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Thermal Cycler Temperature Verification System For GeneAmp

1. and Veriti System User Guide Running the test Chapter 8 Temperature non uniformity test The temperature non uniformity test uses the 0 1 mL probe assembly to test the temperature uniformity of six different wells in each sample block Note If necessary press F5 Cancel to exit the test To run the temperature non uniformity test 1 Complete the procedures in Setting up the 0 1 mL probe assembly on page 97 2 Press F1 Run to start the temperature non uniformity test The TNU Performance screen opens with the setpoint value displayed TNU Performance Sample temp xx x C Cover temp xxx C Setpoint is 55 C Sample must be within 1 0 C of setpoint Run F1 F2 F3 F4 F5 The TNU Performance screen counts down the time until the setpoint is stable TNU Performance Sample temp xx x C Cover temp xxx C Stabilizing at setpoint x xx F1 F2 F3 F4 F5 Note The sample blocks must be within 1 0 C of the setpoint In addition the cover must be within 1 C of 55 C It may take several minutes for the GeneAmp 9800 to ramp up 3 When the TNU Performance screen opens to display the setpoint temperature press F5 Cancel TNU Performance Sample temp xx x C Cover temp xxx C Setpoint is 55 C Sample must be 1 0 C of setpoint Cancel F1 F2 F3 F4 F5 4 When the Stabilizing at setpoint value decreases to 0 read the digital thermometer Refer to the instructions in your Temperature Ve
2. Fail appears after the setpoint temperature s for which the test failed TNU Performance TNU at 95 C is xx xx Fail TNU at 55 C is xx xx Fail F1 F2 F3 F4 F5 e If the test fails repeat the procedure to make sure that the thermometer was not misread or that data entry errors were not made e Ifthe test fails again contact Applied Biosystems Technical Support See How to obtain support on page viii pi Ending the test Press F5 Cancel P Hp Remove the 0 2 mL probe assembly from the sample block Power off the digital thermometer then clean off the oil Wait for the sample block to reach room temperature 25 C then remove the dual 96 well temperature verification plates from the sample block Nre PHYSICAL INJURY HAZARD Hot Surface Use care when working around the heated cover and sample block to avoid being burned by hot components 5 Clean the oil off the sample block 46 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 4 Data Sheet Calibration Verification Test Data Sheet Calibration Verification Test When you run the calibration verification test record the setpoint values for well R3 on this data sheet At the end of the test compare the values that are displayed on the thermal cycler with the values that are recorded here Note You can photocopy this page Date T
3. 5 Press F1 Temp The GeneAmp 9700 is automatically configured for the calibration verification test and the Calibration Verification screen opens Calibration Verification Block temp xx x C Cover temp xxx C Place probe in well R3 Press Run Run 38 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 4 Calibration verification test Running the test In this test you take temperature readings of the sample well at two different set points using the 0 2 mL probe assembly Note Press F5 Cancel if you want to exit the test To run the calibration verification test 1 Press F1 Run The Calibration Verification screen opens with the setpoint value displayed Calibration Verification Block temp xx x C Cover temp xxx C Setpoint is 85 C Cover must be within 1 C of 105 C El F2 F3 F4 F5 Note The cover must be at 105 C 1 C It may take several minutes for the system to ramp up The Calibration Verification screen counts down the time until the setpoint is reached Calibration Verification Block temp xx x C Cover temp xxx C Stabilizing at setpoint X xXX F1 F2 F3 FA F5 2 When the Stabilizing at setpoint value decreases to 0 read the digital thermometer Refer to the instructions in your Temperature Verification Kit for details on operating the digital thermometer
4. C4 C8 C12 E1 E4 E8 E12 H1 H4 H8 H12 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 115 and Veriti System User Guide Chapter 9 Data Sheet Temperature Non Uniformity Test 116 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Temperature Verification Tests for the Veriti Thermal Cycler This chapter covers OVVIE o Les de deo re Dee aee bad aR RE Calibration verification tesb iiussese asse eon enden Temperature non uniformity test ll lessen Data Sheet Calibration Verification Test Data Sheet Temperature Non Uniformity Test Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 10 Overview Overview 118 Materials When you perform temperature verification tests on the Veriti Thermal Cycler you use the materials provided in your kit Assembly Figure 19 shows a properly assembled system The frame is positioned around the wells with the channel facing you and the probe wire is threaded through the channel to prevent damaging the wire when the thermal cycler heated cover is closed Figure 19 The Temperature Verification System for Veriti Thermal Cycler Thermal Cycler Temperature Verification System For Ge
5. 0 2 mL probe 2 Place the 2720 temperature verification frame on the sample block assembly 3 Use a cotton swab to coat the following wells with mineral oil Al A12 C4 C9 F4 F9 H1 H12 4 Place the 0 2 mL probe assembly into well A1 then as the test progresses move the 0 2 mL probe assembly to each of the test wells 5 Thread the probe wire through the channel in the 2720 temperature verification frame to prevent damage to the probe and lead wires see Figure 3 on page 8 6 Make sure the probe is connected to the digital thermometer 7 Pull the lever down to engage the heated cover and 2720 temperature verification frame IMPORTANT Seat the probe properly and close the heated cover carefully If the probe wire is crushed when you close the heated cover the probe can be damaged 8 Power on the digital thermometer Refer to the instructions in your Temperature Verification Kit for details on operating the digital thermometer Model 4500 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 13 and Veriti System User Guide Chapter 2 Temperature non uniformity test Configuring the 1 Power on the thermal cycler The Main menu opens For best results allow the 2720 thermal thermal cycler 15 to 30 minutes to warm up to ambient temperature before cycler performing the test 2 Press F4 Util The Utilities screen opens 3 Press F1 Diag The Diagnostics screen opens 4 Pre
6. 1 Decontaminate the probe assembly see below 2 Send the equipment to the manufacturer see below Gently wipe the probe cone with a cotton swab that has been moistened with bleach solution 20 bleach 80 water IMPORTANT Do not submerge the probe in bleach solution Do not disassemble the probe assembly Norme CHEMICAL HAZARD Sodium hypochlorite bleach is a liquid disinfectant that can be corrosive to the skin and can cause skin depigmentation Read the MSDS and follow the handling instructions Wear appropriate protective eyewear clothing and gloves 1 Inform Alpha Technics of the recalibration order by visiting the Alpha Technics web site at http www alphatechnicsonline com and following the online instructions Ship the Temperature Verification kits to Alpha Technics 17151 Gillette Avenue Irvine CA 92614 5602 2 Ensure that the probe assembly is decontaminated 3 Pack the Model 4500 digital thermometer and probe assembly in the black case Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 129 and Veriti System User Guide Appendix A 4 Create a package that contains the Black case containing digital thermometer and probe assembly Address and contact information Billing address Shipping address Name and phone number of a contact preferably the person most familiar with the thermometer 5 Send the package freight prepaid to Alpha Tech
7. Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide vi Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Preface Safety information Note For general safety information see this Preface and Appendix D Safety on page 137 When a hazard symbol and hazard type appear by a chemical name or instrument hazard see the Safety Appendix for the complete alert on the chemical or instrument Safety alert Four safety alert words appear in Applied Biosystems user documentation at points words in the document where you need to be aware of relevant hazards Each alert word IMPORTANT CAUTION WARNING DANGER implies a particular level of observation or action as defined below IMPORTANT Indicates information that is necessary for proper instrument operation accurate chemistry kit use or safe use of a chemical CAUTION Indicates a potentially hazardous situation that if not avoided may result in minor or moderate injury It may also be used to alert against unsafe practices WARNING Indicates a potentially hazardous situation that if not avoided could result in death or serious injury DANGER Indicates an imminently hazardous situation that if not avoided will result in death or serious injury This signal word is to be limited to the most
8. Damages claims and returns 134 Damages Claims Returns If shipping damage to the product is discovered contact the shipping carrier and request inspection by a local agent Secure a written report of the findings to support any claim Do not return damaged goods to Applied Biosystems without first securing an inspection report and contacting Applied Biosystems Technical Support for a Return Authorization RA number After a damage inspection report is received by Applied Biosystems Applied Biosystems will process the claim unless other instructions are provided Do not return any material without prior notification and authorization If for any reason it becomes necessary to return material to Applied Biosystems contact Applied Biosystems Technical Support or your nearest Applied Biosystems subsidiary or distributor for a return authorization RA number and forwarding address Place the RA number in a prominent location on the outside of the shipping container and return the material to the address designated by the Applied Biosystems representative Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide GeneAmp PCR 9700 Technical Note This appendix addresses apparent discrepancies between the published instrument specifications for accuracy and the pass fail criterion used during the routine temperature verification Temperature Accuracy V
9. Inthe Tools Menu select Run Temperature Verification gt INED 2007 09 04 I 04 05 PM 2 Press to begin the test Perform the test as directed by the touchscreen As the test progresses move the 0 5 mL probe assembly to the remaining test wells B8 F1 F10 Temperature Verification Test Step 1 of 6 You will need the temperature verification kit TVK Connect the TVK and turn it on now 6606660606 OOO0O0000000 000000000 D000000000 OOOO0000000 l OO00000000 Touch the right arrow when ready 3 When the test is complete record zonal temperatures in the Data Sheet Calibration Verification Test on page 127 Nx Temperature Verification Test Step 6 of 6 X Left Zone Right Zone Specification 0 75 C Press the cross button when you want to exit 2 4 Press X to return to the Tools menu Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 121 and Veriti System User Guide Chapter 10 Calibration verification test Ending the test 1 Ifthe heated cover is closed lift the lever and place the heated cover in the fully opened position wr PHYSICAL INJURY HAZARD Hot Surface Use care when working around the heated cover and sample block to avoid being burned by hot components 2 Wait for the sample block to reach room temperature 725 C then remove the the 0 5 mL probe assembly and thermal isolat
10. Model 4500 3 Using the numeric keys enter the value that is displayed on the digital thermometer in the Enter actual block temperature field Calibration Verification Block temp xx x C Cover temp xxx C Enter actual block temperature F1 F2 F3 FA F5 Note The digital thermometer displays a four digit value round this off to three digits before typing it in the Calibration Verification screen Note Record this value on the Calibration Verification Test Data Sheet page 47 to keep a permanent record of the test Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 39 and Veriti System User Guide Chapter 4 Calibration verification test 4 Press Enter The GeneAmp 9700 automatically begins the second reading 45 C setpoint and the Calibration Verification screen opens with the setpoint value displayed Calibration Verification Block temp xx x C Cover temp xxx C Setpoint is 45 C Cover must be within 1 C of 105 C F1 F2 F3 F4 F5 Note The cover must be at 105 C 1 C It may take several minutes for the system to ramp up 5 Repeat steps 2 through 4 for the second temperature reading The GeneAmp 9700 evaluates the calibration of the sample block temperature for the setpoint values that you entered and displays the results A summary screen opens at the end of the test Calibration Verification Actual temperature at 85 C
11. Round this off to three digits before typing it in the Calibration Verification screen Record this value on the Calibration Verification Test Data Sheet page 18 to keep a permanent record of the test 4 Press Enter The thermal cycler automatically begins the second temperature reading 45 C setpoint The Calibration Verification screen displays the setpoint value Calibration Verification Block temp xx x C Cover temp xxx C Setpoint is 45 C Cover must be within 30 C of 45 C F1 F2 F3 F4 F5 Note The cover must be at 45 C 30 C It may take several minutes for the system to ramp up 5 Repeat steps 2 through 4 for the second temperature reading The thermal cycler evaluates the calibration of the sample block temperature for the setpoint values that you entered then displays the results A summary section opens when the test ends Calibration Verification Actual temperature at 85 C Actual temperature at 45 C F1 F2 F3 FA F5 6 If you entered values on the Calibration Verification Test Data Sheet page 18 compare those values with the actual test results 7 Press F1 Accept Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 11 and Veriti System User Guide Chapter 2 Temperature calibration verification test 12 Evaluating the When the thermal cycler completes the calibration verification test one of two results screens opens dep
12. xxx C Place probe in well xx Press Run Run F1 F2 F3 F4 F5 8 Slide the heated cover back and repeat steps 4 to 7 of Setting up the 0 02 mL probe assembly on page 55 and steps 2 through 7 of this procedure Complete these steps for all 12 wells to be tested Left Sample Block Right Sample Block L1 L2 L3 L4 L5 and L6 R1 R2 R3 R4 R5 and R6 9 The GeneAmp 9700 evaluates the uniformity of the sample block temperature for the setpoint values that you entered and displays the results A summary screen opens at the end of the test F1 F2 F3 F4 F5 If you entered values on the Temperature Non Uniformity Test Data Sheet compare those values with the actual test results 10 Press F1 Accept To interpret the results see Evaluating the results on page 59 58 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 5 Temperature non uniformity test 11 When you complete all measurements be sure to Press Cancel Remove the 0 02 mL probe assembly from the sample blocks Power off the digital thermometer then clean off the oil Remove the 384 well temperature verification plates from the sample blocks IMPORTANT Make sure the sample blocks are at room temperature 25 C before removing the reaction plates Evaluating the When the GeneAmp 9700 completes the temperatu
13. 006 ce cee cee nen eae Data Sheet Temperature Non Uniformity Test llle ee eee Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 6 Calibration verification test Calibration verification test Required equipment Setting up the 20 uL probe assembly 64 Use the calibration verification test to verify the temperature calibration of your GeneAmp PCR System 9700 Auto Lid Sample Block Module The verification test consists of the following procedures which you must perform in sequence Setting up the 20 uL probe assembly csse eo eese Rec a a RN 64 Configuring the GeneAmp 9700 sss e 65 I4 nuQ ODIUM 66 Evaluating the desull amp ois esos oh ae rU beoe doe ete Rete PSP dd 68 Nr PHYSICAL INJURY HAZARD Hot Surface Use care when working around the heated cover and sample block to avoid being burned by hot components This test requires the Dual 384 Well Sample Block Module Temperature Verification Kit PN 4308354 which includes Light mineral oil Two 384 well temperature verification plates 20 uL probe assembly Digital thermometer with a 9V battery installed Note This kit is also used for the Auto Lid sample block module 1 Make sure the heated cover is in the rear position If not press and release the red button to automatically move the heated cover to the rear position 2 Place both 384 well temperature veri
14. 5800 Toll Free In North America 1 800 345 5224 Fax 1 650 638 5884 08 2009 Applied E Bibsystems Part Number 4411933 Rev C
15. C is xx xx Fail NU at 37 C is xx xx Fail F1 F2 F3 F4 F5 e fthe test fails repeat the procedure to make sure that the thermometer was not misread or that data entry errors were not made e Ifthe test fails again contact Applied Biosystems Technical Support See How to obtain support on page viii 30 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Ending the test 1 Rn duas GEO Chapter 3 Temperature non uniformity test Press F5 Cancel Remove the 0 2 mL probe assembly from the sample block Power off the digital thermometer then clean off the oil Wait for the sample block to reach room temperature 25 C then remove the 9700 temperature verification frame from the sample block wr PHYSICAL INJURY HAZARD Hot Surface Use care when working around the heated cover and sample block to avoid being burned by hot components Clean the oil off the sample block Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 31 and Veriti System User Guide Chapter 3 Data Sheet Calibration Verification Test Data Sheet Calibration Verification Test 32 When you run the calibration verification test record the setpoint values for well A6 on this data sheet At the end of the test compare the values that are displayed on the thermal cycler with the values that are reco
16. Continue with Configuring the GeneAmp 9700 below Configuring the 1 Complete the procedures in Setting up the 0 5 mL probe assembly above GeneAmp 9700 2 Power on the thermal cycler The Main menu opens For best results allow the thermal cycler 15 to 30 minutes to warm up to ambient temperature before performing the test Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 83 Use this test to verify the temperature uniformity of the GeneAmp PCR System 9700 0 5 mL Sample Block Module The temperature non uniformity test consists of the following procedures which you must perform in sequence Setting up the 0 5 mL probe assembly 02 5 4c veda etes ey E Rs 83 FORTIS HE TES ET 84 Evaluating the tesulis Lo ned phe hs he bbe ne 1 e E Ru P RE DE DEI ee 87 This test requires the 0 5 mL Sample Block Module Temperature Verification Kit PN 4309924 which includes Cotton swabs Light mineral oil GeneAmp 0 5 mL temperature verification frame 0 5 mL probe assembly Digital thermometer Model 4500 with a 9V battery installed 1 Ifthe heated cover is in the forward position lift the lever then slide the heated and Veriti System User Guide Chapter 7 Temperature non uniformity test 3 Press F4 Util The Utilities screen opens 4 Press F1 Diag The Diagnostics screen opens 5 Press F3 TmpVer The Temperature Verification screen opens Temperature Verifica
17. DARE e Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 1 About this manual About this manual This manual describes the Temperature Verification System and the tests for which it is used on the following thermal cyclers 2720 Thermal Cycler GeneAmp PCR System 9600 GeneAmp PCR System 9700 0 5 mL Sample Block Module GeneAmp PCR System 9700 96 Well Sample Block Module GeneAmp PCR System 9700 Dual 96 Well Sample Block Module GeneAmp PCR System 9700 Dual 384 Well Sample Block Module GeneAmp PCR System 9800 e Applied Biosystems Veriti 96 Well Fast Thermal Cycler This manual contains a separate chapter for each instrument Each instrument chapter provides step by step instructions for performing two different tests which are described in Temperature verification tests on page 4 About the Temperature Verification System Description The Temperature Verification System is a kit consisting of a probe a digital thermometer frames to prevent ambient air from entering the sample block light mineral oil and cotton swabs The system is used to verify temperatures of the sample block on your thermal cycler The table below indicates which Temperature Verification System kit you should order for your thermal cycler Figure 1 on page 3 shows the major components of the 0 2 mL 96 Well Temperature Verification Kit T
18. Model 4500 4 Using the numeric keys enter the value that is displayed on the digital thermometer in the Enter actual block temperature field Calibration Verification Block temp xx x C Cover temp xxx C Enter actual block temperature Cancel F1 F2 F3 FA F5 Note The digital thermometer displays a four digit value round this off to three digits before typing it in the Calibration Verification screen Note Record this value on the Calibration Verification Test Data Sheet page 88 to keep a permanent record of the test 80 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 7 Calibration verification test 5 Press ENTER The GeneAmp 9700 automatically begins the second reading 45 C setpoint The Calibration Verification screen opens with the setpoint value displayed Calibration Verification Block temp xx x C Cover temp xxx C Setpoint is 45 C Cover must be within 30 C of 45 C F1 F2 F3 F4 F5 Note The cover must be within 1 C of 105 C 6 Repeat steps 3 and 4 for the second reading 7 The GeneAmp 9700 evaluates the calibration of the sample block temperature for the setpoint values that you entered and displays the results A summary screen opens at the end of the test Calibration Verification Actual temperature at 85 C Actual temperature at 45 C F1 F2 F3 FA F5 If you enter
