GeneAmp® PCR System 9700 Dual 96 Sample Block Module
Contents
1. Putting the Heated Cover into Cleaning Position Cleaning the Heated COVET 2 4 420 es sate norte Cleaning the Sample Block Wells GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide Chapter 2 Maintaining the Sample Block Module Cleaning the Sample Block Module Overview Required Materials The following procedures describe how to e Put the heated cover into the cleaning position e Clean the heated cover e Clean the sample block wells N oF Veale Before using any cleaning or decontamination method except those recommended in this manual check with Applied Biosystems to ensure that the proposed method will not damage the equipment To clean the system you need e Bleach 10 e Isopropanol pure e Cotton swabs e Clean cloth Nee CHEMICAL HAZARD Sodium hypochlorite bleach is a liquid disinfectant that can be corrosive to the skin and can cause skin depigmentation Please read the MSDS and follow the handling instructions Wear appropriate protective eyewear clothing and gloves ANITY CHEMICAL HAZARD Isopropanol is a flammable liquid and vapor It may cause eye skin and upper respiratory tract irritation Prolonged or repeated contact may dry skin and cause irritation It may cause central nervous system effects such as drowsiness dizziness and headache etc Please read the MSDS and follow the handling instructions Wear approp2. The Temperature Non Uniformity Test uses the 0 2 mL Probe Assembly to test the temperature uniformity of all six wells in the left and right sample blocks You test each well at two setpoints 95 C and 55 C ANTENT PHYSICAL INJURY HAZARD Hot Surface Use care when working around the heated cover and sample block to avoid being burned by hot components Note To exit the test at any time press F5 Cancel See Required Materials on page 3 2 for information To set up the 0 2 mL Probe Assembly l If the heated cover is in the forward position lift the lever then slide the heated cover back Position the Temperature Verification Plates on the appropriate sample blocks e Right sample block Plate labeled with R1 to R6 e Left sample block Plate labeled with L1 to L6 Position the plate with the notch facing the back of the instrument Note The plates are used as a guide to help you locate the probes within the sample blocks Using a cotton swab coat wells R1 to R6 and L1 to L6 with mineral oil Place the 0 2 mL Probe Assembly into the well to be tested Begin testing with well L1 Thread the probe wire through the channel in the Temperature Verification Plate to prevent damage to the probe and lead wires Make sure the probe is connected to the digital thermometer GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide Performing the Temperature Non Uniformity Test 7 Slide the
3. 7 S SE SE SED MicroAmp gt 96 Well O e MicroAmp 96 Well Full Plate Cover Full Plate Cover MicroAmp 96 Well Retainer MicroAmp 8 Strip Tubes or Single Tubes MicroAmp 96 Well Tray MicroAmp 96 Well Support Base 1 8 GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide Loading Samples Loading Samples Loading Tubes with Attached Caps Loading the 96 Well Reaction Plate Loading the 96 Well Tray Retainer Assembly The following procedures describe how to load samples for e Tubes with attached caps e 96 Well reaction plate e 96 Well Tray Retainer Assembly e Sample volume range 5 to 100 uL in D96 mode IMPORTANT Do not use mineral oil or glycerine in the sample block or as a vapor barrier over the PCR reaction mixture in the tubes The MicroAmp Reaction Tubes fit tightly in the wells and a heated cover exerts even pressure on all tubes reducing condensation on the tubes when you are using a tray or tray retainer set To load tubes with attached caps I Set the 96 well tray on a 96 well support base 2 Place the reaction tubes in the tray 3 4 Cap the tubes Pipette the samples into the reaction tubes To load the 96 well reaction plate 1 2 3 Place the reaction plate on the 96 well support base Pipette the samples into the sample wells Apply the adhesive cover with a compression pad or cap the tubes using either the MicroAmp 96
4. 4 lt 5440042444000540 09400400 Sa KK KK KK bo X General Instrument Safety kak eon OSs KK KK KK KK KK ed KK KK ead bea xi OA L c 4 006 ln ek wadding dod ded dl derk a ne hohe ee eee mere xi Chemical Waste mia moe doi ae xili Fictional AY ago mm eee 2 p _ lt _xan gnmnmnh hn n XIV PR an ca eo to dant Aou XIV Wer E station a ee XV Safety and Electromagnetic Compatibility EMC Standards XVI GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide vii Safety and EMC Compliance Information Safety Gonventions Used in This Document vill Safety Alert Words Four safety alert words appear in Applied Biosystems user documentation at points 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 Definitions IMPORTANT Indicates information that is necessary for proper instrument operation accurate chemistry kit use or safe use of a chemical N 07l 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 Nee Indicates a potentially hazardous situation that if not avoided could result in death or serious injury N py leiaag Indicates an imminently hazardous situation that if not avoided will result in death or serious injury Th
