the raw data to identify the wells yielding signals in the 800 000 to 3 200 000 range for the optical filter where the dye is brightest 4 Optional Export the raw data then calculate the average fluorescence va...

Page 68: ...me for the custom dye IMPORTANT Do not use a system dye name for a custom dye name Dye names are spacing sensitive and cannot contain special characters Type Select Reporter The dye works in conjunction with a quencher dye to report an increase of PCR product Quencher The dye suppresses the fluorescence of a reporter dye until amplification of PCR product Both The dye can be used as a reporter or ...

Page 69: ... Calibration Complete touch View Results4Details 9 Review the plot Passing calibration results show uniform signals with peaks that are aligned with the dye wavelength Peak filter Filter wavelength 1 Excitation Emission x1 m1 470 15 nm 520 15 nm x2 m2 520 10 nm 558 12 nm x4 m4 580 10 nm 623 14 nm x5 m5 640 10 nm 682 14 nm 1 The central wavelengths are the optimized wavelengths Figure 2 Example dye...

Page 70: ...g instrument operation the plate temperature can reach 100 C Allow it to cool to room temperature before handling Calibrate for a custom melt curve experiment Note A custom melt calibration calibrates a custom dye and a melt calibration at the same time Before running the custom melt calibration complete the following tasks Ensure that all calibrations are current touch Settings4Maintenance and Se...

Page 71: ...h your reagent kit documentation then the incorrect wavelength may be collected during a run 5 Optional Touch Reagents then enter reagent information 6 Touch Start 7 When the run is complete and the screen displays Calibration Complete touch View Results4Details 8 Review the plot Passing calibration results show uniform signals with peaks that are aligned with the dye wavelength Figure 3 Example d...

Page 72: ...tration determined in Use a dilution series to determine an optimal custom dye concentration on page 65 See Troubleshoot calibration failure on page 59 10 Unload the plate from the instrument Note You must also add the custom dye to the desktop software dye library before creating running or analyzing experiments that use custom dyes To perform a custom melt experiment you can either create a Stan...

Page 73: ... Settings4Maintenance and Service4Backup Restore To Action Backup 1 Touch Backup Instrument 2 Select a location to store the backup settings for your instrument 3 If backing up to a USB insert a USB into the front panel USB port 4 Enter a backup file name then touch Done 5 Select the elements to backup or leave them all selected 6 Touch Backup Restore Administrator only 1 Touch Restore a Backup 2 ...

Page 74: ...ic that the proposed 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 co...

Page 75: ... step 4 to rinse the sample block with deionized water and to confirm that you have eliminated the contamination IMPORTANT Always use deionized water to rinse wells after cleaning with bleach or ethanol solution 6 If the contamination remains clean the contaminated wells using a 10 bleach solution a Repeat step 2 step 3 b Clean the contaminated wells using a 10 bleach solution see Detailed procedu...

Page 76: ...nol a Pipet a small volume of 95 ethanol solution into each contaminated well b In each well pipet the solution up and down several times to rinse the well c Pipet the ethanol solution to a waste beaker IMPORTANT Always use deionized water to rinse wells after cleaning with bleach or ethanol solution Clean the sample block with 10 bleach a Pipet a small volume of 10 bleach solution into each conta...

Page 77: ... cool for 15 minutes 2 Using a flat head screwdriver unscrew and remove the fuse holder 3 Remove each fuse from its fuse holder and inspect it for damage Carbon typically coats the inside of failed fuses Good Failed 4 Replace each failed fuse Note The voltage and amperage ratings are on the fuse holder 5 Install the fuse holder back into the instrument 6 Plug in then power on the instrument The in...

Page 78: ...back injury 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 kg 77 lbs Ensure that the path to transport the instr...

Page 79: ...rtificate of Instrument Decontamination to the customer care center 5 Pack the instrument in the provided packaging and follow the instructions in the table below Prepare Include Exclude 1 Transfer any data files from the instrument 2 Load an empty plate in the sample block 3 Use the touchscreen to place the instrument in ship mode Note The empty plate and ship mode protects the internal component...

Page 80: ...d the computer directly or to a LAN 84 Networking 85 Workflow Install and connect to a network Perform all steps in Before you begin on page 81 Unpack and install the instrument on page 82 Power on and follow the startup wizard on page 83 Perform instrument verification using RNase P plates on page 60 Connect the instrument and the computer directly or to a LAN on page 84 A 80 QuantStudio 1 Plus R...

Page 81: ...e Preparation Guide Pub No MAN0024787 Review instrument and computer connections see Instrument and computer connections on page 81 Instrument and computer connections 1 7 6 6 5 4 2 3 Figure 4 Instrument back panel 1 USB ports 2 WiFi USB port Connect USB wireless adapter for wireless network access ordered separately 3 Ethernet Port RJ45 port for 100 1 000 Mbps Ethernet communication with the inst...