19. Serial Communication Cable 1 Power on the Veriti Thermal Cycler For best results allow the thermal cycler 15 to 30 minutes to warm to ambient temperature before performing the test 2 In the Main Menu select Tools Menu 3 Connect the 4500 Digital Thermometer a Attach the free end of cable from the probe assembly to the input connector port on the 4500 thermometer b Attach the 9 pin DIN female end of the RS232 cable to the thermometer communication port and the 9 pin DIN male end to the communication port of the instrument 4 Ifthe heated cover is closed lift the lever and place the heated cover in the fully open position Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 123 and Veriti System User Guide Chapter 10 Temperature non uniformity test 5 Place the 0 5 mL Thermal Isolation Frame onto the sample block 6 Using a cotton swab coat the following wells with mineral oil Al A10 B3 B8 E3 E8 F1 F10 123456789 10 OE AAR OQOQG QOGQOQOQOOO 7 Place the 0 5 mL probe assembly into well Al Thread the probe wire through the channel in the temperature verification frame to prevent damage to the probe assembly and lead wires see Figure 19 on page 118 IMPORTANT Seat the probe properly and the close the heated cover carefully If the probe wire is crushed when you close the heated cover the probe can be damaged 8 Power on the digi
20. Sheet Calibration Verification Test i 0020 000 cae sane ceased eben Data Sheet Temperature Non Uniformity Test Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide 91 Chapter8 Calibration verification test Calibration verification test Required equipment Setting up the 0 1 mL probe assembly Use the calibration verification test to verify the temperature calibration of your Applied Biosystems GenAmp 9800 Fast Thermal Cycler with 96 Well Aluminum Sample Block Module The calibration verification test consists of the following procedures which you must perform in sequence Setting up the 0 1 mL probe assembly 1 0 20 00 ce cece cette 92 Configuring the GeneAmp 9800 sss 93 Ronee the 1680s EMO 93 Pevalwatiie the resul o ck anche hoe ae he ogee s ec a dee Pe a ee os 96 This test requires the following items in your Temperature Verification kit PN 4351630 Digital thermometer Model 4500 with a 9V battery installed Cotton swabs Light mineral oil 0 I mL temperature verification probe assembly 1 Ifthe heated cover is in the forward position lift the lever then slide the heated cover back 2 With the instrument powered off and the sample block at room temperature place the 0 1 mL temperature verification probe assembly on the sample blocks Make sure the undercut of the 0 1 mL temperature verification probe assemb
21. and 2720 Thermal Cycler Temperature calibration verification test Checks the temperature of the sample block against specifications for temperature accuracy Temperature non uniformity test Checks the uniformity of sample block temperature from well to well You can perform these tests as frequently as necessary depending on the type of work your laboratory performs For example a laboratory that does forensic typing may need to validate the instrument before or after running samples to have the test results considered valid in a court case Another laboratory may want to validate a protocol Typically the temperature calibration verification test should be performed at least once a year and the temperature non uniformity test should be run at the same time and frequency Running these tests verifies that the thermal cycler is operating to Applied Biosystems operating specifications The kit is supplied with a storage case Figure 2 that includes Model 4500 digital thermometer with a 9V battery installed Probe assembly Cotton swabs Light mineral oil Temperature verification frames Figure 2 Temperature Verification Kit Figures 1 and 2 show the major components of the kit Note If any part is damaged or missing contact the shipping carrier and Applied Biosystems immediately See Damages claims and returns on page 134 Applied Biosystems recommends that your Temperature Verification System be r
22. applies to all Applied Biosystems electrical and electronic symbols on products placed on the European market after August 13 2005 instruments Symbol Description Do not dispose of this product as unsorted municipal waste E Follow local municipal waste ordinances for proper disposal provisions c to reduce the environmental impact of waste electrical and electronic equipment WEEE io European Union customers Call your local Applied Biosystems Customer Service office for ES equipment pick up and recycling See www appliedbiosystems com for a list of customer service offices in the European Union Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 139 and Veriti System User Guide Appendix D Safety 140 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Index C Calibration Verification Test system 2720 9 12 system 9600 107 110 system 9700 23 26 system 9700 with 0 5 mL sample block module 78 81 system 9700 with Auto Lid sample block module 64 67 system 9700 with dual 384 well sample block module 50 53 system 9700 with dual 96 well sample block module 37 41 system 9800 92 95 system Veriti 119 122 CAUTION description vii claims processing 134 conventions bold text viii for describing menu commands viii IMPORTANTS viii in this guide viii italic text viii Notes viii u
23. assembly 0 0 0 c cece eee eee eeeee 55 RHE Motes e haa ere Di hr Eee uetdo Suida eg Ade ST Evaluating the results i erorte nereis aKu E rk deen ee eee et ES 59 This test requires the Dual 384 Well Sample Block Module Temperature Verification Kit PN 4308354 which includes Light mineral oil Left and right 384 well temperature verification plates 0 02 mL probe assembly Digital thermometer Model 4500 with a 9V battery installed 1 If the heated cover is in the forward position lift the lever then slide the heated cover back 2 Place both 384 well temperature verification plates on the sample blocks IMPORTANT The temperature verification plates must be installed in both sample blocks throughout all temperature verification testing The plate labeled L1 to L6 is for the eft sample block Figure 12 The plate labeled R1 to R6 is for the right sample block Figure 13 Position the plates so the angled corners face away from you Figure 12 Left temperature Figure 13 Right temperature verification plate verification plate Note The plates help you locate the probes within the sample blocks 3 Use the stick end of a cotton swab to coat wells L1 to L6 and R1 to R6 with mineral oil the wells are too small for the swab end 4 Place the 0 02 mL probe assembly into well L1 Note As the test progresses you move the 0 02 mL probe assembly to each of the test wells L1 to L6 and R1 to R6 Thermal Cycler
24. be within 1 C of 105 C F1 F2 F3 FA F5 Note The cover must be within 1 C of 105 C It may take several minutes for the GeneAmp 9700 to ramp up 2 During the calibration a The Calibration Verification screen counts down the time until the setpoint is reached Calibration Verification Block temp xx x C Cover temp xxx C Stabilizing at setpoint x xx F1 F2 F3 FA F5 b When the Stabilizing at setpoint value decreases to 0 read the digital thermometer Refer to the instructions in your Temperature Verification Kit for details on operating the digital thermometer Model 4500 3 Using the numeric keys enter the value that is displayed on the digital thermometer in the Enter actual block temperature field Calibration Verification Block temp xx x C Cover temp xxx C Enter actual block temperature F1 F2 F3 F4 F5 Note The digital thermometer displays a four digit value round this off to three digits before typing it in the Calibration Verification screen Note To keep a permanent record of the test record this value on the Calibration Verification Test Data Sheet page 74 66 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter6 Calibration verification test 4 Press Enter The GeneAmp 9700 automatically begins the second reading 45 C setpoint The Calibration Verification screen opens
25. calibrated Calibration Verification screen displays the following message Calibration Verification Calibration is good F1 F2 F3 F4 ES Does not pass the calibration verification test Calibration Verification screen displays the following message Calibration Verification Instrument may require service Contact Applied Biosystems Technical Support F1 F2 F3 F4 F5 e Ifthe test fails repeat the procedure to make sure that the thermometer was not misread or that data entry errors were not made e fthe test fails again contact Applied Biosystems Technical Support See How to obtain support on page viii Note As a result of the Temperature Tolerance Stack between the sample block temperature probe and thermometer the instrument firmware is programmed to accept a Pass Fail result of 0 75 C Therefore passing results may vary from 84 25 C to 85 75 C at the 85 degree setpoint and 44 25 C and 45 75 C at the 45 degree setpoint Ranges greater than 0 75 degrees cause the test to fail Ending the test 1 Press F5 Exit 2 Remove the 0 2 mL probe assembly from the sample block 3 Power off the digital thermometer then clean off the oil Wait for the sample block to reach room temperature 725 C then remove the 9700 temperature verification frame from the sample block rr PHYSICAL INJURY HAZARD Hot Surface Use care when working around the heated cover and s
26. test compare the values that are displayed on the thermal cycler with the values that are recorded here Note You can photocopy this page Date Tested by Probe serial no Thermometer serial no Setpoint value Well A6 85 C 45 C Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 2 Data Sheet Temperature Non Uniformity Test Data Sheet Temperature Non Uniformity Test When you run the temperature non uniformity test record the setpoint values for the wells that are listed on this data sheet At the end of the test compare the values that are displayed on the thermal cycler with the values that are recorded here Note You can photocopy this page Date Tested by Probe serial no Thermometer serial no Setpoint value 94 C 37 C A1 A12 C4 c9 F4 F9 H1 H12 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 2 Data Sheet Temperature Non Uniformity Test 20 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Temperature Verification Tests for the GeneAmp 9700 Thermal Cycler This chapter cove
27. to the communication port of the instrument TVK serial comm cable Euteghnics 4 Ifthe heated cover is closed lift the lever and place the heated cover in the fully open position Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 119 and Veriti System User Guide Chapter 10 Calibration verification test 5 Place the 0 5 mL Thermal Isolation Frame onto the sample block 6 Using a cotton swab coat the following wells with mineral oil B3 B8 F1 F10 123456789 10 7 Place the 0 5 mL probe assembly into well B3 Thread the probe assembly wire through the channel in the temperature verification frame to prevent damage to the probe assembly and lead wires see Figure 19 on page 118 IMPORTANT Seat the probe properly and the close the heated cover carefully If the probe wire is crushed when you close the heated cover the probe can be damaged 8 Power on the digital thermometer Refer to the instructions in your Temperature Verification Kit for details on operating the digital thermometer Model 4500 9 Make sure the probe assembly is connected to the digital thermometer and that the thermometer is powered on 10 Slide the heated cover forward and pull the lever down 120 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 10 Calibration verification test Running the test 1
28. 00 9800 and Veriti System User Guide Chapter 7 Calibration verification test Calibration verification test Required equipment Setting up the 0 5 mL probe assembly Use the calibration verification test to verify the temperature calibration of your GeneAmp PCR System 9700 0 5 mL Sample Block Module The calibration verification test consists of the following procedures which you must perform in sequence Setting up the 0 5 mL probe assembly 0 0 0 0 0c ce cece eee eens 78 Configuring the GeneAmp 9700 0 0 cece ccc ce n 79 Euonning tbe Test iu oae eee Rawle Oh er Oh ave X deed 80 Evaliti g the resul o deca cess hk eek ae erae aeger sec tede me DR Re d p a 82 This test requires the 0 5 mL Sample Block Module Temperature Verification Kit PN 4309924 which includes Cotton swabs Light mineral oil GeneAmp 0 5 mL temperature verification frame 0 5 mL probe assembly Digital thermometer Model 4500 with a 9V battery installed 1 Ifthe heated cover is in the forward position lift the lever then slide the heated cover back 2 Place the GeneAmp 0 5 mL temperature verification frame on the sample block 3 Usea cotton swab to coat well A6 with mineral oil 4 Place the 0 5 mL probe assembly into well A6 5 Thread the probe wire through the channel in the 0 5 mL temperature verification frame to prevent damage to the probe and lead wires 6 Make sure the probe is connected to the digital th
29. 10 C of the sample block temperature the following display opens Wait 3 minutes Time MM SS Blk 40 0C This display shows the current sample block temperature Blk 40 0C and a clock that counts up from 0 in minutes and seconds Time MM SS When the clock reaches 3 minutes the following display opens Record Temperature Time MM SS Blk 95 0C Measure the temperature of well E1 using the digital thermometer Record this temperature as T 40 108 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter9 Calibration verification test 6 Press ENTER The temperature of the sample block and heated cover go to 95 C and the following display opens Cvr xxC Blk xx xC This display shows the current temperature of the block cover Cvr xxC and sample block BIk xx xC When the temperature of the block cover is within 10 C of the sample block temperature the following display opens Wait 3 Minutes Time MM SS Blk 95 0C This display shows the current sample block temperature BIk 95 0C and a clock that counts up from 0 in minutes and seconds Time MM SS When the clock reaches 3 minutes the following display opens Record Temperature Time MM SS Blk 95 0C 7 Measure the temperature of well E1 using the digital thermometer Record this temperature as T 95 IMPORTANT To end the test at any time press the STOP
30. 3 Rev C 08 2009 Contents Preface Introduction Safety information liliis hr vii How to usehis guide 2 25 50 cea Ier a a ade ER DES psu a Rd E viii How to obtain Support raire sonia RR ras viii About this man al 2 oix R Eu eR ERR LEL X Pa Ba e 2 About the Temperature Verification System llle 2 Probe assembly 5 oi fa Gated oh we diet wee eru eng ee RUE A RR E EU d dd 5 Digital thermometer 0 000 cee lh 5 Temperature Verification Tests for the 2720 Thermal Cycler OVERVIEWS ca pale adui Sun aat ulia d Furor eue ter a tof ena ea cbe Pessoa Stig duse oad 8 Temperature calibration verification test 0 0 0 eee eee eens 9 Temperature non uniformity test 0 0 2 ee 13 Data Sheet Calibration Verification Test liliis 18 Data Sheet Temperature Non Uniformity Test 0 0 0 0 e eee eee 19 Temperature Verification Tests for the GeneAmp 9700 Thermal Cycler OVERVIEWS ca nett dialtone il usd ue s auum dud uv et fe ele nate eae oe 22 Temperature calibration verification test 0 0 0 eee ee eee 23 Temperature non uniformity test 0 2 0 re 27 Data Sheet Calibration Verification Test liliis 32 Data Sheet Temperature Non Uniformity Test liliis 33 Temperature Verification Tests for the GeneAmp 9700 Dual 96 Well Module OVerVIeW sz La de eset Patet ue t dad SAMO P UD RE Eum ced DE 36 Calibration verification test lille ee 3
31. 5 C setpoint The Calibration Verification screen opens with the setpoint value displayed Calibration Verification Block temp xx x C Cover temp xxx C Setpoint is 45 C Cover must be within 1 C of 105 C F1 F2 F3 F4 F5 Note The cover must be within 1 C of 105 C 6 Repeat steps 3 and 4 for the second reading 7 The GeneAmp 9700 evaluates the calibration of the sample block temperature for the setpoint values that you entered and displays the results A summary screen opens at the end of the test Calibration Verification Actual temperature at 85 C Actual temperature at 45 C F1 F2 F3 FA F5 If you entered values on the Calibration Verification Test Data Sheet compare those values with the actual test results 8 Press F1 Accept To interpret the results see Evaluating the results on page 54 9 When you complete all measurements be sure to Press Exit Remove the 0 02 mL probe assembly from the sample blocks Power off the digital thermometer then clean off the oil Remove the 384 well temperature verification plates from the sample blocks NITE BURN HAZARD Make sure the sample blocks have cooled at least to room temperature less than 25 C before removing the probe The blocks and probes retain heat longer than expected Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 53 and Veriti System User Guide Chapter 5 Ca
32. 6 c6 bcc e eect ew e ne 107 Runtime thedest secos oes RS err Rue e el oe ol 108 Calculsinp test teslis occ ove EAS Seed chr er ORA DER PX RUE d eiu 109 Ending Ube teal es oka es Was Ge e esce do edd A DA geo s 110 Nr PHYSICAL INJURY HAZARD Hot Surface Use care when working around the heated cover and sample block to avoid being burned by hot components This test requires the 0 2 mL Temperature Verification Kit PN 4317939 which includes Cotton swabs Light mineral oil 9600 temperature verification frame 0 2 mL probe assembly Model 4500 digital thermometer with a 9V battery installed If the heated cover is in the forward position turn the knob counterclockwise completely then slide the heated cover back Place the 9600 temperature verification frame on the sample block Using a cotton swab coat well E1 with mineral oil Place the 0 2 mL probe assembly into well E1 A BR WON Thread the probe wire through the channel in the 9600 temperature verification frame to prevent damage to the probe and lead wires see Figure 18 on page 106 6 Make sure the probe is connected to the digital thermometer 7 Slide the heated cover forward then turn the cover knob clockwise until the white mark on the knob is aligned with the white mark on the cover IMPORTANT Seat the probe properly and the close the heated cover carefully If the probe wire is crushed when you close the cover the probe can be
33. 7 Temperature non uniformity test 0 0 ee re 42 Data Sheet Calibration Verification Test 2 2 0 0 auauua aaa 47 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 iii and Veriti System User Guide Data Sheet Temperature Non Uniformity Test 0 00 00 cece eee 48 Temperature Verification Tests for the GeneAmp 9700 Dual 384 Well Sample Block Module Calibration verification test llle 50 Temperature non uniformity test 0 0 ee ee 55 Data Sheet Calibration Verification Test 0 0 eee ee 60 Data Sheet Temperature Non Uniformity Test 0 0 0 0 c eee eee 61 Temperature Verification Tests for the GeneAmp 9700 Auto Lid Sample Block Module Calibration verification test sieer nesrin ens e a E E EE 64 Temperature non uniformity test 0 0 et eee 69 Data Sheet Calibration Verification Test 2 0 unasuasua eaaa 74 Data Sheet Temperature Non Uniformity Test 0 0 0 0 0 eee eee 75 Temperature Verification Tests for the GeneAmp 9700 0 5 mL Sample Block Module Calibration verification test oss 0 teens 78 Temperature non uniformity test 2 0 eee 83 Data Sheet Calibration Verification Test 0 suaus aaua eaaa 88 Data Sheet Temperature Non Uniformity Test 0 0 000 eee eee 89 Temperature Verification Tests for the GeneAmp 9800 Calibration verification test ses osred tenes 92 Temperature non
34. 800 101 and Veriti System User Guide Chapter 8 Temperature non uniformity test 12 When you complete all measurements a Press F5 Cancel b Remove the 0 1 mL probe assembly from the sample blocks c Power off the digital thermometer then clean off the oil IMPORTANT Make sure the sample blocks are at room temperature 25 C before removing the reaction plates Evaluating the When the GeneAmp 9800 completes the temperature non uniformity test the TNU results Performance screen opens Use the table below to evaluate the results If the Then Temperature of the sample block wells is uniform Pass appears after each setpoint temperature TNU Performance TNU at 95 C is xx xx Pass TNU at 55 C is xx xx Pass F1 F2 F3 FA F5 Temperature variation of the sample block wells exceeds performance specifications Fail appears after the setpoint temperature s for which the test failed TNU Performance TNU at 95 C is xx xx Fail TNU at 55 C is xx xx Fail F1 F2 F3 FA F5 e Ifthe test fails repeat the procedure to make sure that the thermometer was not misread or that data entry errors were not made e Ifthe test fails again contact Applied Biosystems Technical Support See How to obtain support on page viii 102 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Ch
35. 86 system 9700 with Auto Lid sample block module 69 73 system 9700 with dual 384 well sample block module 55 59 system 9700 with dual 96 well sample block module 42 46 system 9800 97 102 system Veriti 123 126 Temperature Verification System 2 4 tests Calibration Verification Test 9 12 23 26 37 41 64 68 78 82 92 96 119 122 Temperature Non Uniformity Test 13 17 27 31 42 46 55 59 69 73 83 87 977 102 123 126 text conventions viii training information on viii U user attention words described viii W WARNING description vii warranty damages claims returns 134 exceptions 133 limitations 133 period 132 warranty claims 132 warranty exceptions 133 warranty period effective date 132 142 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide www appliedbiosystems com Worldwide Sales and Support Applied Biosystems vast distribution and service network composed of highly trained support and applications personnel reaches 150 countries on six continents For sales office locations and technical support please call our local office or refer to our Web site at www appliedbiosystems com Applied Biosystems is committed to providing the world s leading technology and information for life scientists Headquarters 850 Lincoln Centre Drive Foster City CA 94404 USA Phone 1 650 638