5. F1 F2 F3 F4 F5 6 Continue with Performing the Temperature Non Uniformity Test on page 3 9 Performing the Before you begin the Temperature Non Uniformity Test Temperature e Perform the procedures in Non Uniformity ar N Test Setting Up the 0 2 mL Probe Assembly on page 3 8 Configuring the System 9700 on page 3 9 e Obtain the current Temperature Uniformity Data Sheet for your system or copy the form on page 3 14 GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide 3 9 Chapter 3 Testing the Dual 96 Sample Block Module To perform the Temperature Non Uniformity Test 1 Press F1 Run This starts the Temperature Non Uniformity Test The TNU Performance screen is displayed with the first setpoint value 95 C TNU Performance Sample temp xx x C Cover temp xxx C Setpoint is 95 C Sample must be within 1 0 C of setpoint Cancel F1 F2 F3 F4 F5 If necessary the System 9700 ramps up the sample block sample temp and lid cover temp temperatures to the specified values It may take several minutes for the System 9700 to stabilize at these temperature When the sample block and lid temperatures are reached the Stabilizing at setpoint screen is displayed The TNU Performance screen counts down the time until the setpoint is stabilized TNU Performance Sample temp xx x C Cover temp xxx C Stabilizing at setpoint x xx Cancel F1 F2 F3
6. C Cover temp xxx C Enter actual block temperature Cancel F1 F2 F3 F4 F5 Note The digital thermometer displays a four digit value round off the value to three digits before typing it in the Calibration Verification screen Record the value on the Calibration Verification Test Data Sheet page 3 7 4 Press Enter The System 9700 automatically begins the second reading The Calibration Verification screen is displayed for the second setpoint 45 C If necessary the System 9700 ramps up the lid temperature cover temp to 105 C 1 C before initiating the Stabilizing at setpoint value countdown Calibration Verification Block temp xx x C Cover temp xxx C Setpoint is 45 C Cover must be within 1 C of 105 C Cancel F1 F2 F3 F4 F5 5 When the Stabilizing at setpoint value decrements to zero read the digital thermometer and enter the value for the second reading as described in steps 2 and 3 Record the value The System 9700 evaluates the calibration of the sample block temperature for the setpoint values you entered and displays the results A summary screen is displayed at the conclusion of the test Calibration Verification Actual temperature at 85 C Actual temperature at 45 C Accept Cancel F1 F2 F3 F4 F5 Compare the values displayed with the actual test results you recorded If the values differ repeat the procedure to make sure you e
7. Ifthe values agree press F1 Accept 12 Continue with Evaluating the Results on page 3 13 and Ending the Test on page 3 13 3 12 GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide Performing the Temperature Non Uniformity Test Evaluating the When the System 9700 completes the Temperature Non Uniformity Test the TNU Results Performance screen is displayed See the table below to evaluate the results If the performance result displays Then Pass after both setpoint temperatures The temperature of the sample block wells is uniform Fail after one or both setpoints The temperature variation of the sample block wells is unacceptable e Repeat the procedure to make sure you accurately read and entered the temperature readings e Ifthe test fails again contact Applied Biosystems Technical Support See How to Obtain Services and Support on page vi Ending the Test To end the test follow the procedures in Ending the Test on page 3 6 GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide 3 13 Chapter 3 Testing the Dual 96 Sample Block Module Data Sheet When you run the Temperature Non Uniformity Test record the setpoint values for Temperature wells L1 L6 and R1 R6 on a copy of this data sheet At the end of the Temperature Non Uniformity Non Uniformity Test check the values displayed on the System 9700 against the Test values recorded to ensure accurat
8. Support vi Technical Communications vi Technical Support vi Australian EMC standards xvi B biohazardous waste handling xiii bold text when used v C Calibration Verification Test 3 2 to 3 6 data sheet 3 7 discontinuing 3 2 exiting 3 2 required materials 3 2 Canadian safety standards xvi CAUTION description viii example viii chemical safety xi chemical safety guidelines xii chemical waste hazards xiii safety xiii safety guidelines xiii chemical waste disposal guidelines xiii cleaning the sample block module 2 2 2 4 conventions bold text v IMPORTANTS v in this guide v italic text v menu commands v Notes v user attention words v conventions safety viii cooling information 1 4 verifying cooling system 3 15 customer feedback on Applied Biosystems documents vi Cycle Test accessing 3 15 running 3 16 D DANGER description viii example viii data sheet Calibration Verification Test 3 7 Temperature Non Uniformity Test 3 14 diagnostics 3 15 3 16 accessing the tests 3 15 Cycle Test running 3 16 Rate Test running 3 15 3 16 diagrams sample block module cleaning position 2 3 top and bottom views 1 6 digital thermometer Calibration Verification Test 3 2 disposables ordering 1 4 DNA contamination heated cover 2 3 sample block wells 2 4 documentation feedback vi related to this guide vi Dual 384 Well Sample Block Module part number 1 5 Dual 96 Sample Block Module T