Page 82: ...unpack the instrument accessories and reference documentation Save the packing material for future use or recycle it The instrument box contains Reference documentation Welcome note unpacking and set up instructions card system documentation insert One instrument Accessories power cable Ethernet cable USB drive reaction tube retainer Shipping plate Note Save the shipping plate but do not use it to...

Page 83: ... through the following tasks Select the language for the instrument Accept the license agreement Select a Wired or Wireless networking option as needed for your configuration see Supported options for instrument and computer connections on page 17 Configure the instrument date and time Create an administrator instrument profile Note You can perform any of the steps above at a later time if you do ...

Page 84: ...resses Automatically Select Obtain DNS server address automatically Statically Select Use the following DNS address then enter the address of the preferred and alternate DNS servers if available Static IP 1 Select Use the following IP address 2 In the IP Address field enter the static IP address 3 If necessary enter a subnet mask 4 If necessary enter a static gateway address in the Default Gateway...

Page 85: ... interfere with instrument operation Note For detailed information about networking your instrument see the QuantStudio 1 Plus Real Time PCR System IT Checklist Pub No MAN0017226 Direct configuration option A computer provided by Thermo Fisher Scientific with the QuantStudio Design and Analysis SC Software v1 0 Computer to instrument connection Direct wired connection between the computer and the ...

Page 86: ...work using an Ethernet cable or Wireless connection to the network using the instrument Wi Fi module Control and monitor networked instruments When the instrument is connected to a network Computers on the network that are running the desktop software can control the instrument Networked instruments can be controlled by only one computer at a time Instruments linked to Thermo Fisher Connect cannot...

Page 87: ...uter connection mDNS 5353 Instrument discovery Networking guidelines and best practices Consult a network administrator before connecting the instrument to a network To enable the full functionality of the software the computer requires a network connection Open the firewall port for the instruments to be discovered See Firewall ports that must be open on page 87 Observe the restrictions to mDNS a...

Page 88: ...t the instrument and computer are on the same subnet mask If using a networked configuration the instrument or computer has an invalid IP address Contact your information technologies department to have them ensure that the IP addresses are valid Insufficient disk space message Insufficient disk space to save a run 1 In the home screen touch Settings4Run History4Manage 2 Delete or transfer experim...

Page 89: ...Ensure that reaction volumes in the plate are correct and match the volume that is entered in the Method tab Signals that exceed the limit of normal fluorescence may indicate fluorescent contaminants on the plate or the sample block Examine the bottom of the reaction plate If there is contamination prepare a new plate and run the experiment again Identify the location of contamination on the plate...

Page 90: ...ification and layout Configured system dimensions 91 Electrical requirements 92 Environmental requirements 93 Network requirements 93 C 90 QuantStudio 1 Plus Real Time PCR System Installation Use and Maintenance Guide ...

Page 91: ...mputer is shown below Note Dimensions are rounded to the nearest whole or half unit 27 cm 10 5 in 50 cm 20 in 15 cm 6 in 40 cm 16 in 30 cm 12 in 207 cm 81 5 in Appendix C Instrument specification and layout Configured system dimensions C QuantStudio 1 Plus Real Time PCR System Installation Use and Maintenance Guide 91 ...

Page 92: ...y you must be able to immediately disconnect the main power supply to 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 with grounding capability Maximum power dissipation 960 W not including computer and monitor Mains AC line voltage tolerances must be up to 10 percent of nominal voltage D...

Page 93: ... a centrifuge pump or compressor Excessive vibration will affect instrument performance Pollution degree The instrument has a Pollution Degree rating of II The instrument may only be installed in an environment that has nonconductive pollutants such as dust particles or wood chips Typical environments with a Pollution Degree II rating are laboratories and sales and commercial areas The noise outpu...

Page 94: ...hnologies department must be available during the installation to help connect the instrument to your network Required materials to network the instrument Wired Ethernet cable of sufficient length with RJ45 connectors CAT5 cable for a 100 Mbps network connection CAT5e or CAT6 cable for a 1 000 Mbps network connection or Wireless High Power USB WiFi Module Cat No A26774 sold separately Appendix C I...

Page 95: ...t Cat No MicroAmp Optical 8 Cap Strips 300 strips 4323032 MicroAmp Optical 8 Tube Strip 0 2 mL 125 strips 4316567 MicroAmp Optical Tube without Cap 0 2 mL 2 000 tubes N8010933 MicroAmp Optical 96 Well Reaction Plate with Barcode 20 plates 4306737 500 plates 4326659 MicroAmp EnduraPlate Optical 96 Well Clear GPLE Reaction Plates with Barcode 20 plates 4483348 500 plates 4483351 Instrument verificat...