36. Actual temperature at 45 C F1 F2 F3 F4 F5 6 Ifyou entered values on the Calibration Verification Test Data Sheet page 47 compare those values with the actual test results 7 Press F1 Accept 40 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 4 Calibration verification test Evaluating the When the GeneAmp 9700 completes the calibration verification test one of two results screens opens See the table below to evaluate the results If the sample block module Then the Is properly calibrated Calibration Verification screen displays the following message Calibration Verification Calibration is good F1 F2 F3 FA F5 Does not pass the calibration verification test Calibration Verification screen displays the following message Calibration Verification Instrument may require servic Contact Applied Biosystems Technical Support F1 F2 F3 FA F5 e If the test fails repeat the procedure to make sure that the thermometer was not misread or that data entry errors were not made e Ifthe test fails again contact Applied Biosystems Technical Support See How to obtain support on page viii Ending the test Press F5 Exit Boom Remove the 0 2 mL probe assembly from the sample block Power off the digital thermometer then clean off the oil Wait for the samp
37. C Place Probe in well L1 Press RUN EUR Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 43 and Veriti System User Guide Chapter 4 Temperature non uniformity test Running the test The temperature non uniformity test uses the 0 2 mL probe assembly to test the temperature uniformity of 6 different wells in each sample block Note Press F5 Cancel if you want to exit the test To run the temperature non uniformity test 1 Press F1 Run The temperature non uniformity test starts and the TNU Performance screen opens with the setpoint value displayed TNU Performance Sample temp xx x C Cover temp xxx C Setpoint is 95 C Sample must be within 1 0 C of setpoint F1 F2 F3 FA F5 Note The sample block must be at 95 C 1 0 C In addition the cover must be at 105 C 1 0 C It may take several minutes for the GeneAmp 9700 to stabilize at the setpoint temperature The TNU Performance screen counts down the time until the setpoint is stable TNU Performance Sample temp xx x C Cover temp xxx C Stabilizing at setpoint X XX F1 F2 F3 F4 F5 2 When the Stabilizing at setpoint value decreases to 0 read the digital thermometer Refer to the instructions in your Temperature Verification Kit for details on operating the digital thermometer Model 4500 3 Using the numeric keys enter the value that is displayed on the digit
38. E DELAY IN REPAIR OR REPLACEMENT OR FOR LOSS OF REVENUE OR PROFITS LOSS OF GOOD WILL LOSS OF BUSINESS OR OTHER FINANCIAL LOSS OR PERSONAL INJURY OR PROPERTY DAMAGE NO AGENT EMPLOYEE OR REPRESENTATIVE OF APPLIED BIOSYSTEMS HAS ANY AUTHORITY TO MODIFY THE TERMS OF THIS LIMITED WARRANTY STATEMENT OR TO BIND APPLIED BIOSYSTEMS TO ANY AFFIRMATION REPRESENTATION OR WARRANTY CONCERNING THE PRODUCT THAT IS NOT CONTAINED IN THIS LIMITED WARRANTY STATEMENT AND ANY SUCH MODIFICATION AFFIRMATION REPRESENTATION OR WARRANTY MADE BY ANY AGENT EMPLOYEE OR REPRESENTATIVE OF APPLIED BIOSYSTEMS WILL NOT BE BINDING ON APPLIED BIOSYSTEMS UNLESS IN A WRITING SIGNED BY AN EXECUTIVE OFFICER OF APPLIED BIOSYSTEMS THIS WARRANTY IS LIMITED TO THE BUYER OF THE PRODUCT FROM APPLIED BIOSYSTEMS AND IS NOT TRANSFERABLE Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 133 and Veriti System User Guide Appendix B Limited product warranty Some countries or jurisdictions limit the scope of or preclude limitations or exclusion of warranties of liability such as liability for gross negligence or wilful misconduct or of remedies or damages as or to the extent set forth above In such countries and jurisdictions the limitation or exclusion of warranties liability remedies or damages set forth above shall apply to the fullest extent permitted by law and shall not apply to the extent prohibited by law
39. F3 F4 F5 e If the test fails repeat the procedure to make sure that the thermometer was not misread or that data entry errors were not made e Ifthe test fails again contact Applied Biosystems Technical Support See How to obtain support on page viii Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 7 Temperature non uniformity test Temperature non uniformity test Required equipment Setting up the 0 5 mL probe cover back assembly 2 Place the GeneAmp 0 5 mL thermal insulation frame on the sample block 3 Use a cotton swab to coat the following wells with mineral oil Al A6 A10 B3 C5 C10 D1 D7 E8 F1 F5 F10 4 Place the 0 5 mL probe assembly into well A1 Note As the test progresses you move the 0 5 mL probe assembly to each of the test wells 5 Thread the probe wire through the channel in the 0 5 mL temperature verification frame to prevent damage to the probe and lead wires 6 Make sure the probe is connected to the digital thermometer 7 Slide the heated cover forward and pull the lever down IMPORTANT Seat the probe properly and close the heated cover carefully If the probe wire is crushed when you close the heated cover the probe may be damaged 8 Power on the digital thermometer Refer to the instructions in your Temperature Verification Kit for details on operating the digital thermometer Model 4500 9
40. GeneAmp 9800 completes the calibration verification test one of two results screens opens See the table below to evaluate the results If the sample block module Then the Is properly calibrated Calibration Verification screen displays the following message Calibration Verification Calibration is good F1 F2 F3 F4 F5 Does not pass the calibration verification test Calibration Verification screen displays the following message Calibration Verification Instrument may require service Contact Applied Biosystems Technical Support F1 F2 F3 F4 F5 e Ifthe test fails repeat the procedure to make sure that the thermometer was not misread or that data entry errors were not made e Ifthe test fails again contact Applied Biosystems Technical Support See How to obtain support on page viii Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 8 Temperature non uniformity test Temperature non uniformity test Required equipment Setting up the Use this test to verify the temperature uniformity of the Applied Biosystems GeneAmp 9800 Fast Thermal Cycler with 96 Well Aluminum Sample Block Module The temperature non uniformity test consists of the following procedures which you must perform in sequence Setting up the 0 1 mL probe assembly 00 eee cee eens 97 Configuring th
41. L 138 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Instrumentation safety Safety symbols The following table describes the safety symbols that may be displayed on Applied Biosystems instruments Each symbol may appear by itself or with text that explains the relevant hazard These safety symbols may also appear next to DANGERS WARNINGS and CAUTIONS that occur in the text of this and other product support documents Description Indicates that you should consult the manual for further information and to proceed with appropriate caution Indicates the presence of an electrical shock hazard and to proceed with appropriate caution Indicates the presence of a hot surface or other high temperature hazard and to proceed with appropriate caution Indicates the presence of a laser inside the instrument and to proceed with appropriate caution Indicates the presence of moving parts and to proceed with appropriate caution Indicates the presence of a biological hazard and to proceed with appropriate caution Indicates the presence of a radiological hazard and to proceed with appropriate caution Indicates the presence of a slipping hazard and to proceed with appropriate caution Indicates the presence of an ultraviolet light in the instrument and to proceed with appropriate caution PPPPPPPDP I Environmental The following symbol
42. L6 and R1 to R6 with mineral oil the wells are too small for the swab end 4 Place the 20 uL probe assembly into well L1 Note As the test progresses move the 20 uL probe assembly to each of the test wells L1 to L6 and R1 to R6 5 Thread the probe wire through the channels in the 384 well temperature verification plate to prevent damage to the probe and lead wires 6 Make sure the probe is connected to the digital thermometer 7 Press and release the red button to automatically close the heated cover IMPORTANT Seat the probe properly If the probe wire 1s crushed when the heated cover closes the probe may be damaged 8 Power on the digital thermometer Refer to the instructions in your Temperature Verification Kit for details on operating the digital thermometer Model 4500 Configuring the 1 Power on the thermal cycler The Main menu opens GeneAmp 9700 For best results allow the thermal cycler 15 to 30 minutes to warm up to ambient temperature before performing the test 2 Press F4 Util The Utilities screen opens 3 Press F1 Diag The Diagnostics screen opens 4 Press F3 TmpVer The Temperature Verification screen opens Temperature Verification Temp Calibration Verification NU Temperature Non Uniformity Temp TNU F1 F2 F3 F4 F5 5 Press F2 TNU to automatically configure the GeneAmp 9700 for the temperature non uniformity test The TNU Performance screen op
43. NU The thermal cycler automatically starts to configure the temperature non uniformity test with the cover setpoint of 35 C and the sample starting with the setpoint of 37 C It may take several minutes for the system to stabilize at the cover and sample setpoint temperatures After the system is configured the TNU Performance screen opens TNU Performance Sample temp xx x C Cover temp xxx C Place Probe in well C4 Press Run Run F1 F2 F3 F4 F5 Running the test The temperature non uniformity test uses the 0 2 mL probe assembly to test the temperature uniformity of 8 different wells in the sample block Note Press F5 Cancel if you want to exit the test To run the temperature non uniformity test 1 Place the probe into the indicated well then press F1 Run The temperature non uniformity test for the setpoint temperature of 94 C starts and the TNU Performance screen opens with the setpoint value displayed TNU Performance Sample temp xx x C Cover temp xxx C Setpoint is 94 C Sample must be within 1 0 C of setpoint F1 F2 F3 F4 F5 Note The sample block increases from 37 C to 94 C The sample block must be at 94 C 1 0 C It may take several minutes for the GeneAmp 9700 thermal cycler to stabilize at the setpoint temperature 28 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 3 Temperat
44. Setpoint is 85 C Cover must be within 10 C of 85 C F1 F2 F3 FA F5 The Calibration Verification screen counts down the time until the setpoint is reached Calibration Verification Block temp xx x C Cover temp xxx C Stabilizing at setpoint x xx F1 F2 F3 F4 F5 Note The cover must be within 10 C of 85 C It may take several minutes for the GeneAmp 9800 to ramp up 3 When the Stabilizing at setpoint value decreases to 0 read the digital thermometer Refer to the instructions in your Temperature Verification Kit for details on operating the digital thermometer Model 4500 4 Using the numeric keys enter the value that is displayed on the digital thermometer into the Enter actual block temperature field Calibration Verification Block temp xx x C Cover temp xxx C Enter actual block temperature F1 F2 F3 F4 F5 Note Round the four digit value on the digital thermometer to three digits before you enter it into the Calibration Verification screen Note You can record this value on the Calibration Verification Test Data Sheet page 103 to keep a permanent record of the test 94 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter8 Calibration verification test 5 Press Enter The GeneAmp 9800 begins the second reading 45 C setpoint and the Calibration Verification screen opens with t
45. Slide the heated cover back and repeat steps 4 through 8 of Setting up the 0 1 mL probe assembly on page 97 and steps 2 through 7 of this procedure at 50 C Complete these steps for all eight wells to be tested Al A12 C4 C9 F4 F9 H1 and H12 The following screen opens TNU Performance Sample temp xx x C Cover temp xxx C Place probe in well Al Press Run Run F1 F2 F3 FA F5 The GeneAmp 9800 then sets the heated cover setpoint to 105 C Slide the heated cover back then repeat steps 4 through 8 of Setting up the 0 1 mL probe assembly on page 97 and steps 2 through 7 of this procedure at 95 C for all eight wells being tested Al A12 C4 C9 F4 F9 H1 and H12 When the TNU Performance screen opens to display the setpoint temperature press F5 Cancel TNU Performance Sample temp xx x C Cover temp xxx C Setpoint is 105 C Sample must be 1 0 C of setpoint F1 F2 F3 FA F5 The GeneAmp 9800 evaluates the uniformity of the sample block temperature for the setpoint values that you entered and displays the results A summary screen opens at the end of the test If you entered values on the Temperature Non Uniformity Test Data Sheet compare those values with the actual test results Press F1 Accept To interpret the results see Evaluating the results on page 102 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9
46. Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 55 and Veriti System User Guide Chapter 5 Temperature non uniformity test Configuring the GeneAmp 9700 Thread the probe wire through the channels in the 384 well temperature verification plate to prevent damage to the probe and lead wires Make sure the probe is connected to the digital thermometer Slide the heated cover forward and pull the lever down IMPORTANT Seat the probe properly and close the heated cover carefully If the probe wire is crushed when you close the heated cover the probe may be damaged Power on the digital thermometer Refer to the instructions in your Temperature Verification Kit for details on operating the digital thermometer Model 4500 Continue with Configuring the GeneAmp 9700 below Complete the procedures in Setting up the 0 02 mL probe assembly above Power on the thermal cycler The Main menu opens For best results allow the thermal cycler 15 to 30 minutes to warm up to ambient temperature before performing the test Press F4 Util The Utilities screen opens Press F1 Diag The Diagnostics screen opens Press F3 TmpVer The Temperature Verification screen opens Temperature Verification Temp Calibration Verification NU Temperature Non Uniformity Temp J TNU jJ F1 F2 F3 F4 F5 6 Press F2 TNU This automatically configures the G
47. Thermal Cycler Temperature Verification System For GeneAmp PCR System 2720 9600 9700 9800 and Veriti Thermal Cyclers User Guide E Brem Copyright 2009 Life Technologies Corporation All rights reserved Information in this document is subject to change without notice Applied Biosystems assumes no responsibility for any errors that may appear in this document APPLIED BIOSYSTEMS DISCLAIMS ALL WARRANTIES WITH RESPECT TO THIS DOCUMENT EXPRESSED OR IMPLIED INCLUDING BUT NOT LIMITED TO THOSE OF MERCHANTABILITY OR FITNESS FOR A PARTICULAR PURPOSE IN NO EVENT SHALL APPLIED BIOSYSTEMS BE LIABLE WHETHER IN CONTRACT TORT WARRANTY OR UNDER ANY STATUTE OR ON ANY OTHER BASIS FOR SPECIAL INCIDENTAL INDIRECT PUNITIVE MULTIPLE OR CONSEQUENTIAL DAMAGES IN CONNECTION WITH OR ARISING FROM THIS DOCUMENT INCLUDING BUT NOT LIMITED TO THE USE THEREOF NOTICE TO PURCHASER PLEASE REFER TO THE SPECIFIC GENEAMP PCR SYSTEM USER MANUAL FOR LIMITED LABEL LICENSE OR DISCLAIMER INFORMATION The Applied Biosystems Thermal Cycler Temperature Verification System is covered by U S Patent No 5 224 778 TRADEMARKS Trademarks of Life Technologies Corporation and its affiliated companies AB Design Applied Biosystems GeneAmp Veriti Windows and Excel are registered trademarks of Microsoft Corporation in the United States and other countries All other trademarks are the sole property of their respective owners Part Number 441193
48. TmpwVer Temperature Verification Upgrad Firmware Upgrade Hard System TmpVer Upgrad Exit F1 F2 RE F4 F5 Screen display missing after F1 Diag is pressed 5 Press F3 TmpVer to open the Temperature Verification screen Temperature Verification Temp Calibration Verification NU Temperature Non Uniformity TNU F1 F2 F3 FA F5 Temp 6 Press F1 Temp This action opens the Calibration Verification screen and configures the GeneAmp 9800 for the calibration verification test Calibration Verification Block temp xx x C Cover temp xxx C Place probe in well A6 Press Run Run F1 F2 F3 FA F5 7 Continue with Running the test below Running the test Use the digital thermometer to take temperature readings of the sample well that is connected to the 0 1 mL probe assembly You take a reading at each of two setpoint temperatures Note If necessary press F5 Cancel to exit the test To run the calibration verification test 1 Complete the procedures in Configuring the GeneAmp 9800 above Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 93 and Veriti System User Guide Chapter8 Calibration verification test 2 Press F1 Run to start the calibration verification test The Calibration Verification screen opens with the setpoint value displayed Calibration Verification Block temp xx x C Cover temp xxx C
49. a is returned to Applied Biosystems within the ninety 90 day warranty period Applied Biosystems will replace the defective media Applied Biosystems does not warrant that the operation of the instrument or its operating software will be uninterrupted or error free Any applicable warranty period under these sections begins on the earlier of the date of installation or ninety 90 days from the date of shipment for hardware and software installed by Applied Biosystems personnel For all hardware and software installed by the buyer or anyone other than Applied Biosystems and for all other products the applicable warranty period begins the date the product is delivered to the buyer Warranty claims must be made within the applicable warranty period or for chemicals or other consumable products within thirty 30 days after receipt by the buyer 132 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Appendix B Limited product warranty Warranty The above warranties do not apply to defects resulting from misuse neglect or exceptions accident including without limitation operation with incompatible solvents or samples in the system operation outside of the environmental or use specifications or not in conformance with the instructions for the instrument system software or accessories improper or inadequate maintenance by the user installation of software o
50. able1 Thermal cycles and applicable kit types Cycler Temperature Verification Kit Thermal cycler Temperature Verification Kit PN e GeneAmp 9700 96 Well 0 2 mL Single Channel 96 Well 4317939 e GeneAmp 9700 Dual 96 Well Temperature Verification Kit e 2720 e GeneAmp 9600 GeneAmp 9700 Dual 384 Well 0 02 mL Single Channel Dual 384 Well 4308354 Temperature Verification Kit e GeneAmp 9700 60 Well 0 5 mL Single Channel 60 Well 4309924 e Veriti Temperature Verification Kit GeneAmp 9800 0 1 mL Single Channel 9800 Fast Thermal 4351630 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 1 About this manual Digital thermometer Frame for GeneAmp 9700 9600 and 2720 thermal cycler T O0 m m OO uU _ gt GR1918 Probe assembly Plate for GeneAmp 9700 with dual 96 well sample block module Figure 1 Components of the 0 2 mL 96 Well Temperature Verification Kit Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 3 and Veriti System User Guide Chapter 1 About this manual Temperature verification tests Kit parts Recalibration You use the Temperature Verification System to perform the following tests on your GeneAmp PCR Systems Veriti Thermal Cycler
51. ace Use care when working around the heated cover and sample block to avoid being burned by hot components Required This test requires the Dual 384 Well Sample Block Module Temperature Verification equipment Kit PN 4308354 which includes Light mineral oil Two 384 well temperature verification plates 20 uL probe assembly Digital thermometer with a 9V battery installed Note This kit is also used for the Auto Lid sample block module Setting up the 1 Make sure the heated cover is in the rear position If not press and release the 20 uL probe red button to automatically move the heated cover to the rear position assembly 2 Place both 384 well temperature verification plates on the sample blocks IMPORTANT The temperature verification plates must be installed in both sample blocks throughout all temperature verification testing The plate labeled L1 to L6 is for the eft sample block Fig 14 The plate labeled with R1 to R6 is for the right sample block Fig 15 Position the plates so the angled corners face away from you Figure 16 Left temperature Figure 17 Right temperature verification plate verification plate Note The plates help you locate the probes within the sample blocks Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 69 and Veriti System User Guide Chapter 6 Temperature non uniformity test 3 Use the stick end of a cotton swab to coat wells L1 to
52. al thermometer in the Enter actual block temperature field TNU Performance Sample temp xx x C Cover temp xxx C Enter actual block temperature 00 0 F1 F2 F3 FA F5 Note The digital thermometer displays a four digit value round this off to three digits before typing it in the TNU Performance screen Note Record this value on the Temperature Non Uniformity Test Data Sheet page 48 to keep a permanent record of the test 44 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 4 Temperature non uniformity test 4 Press Enter The GeneAmp 9700 automatically begins the second reading 55 C setpoint and the TNU Performance screen opens with the setpoint value displayed TNU Performance Sample temp xx x C Cover temp xxx C Setpoint is 55 C Sample must be within 1 0 C of setpoint F1 F2 F3 FA F5 Note The sample block must be at 55 C 1 0 C In addition the cover must be at 105 C 1 0 C It may take several minutes for the GeneAmp 9700 to stabilize at the setpoint temperature 5 Repeat steps 2 and 3 for the second reading 6 Press Enter The TNU Performance screen opens with the following prompt TNU Performance Sample temp xx x C Cover temp xxx C Place probe in well xx Press Run Run F1 F2 F3 F4 F5 7 For the GeneAmp 9700 with Manual Dual 96 Well Sample Block Module Slid