9. Wear appropriate personal protective equipment when handling chemicals for example safety glasses gloves or protective clothing For additional safety guidelines consult the MSDS Minimize the inhalation of chemicals Do not leave chemical containers open Use only with adequate ventilation for example fume hood For additional safety guidelines consult the MSDS Handle chemical wastes in a fume hood After emptying the waste container seal it with the cap provided Dispose of the contents of the waste tray and waste bottle in accordance with good laboratory practices and local state provincial or national environmental and health regulations Waste Disposal If potentially hazardous waste is generated when you operate the instrument you must Characterize by analysis if necessary the waste generated by the particular applications reagents and substrates used in your laboratory Ensure the health and safety of all personnel in your laboratory Ensure that the instrument waste is stored transferred transported and disposed of according to all local state provincial and or national regulations IMPORTANT Radioactive or biohazardous materials may require special handling and disposal limitations may apply GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide xiii Safety and EMC Compliance Information Electrical Safety Fuses SNA ELECTRICAL SHOCK HAZARD Improper fuses or high voltage supply
10. Well Full Plate Cover or the MicroAmp 8 Strip Caps To load the 96 Well Tray Retainer Assembly I Place the tray on the 96 well support base 2 Load tubes onto the tray either using single tubes or using the 8 well tubes oe Place retainer over the tubes Pipette the samples into the tubes Cap the tubes using either the MicroAmp 96 Well Full Plate Cover or the MicroAmp 8 Strip Caps GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide 1 9 Chapter 1 Dual 96 Sample Block Module Overview Placing the Sample Tray or Plate onto the Block To place a sample tray or plate onto the block 1 Lift the sample tray from the 96 well base and place it in the sample block Place the MicroAmp tray or plate so that well H12 is located at the upper right corner of the tray H12 GR1070 Figure 1 4 Align well H12 with upper right corner of the tray IMPORTANT Do not place the base into the sample block Slide the heated cover forward Note Ensure that the cover is pulled completely forward for a proper seal Pull the heated cover lever down to engage the heated cover with the reaction plate Process the samples IMPORTANT Do not open the cover when the block temperature is above 27 C because sample caps may pop off or jam GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide Maintaining the sample Block Module This chapter covers Cleaning the Sample Block Module
11. and follow the handling instructions Wear appropriate protective eyewear clothing and gloves Ifthe heated cover becomes contaminated with amplified DNA a Wipe the heated cover with a clean cloth or cotton swab soaked in 10 bleach b Wipe with a clean damp cloth Remove any remaining isopropanol from the heated cover with a clean cloth and return the cover to its normal position Cleaning the Sample Block Wells Clean the sample block wells once a month or more frequently if needed GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide 2 3 Chapter 2 Maintaining the Sample Block Module 2 4 To clean the sample block wells 1 2 Let the system 9700 cool to the idle setpoint 25 C Put the heated cover into the cleaning position See step 4 on page 2 3 and Figure 2 1 above Power off the instrument Unplug the instrument Remove the reaction plates from the sample block module and set them aside Soak a cotton swab in pure isopropanol and clean the sample block wells thoroughly Remove any remaining isopropanol from the sample block before reloading the reaction plates If the sample block wells become contaminated with amplified DNA a Clean the wells thoroughly with a cotton swab soaked in 10 bleach b Wipe with a clean damp cloth Nem CHEMICAL HAZARD Sodium hypochlorite bleach is a liquid disinfectant that can be corrosive to the skin and can cause skin depigmentation Please