Page 96: ...icators 4333183 RT PCR Grade Water 10 1 5 mL tubes AM9935 Handheld Barcode Scanner 1 scanner 4488442 High Power USB WiFi Module 1 module A26774 General use materials and consumables The following general use materials and consumables are required to calibrate maintain and operate the instrument Unless otherwise indicated all materials are available through thermofisher com MLS indicates that the m...

Page 97: ...pette tips MLS Powder free gloves MLS Safety glasses MLS Screwdriver flathead MLS Tissue lint free MLS Deionized water MLS Appendix D Parts and materials General use materials and consumables D QuantStudio 1 Plus Real Time PCR System Installation Use and Maintenance Guide 97 ...

Page 98: ...ead 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 hazard symbol is use...

Page 99: ... ordinances for proper disposal provision and contact customer service for information about responsible disposal options Conformity symbols Conformity mark Description Indicates conformity with safety requirements for Canada and U S A Indicates conformity with European Union requirements for safety and electromagnetic compatibility Indicates conformity with Australian standards for electromagneti...

Page 100: ...d on the instrument English CAUTION Hazardous chemicals Read the Safety Data Sheets SDSs before handling CAUTION Hazardous waste Refer to SDS s and local regulations for handling and disposal Location of safety labels on the instrument 1 2 1 2 1 Moving parts 2 Physical injury hazard Appendix E Safety Safety alerts on this instrument E 100 QuantStudio 1 Plus Real Time PCR System Installation Use an...

Page 101: ...lift or move the instrument without the assistance of others Use appropriate moving equipment and proper lifting technique improper lifting may result in serious injury Electrical safety WARNING Ensure appropriate electrical supply For safe operation of the instrument Plug the system into a properly grounded receptacle with adequate current capacity Ensure the electrical supply is of suitable volt...

Page 102: ... the proposed method will not damage the equipment Safety and electromagnetic compatibility EMC standards The instrument design and manufacture complies with the following standards and requirements for safety and electromagnetic compatibility Safety compliance Reference Description EU Directive 2014 35 EU European Union Low Voltage Directive IEC 61010 1 EN 61010 1 UL 61010 1 CSA C22 2 No 61010 1 ...

Page 103: ...mful interference when the equipment is operated in a commercial environment This equipment generates uses and can radiate radio frequency energy and if not installed and used in accordance with the instruction manual may cause harmful interference to radio communications Operation of this equipment in a residential area is likely to cause harmful interference in which case the user will be requir...

Page 104: ...ks or spills If a leak or spill occurs follow the manufacturer s cleanup procedures as recommended in the SDS Handle chemical wastes in a fume hood Ensure use of primary and secondary waste containers A primary waste container holds the immediate waste A secondary container contains spills or leaks from the primary container Both containers must be compatible with the waste material and meet feder...

Page 105: ...hould be 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...

Page 106: ...d instruments Order and web support Product documentation User guides manuals and protocols Certificates of Analysis Safety Data Sheets SDSs also known 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 T...

Page 107: ...nized consumables 96 well 0 2 mL 95 contamination identify 59 custom dye add to the instrument 68 calibration plate create 67 calibration perform 69 description 10 dilution guidelines 65 optimal concentration 67 wavelength requirements 65 custom dye calibration workflow 65 custom dye dilution plate prepare 66 custom melt calibration 70 D data collection points add to method 46 date and time 33 del...

Page 108: ...nance 73 melt curve experiments 19 melt curves add to method 46 method add melt curves 46 add stages 46 add steps 46 data collection points 46 edit 45 parts of 46 pause 48 ramp rate 48 N network configurations supported 17 85 guidelines and best practices 87 wired connection set up 34 wireless connection set up 34 networking 85 P pause run 50 performance verification See RNase P verification PIN r...

Page 109: ...s 19 standby mode 32 startup wizard 83 steps add to method 46 stop run 50 support customer and technical 106 supported dyes 10 symbols safety 98 system dyes 10 T template properties See properties terms and conditions 106 thermal protocol See method third party software 17 transfer files 24 troubleshooting 88 U uniformity calibration description 53 plate prepare 56 unload plate 23 unpack instrumen...

Page 110: ...QS 1 Plus_UG_RUO_MAN0024786 v6 GUID D0087F29 145E 49AF A401 9309CA54F0CA 2021 04 08 03 12 29 en 03 13 35 363 01 00 thermofisher com support thermofisher com askaquestion thermofisher com 8 April 2021 ...

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