53. alue Well R3 85 C 45 C Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 5 Data Sheet Temperature Non Uniformity Test Data Sheet Temperature Non Uniformity Test When running the temperature non uniformity test record the setpoint values for the wells listed on this data sheet At the end of the test compare the values that are displayed on the thermal cycler with the values that are recorded here Note You can photocopy this page Date Tested by Probe serial no Thermometer serial no Setpoint value 94 C 37 C L1 L2 L3 L4 L5 L6 R1 R2 R3 R4 R5 R6 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 61 and Veriti System User Guide Chapter 5 Data Sheet Temperature Non Uniformity Test 62 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Temperature Verification Tests for the GeneAmp 9700 Auto Lid Sample Block Module This chapter covers Calibration verification 168t ciae se aes ee os d ERES ER 1 RES ROSES HEEL ODE Temperature non uniformity testi us dda ed a ed eR UR KR ER hob aeg Data Sheet Calibration Verification Test
54. ample block to avoid being burned by hot components 4 Clean the oil off the sample block Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 3 Temperature non uniformity test Temperature non uniformity test Required equipment Setting up the Use this test to verify the temperature uniformity of the GeneAmp 9700 thermal cycler with a 0 2 mL sample block module The test consists of the following procedures which you must perform in sequence Setting up the 0 2 mL probe assembly scr ccs cece eee ee E Ree 27 Configuring the GeneAmp 9700 llis e 28 Bunning durtest ooo eR bL ce IDA AP PP eerie EF ie bee ee 28 Exaluatidae the regulis esoo eies Ez deb eer e bod genau o eee deae enu 30 Ending ihe desk ecco ss eec n Der qme sea c gere 31 Nr PHYSICAL INJURY HAZARD Hot Surface Use care when working around the heated cover and sample block to avoid being burned by hot components This test requires the 0 2 mL Sample Block Module Temperature Verification Kit PN 4317939 which includes Cotton swabs Light mineral oil 9700 temperature verification frame 0 2 mL probe assembly Model 4500 digital thermometer with a 9V battery installed 1 Ifthe heated cover is in the forward position lift the lever then slide the heated 0 2 mL probe cover back assembly 2 Place the 9700 temperature verification frame on the samp
55. apter 8 Data Sheet Calibration Verification Test Data Sheet Calibration Verification Test When running the calibration verification test record the setpoint values for well A6 on this data sheet At the end of the test compare the values that are displayed on the thermal cycler with the values that are recorded here Note You can photocopy this page Date Tested by Probe serial no Thermometer serial no Setpoint value Well A6 85 C 45 C Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 103 and Veriti System User Guide Chapter 8 Data Sheet Temperature Non Uniformity Test Data Sheet Temperature Non Uniformity Test When running the temperature non uniformity test record the setpoint values for wells A1 A12 C4 C9 F4 F9 H1 and H12 on this data sheet At the end of the test compare the values that are displayed on the thermal cycler with the values that are 104 recorded here Note You can photocopy this page Date Tested by Probe serial no Thermometer serial no Setpoint value 95 C 55 C A1 A12 C4 c9 F4 F9 H1 H12 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Temperature Ver
56. ature of the sample block wells is uniform Pass appears after each setpoint temperature TNU Performance TNU at 94 C is xx xx Pass TNU at 37 C is xx xx Pass F1 F2 F3 FA F5 Temperature variation of the sample block wells exceeds performance specifications Fail appears after the setpoint temperature s for which the test failed TNU Performance TNU at 94 C is xx xx Fail TNU at 37 C is xx xx Fail F1 F2 F3 FA F5 If the test fails repeat the procedure to make sure that the thermometer was not misread or that data entry errors were not made e Ifthe test fails again contact Applied Biosystems Technical Support See How to obtain support on page viii Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 73 and Veriti System User Guide Chapter 6 Data Sheet Calibration Verification Test Data Sheet Calibration Verification Test 74 When running the calibration verification test record the setpoint values for well R3 on this data sheet At the end of the test compare the values that are displayed on the thermal cycler with the values that are recorded here Note You can photocopy this page Date Tested by Probe serial no Thermometer serial no Setpoint value Well R3 85 C 45 C Thermal Cycler Temperature Ve
57. block module The test consists of the following procedures which you must perform in sequence Setting up the 0 2 mL probe assembly cessus eee RR 23 Configuring the GeneAmp 9700 csse e 23 Bunning the test 025 ceci one AREE ER UD PUPS HEVATRR E EET e 24 Exaluatine the regulis uu codex Re dete dee Oeo d ge ae e S Ded Ras 26 Ending ibetesk 2 co ctis cbr RR dr SR ORI ee RE ee E EYES 26 Nr PHYSICAL INJURY HAZARD Hot Surface Use care when working around the heated cover and sample block to avoid being burned by hot components This test requires the 0 2 mL Sample Block Module Temperature Verification Kit PN 4317939 which includes Cotton swabs Light mineral oil 9700 temperature verification frame 0 2 mL probe assembly Model 4500 digital thermometer with a 9V battery installed If the heated cover is in the forward position lift the lever then slide the heated cover back Place the 9700 temperature verification frame on the sample block Using a cotton swab coat well A6 with mineral oil Place the 0 2 mL probe assembly into well A6 A BR wWoN Thread the probe wire through the channel in the 9700 temperature verification frame to prevent damage to the probe and lead wires see Figure 5 on page 22 6 Make sure the probe is connected to the digital thermometer 7 Slide the heated cover forward and pull the lever down IMPORTANT Seat the probe properly and close the heated cove
58. cation Tests for the 2 20 Thermal Cycler This chapter covers oi EP 8 Temperature calibration verification tests iis osa enar A X deg 9 Temperature non uniform ty Sls snos ek var sgoh bad us page up dace 13 Data Sheet Calibration Verification Test ic 00500 eb e E n 18 Data Sheet Temperature Non Uniformity Test llle 19 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 7 and Veriti System User Guide Chapter 2 Overview Overview Materials When you perform a temperature verification test on a 2720 thermal cycler use the materials in the kit PN 4317939 Assembly Figure 3 shows a properly assembled system Note that the frame is positioned around the wells with the channel facing you The location tab on the frame should align with the locator tab on the thermal cycler The probe wire is threaded through the channel to prevent damaging the wire when you close the thermal cycler heated cover GR1916 Figure 3 Proper assembly of the Temperature Verification System for 2720 thermal cycler Figure 4 Temperature verification frame 8 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 2 Temperature calibration verification test Temperature calibration verification test Required equipment Setting up the 0 2 mL probe assembly Configuring the 2720 the
59. ck wells test failed exceeds performance specifications per TNU Performance NU at 94 C is xx xx Fail NU at 37 C is xx xx Fail F1 F2 F3 F4 F5 e fthe test fails repeat the procedure to make sure that the thermometer was not misread or that data entry errors were not made e Ifthe test fails again contact Applied Biosystems Technical Support See How to obtain support on page viii 16 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Ending the test 1 Todas GRO Chapter 2 Temperature non uniformity test Press F5 Cancel Remove the 0 2 mL probe assembly from the sample block Power off the digital thermometer then clean off the oil Wait for the sample block to reach room temperature 725 C then remove the 2720 temperature verification frame from the sample block wr PHYSICAL INJURY HAZARD Hot Surface Use care when working around the heated cover and sample block to avoid being burned by hot components Clean the oil off the sample block Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 17 and Veriti System User Guide Chapter 2 Data Sheet Calibration Verification Test Data Sheet Calibration Verification Test 18 When you run the calibration verification test record the setpoint values for well A6 on this data sheet At the end of the
60. d right dual 96 well block temperature verification plates 0 2 mL probe assembly Model 4500 digital thermometer with a 9V battery installed 1 For the GeneAmp 9700 with Manual Dual 96 Well Sample Block Module If the heated cover is in the forward position lift the lever then slide the heated cover back For the GeneAmp 9700 with Auto Lid Dual 96 Well Sample Block Module If the heated cover is in the forward position lift the lever then press the red button to slide the heated cover back 2 Place both dual 96 well temperature verification plates on the sample block The plate labeled with L1 to L6 is for the left sample block The plate labeled with R1 to R6 is for the right sample block Position the plates so the angled corners face away from you Note The plates are used as guides to help you locate the probes within the sample blocks 3 Use a cotton swab to coat wells L1 to L6 and R1 to R6 with mineral oil 4 Place the 0 2 mL probe assembly into well L1 As the test progresses move the 0 2 mL probe assembly to each of the test wells L1 to L6 and R1 to R6 5 Thread the probe wire through the channel in the dual 96 well temperature verification plate to prevent damage to the probe and lead wires see Figure 7 on page 36 6 Make sure the probe is connected to the digital thermometer 42 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guid
61. damaged 8 Power on the digital thermometer Refer to the instructions in your Temperature Verification Kit for details on operating the digital thermometer Model 4500 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 107 and Veriti System User Guide Chapter 9 Calibration verification test Running the test 1 Power on the GeneAmp 9600 The Main menu opens For best results allow the thermal cycler 15 to 30 minutes to warm up to ambient temperature before performing the test Press the OPTION key three times to move the pointer to UTIL then press ENTER The Utilities menu opens Select Function DIR CONFIG DIAG DEL Press the OPTION key twice to move the pointer to DIAG then press ENTER The following menu opens Enter Diag Test 1 REVIEW History file Press 5 then press ENTER to run the Verify Calibration Diagnostic Test Test 5 Note To ensure maximum accuracy the temperatures of the heated cover and the sample block are the same in this test This condition prevents the heated cover from affecting the accuracy of the probe assembly The temperature of the sample block and heated cover increases to 40 C and the following display opens Going to 409C Cvr xxC Blk xx xC This display shows the current temperature of the block cover Cvr xxC and sample block Blk xx xC When the temperature of the block cover is within
62. e Chapter 4 Temperature non uniformity test 7 For the GeneAmp 9700 with Manual Dual 96 Well Sample Block Module Slide the heated cover forward and pull the lever down For the GeneAmp 9700 with Auto Lid Dual 96 Well Sample Block Module Press the red button to slide and close the heated cover IMPORTANT Seat the probe properly and the close the heated cover carefully If the probe wire is crushed when you close the heated cover the probe can be damaged 8 Power on the digital thermometer Refer to the instructions in your Temperature Verification Kit for details on operating the digital thermometer Model 4500 Configuring the 1 Power on the thermal cycler The Main menu opens GeneAmp 9700 For best results allow the thermal cycler 15 to 30 minutes to warm up to ambient temperature before performing the test 2 Press F4 Util The Utilities screen opens 3 Press F1 Diag The Diagnostics screen opens 4 Press F3 TmpVer The Temperature Verification screen opens Temperature Verification Temp Calibration Verification NU Temperature Non Uniformity Temp TNU F1 F2 F3 F4 F5 5 Press F2 TNU The GeneAmp 9700 is automatically configured for the temperature non uniformity test starting with the setpoint of 95 C and the TNU Performance screen opens The following screen opens when the cover reaches the setpoint TNU Performance Sample temp xx x C Cover temp xxx
63. e GeneAmp 9800 ccce eet e eee ees 98 pGgnun 40 5 EP otk e Oh nares PA a ee eee tas 99 Evaluating the Tesulf amp cessas escas dee bcd aden d ma e ee ne ERA 102 This test requires the following items in your Temperature Verification Kit Digital thermometer Model 4500 with a 9V battery installed Cotton swabs Light mineral oil 0 I mL temperature verification probe assembly 1 Ifthe heated cover is in the forward position lift the lever then slide the heated 0 1 mL probe cover back assembly 2 With the instrument powered off and the sample block at room temperature place the 0 1 mL temperature verification probe assembly on the sample block 3 Use a cotton swab to coat wells Al A12 C4 C9 F4 F9 H1 and H12 with mineral oil 4 Place the 0 1 mL probe assembly into well A1 As the test progresses move the 0 1 mL probe assembly to each of the test wells Al A12 C4 C9 F4 F9 H1 and H12 5 Thread the probe wire through the undercut of the 0 1 mL probe assembly to prevent damage to the probe and lead wires 6 Make sure the probe is connected to the digital thermometer 7 Shde the heated cover forward and pull the lever down IMPORTANT Seat the probe properly and close the heated cover carefully If the probe wire is crushed when you close the heated cover the probe may be damaged 8 Power on the digital thermometer Refer to the instructions in your Temperature Verification Kit for details on operating th
64. e digital thermometer Model 4500 9 Continue with Configuring the GeneAmp 9800 on page 98 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 97 and Veriti System User Guide Chapter 8 Temperature non uniformity test Configuring the Complete the procedures in Setting up the 0 1 mL probe assembly on GeneAmp 9800 page 97 Power on the GeneAmp 9800 For best results allow the thermal cycler 15 to 30 minutes to warm up to ambient temperature before performing the test In the main menu press F4 Util to open the Utilities screen Press F1 Diag to open the Diagnostics screen Press F3 TmpVer to open the Temperature Verification screen Temperature Verification Temp Calibration Verification NU Temperature Non Uniformity Temp TU F1 F2 F3 F4 F5 6 Press F2 TNU to open the TNU Performance screen and configure the 9800 for the temperature non uniformity test TNU Performance Sample temp xx x C Cover temp xxx C Place Probe in well A1 Press Run Run F1 F2 F3 F4 F5 Note Ifthe cover temperature is not within 1 C of the heated cover setpoint the following screen opens TNU Performance Sample temp xx x C Cover temp xxx C Cover setpoint is 55C Cover must be within 1 0C of setpoint F1 F2 F3 F4 F5 7 Continue with Running the test on page 99 98 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800
65. e screen opens with the following prompt TNU Performance Sample temp xx x C Cover temp xxx C Place probe in well xx Press Run Run Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 15 and Veriti System User Guide Chapter 2 Temperature non uniformity test 7 Open the hinged heated cover Repeat steps 4 through 7 of the Setting up the 0 2 mL probe assembly on page 13 and steps 1 through 6 of this procedure Complete these steps for all 8 wells to be tested A1 A12 C4 C9 F4 F9 H1 HI2 8 The 2720 thermal cycler evaluates the uniformity of the sample block temperature for the setpoint values that you entered and displays the results A summary screen opens at the end of the test F1 F2 F3 FA F5 If you entered values on the Temperature Non Uniformity Test Data Sheet page 19 compare those values with the actual test results 9 Press F1 Accept Evaluating the When the thermal cycler completes the temperature non uniformity test the TNU results Performance screen opens See the table below to evaluate the results If the Then Temperature of the Pass appears after each setpoint temperature sample block wells is uniform TNU Performance NU at 94 C is xx xx Pass NU at 37 C is xx xx Pass F1 F2 F3 FA F5 Temperature variation of Fail appears after the setpoint temperature s for which the the sample blo
66. e the heated cover forward and pull the lever down For the GeneAmp 9700 with Auto Lid Dual 96 Well Sample Block Module Press the red button to slide and close the heated cover 8 Repeat steps 4 through 7 of Setting up the 0 2 mL probe assembly on page 42 and steps 1 through 7 of this procedure Complete these steps for all the remaining 11 wells to be tested L2 to L6 and R1 to R6 The GeneAmp 9700 evaluates the uniformity of the sample block temperature for the setpoint values that you entered and displays the results A summary screen opens at the end of the test F1 F2 F3 F4 F5 9 Ifyou entered values on the Temperature Non Uniformity Test Data Sheet page 48 compare those values with the actual test results 10 Press F1 Accept Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 45 and Veriti System User Guide Chapter 4 Temperature non uniformity test Evaluating the After the GeneAmp 9700 completes the temperature non uniformity test the TNU results Performance screen opens See the table below to evaluate the results If the Then Temperature of the sample block wells is uniform Pass appears after each setpoint temperature TNU Performance TNU at 95 C is xx xx Pass TNU at 55 C is xx xx Pass F1 F2 F3 F4 F5 Temperature variation of the sample block wells exceeds performance specifications
67. ecalibrated once a year For instructions on having your system recalibrated by the manufacturer refer to Appendix A Recalibration 4 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Probe assembly Chapter 1 Probe assembly The probe assembly shown below consists of a cone that measures the temperature of the sample well The temperature is measured by a thermistor bead in the cone tip GR1914 Digital thermometer Overview The handheld digital thermometer shown below has a temperature range of 0 to 100 C and is accurate to within 4 GR1915 0 1 C IMPORTANT Do not try to recalibrate or perform any service on the digital thermometer The only user serviceable component in the unit 1s the battery Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 5 and Veriti System User Guide Chapter 1 Probe assembly Precautions Temperature display differences Using the probe while running programs When you use the digital thermometer Make sure the probe assembly is connected to the input connector at the top of the digital thermometer If a probe is not connected when the thermometer is powered on the unit displays the error message Error No Probe Found Install Probe after Shut Down To power on the digital thermometer pres
68. ed values on the Calibration Verification Test Data Sheet compare those values with the actual test results 8 Press F1 Accept To interpret the results see Evaluating the results on page 82 9 When you complete all measurements be sure to Press Exit Remove the 0 5 mL probe assembly from the sample block Power off the digital thermometer then clean off the oil Remove the 0 5 mL temperature verification frame from the sample block NITE BURN HAZARD Make sure the sample blocks have cooled at least to room temperature less than 25 C before removing the probe The blocks and probes retain heat longer than expected Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 81 and Veriti System User Guide Chapter 7 Calibration verification test 82 Evaluating the When the GeneAmp 9700 completes the calibration verification test one of two screens opens See the table below to evaluate the results results If the sample block module Then the Is properly calibrated Calibration Verification screen displays the following message Calibration Verification Calibration is good F1 F2 F3 F4 ES Does not pass the calibration verification test Calibration Verification screen displays the following message Calibration Verification Instrument may require servic Contact Applied Biosystems Technical Support F1 F2
69. emp 2 at 85 C 45 C Thermometer Date Tested by Probe serial no serial no Left Right Left Right Zone Zone Zone Zone Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 127 and Veriti System User Guide Chapter 10 Data Sheet Temperature Non Uniformity Test Data Sheet Temperature Non Uniformity Test 128 When you run the temperature non uniformity test record the setpoint values for the wells listed on this data sheet At the end of the test compare the values that are displayed on the thermal cycler with the values that are recorded here Note You can photocopy this page Date Tested by Probe serial no Thermometer serial no Measurement Block TNU 1 at 95 C Block TNU 2 at 60 C Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Hecalibration This appendix describes how to order a recalibration service for your Temperature Verification System Obtaining recalibration Introduction Decontaminating the probe assembly Sending equipment to Alpha Technics Applied Biosystems recommends that the Model 4500 digital thermometer and Probe Assembly be recalibrated on an annual basis To have your thermometer and probe recalibrated