12. 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 the heated cover is closed the probe may be damaged 8 Power on the digital thermometer Note Refer to the instructions included with the Temperature Verification System for a detailed description on operating the digital thermometer 9 Continue with Configuring the System 9700 on page 3 9 Configuring the Before you begin configuring the System 9700 perform the procedures described in System 9700 Setting Up the 0 2 mL Probe Assembly on page 3 8 To configure the System 9700 for the Calibration Verification Test 1 Power on the System 9700 The Main menu is displayed 2 Press F4 Util The Utilities screen is displayed 3 Press F1 Diag The Diagnostics screen is displayed 4 Press F3 TmpVer The Temperature Verification screen is displayed Temperature Verification Temp Calibration Verification TNU Temperature Non Uniformity Temp TNU Exit F1 F2 F3 F4 F5 5 Press F2 TNU The TNU Performance setpoint screen is displayed and the system is automatically configured for the Temperature Non Uniformity Test When the configuration is complete the TNU Performance probe position screen is displayed TNU Performance Sample temp xx x C Cover temp xxx C Place Probe in well Li Press Run Run Cancel
13. in your files GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide xi Safety and EMC Compliance Information Obtaining You can obtain from Applied Biosystems the MSDS for any chemical supplied by MSDSs Applied Biosystems This service is free and available 24 hours a day To obtain MSDSs 1 d Go to https docs appliedbiosystems com msdssearch html In the Search field type in the chemical name part number or other information that appears in the MSDS of interest Select the language of your choice then click Search Find the document of interest right click the document title then select any of the following Open To view the document Print Target To print the document Save Target As To download a PDF version of the document to a destination that you choose To have a copy of a document sent by fax or e mail select Fax or Email to the left of the document title in the Search Results page then click RETRIEVE DOCUMENTS at the end of the document list After you enter the required information click View Deliver Selected Documents Now Chemical Safety To minimize the hazards of chemicals Guidelines xii e Read and understand the Material Safety Data Sheets MSDS provided by the chemical manufacturer before you store handle or work with any chemicals or hazardous materials See About MSDSs on page xi Minimize contact with chemicals Wear appropriate personal protectiv
14. mL Probe Assembly on page 3 3 Configuring the System 9700 on page 3 3 e Obtain the current Calibration Verification Data Sheet for your system or copy the form on page 3 7 To perform the Calibration Verification Test 1 Press F1 Run The Calibration Verification screen is displayed for the first setpoint 85 C Calibration Verification Block temp xx x C Cover temp xxx C Setpoint is 85 C Cover must be within 1 C of 105 C Cancel F1 F2 F3 F4 F5 The System 9700 ramps up the lid temperature cover temp to 105 C 1 C It may take several minutes for the System 9700 to ramp up When the lid temperature is reached the Stabilizing at setpoint screen is displayed The Stabilizing at setpoint value begins to count down Calibration Verification Block temp xx x C Cover temp xxx C Stabilizing at setpoint ADSS Cancel F1 F2 F3 F4 F5 2 When the Stabilizing at setpoint value decrements to zero read the digital thermometer Refer to the instructions included with the Temperature Verification System for a detailed description on operating the digital thermometer 3 4 GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide Performing the Calibration Verification Test 3 Using the numeric keys type the value displayed on the digital thermometer in the Enter actual block temperature field Calibration Verification Block temp xx x
15. read the MSDS and follow the handling instructions Wear appropriate protective eyewear clothing and gloves GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide Testing the Dual 96 Sample Block 3 Module This chapter covers Performing the Calibration Verification Test Performing the Temperature Non Uniformity Test Performing System Performance Diagnostics GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide Chapter 3 Testing the Dual 96 Sample Block Module Performing the Calibration Verification Test Overview Use this test to verify the temperature calibration of the GeneAmp PCR System 9700 Dual 96 Sample Block Module To complete the Calibration Verification Test you perform the following tasks in order Tasks See Page Setting Up the 0 2 mL Probe Assembly 3 3 Configuring the System 9700 3 3 Performing the Calibration Verification Test 3 4 Evaluating the Results 3 6 Ending the Test 3 6 In this procedure you use the digital thermometer to take temperature readings of one sample well connected to the 0 2 mL Probe Assembly You take a reading at two setpoint temperatures 85 C and 45 C AS erence PHYSICAL INJURY HAZARD Hot Surface Use care when working around the heated cover and sample block to avoid being burned by hot components Note To exit the test at any time press F5 Cancel
16. 4303481 or see How to Obtain Services and Support on page vi The Dual 96 Sample Block Module comes with a heated manual lid Simply slide the lid back and forth into position The heated cover slides over the sample blocks and performs two functions e It raises the temperature of the upper part of the tube the part above the sample blocks above the temperature of the reaction mixture This reduces condensation which may have a negative effect on your chemistry It puts pressure on the reaction plates to seat them firmly and precisely in the sample blocks This enhances heat transfer GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide About the Dual 96 Sample Block Module Module Features The Dual 96 Sample Block Module is shown below Figure 1 1 Dual 96 Sample Block Module Lever used to move the lid L Heated cover Figure 1 1 Dual 96 Sample Block Module on the GeneAmp PCR System 9700 Base Module There are two sample blocks in the Dual 96 Sample Block Module Each holds one 96 well reaction plate IMPORTANT The right sample block is the primary control block If you are using only one reaction plate Sample Blocks e Place the reaction plate you are using in the right sample block e Place an empty reaction plate in the left sample block If you use just one reaction plate place it on Using reaction plates on both sides the ri
17. F4 ES 2 When the Stabilizing at setpoint value decrements to zero read the digital thermometer Refer to the instructions included with the Temperature Verification System for a detailed description on operating the digital thermometer GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide Performing the Temperature Non Uniformity Test 3 Using the numeric keys type the value 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 0070 Cancel F1 F2 F3 F4 F5 Note The digital thermometer displays a four digit value round off the value to three digits before typing it in the Calibration Verification screen Record the value and well number on the Temperature Non Uniformity Test Data Sheet page 3 14 4 Press Enter The System 9700 automatically begins the second reading The TNU Performance screen is displayed for the second setpoint 55 C If necessary the System 9700 ramps up the sample and lid cover temp temperatures to the specified values before initiating the Stabilizing at setpoint value countdown TNU Performance Sample temp xx x C Cover temp xxx C Setpoint is 55 C Sample must be within 1 0 C of setpoint Cancel F1 F2 F3 F4 E5 5 When the Stabilizing at setpoint value decrements to zero read the digital thermometer
18. GeneAmp PGR System 9700 Dual 96 Sample Block Module User Guide Applied Bee ns AS Copyright 2007 2010 Applied Biosystems 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 This document is believed to be complete and accurate at the time of publication In no event shall Applied Biosystems be liable for incidental special multiple or consequential damages in connection with or arising from the use of this document The combination of the Dual 96 and Auto Lid Dual 96 Interchangeable Sample Block Modules with a GeneAmp PCR System 9700 Base Unit is covered by US patent claims and counterpart patent claims in other countries The Auto lid is covered by US patents TRADEMARKS Applera Applied Biosystems AB Design ABI PRISM GeneAmp and MicroAmp are registered trademarks of Applied Biosystems or its subsidiaries in the US and or certain other countries All other trademarks are the sole property of their respective owners Part Number 4343363 Rev E 06 2010 Contents Preface How to Use This Guide kk a kk a Ik YKY ee a ka a ka kk a kk kk a kk ees V How to Obtain More Information ka kk a ee ee Ka kk a ka kk a kk kk ka vi How to Obtain Services and Support vi Safety and EMC Compliance Information Chapter 1 Chapter 2 Safe
19. 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 Indicates a protective grounding terminal that must be connected to 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 It O Safety Symbols The following table describes the safety symbols that may be displayed on Applied Biosystems instruments Each symbol may appear by itself or in combination with text that explains the relevant hazard see Safety Labels on Instruments on page x These safety symbols may also appear next to DANGERS WARNINGS and CAUTIONS that occur in the text of this and other product support documents Symbol 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 gt gt gt GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide Ix Safety and EMC Compliance Infor
20. K kK kk kk kk kk kk kk kk ka 2 3 Cleaning the Sample Block Wells 2 3 GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide iii Chapter 3 Index Testing the Dual 96 Sample Block Module Performing the Calibration Verification Test 3 2 Performing the Temperature Non Uniformity Test 3 8 Performing System Performance Diagnostics 3 15 GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide Preface How to Use This Guide Purpose of This The Applied Biosystems Gene4mp PCR System 9700 Dual 96 Sample Block Guide Module User Guide provides the information you need to operate the Dual 96 Sample Block Module Audience This guide is intended for novice and experienced GeneAmp PCR System 9700 users who incorporate the Dual 96 Sample Block module Text Conventions This guide uses the following conventions e Bold indicates user action For example Type 0 then press Enter for each of the remaining fields e Italic text indicates new or important words and is also used for emphasis For example Before analyzing always prepare fresh matrix A right arrow bracket gt separates successive commands you select from a drop down or shortcut menu For example Select File gt Open gt Spot Set Right click the sample row then select View Filter gt View All Runs User Atte