70. ending on the results See the table below to evaluate the results If the sample block module Then the Is properly calibrated Calibration Verification screen displays the following message Calibration Verification Calibration is good F1 F2 F3 FA F5 Does not pass the calibration verification test Calibration Verification screen displays the following message Calibration Verification Instrument may require service Contact Applied Biosystems Technical Support F1 F2 F3 FA F5 e If the test fails repeat the procedure to make sure that the thermometer was not misread or that data entry errors were not made e If the test fails again contact Applied Biosystems Technical Support See How to obtain support on page viii Note As a result of the Temperature Tolerance Stack between the sample block temperature probe and thermometer the instrument firmware is programmed to accept a Pass Fail result of 0 75 C Therefore passing results may vary from 84 25 C to 85 75 C at the 85 degree setpoint and 44 25 C and 45 75 C at the 45 degree setpoint Ranges greater than 0 75 degrees cause the test to fail Ending the test 1 Press F5 Exit 2 Remove the 0 2 mL probe assembly from the sample block 3 Power off the digital thermometer then clean off the oil Wait for the sample block to reach room temperature 725 C then remove the 2720 temperature verifica
71. eneAmp 9700 for the temperature non uniformity test The TNU Performance screen opens TNU Performance Sample temp xx x C Cover temp xxx C Place Probe in well A1 Press Run Run F1 F2 F3 FA F5 7 Continue with Running the test on page 57 56 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Running the test Chapter 5 Temperature non uniformity test The temperature non uniformity test uses the 0 02 mL probe assembly to test the temperature uniformity of six different wells in each sample block Note If necessary press F5 Cancel to exit the test To run the temperature non uniformity test l Complete the procedures in Setting up the 0 02 mL probe assembly on page 55 Press F1 Run to start the temperature non uniformity test The TNU Performance screen opens with the setpoint value displayed TNU Performance Sample temp xx x C Cover temp xxx C Setpoint is 94 C Sample must be within 1 0 C of setpoint F1 F2 F3 F4 E5 Note The sample blocks must be within 1 0 C of the setpoint In addition the cover must be within 1 C of 105 C It may take several minutes for the GeneAmp 9700 to ramp up The TNU Performance screen counts down the time until the setpoint is stable TNU Performance Sample temp xx x C Cover temp xxx C Stabilizing at setpoint x xx F1 F2 F3 FA F5 W
72. ens TNU Performance Sample temp xx x C Cover temp xxx C Place Probe in well L1 Press Run Run F1 F2 F3 F4 F5 Running the test The temperature non uniformity test uses the 20 uL probe assembly to test the temperature uniformity of six different wells in each sample block Note If necessary press F5 Cancel to exit the test 70 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 6 Temperature non uniformity test To run the temperature non uniformity test 1 Press F1 Run to start the temperature non uniformity test The TNU Performance screen opens with the setpoint value displayed TNU Performance Sample temp xx x C Cover temp xxx C Setpoint is 94 C Sample must be within 1 0 C of setpoint F1 F2 F3 FA F5 Note The sample blocks must be within 1 0 C of the setpoint In addition the cover must be within 1 C of 105 C It may take several minutes for the GeneAmp 9700 to ramp up 2 Take a temperature reading a The TNU Performance screen counts down the time until the setpoint is stable TNU Performance Sample temp xx x C Cover temp xxx C Stabilizing at setpoint x xx F1 F2 F3 FA F5 b When the Stabilizing at setpoint value decreases to 0 read the digital thermometer Refer to the instructions in your Temperature Verification Kit for details on operating the digital therm
73. erification Test e In the System Specification Sheet the thermal cycler accuracy specifications are published as 0 25 C The single channel Temperature Verification Kit TVK consists of the hardware thermometer and probe and an associated procedure The TVK does not measure the original manufacturing specification of the thermal cycler The purpose of the TVK test is to detect any system failure that may result in a shift in the original manufacturer s calibration This kit should be used for temperature verification not system calibration For the GeneAmp 9700 the system has an aggregate accuracy of 40 25 C The TVK has accuracy and discrepancy in addition to the original manufacturing specification Temperature calibration of Applied Biosystems thermal cyclers is extremely stable and no measurable change in the calibration accuracy is detectable unless a significant change occurs in the instrument characteristics after its manufacture Temperature Tolerance stack up between TVK and the original manufacturing specification is 0 75 degrees Celsius Note Asa result of the Temperature Tolerance Stack the instrument firmware has been pre programmed to accept a Pass Fail result of 0 75 degrees Celsius therefore passing results may vary from 84 25 C up to 85 75 C Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 135 and Veriti System User Guide Appendi
74. ermometer 7 Slide the heated cover forward and pull the lever down IMPORTANT Seat the probe properly and close the heated cover carefully If the probe wire is crushed when you close the heated cover the probe may be damaged 8 Power on the digital thermometer Refer to the instructions in your Temperature Verification Kit for details on operating the digital thermometer Model 4500 9 Continue with Configuring the GeneAmp 9700 on page 79 78 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 7 Calibration verification test Configuring the 1 Complete the procedures in Setting up the 0 5 mL probe assembly on GeneAmp 9700 page 78 2 Power on the thermal cycler The Main menu opens For best results allow the thermal cycler 15 to 30 minutes to warm up to ambient temperature before performing the test 3 Press F4 Util The Utilities screen opens 4 Press F1 Diag The Diagnostics screen opens 5 Press F3 TmpVer The Temperature Verification screen opens Temperature Verification Temp Calibration Verification NU Temperature Non Uniformity Temp TNU F1 F2 F3 F4 F5 6 Press F1 Temp to automatically configure the GeneAmp 9700 for the calibration verification test The Calibration Verification screen opens Calibration Verification Block temp xx x C Cover temp xxx C Place probe in we
75. est Data Sheet page 32 to keep a permanent record of the test 4 Press Enter The thermal cycler automatically begins the second temperature reading 45 C setpoint The Calibration Verification screen displays the setpoint value Calibration Verification Block temp xx x C Cover temp xxx C Setpoint is 45 C Cover must be within 30 C of 45 C F1 F2 F3 F4 F5 Note The cover must be at 45 C 30 C It may take several minutes for the system to ramp up 5 Repeat steps 2 through 4 for the second temperature reading The thermal cycler evaluates the calibration of the sample block temperature for the setpoint values that you entered then displays the results A summary section opens when the test ends Calibration Verification Actual temperature at 85 C Actual temperature at 45 C F1 F2 F3 F4 F5 6 Ifyou entered values on the Calibration Verification Test Data Sheet page 32 compare those values with the actual test results 7 Press F1 Accept Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 25 and Veriti System User Guide Chapter 3 Temperature calibration verification test 26 Evaluating the When the thermal cycler completes the calibration verification test one of two results screens opens depending on the test results See the table below to evaluate the results If the sample block module Then the Is properly
76. ested by Probe serial no Thermometer serial no Setpoint value Well R3 85 C 45 C Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 47 and Veriti System User Guide Chapter 4 Data Sheet Temperature Non Uniformity Test Data Sheet Temperature Non Uniformity Test When you run the temperature non uniformity test record the setpoint values for the wells L1 to L6 and R1 to R6 listed on this data sheet At the end of the test compare the values that are displayed on the thermal cycler with the values that are recorded here Note You can photocopy this page Date Tested by Probe serial no Thermometer serial No Setpoint value 95 C 55 C L1 L2 L3 L4 L5 L6 R1 R2 R3 R4 R5 R6 48 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Temperature Verification Tests for the GeneAmp 9700 Dual 384 Well Sample Block Module D This chapter covers Calibration ventication e8L iius ouo e iem hoe Roe Ro e eh ds Temperature nop uniformity Test su sea r kr eor de RARO p ac eadera Data Sheet Calibration Verification Test iisususssino dee eam age der pg eas Data Sheet Temperature Non Uniformity Test llle essen Thermal C
77. extreme situations Except for IMPORTANTS each safety alert word in an Applied Biosystems document appears with an open triangle figure that contains a hazard symbol These hazard symbols are identical to the hazard symbols that are affixed to Applied Biosystems instruments see Safety symbols on page 139 MSDSs The MSDSs for any chemicals supplied by Applied Biosystems or Ambion are available to you free 24 hours a day For instructions on obtaining MSDSs see MSDSs on page vii IMPORTANT For the MSDSs of chemicals not distributed by Applied Biosystems or Ambion contact the chemical manufacturer Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 vii and Veriti System User Guide Preface How to use this guide Text conventions User attention words This guide uses the following conventions Bold text indicates user action For example Type 0 then press Enter for each of the remaining fields Italic text indicates new or important words and is also used for emphasis For example Before analyzing always prepare fresh matrix A right arrow symbol gt separates successive commands you select from a drop down or shortcut menu For example Select File gt Open gt Spot Set Two user attention words appear in Applied Biosystems user documentation Each word implies a particular level of observation or action as described below Note Prov
78. fication Block temp xx x C Cover temp xxx C Setpoint is 85 C Cover must be within 1 C of 105 C F1 F2 F3 FA F5 Note The cover must be within 1 C of 105 C It may take several minutes for the GeneAmp 9700 to ramp up 3 The Calibration Verification screen counts down the time until the setpoint is reached Calibration Verification Block temp xx x C Cover temp xxx C Stabilizing at setpoint x xx F1 F2 F3 F4 F5 When the Stabilizing at setpoint value decreases to 0 read the digital thermometer Refer to the instructions in your Temperature Verification Kit for details on operating the digital thermometer Model 4500 4 Using the numeric keys enter the value that is displayed on the digital thermometer in the Enter actual block temperature field Calibration Verification Block temp xx x C Cover temp xxx C Enter actual block temperature Cancel F1 F2 F3 F4 F5 Note Round off the four digit value on the digital thermometer to three digits before you enter it into the Calibration Verification screen Note Record this value on the Calibration Verification Test Data Sheet page 60 to keep a permanent record of the test 52 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 5 Calibration verification test 5 Press ENTER The GeneAmp 9700 automatically begins the second reading 4
79. fication System For GeneAmp PCR Systems 2720 9600 9700 9800 125 and Veriti System User Guide Chapter 10 Temperature non uniformity test Ending the test 1 Ifthe heated cover is closed lift the lever and place the heated cover in the fully opened position wr PHYSICAL INJURY HAZARD Hot Surface Use care when working around the heated cover and sample block to avoid being burned by hot components 2 Wait for the sample block to reach room temperature 725 C then remove the the 0 5 mL probe assembly and thermal isolation frame from the sample block 3 If you are performing a repeat measurement clean the probe assembly and all wells of mineral oil then perform the repeat measurement Otherwise power off the Veriti Thermal Cycler and Model 4500 digital thermometer 4 Clean the oil off the sample block Note Follow the decontamination procedures in user guide for cleaning oiled wells 126 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 10 Data Sheet Calibration Verification Test Data Sheet Calibration Verification Test When you run the calibration verification test record the setpoint values for well E1 on this data sheet At the end of the test compare the values that are displayed on the thermal cycler with the values that are recorded here Note You can photocopy this page Avg Probe Temp 1 at Avg Probe T
80. fication plates on the sample blocks IMPORTANT The temperature verification plates must be installed in both sample blocks throughout all temperature verification testing The plate labeled L1 to L6 is for the eft sample block Figure 14 The plate labeled R1 to R6 is for the right sample block Figure 15 Position the plates so the angled corners face away from you Figure 1 4 Left temperature Figure 15 Right temperature verification plate verification plate Note The plates help you locate the probes within the sample blocks Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter6 Calibration verification test 3 Use the stick end of a cotton swab to coat well R3 with mineral oil The wells are too small for the swab end 4 Place the 20 uL probe assembly into well R3 5 Thread the probe wire through the channels in the 384 well temperature verification plate to prevent damage to the probe and lead wires 6 Make sure the probe is connected to the digital thermometer 7 Press and release the red button to automatically close the heated cover IMPORTANT Seat the probe properly If the probe wire is crushed when the heated cover closes the probe may be damaged 8 Power on the digital thermometer Refer to the instructions in your Temperature Verification Kit for details on operating the digital thermometer Model 4500 Configuring t
81. g up the 20 uL probe assembly on page 69 and steps 1 through 6 of this procedure Complete these steps for all 12 wells to be tested Left Sample Block Right Sample Block L1 L2 L3 L4 L5 and L6 R1 R2 R3 R4 R5 and R6 8 The GeneAmp 9700 evaluates the uniformity of the sample block temperature for the setpoint values that you entered and displays the results A summary screen opens at the end of the test F1 F2 F3 F4 F5 If you entered values on the Temperature Non Uniformity Test Data Sheet compare those values with the actual test results 9 Press F1 Accept To interpret the results see Evaluating the results on page 73 72 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 6 Temperature non uniformity test 10 When you complete all measurements be sure to Press F5 Cancel Remove the 20 uL probe assembly from the sample blocks Power off the digital thermometer then clean off the oil Remove the 384 well temperature verification plates from the sample blocks IMPORTANT Make sure the sample blocks are at room temperature 25 C before removing the reaction plates Evaluating the When the GeneAmp 9700 completes the temperature non uniformity test the TNU results Performance screen opens See the table below to evaluate the results If the Then Temper
82. he 1 Power on the thermal cycler The Main menu opens GeneAmp 9700 For best results allow the thermal cycler 15 to 30 minutes to warm up to ambient temperature before performing the test 2 Press F4 Util The Utilities screen opens 3 Press F1 Diag The Diagnostics screen opens 4 Press F3 TmpVer The Temperature Verification screen opens Temperature Verification Temp Calibration Verification NU Temperature Non Uniformity Temp J TNU J F1 F2 F3 F4 F5 5 Press F1 Temp to automatically configure the GeneAmp 9700 for the calibration verification test The Calibration Verification screen opens Calibration Verification Block temp xx x C Cover temp xxx C Place probe in well R3 Press Run Run Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 65 and Veriti System User Guide Chapter 6 Calibration verification test Running the test Use the thermometer to take temperature readings of the well that is connected to the 20 uL probe assembly You must take readings at two different setpoint temperatures Note If necessary press F5 Cancel to exit the test To run the calibration verification test 1 Press F1 Run to start the calibration verification test The Calibration Verification screen opens with a setpoint value displayed Calibration Verification Block temp xx x C Cover temp xxx C Setpoint is 85 C Cover must
83. he instrument 4 Place the 0 2 mL probe assembly into well A1 5 Thread the probe wire through the channel in the 9600 temperature verification frame to prevent damage to the probe and lead wires Make sure the probe is connected to the digital thermometer see Figure 18 on page 106 6 Slide the heated cover forward then turn the cover knob clockwise until the white mark on the knob is aligned with the white mark on the cover IMPORTANT Seat the probe properly and the close the heated cover carefully If the probe wire is crushed when you close the heated cover the probe can be damaged 7 Power on the digital thermometer Refer to the instructions in your Temperature Verification Kit for details on operating the digital thermometer Model 4500 Running the test 1 Power on the GeneAmp 9600 For best results allow the thermal cycler 15 to 30 minutes to warm up to ambient temperature before performing the test Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 111 and Veriti System User Guide Chapter 9 Temperature non uniformity test 2 Setup a two temperature CYCL program with the following parameters Setpoint 1 Temperature 95 C Hold Time 2 00 minutes Ramp Time 0 00 minutes Setpoint 2 Temperature 40 C Hold Time 2 00 minutes Ramp Time 0 00 minutes Cycles 99 Note Refer to the GeneAmp PCR System 9600 User s Manual PN 0093 8660 f
84. he setpoint value displayed Calibration Verification Block temp xx x C Cover temp xxx C Setpoint is 45 C Cover must be within 30 C of 45 C EL F2 F3 FA F5 Note The cover must be within 30 C of 45 C 6 Repeat steps 3 and 4 for the second reading The GeneAmp 9800 evaluates the calibration of the sample block temperature for the setpoint values that you entered and displays the results A summary screen opens at the end of the test Calibration Verification Actual temperature at 85 C Actual temperature at 45 C F1 F2 F3 FA F5 If you entered values on the Calibration Verification Test Data Sheet compare those values with the actual test results 7 Press F1 Accept To interpret the results see Evaluating the results on page 96 8 When you complete all measurements be sure to Press Exit Remove the 0 1 mL probe assembly from the sample blocks Power off the digital thermometer then clean off the oil Remove the 0 1 mL temperature verification probe assembly from the sample blocks Nee BURN HAZARD Make sure the sample blocks have cooled at least to room temperature less than 25 C before removing the probe The blocks and probes retain heat longer than expected Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 95 and Veriti System User Guide Chapter8 Calibration verification test 96 Evaluating the When the
85. hen the Stabilizing at setpoint value decreases to 0 read the digital thermometer Refer to the instructions in your Temperature Verification Kit for details on operating the digital thermometer Model 4500 Using the numeric keys enter the value that is displayed on the digital thermometer in the Enter actual block temperature field TNU Performance Sample temp xx x C Cover temp xxx C Enter actual block temperature 00 0 F1 F2 F3 FA F5 Note Round off the four digit value on the digital thermometer to three digits before you enter it into the Calibration Verification screen Note Record this value on the Temperature Non Uniformity Test Data Sheet page 61 to keep a permanent record of the test Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 57 and Veriti System User Guide Chapter 5 Temperature non uniformity test 5 Press ENTER The GeneAmp 9700 automatically begins the second reading 37 C setpoint The TNU Performance screen opens with the setpoint value displayed TNU Performance Sample temp xx x C Cover temp xxx C Setpoint is 37 C Sample must be within 1 0 C of setpoint F1 F2 F3 F4 F5 Note The sample blocks must be within 1 0 C of the setpoint 6 Repeat steps 3 and 4 for the second reading 7 Press ENTER The TNU Performance screen opens with the following prompt TNU Performance Sample temp xx x C Cover temp
86. ication System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 9 Temperature non uniformity test Temperature non uniformity test Required equipment Setting up the 0 2 mL probe assembly Use this test to verify the temperature uniformity of the GeneAmp 9600 The temperature non uniformity test consists of the following procedures which you must perform in sequence Setting up the 0 2 mL probe assembly 2 66 6 6 bccn eee e e e EH Runnte thedest 2i oco ees ae S er d Rue e e ees 111 Calculsinp test results ccc ove CUL Reed cher ORA G DER C X a ee E 113 Ending he dose oo osse Le eec e exces do edd ur abdo ga I dos 113 Nr PHYSICAL INJURY HAZARD Hot Surface Use care when working around the heated cover and sample block to avoid being burned by hot components This test requires the 0 2 mL Temperature Verification Kit PN 4317939 which includes Cotton swabs Light mineral oil 9600 temperature verification frame 0 2 mL probe assembly Model 4500 digital thermometer with a 9V battery installed 1 Ifthe heated cover is in the forward position turn the knob completely counterclockwise then slide the heated cover back 2 Using a cotton swab coat the following wells with mineral oil Al A4 A8 A12 C1 C4 C8 C12 El E4 E8 E12 H1 H4 H8 H12 3 Place the 9600 temperature verification frame on the sample block with the channel facing the front of t
87. ides information that may be of interest or help but is not critical to the use of the product IMPORTANT Provides information that is necessary for proper instrument operation accurate chemistry kit use or safe use of a chemical How to obtain support For the latest services and support information for all locations go to www appliedbiosystems com At the Applied Biosystems web site you can Access worldwide telephone and fax numbers to contact Applied Biosystems Technical Support and Sales facilities Search through frequently asked questions FAQs Submit a question directly to Technical Support Order Applied Biosystems user documents MSDSs certificates of analysis and other related documents Download PDF documents Obtain information about customer training Download software updates and patches For recalibration please contact Alpha Technics Formerly Alpha Sensors Inc Eutechnics Division at www alphatechnics com Calibration standards are traceable to NIST U S National Institute of Standards and Technology viii Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Introduction This chapter covers Aboni Mis manal nn ho Rnd rp About the Temperature Verification System 2 044 40466 5404ee0 eneoeerseevaws Probe Aer a hee s deca du thee dd eee Sie eee a Da BOE NET ao ior SR DU ARE Se es SOL eee ERO
88. ification Tests for the GeneAmp 9600 This chapter covers OVVIE o Les de deo re Dee aee bad aR RE Calibration verification tesb iiussese asse eon enden Temperature non uniformity test ll lessen Data Sheet Calibration Verification Test Data Sheet Temperature Non Uniformity Test Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide 105 Chapter 9 Overview Overview Materials When you perform temperature verification tests on the GeneAmp 9600 you use the materials provided in your kit Assembly Figure 18 shows a properly assembled system The frame is positioned around the wells with the channel facing you and the probe wire is threaded through the channel to prevent damaging the wire when the thermal cycler heated cover is closed GR1916 Figure 18 The Temperature Verification System for GeneAmp 9600 106 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter9 Calibration verification test Calibration verification test Required equipment Setting up the 0 2 mL probe assembly Use this test to verify the temperature calibration of your GeneAmp 9600 The calibration verification test consists of the following procedures which you must perform in sequence Setting up the 0 2 mL probe assembly 2 64
89. ion frame from the sample block 3 If you are performing a repeat measurement clean the probe assembly and all wells of mineral oil then perform the repeat measurement Otherwise power off the Veriti Thermal Cycler and Model 4500 digital thermometer 4 Clean the oil off the sample block Note Follow the decontamination procedures in user guide for cleaning oiled wells 122 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 10 Temperature non uniformity test Temperature non uniformity test Required equipment Setting up the 0 5 mL probe assembly Use this test to verify the temperature uniformity of the Veriti Thermal Cycler The temperature non uniformity test consists of the following procedures which you must perform in sequence Setting up the 0 5 mL probe assembly coc 64 6 0 6 bccn eee e e ktina 123 Runing he 4e8L 2 eco paw nee fae S esr d duce e ee oe ee 125 Ending The testo cid sov cade ee uu eXenER Ib S CH ODDS E Weis 126 wr PHYSICAL INJURY HAZARD Hot Surface Use care when working around the heated cover and sample block to avoid being burned by hot components This test requires the 0 5 mL Temperature Verification Kit PN 4309924 which includes Cotton swabs Light mineral oil Temperature verification frame 0 5 mL probe assembly Model 4500 digital thermometer with a 9V battery installed
90. key This returns you to the Review History File display Press 5 then press ENTER to return to the Verify Calibration Diagnostic test The figure below shows temperatures during the calibration verification test 95 40 Temp oc Time in minutes Calculating test Use the following information to calculate the results of the test Refer to the results calibration label in your user manual for the High and Low Offset values Note If there is more than one GeneAmp 9600 in your laboratory verify that the serial number on the calibration label matches the serial number on the instrument that you are testing Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 109 and Veriti System User Guide Chapter 9 Calibration verification test 110 Ending the test Average block temperature at the 95 C hold Use the following formula to calculate the average block temperature at the 95 C hold Block Average at 95 C T 95 High Offset If the block average is more than 0 75 degrees Celsius above or below 95 C your GeneAmp 9600 must be recalibrated For example If the measured temperature of well E1 is 95 2 C and the High Offset that is printed on your calibration label is 0 1 you would make the following calculation Block Average at 95 C 95 2 0 1 95 3 C In this example because 95 3 C does not differ by 0 75 degrees Celsius from the p
91. le block 3 Use a cotton swab to coat the following wells with mineral oil Al A12 C4 C9 F4 F9 H1 H12 4 Place the 0 2 mL probe assembly into well C4 then as the test progresses move the 0 2 mL probe assembly to each of the test wells 5 Thread the probe wire through the channel in the 9700 temperature verification frame to prevent damage to the probe and lead wires see Figure 5 on page 22 6 Make sure the probe is connected to the digital thermometer 7 Slide the heated cover forward and pull the lever down IMPORTANT Seat the probe properly and close the heated cover carefully If the probe wire is crushed when you close the heated cover the probe can be damaged 8 Power on the digital thermometer Refer to the instructions in your Temperature Verification Kit for details on operating the digital thermometer Model 4500 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 27 and Veriti System User Guide Chapter 3 Temperature non uniformity test Configuring the 1 Power on the thermal cycler The Main menu opens For best results allow the GeneAmp 9700 thermal cycler 15 to 30 minutes to warm up to ambient temperature before performing the test 2 Press F4 Util The Utilities screen opens 3 Press F1 Diag The Diagnostics screen opens 4 Press F3 TmpVer The Temperature Verification screen opens Temperature Verification F1 F2 F3 F4 F5 5 Press F2 T
92. le block to reach room temperature 725 C then remove the dual 96 well temperature verification plates from the sample block NIIS PHYSICAL INJURY HAZARD Hot Surface Use care when working around the heated cover and sample block to avoid being burned by hot components 5 Clean the oil off the sample block Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 41 and Veriti System User Guide Chapter 4 Temperature non uniformity test Temperature non uniformity test Required equipment Setting up the 0 2 mL probe assembly Use this test to verify the temperature uniformity of the GeneAmp 9700 with Dual 96 Well Sample Block Module The temperature non uniformity test consists of the following procedures which you must perform in sequence Setting up the 0 2 mL probe assembly 260640 c ss ee cee RR ene Rn 42 Configuring the GeneAmp 9700 0 0 cece ccc cette eens 43 Rianing he 1886 och es eek d dhe eee ewe bbe a FES eo Gee ee E E 44 Esaluateng tbe desplis 1202s eer Ret eSI o ed RA o S ER TEE 46 Podne Me dest ocolos mere bra b eee ER Ooo Se Re RM oce e 46 rr PHYSICAL INJURY HAZARD Hot Surface Use care when working around the heated cover and sample block to avoid being burned by hot components This test requires the 0 2 mL Sample Block Module Temperature Verification Kit PN 4317939 which includes Cotton swabs Light mineral oil Left an
93. led R1 to R6 is for the right sample block Figure 11 Position the plates so the angled corners face away from you Figure 10 Left temperature Figure 11 Right temperature verification plate verification plate Note The plates help you locate the probes within the sample blocks 3 Use the stick end of a cotton swab to coat well R3 with mineral oil the wells are too small for the swab end 4 Place the 0 02 mL probe assembly into well R3 50 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 5 Calibration verification test 5 Thread the probe wire through the channels in the 384 well temperature verification plate to prevent damage to the probe and lead wires 6 Make sure the probe is connected to the digital thermometer 7 Shde the heated cover forward and pull the lever down IMPORTANT Seat the probe properly and close the heated cover carefully If the probe wire is crushed when you close the heated cover the probe may be damaged 8 Power on the digital thermometer Refer to the instructions in your Temperature Verification Kit for details on operating the digital thermometer Model 4500 9 Continue with Configuring the GeneAmp 9700 below Configuring the 1 Complete the procedures in Setting up the 0 02 mL probe assembly above GeneAmp 9700 2 Power on the thermal cycler The Main menu opens For best result
94. libration verification test 54 Evaluating the When the GeneAmp 9700 completes the calibration verification test one of two screens opens See the table below to evaluate the results results If the sample block module Then the Is properly calibrated Calibration Verification screen displays the following message Calibration Verification Calibration is good F1 F2 F3 FA F5 Does not pass the calibration verification test Calibration Verification screen displays the following message Calibration Verification Instrument may require servic Contact Applied Biosystems Technical Support El F2 F3 F4 F5 e lf the test fails repeat the procedure to make sure that the thermometer was not misread or that data entry errors were not made e Ifthe test fails again contact Applied Biosystems Technical Support See How to obtain support on page viii Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 5 Temperature non uniformity test Temperature non uniformity test Required equipment Setting up the 0 02 mL probe assembly Use this test to verify the temperature uniformity of the GeneAmp PCR System 9700 Dual 384 Well Sample Block Module The temperature non uniformity test consists of the following procedures which you must perform in sequence Setting up the 0 02 mL probe
95. ll A6 Press Run Run F1 F2 F3 F4 F5 7 Continue with Running the test on page 80 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 79 and Veriti System User Guide Chapter 7 Calibration verification test Running the test Use the digital thermometer to take temperature readings of the sample well that is connected to the 0 5 mL probe assembly You must take readings at two different setpoint temperatures Note If necessary press F5 Cancel to exit the test To run the calibration verification test 1 Complete the procedures in Configuring the GeneAmp 9700 on page 79 2 Press F1 Run to start the calibration verification test The Calibration Verification screen opens with the setpoint value displayed Calibration Verification Block temp xx x C Cover temp xxx C Setpoint is 85 C Cover must be within 10 C of 85 C F1 F2 F3 F4 F5 Note The cover must be within 1 C of 105 C It may take several minutes for the GeneAmp 9700 to ramp up 3 The Calibration Verification screen counts down the time until the setpoint is reached When the Stabilizing at setpoint value decreases to 0 read the digital thermometer Calibration Verification Block temp xx x C Cover temp xxx C Stabilizing at setpoint x xx F1 F2 F3 F4 F5 Refer to the instructions in your Temperature Verification Kit for details on operating the digital thermometer
96. ly is facing outwards 3 Use a cotton swab to coat well A6 with mineral oil 4 Place the 0 1 mL temperature verification probe assembly into well A6 5 Thread the probe wire through the undercut of the 0 1 mL temperature verification probe assembly to prevent damage to the probe and lead wires 6 Make sure the probe is connected to the digital thermometer 7 Slide the heated cover forward and pull the lever down IMPORTANT Seat the probe properly and close the heated cover carefully If the probe wire is crushed when you close the heated cover the probe may be damaged 8 Power on the digital thermometer Refer to the instructions in your Temperature Verification Kit for details on operating the digital thermometer Model 4500 9 Continue with Configuring the GeneAmp 9800 on page 93 92 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter8 Calibration verification test Configuring the 1 Complete the procedures in Setting up the 0 1 mL probe assembly on GeneAmp 9800 page 92 2 Power on the GeneAmp 9800 For best results allow the thermal cycler 15 to 30 minutes to warm up to ambient temperature before performing the test 3 When the main menu opens press Util to open the Utilities screen 4 Press Diag to open the Diagnostics screen Diagnostics Hard Hardware Diagnostics System System Performance Tests
97. n the GeneAmp 9600 because the heated sample block cover affects the probe temperature If you suspect any temperature calibration problems perform the calibration verification test that is described on page 107 112 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 9 Temperature non uniformity test Calculating test Use the following information to calculate the results of the test results Note If there is more than one GeneAmp 9600 in your laboratory verify that the serial number on the calibration label matches the serial number on the instrument that you are testing For the 16 Setpoint 1 measurements 95 C hold subtract the lowest measured temperature from the highest measured temperature For the 16 Setpoint 2 measurements 40 C hold subtract the lowest measured temperature from the highest measured temperature If either result is more than 1 C from the setpoint your GeneAmp 9600 must be serviced by an Applied Biosystems service representative Ending the test 1 2 Remove the 0 2 mL probe assembly from the sample block Power off the digital thermometer then clean off the oil Wait for the sample block to reach room temperature 25 C then remove the 9600 temperature verification frame from the sample block errem PHYSICAL INJURY HAZARD Hot Surface Use care when working around the heated cover and sam
98. nd the original warranty period Applied Biosystems warrants that all optional accessories supplied with its Thermal Cycler Temperature Verification System for GeneAmp PCR Systems such as peripherals printers and special monitors will be free of defects in materials and workmanship for a period of ninety 90 days from the date the warranty begins Applied Biosystems will repair or replace at its discretion defective accessories during this warranty period After this warranty period Applied Biosystems will pass on to the buyer to the extent that it is permitted to do so the warranty of the original manufacturer for such accessories With the exception of consumable and maintenance items replaceable products or components used on or in the instrument are themselves warranted to be free of defects in materials and workmanship for a period of ninety 90 days Applied Biosystems warrants that chemicals and other consumable products will be free of defects in materials and workmanship when received by the buyer but not thereafter unless otherwise specified in documentation accompanying the product Applied Biosystems warrants that for a period of ninety 90 days from the date the warranty period begins the tapes diskettes or other media bearing the operating software of the product if any will be free of defects in materials and workmanship under normal use If there is a defect in the media covered by the above warranty and the medi
99. neAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 10 Calibration verification test Calibration verification test Required equipment Setting up the 0 5 mL probe Use this test to verify the temperature calibration of your Veriti Thermal Cycler The calibration verification test consists of the following procedures which you must perform in sequence Setting up the 0 5 mL probe assembly 0 00 eee eee ee eee 119 Rung 1 PET 121 Ending hetes cd oos eese eve e eeER DIL EA OPES E Wed d 122 wr PHYSICAL INJURY HAZARD Hot Surface Use care when working around the heated cover and sample block to avoid being burned by hot components This test requires the 0 5 mL Temperature Verification Kit PN 4309924 which includes Cotton swabs Light mineral oil Temperature verification frame 0 5 mL probe assembly Model 4500 digital thermometer with a 9V battery installed Serial Communication Cable 1 Power on the Veriti Thermal Cycler For best results allow the thermal cycler 15 to 30 minutes to warm to ambient assembly temperature before performing the test 2 In the Main Menu select Tools Menu 3 Connect the 4500 Digital Thermometer a Attach the free end of cable from the probe assembly to the input connector port on the 4500 thermometer b Attach the 9 pin DIN female end of the RS232 cable to the thermometer communication port and the 9 pin DIN male end
100. nics at the address in step 1 130 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Instrument Warranty Information B This chapter covers Limited product Warraniy a Loss e otia ho rg dem eoe De Ert De SOR e dde Damages claus und TONOS su sed oaa ek pacer e eX Coane Res Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide 131 Appendix B Limited product warranty Limited product warranty Limited warranty Warranty period effective date Warranty claims Applied Biosystems warrants that all standard components of its Thermal Cycler Temperature Verification System for GeneAmp PCR Systems will be free of defects in materials and workmanship for a period of ninety 90 days from the date the warranty period begins Applied Biosystems will repair or replace at its discretion all defective components during this warranty period After this warranty period repairs and replacement components may be purchased from Applied Biosystems at its published rates Applied Biosystems also provides service agreements for post warranty coverage Applied Biosystems reserves the right to use new repaired or refurbished instruments or components for warranty and post warranty service agreement replacements Repair or replacement of products or components that are under warranty does not exte
101. nnel in the dual 96 well temperature verification plate to prevent damage to the probe and lead wires see Figure 7 on page 36 6 Make sure the probe is connected to the digital thermometer Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 37 and Veriti System User Guide Chapter 4 Calibration verification test 7 For GeneAmp 9700 with Manual Dual 96 Well Sample Block Module Slide the heated cover forward then pull the lever down For GeneAmp 9700 with Auto Lid Dual 96 Well Sample Block Module Press the red button to slide and close the heated cover IMPORTANT Seat the probe properly and close the heated cover carefully If the probe wire is crushed when you close the heated cover the probe can be damaged 8 Power on the digital thermometer Refer to the instructions in your Temperature Verification Kit for details on operating the digital thermometer Model 4500 Configuring the 1 Power on the thermal cycler The Main menu opens GeneAmp 9700 For best results allow the thermal cycler 15 to 30 minutes to warm up to ambient temperature before performing the test 2 Press F4 Util The Utilities screen opens 3 Press F1 Diag The Diagnostics screen opens 4 Press F3 TmpVer The Temperature Verification screen opens Temperature Verification Temp Calibration Verification NU Temperature Non Uniformity Temp TNU F1 F2 F3 F4 F5
102. obe in well xx Press Run Run Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 29 and Veriti System User Guide Chapter 3 Temperature non uniformity test 7 Slide the heated cover back Repeat steps 4 through 7 of the Setting up the 0 2 mL probe assembly on page 27 and steps 1 through 6 of this procedure Complete these steps for all 8 wells to be tested C4 C9 F4 F9 Al A12 H1 H12 8 The GeneAmp 9700 thermal cycler evaluates the uniformity of the sample block temperature for the setpoint values that you entered and displays the results A summary screen opens at the end of the test F1 F2 F3 FA F5 If you entered values on the Temperature Non Uniformity Test Data Sheet page 33 compare those values with the actual test results 9 Press F1 Accept Evaluating the When the thermal cycler completes the temperature non uniformity test the TNU results Performance screen opens See the table below to evaluate the results If the Then Temperature of the sample block wells is uniform Pass appears after each setpoint temperature TNU Performance NU at 94 C is xx xx Pass NU at 37 C is xx xx Pass F1 F2 F3 FA F5 Temperature variation of the sample block wells exceeds performance specifications Fail appears after the setpoint temperature s for which the test failed TNU Performance NU at 94
103. ometer Model 4500 3 Using the numeric keys enter the value that is displayed on the digital thermometer in the Enter actual block temperature field TNU Performance Sample temp xx x C Cover temp xxx C Enter actual block temperature 00 0 F1 F2 F3 FA F5 Note The digital thermometer displays a four digit value round this off to three digits before typing it in the TNU Performance screen Note To keep a permanent record of the test record this value on the Temperature Non Uniformity Test Data Sheet page 75 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 71 and Veriti System User Guide Chapter 6 Temperature non uniformity test 4 Press Enter The GeneAmp 9700 automatically begins the second reading 37 C setpoint The TNU Performance screen opens with the setpoint value displayed TNU Performance Sample temp xx x C Cover temp xxx C Setpoint is 37 C Sample must be within 1 0 C of setpoint F1 F2 F3 F4 F5 Note The sample blocks must be within 1 0 C of the setpoint 5 Repeat steps 2 and 3 and for the second reading 6 Press Enter The TNU Performance screen opens with the following prompt TNU Performance Sample temp xx x C Cover temp xxx C Place probe in well xx Press Run Run F1 F2 F3 F4 F5 7 Press and release the red button to automatically open the heated cover Repeat steps 4 through 6 of Settin