21. Note Refer to the instructions included with the Temperature Verification System for a detailed description on operating the digital thermometer Continue with Configuring the System 9700 on page 3 3 Configuring the Before you begin configuring the System 9700 perform the procedure described in System 9700 Setting Up the 0 2 mL Probe Assembly on page 3 3 To configure the System 9700 for the Calibration Verification Test 1 2 3 Power on the System 9700 The Main menu is displayed Press F4 Util The Utilities screen is displayed Press F1 Diag The Diagnostics screen is displayed Press F3 TmpVer The Temperature Verification screen is displayed Temperature Verification Temp Calibration Verification TNU Temperature Non Uniformity Temp TNU Exit GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide 3 3 Chapter 3 Testing the Dual 96 Sample Block Module 5 Press F1 Temp The Calibration Verification screen is displayed and the System 9700 is automatically configured for the Calibration Verification Test Calibration Verification Block temp xx x C Cover temp xxx C Place probe in well R3 Press Run Run Cancel F1 F2 F3 F4 F5 6 Continue with Performing the Calibration Verification Test on page 3 4 Performing the Before you begin calibrating the System 9700 Calibration venticaion Tas A Oen Setting Up the 0 2
22. Required This test requires the Temperature Verification System Dual 0 2 mL P N 4346117 Materials which includes Light mineral oil Cotton swabs Temperature Verification Plates 0 2 mL Probe Assembly Digital thermometer with 9 V battery installed GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide Performing the Calibration Verification Test Setting Up the To set up the 0 2 mL Probe Assembly 0 2 mL Probe Assembly 9 1 Ifthe heated cover is in the forward position lift the lever then slide the heated cover back Position the 9700 Temperature Verification Plates on the appropriate sample blocks Right sample block Plate labeled with R1 to R6 e Left sample block Plate labeled with L1 to L6 Position the plate with the notch facing the back of the instrument Note The plates are used as a guide to help you locate the probes within the sample blocks Using a cotton swab coat well R3 with mineral oil Place the 0 2 mL Probe Assembly into well R3 Thread the probe wire through the channel in the 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 the heated cover is closed the probe may be damaged Power on the digital thermometer
23. a run and working with methods Portable document format PDF versions of supporting documents are also available on the CD shipped with the system Note For additional documentation see How to Obtain Services and Support on page vi Send Us Your Applied Biosystems welcomes your comments and suggestions for improving its Comments _ user documents You can e mail your comments to techpubs appliedbiosystems com How to Obtain Services and Support For the latest services and support information for all locations go to http www appliedbiosystems com then click the link for Services and Support At the Services and Support page you can Search through frequently asked questions FAQs e Submit a question directly to Technical Support Order Applied Biosystems user documents MSDSs certificates of analysis and other related documents Download PDF documents e Obtain information about customer training e Download software updates and patches In addition the Services and Support page provides access to worldwide telephone and fax numbers to contact Applied Biosystems Technical Support and Sales facilities vi GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide safety and EMC Compliance Information This section includes the following topics Safety Conventions Used in This Document viii Symbols on Instruments eo ge ee aaaea aaee 1X Safety Labels on Instruments