104. on page 8 ON Make sure the probe is connected to the digital thermometer 7 Pull the lever down to engage the heated cover and 2720 temperature verification frame IMPORTANT Seat the probe properly and close the heated cover carefully If the probe wire is crushed when you close the cover the probe can be damaged 8 Power on the digital thermometer Refer to the instructions in your Temperature Verification Kit for details on operating the digital thermometer Model 4500 Power on the thermal cycler The Main menu opens For best results allow the thermal cycler 15 to 30 minutes to warm up to ambient temperature before performing the test 2 Press F4 Util The Utilities screen opens and Veriti System User Guide Chapter 2 Temperature calibration verification test 3 Press F1 Diag The Diagnostics screen opens 4 Press F3 TmpVer The Temperature Verification screen opens Temperature Verification Temp Calibration Verification NU Temperature Non Uniformity Temp TNU F1 F2 F3 F4 F5 5 Press F1 Temp The thermal cycler is automatically configured for the calibration verification test and the Calibration Verification screen opens Calibration Verification Block temp xx x C Cover temp xxx C Place probe in well A6 Press Run Run F1 F2 F3 F4 F5 Running the test In this test you take temperature readings of the sample well at two differen
105. on verification test 1 Press F1 Run to start the calibration verification test The Calibration Verification screen opens with the setpoint value displayed Calibration Verification Block temp xx x C Cover temp xxx C Setpoint is 85 C Cover must be within 10 C of 85 C F1 F2 F3 F4 F5 Note The cover must be at 85 C 10 C It may take several minutes for the system to ramp up The Calibration Verification screen counts down the time until the setpoint is reached Calibration Verification Block temp xx x C Cover temp xxx C Stabilizing at setpoint X xXX 24 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 3 Temperature calibration verification test 2 When the Stabilizing at setpoint value decreases to 0 read the digital thermometer Refer to the instructions in your Temperature Verification Kit for details on operating the digital thermometer Model 4500 3 Using the numeric keys enter the value that is displayed on the digital thermometer in the Enter actual block temperature field Calibration Verification Block temp xx x C Cover temp xxx C Enter actual block temperature F1 F2 F3 F4 F5 The digital thermometer displays a four digit value Round this off to three digits before typing it in the Calibration Verification screen Record this value on the Calibration Verification T
106. opens See the table below to evaluate the results results If the sample block module Then the Is properly calibrated Calibration Verification screen displays the following message Calibration Verification Calibration is good F1 F2 F3 FA F5 Does not pass the calibration verification test Calibration Verification screen displays the following message Calibration Verification Instrument may require servic Contact Applied Biosystems Technical Support El F2 F3 F4 F5 e lf the test fails repeat the procedure to make sure that the thermometer was not misread or that data entry errors were not made e Ifthe test fails again contact Applied Biosystems Technical Support See How to obtain support on page viii Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 6 Temperature non uniformity test Temperature non uniformity test Use this test to verify the temperature uniformity of the GeneAmp PCR System 9700 Auto Lid Sample Block Module The temperature non uniformity test consists of the following procedures which you must perform in sequence Setting up the 20 uL probe assembly 2 06 ics eens eee ees 69 Configuring the GeneAmp 9700 lisse e 70 puni gd PPP 70 Evaluating thi results 2i soles ee eee E eec Ot COR A dd e baie e d 73 Nr PHYSICAL INJURY HAZARD Hot Surf
107. or details on how to set up a CYCL program 3 On the third cycle measure the temperature of well A1 90 seconds into Setpoint 1 95 C setpoint temperature using the digital thermometer The time remaining clock on the run time display reads 0 30 30 seconds Record this temperature 4 Again on the third cycle measure the temperature of well Al 90 seconds into Setpoint 2 40 C setpoint temperature using the digital thermometer The time remaining clock on the run time display reads 0 30 30 seconds Record this temperature The figure below shows when to measure the temperatures Measure well A1 Measure well A4 90 seconds into 90 seconds into Setpoint 1 Setpoint 1 Measure well A1 Measure well A4 90 seconds into Setpoint 2 90 seconds into Setpoint 2 95 Move the probe to well A8 Move the probe to well A4 Cycle 3 Cycle 4 5 After you measure the second temperature of well A1 turn the cover knob completely counterclockwise then slide the heater cover back 6 Move the probe assembly to the next well to be measured 7 Slide the heater cover forward then turn the cover knob clockwise until the white mark on the knob and the white mark on the cover are aligned 8 Repeat the measurements on wells A4 A8 A12 C1 C4 C8 C12 El E4 E8 E12 H1 H4 H8 H12 Note The temperature display on the digital thermometer may not match the temperature display o
108. ple block to avoid being burned by hot components Clean the oil off the sample block Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 113 and Veriti System User Guide Chapter 9 Data Sheet Calibration Verification Test Data Sheet Calibration Verification Test 114 When you run the calibration verification test record the setpoint values for well E1 on this data sheet At the end of the test compare the values that are displayed on the thermal cycler with the values that are recorded here Note You can photocopy this page Date Tested by Probe serial no Thermometer serial no Setpoint value Well E1 95 C 40 C Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 9 Data Sheet Temperature Non Uniformity Test Data Sheet Temperature Non Uniformity Test When you run the temperature non uniformity test record the setpoint values for the wells listed on this data sheet At the end of the test compare the values that are displayed on the thermal cycler with the values that are recorded here Note You can photocopy this page Date Tested by Probe serial no Thermometer serial no Setpoint value 95 C 40 C A1 A4 A8 A12 C1
109. r carefully If the wire is crushed when you close the heated cover the probe can be damaged 8 Power on the digital thermometer Refer to the instructions in your Temperature Verification Kit for details on operating the digital thermometer Model 4500 p lt Power on the thermal cycler The Main menu opens For best results allow the thermal cycler 15 to 30 minutes to warm up to ambient temperature before performing the test 2 Press F4 Util The Utilities screen opens Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 23 and Veriti System User Guide Chapter 3 Temperature calibration verification test 3 Press F1 Diag The Diagnostics screen opens 4 Press F3 TmpVer The Temperature Verification screen opens Temperature Verification Temp Calibration Verification NU Temperature Non Uniformity TNU F1 F2 F3 F4 F5 Temp 5 Press F1 Temp The thermal cycler is automatically configured for the calibration verification test and the Calibration Verification screen opens Calibration Verification Block temp xx x C Cover temp xxx C Place probe in well A6 Press Run Run F1 F2 F3 F4 F5 Running the test In this test you take temperature readings of the sample well at two different setpoint temperatures using the 0 2 mL probe assembly Note Press F5 Cancel if you want to end the test To run the calibrati
110. r interfacing or use in combination with software or products not supplied or authorized by Applied Biosystems and modification or repair of the product not authorized by Applied Biosystems THE FOREGOING PROVISIONS SET FORTH APPLIED BIOSYSTEMS SOLE AND EXCLUSIVE REPRESENTATIONS WARRANTIES AND OBLIGATIONS WITH RESPECT TO ITS PRODUCTS AND APPLIED BIOSYSTEMS MAKES NO OTHER WARRANTY OF ANY KIND WHATSOEVER EXPRESSED OR IMPLIED INCLUDING WITHOUT LIMITATION WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE WHETHER ARISING FROM A STATUTE OR OTHERWISE IN LAW OR FROM A COURSE OF DEALING OR USAGE OF TRADE ALL OF WHICH ARE EXPRESSLY DISCLAIMED Warranty THE REMEDIES PROVIDED HEREIN ARE THE BUYER S SOLE AND limitations EXCLUSIVE REMEDIES WITHOUT LIMITING THE GENERALITY OF THE FOREGOING IN NO EVENT SHALL APPLIED BIOSYSTEMS BE LIABLE WHETHER IN CONTRACT TORT WARRANTY OR UNDER ANY STATUTE INCLUDING WITHOUT LIMITATION ANY TRADE PRACTICE UNFAIR COMPETITION OR OTHER STATUTE OF SIMILAR IMPORT OR ON ANY OTHER BASIS FOR DIRECT INDIRECT PUNITIVE INCIDENTAL MULTIPLE CONSEQUENTIAL OR SPECIAL DAMAGES SUSTAINED BY THE BUYER OR ANY OTHER PERSON OR ENTITY WHETHER OR NOT FORESEEABLE AND WHETHER OR NOT APPLIED BIOSYSTEMS IS ADVISED OF THE POSSIBILITY OF SUCH DAMAGES INCLUDING WITHOUT LIMITATION DAMAGES ARISING FROM OR RELATED TO LOSS OF USE LOSS OF DATA FAILURE OR INTERRUPTION IN THE OPERATION OF ANY EQUIPMENT OR SOFTWAR
111. rded here Note You can photocopy this page Date Tested by Probe serial no Thermometer serial no Setpoint value Well A6 85 C 45 C Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 3 Data Sheet Temperature Non Uniformity Test Data Sheet Temperature Non Uniformity Test When you run the temperature non uniformity test record the setpoint values for the wells that are listed on this data sheet At the end of the test compare the values that are displayed on the thermal cycler with the values that are recorded here Note You can photocopy this page Date Tested by Probe serial no Thermometer serial no Setpoint value 94 C 37 C C4 c9 F4 F9 A1 A12 H1 H12 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 33 and Veriti System User Guide Chapter 3 Data Sheet Temperature Non Uniformity Test 34 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Temperature Verification Tests for the GeneAmp 9700 Dual 96 Well Module This chapter covers Overview Calibration verification test Temperature non uniformity test Data Shee
112. re non uniformity test the TNU results Performance screen opens See the table below to evaluate the results If the Then Temperature of the sample block wells is uniform Pass appears after each setpoint temperature TNU Performance TNU at 94 C is xx xx Pass TNU at 37 C is xx xx Pass F1 F2 F3 FA F5 Temperature variation of the sample block wells exceeds performance specifications Fail appears after the setpoint temperature s for which the test failed TNU Performance TNU at 94 C is xx xx Fail TNU at 37 C is xx xx Fail F1 F2 F3 FA F5 If the test fails repeat the procedure to make sure that the thermometer was not misread or that data entry errors were not made e If the test fails again contact Applied Biosystems Technical Support See How to obtain support on page viii Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 59 and Veriti System User Guide Chapter 5 Data Sheet Calibration Verification Test Data Sheet Calibration Verification Test 60 When running the calibration verification test record the setpoint values for well R3 on this data sheet At the end of the test compare the values that are displayed on the thermal cycler with the values that are recorded here Note You can photocopy this page Date Tested by Probe serial no Thermometer serial no Setpoint v
113. rification Kit for details on operating the digital thermometer Model 4500 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 99 and Veriti System User Guide Chapter 8 Temperature non uniformity test 5 Using the numeric keys enter the value that is displayed on the digital thermometer into the Enter actual block temperature field TNU Performance Sample temp xx x C Cover temp xxx C Enter actual block temperature 00 0 F1 F2 F3 F4 F5 Note Round the four digit value on the digital thermometer to three digits before you enter it in the TNU Performance screen Note You can record this value on the Temperature Non Uniformity Test Data Sheet page 104 to keep a permanent record of the test 6 Press Enter to open the TNU Performance screen with the setpoint value displayed TNU Performance Sample temp xx x C Cover temp xxx C Setpoint is 55 C Sample must be within 1 0 C of setpoint F1 F2 F3 F4 F5 Note The sample blocks must be within 1 0 C of the setpoint 7 Press Enter The TNU Performance screen opens with the following prompt TNU Performance Sample temp xx x C Cover temp xxx C Place probe in well xx Press Run Run 100 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide 8 10 11 Chapter 8 Temperature non uniformity test
114. rification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 6 Data Sheet Temperature Non Uniformity Test Data Sheet Temperature Non Uniformity Test When running the temperature non uniformity test record the setpoint values for the wells listed on this data sheet At the end of the test compare the values that are displayed on the thermal cycler with the values that are recorded here Note You can photocopy this page Date Tested by Probe serial no Thermometer serial no Setpoint value 94 C 37 C L1 L2 L3 L4 L5 L6 R1 R2 R3 R4 R5 R6 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 98800 75 and Veriti System User Guide Chapter 6 Data Sheet Temperature Non Uniformity Test 76 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Temperature Verification Tests for the GeneAmp 9700 0 5 mL Sample Block Module This chapter covers Calibration ventication e8L 655050 nas e em oe Re Ro e on dA Temperature nop uniformity Testo isa r kr eor e RARO Pp c ead dee d Data Sheet Calibration Verification Test occ cae sio hee aac ae der ras Data Sheet Temperature Non Uniformity Test llle Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 97
115. rmal cycler Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 Use this test to verify the temperature calibration of your 2720 thermal cycler that has a 0 2 mL sample block module The temperature calibration verification test consists of the following procedures which you must perform in sequence Setting up the 0 2 mL probe assembly scos ccc icem en 9 Configuring the 2720 thermal cycler 0 cece cece eee eee 9 Bunning hete lolo tiers gies ETETE TPI EEEREN EEES DE PPS ee 10 Exaluatdape ths regulis esoo eers poder eere bod Ha eee Te a gat 12 Ending ihe desk occorre Dex dece sare a cr a eed 12 wr PHYSICAL INJURY HAZARD Hot Surface Use care when working around the heated cover and sample block to avoid being burned by hot components This test requires the 0 2 mL Sample Block Module Temperature Verification Kit PN 4317939 which includes Cotton swabs Light mineral oil 2720 temperature verification frame 0 2 mL probe assembly Model 4500 digital thermometer with a 9V battery installed 1 Lift the lever and open the hinged heated cover Place the 2720 temperature verification frame on the sample block Using a cotton swab coat well A6 with mineral oil Place the 0 2 mL probe assembly into well A6 TE M Thread the probe wire through the channel in the 2720 temperature verification frame to prevent damage to the probe and lead wires see Figure 3
116. rmity test Evaluating the When the GeneAmp 9700 completes the temperature non uniformity test the TNU results Performance screen opens See the table below to evaluate the results If the Then Temperature of the sample block wells is uniform Pass appears after each setpoint temperature TNU Performance TNU at 94 C is xx xx Pass TNU at 37 C is xx xx Pass F1 F2 F3 FA F5 Temperature variation of the sample block wells exceeds performance specifications Fail appears after the setpoint temperature s for which the test failed TNU Performance TNU at 94 C is xx xx Fail TNU at 37 C is xx xx Fail F1 F2 F3 FA F5 e lf the test fails repeat the procedure to make sure that the thermometer was not misread or that data entry errors were not made e Ifthe test fails again contact Applied Biosystems Technical Support See How to obtain support on page viii Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 87 and Veriti System User Guide Chapter 7 Data Sheet Calibration Verification Test Data Sheet Calibration Verification Test 88 When running the calibration verification test record the setpoint values for well A6 on this data sheet At the end of the test compare the values that are displayed on the thermal cycler with the values that are recorded here Note You can photocopy this page Da
117. rogrammed target temperature your instrument would not need to be recalibrated Note The offset is the number of degrees Celsius that the temperature of well E1 differed from the average temperature of the block when the instrument was calibrated at the factory Average block temperature at the 40 C hold Use the following formula to calculate the average block temperature at the 40 C hold Block Average at 40 C T 40 Low Offset If the block average is more than 0 75 degrees Celsius above or below 40 C your GeneAmp 9600 must be recalibrated For example If the measured temperature of well E1 is 39 9 C and the Low Offset that is printed on your calibration label is 0 1 you would make the following calculation Block Average at 40 C 39 9 0 1 39 8 C In this example because 39 8 C does not differ by 0 75 degrees Celsius from the programmed target temperature your instrument would not need to be recalibrated 1 Remove the 0 2 mL probe assembly from the sample block 2 Power off the digital thermometer then clean off the oil 3 Wait for the sample block to reach room temperature 25 C then remove the 9600 temperature verification frame from the sample block NITE PHYSICAL INJURY HAZARD Hot Surface Use care when working around the heated cover and sample block to avoid being burned by hot components 4 Clean the oil off the sample block Thermal Cycler Temperature Verif
118. rs Overview Temperature calibration verification test Temperature non uniformity test Data Sheet Calibration Verification Test Data Sheet Temperature Non Uniformity Test Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide 21 Chapter 3 Overview Overview Materials When you perform a temperature verification test on a GeneAmp 9700 with a 96 Well Sample Block Module use the materials in the kit PN 4317939 Assembly Figure 5 shows a properly assembled system Note that the frame is positioned around the wells with the channel facing you The location tab on the frame should align with the locator tab on the thermal cycler The probe wire is threaded through the channel to prevent damaging the wire when you close the thermal cycler heated cover GR1916 Figure 5 Proper assembly of the Temperature Verification System for GeneAmp 9700 thermal cycler Figure 6 Temperature verification frame 22 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 3 Temperature calibration verification test Temperature calibration verification test Required equipment Setting up the 0 2 mL probe assembly Configuring the GeneAmp 9700 Use this test to verify the temperature calibration of your GeneAmp 9700 thermal cycler that has a 0 2 mL sample
119. s allow the thermal cycler 15 to 30 minutes to warm up to ambient temperature before performing the test 3 Press F4 Util The Utilities screen opens 4 Press F1 Diag The Diagnostics screen opens 5 Press F3 TmpVer The Temperature Verification screen opens Temperature Verification Temp Calibration Verification NU Temperature Non Uniformity Temp J TNU jJ F1 F2 F3 FA F5 6 Press F1 Temp to automatically configure the GeneAmp 9700 for the calibration verification test The Calibration Verification screen opens Calibration Verification Block temp xx x C Cover temp xxx C Place probe in well R3 Press Run Run F1 F2 F3 FA F5 7 Continue with Running the test below Running the test Use the digital thermometer to take temperature readings of the sample well that is connected to the 0 02 mL probe assembly You must take a reading at two different setpoint temperatures Note If necessary press F5 Cancel to exit the test Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 51 and Veriti System User Guide Chapter 5 Calibration verification test To run the calibration verification test 1 Complete the procedures in Configuring the GeneAmp 9700 on page 51 2 Press F1 Run to start the calibration verification test The Calibration Verification screen opens with the setpoint value displayed Calibration Veri
120. s the on off switch on its front The temperature measured by the probe assembly appears on the digital thermometer display in degrees Celsius When you complete a test press the on off switch to power off the digital thermometer The sample temperature that is displayed on the thermal cycler display screen differs from the temperature that 1s displayed on the digital thermometer during heating or cooling transitions This is because the thermal cycler displays the calculated sample temperature while the digital thermometer measures and displays the sample block temperature The sample temperature that is displayed by the thermal cycler is calculated based on the ramp rate and reaction volume Applied Biosystems recommends that you use the probe assembly and digital thermometer only for the temperature verification test and the temperature non uniformity test which are described in this manual If you use the probe assembly and digital thermometer while running programs other than those used in these two tests be aware that the accuracy of the probe data reported by the assembly decreases The decrease is due to the variability introduced into the test by placing the probe in alternate well locations and or the selection of temperatures other than those recommended by Applied Biosystems 6 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Temperature Verifi
121. ser attention words viii D damage reporting 134 damaged items returning 134 DANGER description vii data sheets system 2720 18 19 system 9600 114 115 system 9700 32 33 system 9700 with 0 5 mL sample block module 88 89 system 9700 with Auto Lid sample block module 74 75 system 9700 with dual 384 well sample block module 60 61 system 9700 with dual 96 well sample block module 47 48 system 9800 103 104 system Veriti 127 128 digital thermometer 5 6 Calibration Verification Test 50 E equipment overview 2 H hazard icons See safety symbols on instruments 138 hazard symbols See safety symbols on instruments IMPORTANT description vii italic text when to use viii M menu commands conventions for describing viii MSDSs about vii obtaining viii P probe assembly 5 R RA number 134 RA number See return authorization number recalibration 4 129 130 reporting damages 134 return authorization RA number 134 returning damaged items 134 returns 134 S safety symbols on instruments 138 sample block verifying temperature uniformity evaluating the results 59 symbols safety 139 systems covered 2 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 141 and Veriti System User Guide T Temperature Non Uniformity Test system 2720 13 17 system 9600 111 113 system 9700 27 31 system 9700 with 0 5 mL sample block module 83
122. ss F3 TmpVer The Temperature Verification screen opens Temperature Verification F1 F2 F3 F4 F5 5 Press F2 TNU The thermal cycler automatically starts to configure the temperature non uniformity test with the cover setpoint of 35 C and the sample starting with the setpoint of 37 C It may take several minutes for the system to stabilize at the cover and sample setpoint temperatures After the system is configured the TNU Performance screen opens TNU Performance Sample temp xx x C Cover temp xxx C Place Probe in well A1 Press Run Run F1 F2 F3 F4 F5 Running the test The temperature non uniformity test uses the 0 2 mL probe assembly to test the temperature uniformity of 8 different wells in the sample block Note Press F5 Cancel if you want to exit the test To run the temperature non uniformity test 1 Place the probe into the indicated well then press F1 Run The temperature non uniformity test for the setpoint temperature of 94 C starts and the TNU Performance screen opens with the setpoint value displayed TNU Performance Sample temp xx x C Cover temp xxx C Setpoint is 94 C Sample must be within 1 0 C of setpoint F1 F2 F3 F4 F5 Note The sample block increases from 37 C to 94 C The sample block must be at 94 C 1 0 C It may take several minutes for the 2720 thermal cycler to stabilize at the setpoint temperature 14 Thermal Cycler Temperature Verifica
123. st ho ooced e TETEE VETE TPI EREET EEE EEE ET EEEE E 39 Exaluatidae the regulis os eies p deb eere bod genau d nega oed 41 Ending We desk occorre Dr dee sare sa dre 41 Nr PHYSICAL INJURY HAZARD Hot Surface Use care when working around the heated cover and sample block to avoid being burned by hot components This test requires the 0 2 mL Sample Block Module Temperature Verification Kit PN 4317939 which includes Cotton swabs Light mineral oil Left and right dual 96 well block temperature verification plates 0 2 mL probe assembly Model 4500 digital thermometer with a 9V battery installed 1 For GeneAmp 9700 with Manual Dual 96 well Sample Block Module If the heated cover is in the forward position lift the lever then slide the heated cover back For GeneAmp 9700 with Auto Lid dual 96 Well Sample Block Module If the heated cover is in the forward position lift the lever then press the red button to slide the heated cover back 2 Place both dual 96 well temperature verification plates on the sample block The plate labeled with L1 to L6 is for the left sample block The plate labeled with R1 to R6 is for the right sample block Position the plates so the angled corners face away from you Note The plates help you locate the probes within the sample blocks 3 Using a cotton swab coat well R3 with mineral oil 4 Place the 0 2 mL probe assembly into well R3 5 Thread the probe wire through the cha
124. t Calibration Verification Test Data Sheet Temperature Non Uniformity Test Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide 35 Chapter 4 Overview Overview Materials When you perform the temperature verification test on a GeneAmp 9700 with a dual 96 well sample block module you use the materials in the kit PN 4317939 Assembly Figure 7 show the right frame of a properly assembled temperature verification system Note that the probe wire 1s threaded through the channel to prevent damage to the wire when you close the thermal cycler heated cover e e e e e Figure 7 The temperature verification system for GeneAmp 9700 with a dual 96 well sample block module right frame shown Figure8 Left frame Figure9 Right frame 36 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 4 Calibration verification test Calibration verification test Required equipment Setting up the 0 2 mL probe assembly Use this test to verify the temperature calibration of a GeneAmp 9700 with a dual 96 well sample block module The calibration verification test consists of the following procedures which you must perform in sequence Setting up the 0 2 mL probe assembly 1 ss cascade een ERR Rn ae Configuring the GeneAmp 9700 2 0 0 cece e 38 Bunning the te
125. t setpoint temperatures using the 0 2 mL probe assembly Note Press F5 Cancel if you want to end the test To run the calibration verification test 1 Press F1 Run to start the calibration verification test The Calibration Verification screen opens with the setpoint value displayed Calibration Verification Block temp xx x C Cover temp xxx C Setpoint is 85 C Cover must be within 10 C of 85 C F1 F2 F3 F4 F5 Note The cover must be at 85 C 10 C It may take several minutes for the system to ramp up Note The Calibration Verification screen counts down the time until the setpoint is reached Calibration Verification Block temp xx x C Cover temp xxx C Stabilizing at setpoint X XX 10 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 2 Temperature calibration verification test 2 When the Stabilizing at setpoint value decreases to 0 read the digital thermometer Refer to the instructions in your Temperature Verification Kit for details on operating the digital thermometer Model 4500 3 Using the numeric keys enter the value that is displayed on the digital thermometer in the Enter actual block temperature field Calibration Verification Block temp xx x C Cover temp xxx C Enter actual block temperature F1 F2 F3 FA F5 The digital thermometer displays a four digit value
126. tal thermometer Refer to the instructions in your Temperature Verification Kit for details on operating the digital thermometer Model 4500 9 Make sure the probe assembly is connected to the digital thermometer and that the thermometer is powered on 10 Slide the heated cover forward and pull the lever down 124 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 10 Temperature non uniformity test Running the test 1 In the Tools menu select Run TNU Test gt 2007 09 04 I 04 05 PM 2 Press to begin the test Perform the test as directed by the touchscreen As the test progresses move the 0 5 mL probe assembly to the remaining test wells Al A10 B3 B8 E3 E8 F1 F10 Temperature Non uniformity Test Step 1 of 10 You will need the temperature verification kit TVK Connect the TVK and turn it on now COOOOOOOOO COOOOOO000 9000000000 5000000000 000000000 200000000 Touch the right arrow when ready 3 When the test is complete record the TNU in the Data Sheet Temperature Non Uniformity Test on page 128 jn Temperature Non uniformity Test Step 10 of 10 EC r TNU 95 C TNU 60 C Results Overall 0 17 94 80 85 13 0 16 59 88 60 21 Pass Press the cross button when you want to exit 4 Press X to return to the Tools menu Thermal Cycler Temperature Veri
127. te Tested by Probe serial no Thermometer serial no Setpoint value Well A6 85 C 45 C Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 7 Data Sheet Temperature Non Uniformity Test Data Sheet Temperature Non Uniformity Test When running the temperature non uniformity test record the setpoint values for the wells listed on this data sheet At the end of the test compare the values that are displayed on the thermal cycler with the values that are recorded here Note You can photocopy this page Date Tested by Probe serial no Thermometer serial no Setpoint value 94 C 37 C A1 A6 A10 B3 c5 C10 D1 D7 E8 F1 F5 F10 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 89 and Veriti System User Guide Chapter 7 Data Sheet Temperature Non Uniformity Test 90 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Temperature Verification Tests for the GeneAmp 9800 This chapter covers Calibration verification test 2 00 02 cece eee eee Temperature non uniformity test 2 2 ce eee eee eee Data
128. tion Temp Calibration Verification NU Temperature Non Uniformity Temp TNU jJ F1 F2 F3 FA F5 6 Press F2 TNU to automatically configure the GeneAmp 9700 for the temperature non uniformity test The TNU Performance screen opens TNU Performance Sample temp xx x C Cover temp xxx C Place Probe in well A1 Press Run Run F1 F2 F3 F4 F5 7 Continue with Running the test below Running the test The temperature non uniformity test uses the 0 5 mL probe assembly to test the temperature uniformity of 12 different wells in the sample block Note If necessary press F5 Cancel to exit the test To run the temperature non uniformity test 1 Complete the procedures in Setting up the 0 5 mL probe assembly above 2 Press F1 Run to start the temperature non uniformity test The TNU Performance screen opens with the setpoint value displayed TNU Performance Sample temp xx x C Cover temp xxx C Setpoint is 94 C Sample must be within 1 0 C of setpoint F1 F2 F3 FA F5 Note The sample block must be within 1 0 C of the setpoint In addition the cover must be within 1 C of 105 C It may take several minutes for the GeneAmp 9700 to ramp up 84 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 7 Temperature non uniformity test 3 The TNU Performance screen counts do
129. tion System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 2 Temperature non uniformity test 2 When the sample block reaches 94 C the TNU Performance screen counts down the time until the setpoint is stable TNU Performance Sample temp xx x C Cover temp xxx C Stabilizing at setpoint X XX F1 F2 F3 FA F5 3 When the Stabilizing at setpoint value decreases to 0 read the digital thermometer Refer to the instructions in your Temperature Verification Kit for details on operating the Model 4500 digital thermometer 4 Using the numeric keys enter the value that is displayed on the digital thermometer in the Enter actual block temperature field TNU Performance Sample temp xx x C Cover temp xxx C Enter actual block temperature 00 0 F1 F2 F3 FA F5 The digital thermometer displays a four digit value Round off the value to three digits before you enter it in the TNU Performance screen Record the value on the Temperature Non Uniformity Test Data Sheet page 19 to keep a permanent record of the test 5 Press Enter The following TNU Performance screen opens and the system automatically begins decreasing its setpoint temperature to 37 C TNU Performance Sample temp xx x C Cover temp xxx C Setpoint is 37 C Sample must be within 1 0 C of setpoint F1 F2 F3 F4 F5 6 When the setpoint temperature reaches 37 C the TNU Performanc
130. tion frame from the sample block Nr PHYSICAL INJURY HAZARD Hot Surface Use care when working around the heated cover and sample block to avoid being burned by hot components 4 Clean the oil off the sample block Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 2 Temperature non uniformity test Temperature non uniformity test Required equipment Setting up the Use this test to verify the temperature uniformity of the 2720 thermal cycler with a 0 2 mL sample block module The temperature non uniformity test consists of the following procedures which you must perform in sequence Betting up the 0 2 mL probe assembly 1 cece cs eee ERR 13 Contigunng the 2720 thermal eyelet 5 oce eee Re meme 14 Bunning the test PPP ce E abso bne ed 14 Exaluatite tig tess esoo eeen Ez der ane eh kd Han ae nae a ee 16 Ending ibetesk 2 ecco sse aka A n Oe ee sore c a ders IT wr PHYSICAL INJURY HAZARD Hot Surface Use care when working around the heated cover and sample block to avoid being burned by hot components This test requires the 0 2 mL Sample Block Module Temperature Verification Kit PN 4317939 which includes Cotton swabs Light mineral oil 2720 temperature verification frame 0 2 mL probe assembly Model 4500 digital thermometer with a 9V battery installed 1 Lift the lever and open the hinged heated cover
131. uniformity test llle 97 Data Sheet Calibration Verification Test 2 0 2 0 eee 103 Data Sheet Temperature Non Uniformity Test 0 0 00 cece eee 104 Temperature Verification Tests for the GeneAmp 9600 BU MI ARDET EPI 106 Calibration verification test liliis 107 Temperature non uniformity test 0 0 ee e 111 Data Sheet Calibration Verification Test 0 0 00 eee 114 Data Sheet Temperature Non Uniformity Test 00 0 0 0 eee eee 115 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Temperature Verification Tests for the Veriti Thermal Cycler OVOLVIOW esset rentas epa Prts eu te eto Datis al OG s weds dole dee Tikes cas ts rade Calibration verification test n a aaaeeeaa Temperature non uniformity test 0 2 0 cee ren Data Sheet Calibration Verification Test llle Data Sheet Temperature Non Uniformity Test lille Appendix A Recalibration Obtaining recalibration os icer ra i e ODE aa e a EA RII Appendix B Instrument Warranty Information Limited product warranty isre eaa pA EAA A tees Damages claims and returns 00 00 cee eee Appendix C GeneAmp PCR 9700 Technical Note Temperature Accuracy Verification Test 2 1 2 0 cee a Appendix D Safety Instrumentation safety 138 Symbols on instruments sassa aana naana nannaa tees Index
132. ure non uniformity test 2 When the sample block reaches 94 C the TNU Performance screen counts down the time until the setpoint is stable TNU Performance Sample temp xx x C Cover temp xxx C Stabilizing at setpoint X XX F1 F2 F3 FA F5 3 When the Stabilizing at setpoint value decreases to 0 read the digital thermometer Refer to the instructions in your Temperature Verification Kit for details on operating the Model 4500 digital thermometer 4 Using the numeric keys enter the value that is displayed on the digital thermometer in the Enter actual block temperature field TNU Performance Sample temp xx x C Cover temp xxx C Enter actual block temperature 00 0 F1 F2 F3 FA F5 The digital thermometer displays a four digit value Round off the value to three digits before you enter it in the TNU Performance screen Record the value on the Temperature Non Uniformity Test Data Sheet page 33 to keep a permanent record of the test 5 Press Enter The following TNU Performance screen opens and the system automatically begins decreasing its setpoint temperature to 37 C TNU Performance Sample temp xx x C Cover temp xxx C Setpoint is 37 C Sample must be within 1 0 C of setpoint F1 F2 F3 F4 F5 6 When the setpoint temperature reaches 37 C the TNU Performance screen opens with the following prompt TNU Performance Sample temp xx x C Cover temp xxx C Place pr
133. well xx Press Run Run F1 F2 F3 F4 F5 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 85 and Veriti System User Guide Chapter 7 Temperature non uniformity test 86 8 10 11 Slide the heated cover back and repeat steps 4 through 7 of Setting up the 0 5 mL probe assembly on page 83 and steps 2 through 7 of this procedure Complete these steps for all 12 wells to be tested Al A6 A10 B3 C5 C10 D1 D7 E8 F1 F5 and F10 The GeneAmp 9700 evaluates the uniformity of the sample block temperature for the setpoint values that you entered and displays the results A summary screen opens at the end of the test F1 F2 F3 FA F5 If you entered values on the Temperature Non Uniformity Test Data Sheet compare those values with the actual test results Press F1 Accept To interpret the results see Evaluating the results on page 87 When you complete all measurements be sure to Press Cancel Remove the 0 5 mL probe assembly from the sample block Power off the digital thermometer then clean off the oil Remove the 0 5 mL temperature verification frame from the sample block IMPORTANT Make sure the sample block is at room temperature 725 C before removing the frame Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 7 Temperature non unifo
134. with the setpoint value displayed Calibration Verification Block temp xx x C Cover temp xxx C Setpoint is 45 C Cover must be within 1 C of 105 C F1 F2 F3 FA F5 Note The cover must be within 1 C of 105 C 5 Repeat steps 2 and 3 for the second reading 6 The GeneAmp 9700 evaluates the calibration of the sample block temperature for the setpoint values that you entered and displays the results A summary screen opens at the end of the test Calibration Verification Actual temperature at 85 C Actual temperature at 45 C F1 F2 F3 FA F5 If you entered values on the Calibration Verification Test Data Sheet compare those values with the actual test results 7 Press F1 Accept To interpret the results see Evaluating the results on page 68 8 When you complete all measurements be sure to Press F5 Exit Remove the 20 uL probe assembly from the sample blocks Power off the digital thermometer then clean off the oil Remove the 384 well temperature verification plates from the sample blocks IMPORTANT Make sure the sample blocks are at room temperature 25 C before removing the reaction plates Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 67 and Veriti System User Guide Chapter6 Calibration verification test 68 Evaluating the When the GeneAmp 9700 completes the calibration verification test one of two screens
135. wn the time until the setpoint is stable When the Stabilizing at setpoint value decreases to 0 read the thermometer TNU Performance Sample temp xx x C Cover temp xxx C Stabilizing at setpoint x xx F1 F2 F3 FA F5 Refer to the instructions in your Temperature Verification Kit for details on operating the digital thermometer Model 4500 4 Using the numeric keys enter the value that is displayed on the digital thermometer in the Enter actual block temperature field TNU Performance Sample temp xx x C Cover temp xxx C Enter actual block temperature 00 0 F1 F2 F3 FA F5 Note The digital thermometer displays a four digit value round this off to three digits before you enter it in the TNU Performance screen Note Record this value on the Temperature Non Uniformity Test Data Sheet page 89 to keep a permanent record of the test 5 Press ENTER The GeneAmp 9700 automatically begins the second reading 37 C setpoint The TNU Performance screen opens with the setpoint value displayed TNU Performance Sample temp xx x C Cover temp xxx C Setpoint is 37 C Sample must be within 1 0 C of setpoint F1 F2 F3 FA F5 Note The sample block must be within 1 0 C of the setpoint 6 Repeat steps 3 and 4 for the second reading 7 Press ENTER The TNU Performance screen opens with the following prompt TNU Performance Sample temp xx x C Cover temp xxx C Place probe in
136. x C 136 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Safety This appendix covers Instrumentation safety 0 cent e ne e ene 138 Symbols on instruments 0 0 n ees 138 Thermal Cycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 137 and Veriti System User Guide Appendix D Safety Instrumentation safety Symbols on instruments Electrical The following table describes the electrical symbols that may be displayed on symbols on Applied Biosystems instruments instruments Symbol Description Indicates the On position of the main power switch O Indicates the Off position of the main power switch Indicates a standby switch by which the instrument is switched on to the Standby condition Hazardous voltage may be present if this switch is on standby Indicates the On Off position of a push push main power switch Indicates a terminal that may be connected to the signal ground reference of another instrument This is not a protected ground terminal earth ground before any other electrical connections are made to the instrument Indicates a terminal that can receive or supply alternating current or voltage Indicates a terminal that can receive or supply alternating or direct current or voltage Q Indicates a protective grounding terminal that must be connected to Cmm Sa C
137. ycler Temperature Verification System For GeneAmp PCR Systems 2720 9600 9700 9800 and Veriti System User Guide Chapter 5 Calibration verification test Calibration verification test Required equipment Setting up the 0 02 mL probe assembly Use the calibration verification test to verify the temperature calibration of your GeneAmp PCR System 9700 Dual 384 Well Sample Block Module The calibration verification test consists of the following procedures which you must perform in sequence Setting up the 0 02 mL probe assembly 00 cece cece teenies 50 Configuring the GeneAmp 9700 00 n 51 Euonning tbe Test 1 oco asian ode aan eo Rawle Oh er e ove X ae 51 Evaluating the Tesulis iaces exse exce der nm ace der e wha eee as 54 This test requires the 0 02 mL Dual 384 Well Sample Block Module Temperature Verification Kit PN 4308354 which includes Light mineral oil Left and right 384 well temperature verification plates 0 02 mL probe assembly Digital thermometer Model 4500 with a 9V battery installed 1 Ifthe heated cover is in the forward position lift the lever then slide the heated cover back 2 Place both 384 well temperature verification plates on the sample blocks IMPORTANT The temperature verification plates must be installed in both sample blocks throughout all temperature verification testing The plate labeled L1 to L6 is for the eft sample block Figure 10 The plate labe

Thermal Cycler Temperature Verification System For GeneAmp

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