24. afety x laser hazard symbol x lid 1 3 loading samples 1 10 M menu commands conventions for describing v MicroAmp Caps 1 8 MicroAmp Full Plate Cover part number 1 5 mineral oil warning 1 10 modules ordering 1 4 moving and lifting instrument safety xi moving parts hazard xiv hazard symbol x safety xiv symbol xiv MSDSs description xi obtaining vi xii referring to xii Xiii when to review xi N Notes description v O ordering parts 1 4 overvoltage category rating xiv overvoltage rating xiv P part numbers 1 4 parts ordering 1 4 Peltier unit heating cooling unit 1 4 verifying running correctly 3 15 performance tests 3 15 3 16 Index 2 GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide accessing the tests 3 15 Cycle test running 3 16 Rate Test running 3 15 3 16 physical hazard safety xiv physical hazards xiv R radioactive waste handling xiii Rate Test accessing 3 15 Rate Test running 3 15 3 16 reaction plates placing 1 4 using with the sample block module 2 2 repetitive motion hazard xv S safety before operating the instrument xi chemical xi chemical waste xiii conventions vili electrical xiv ergonomic xv instrument xi instrument operation xi moving and lifting instrument xi moving parts XIV physical hazard xiv standards xvi workstation xv safety alert words accompanying hazard icons viii CAUTIONS viii DANGERS viii description viii IMPORTANTS vii
25. and enter the value for the second reading as described in steps 2 and 3 Record the value 6 Press Enter The TNU Performance screen is displayed with the following message TNU Performance Sample temp xx x C Cover temp xxx C Place probe in well xx Press Run Run Cancel GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide 3 11 Chapter 3 Testing the Dual 96 Sample Block Module 7 Test the next well a Move the probe assembly to the next well Slide the heated lid back Move the probe Make sure the probe is connected to the digital thermometer Seat the probe and close the cover See Setting Up the 0 2 mL Probe Assembly on page 3 8 steps 4 through 6 b Initiate and enter the first setpoint reading Press F1 Run Repeat steps 2 and 3 of this procedure c Initiate and enter the second setpoint reading Press Enter Repeat steps 2 and 3 of this procedure 8 To initiate testing of the next well press Enter 9 Repeat steps 7 and 8 of this procedure until you test all 12 wells L1 to L6 and R1 to R6 10 After the last well is tested the System 9700 displays the values you entered XX XX XX XX E Yen F1 F2 F3 F4 F5 Compare the values displayed with the actual test results you recorded on the Temperature Non Uniformity Test Data Sheet If the values differ repeat the procedure to make sure the values were accurately entered 11
26. can damage the instrument wiring system and cause a fire Before turning on the instrument verify that the fuses are properly installed and that the instrument voltage matches the power supply in your laboratory MAG FIRE HAZARD For continued protection against the risk of ire replace fuses only with fuses of the type and rating specified for the instrument Power MSN ELECTRICAL HAZARD Grounding circuit continuity is vital for the safe operation of equipment Never operate equipment with the grounding conductor disconnected NV ELECTRICAL HAZARD Use properly configured and pproved line cords for the voltage supply in your facility e MMA ELECTRICAL HAZARD Plug the system into a properly grounded receptacle with adequate current capacity Overvoltage The GeneAmp PCR System 9700 system has an installation overvoltage category Rating of II and is classified as portable equipment Physical Hazard Safety lyfe Moving Parts PHYSICAL INJURY HAZARD Moving parts can crush and cut Keep hands clear of moving parts while operating the instrument Disconnect power before servicing the instrument Pyles PHYSICAL INJURY HAZARD Do not operate the instrument without the arm shield in place Keep hands out of the deck area when the instrument is spotting Hot Surface UAUA PHYSICAL INJURY HAZARD During instrument operation the temperature of the heated cover can be as high as 108 C and the te
27. e equipment when handling chemicals for example safety glasses gloves or protective clothing For additional safety guidelines consult the MSDS Minimize the inhalation of chemicals Do not leave chemical containers open Use only with adequate ventilation for example fume hood For additional safety guidelines consult the MSDS Check regularly for chemical leaks or spills If a leak or spill occurs follow the manufacturer s cleanup procedures as recommended on the MSDS Comply with all local state provincial or national laws and regulations related to chemical storage handling and disposal GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide Chemical Waste Safety Ghemical Waste Safety Chemical Waste Aron HAZARDOUS WASTE Refer to Material Safety Data Sheets Hazard and local regulations for handling and disposal Chemical Waste To minimize the hazards of chemical waste Safety Guidelines Read and understand the Material Safety Data Sheets MSDSs provided by the manufacturers of the chemicals in the waste container before you store handle or dispose of chemical waste Provide primary and secondary waste containers A primary waste container holds the immediate waste secondary container contains spills or leaks from the primary container Both containers must be compatible with the waste material and meet federal state and local requirements for container storage Minimize contact with chemicals
28. e test records IMPORTANT Use a photocopy of this page to record values and keep the original intact Date Tested By Probe Serial No Meter Serial No Setpoint Value 95 C 55 C L1 L2 L3 L4 L5 L6 R1 R2 R3 R4 R5 R6 3 14 GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide Performing System Performance Diagnostics Performing System Performance Diagnostics After you have configured the GeneAmp PCR System 9700 conduct the system Rate and Cycle performance tests to verify the integrity of the cooling and heating system IMPORTANT Before you begin these tests make sure that you place an empty 96 well plate with full plate lid on the sample block or use an empty tray and lid the wells with caps or the full plate cover Slide the heated lid forward and pull the lever down Accessing the To access the tests press System from the Diagnostics screen The System Tests Performance screen is displayed System Performance Rate Cool and Heat Rate Test Cycle Cycle Performance Test Rate Cycle BETEN F1 F2 F3 F4 F5 Performing the Use the Rate Test to verify that the Peltier units are operating correctly The test takes Rate Test approximately two minutes to run IMPORTANT Ambient Temperature Conditions Cool and Heat Rate tests provide accurate results only if the normal operating ambient
29. emperature Verification Kit part number 1 5 E electrical hazard symbol 1x electrical safety xiv GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide Index 1 electrical symbols on instruments 1x electromagnetic compatibility standards See EMC standards EMC standards xvi Australian xvi Canadian xvi European xvi ergonomic safety xv European EMC standards xvi European safety standards xvi G general hazard symbol 1x glycerine warning 1 10 guidelines chemical safety xii chemical waste disposal xiii chemical waste safety xiii waste disposal xiii H hazard icons accompanying safety alert words viii components viii described viii in documents viii on instruments viii 1x See also hazard symbols See also safety symbols hazard symbols electrical 1x general 1x hot surface 1x in documents viii laser hazard x moving parts x on instruments 1x See also hazard icons See also safety symbols hazards chemical waste xiii moving parts xiv moving lifting instrument xi physical xiv repetitive motion xv heated cover cleaning 2 2 DNA contamination 2 3 heated lid 1 2 heating and cooling information 1 4 IMPORTANT description v viii example viii installation category xiv installing the sample block module 1 7 instrument operational safety instructions for xi interchangeability of sample block modules 1 2 italic text when to use v J jams fixing 2 4 L labels instrument s
30. eneAmp PCR System 9700 Sample Tray and Plate Configurations Table 1 4 illustrates the possible sample tray and plate configurations Reaction Plate A inis Use As Shown vessel MicroAmp Adhesive cover Optical 96 Well Adhesive cover MicroAmp Optical 96 Well Reaction Plate MicroAmp 96 Well Support Base MicroAmp 96 Well Full Plate Cover MicroAmp 96 Well Full Plate Cover MicroAmp Optical 96 Well Reaction Plate MicroAmp 96 Well Support Base MicroAmp 8 Strip Caps MicroAmp Caps 8 Strip MicroAmp Optical 96 Well Reaction Plate MicroAmp 96 Well Support Base GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide 1 7 Chapter 1 Dual 96 Sample Block Module Overview Table 1 4 Sample tray and plate configurations continued With this Use As Shown vessel MicroAmp MicroAmp 96 Well Tray for Reaction Tubes Tubes with Caps with Caps MicroAmp Reaction Tubes with Caps MicroAmp 96 Well Tray for Tubes with Caps MicroAmp 96 Well Support Base MicroAmp MicroAmp MicroAmp 8 Strip Tubes 96 Well 8 Strip Caps or Single Tubes Tray Retainer Set MicroAmp Caps 8 Strip MicroAmp 96 Well Retainer MicroAmp SE 8 Strip Tubes or O SER9 Single Tubes SES MicroAmp Steers 96 Well Tray c9d MicroAmp 96 Well Support Base GR2253 L oN e
31. ght Place an empty plate on the left GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide 1 3 Chapter 1 Dual 96 Sample Block Module Overview Placing the To place the reaction plates in the sample blocks Reaction Plates 1 Place a 96 well reaction plate into the right sample block 2 Place a second reaction plate in the left sample block IMPORTANT You must insert two plates into the sample block for the instrument to run properly 3 Close the heated lid 4 Process the samples Peltier Heating The internal Peltier heating cooling unit is housed in the sample block module The Cooling Unit sample block module is made of aluminum to provide the optimal thermal transfer rate Platinum sensors in the sample block module provide Wide temperature range 4 to 99 9 C Accuracy 0 25 C from 35 to 100 C e Uniformity of each sample block 0 5 C measured after 30 sec at 95 C e Uniformity of combined sample blocks 0 75 C measured after 30 sec at 95 C e Long term stability and high reliability Modules The modules listed below are available for the GeneAmp PCR System 9700 Base Accessories and Module The accessories and disposables are for use with the Dual 96 Sample Block Disposables Module Ordering Order modules accessories and disposables from Applied Biosystems by part number See Tables 1 1 through 1 3 Table 1 1 Modules for the 9700 Base Module Modules Part Number 96 Wel
32. i WARNINGS viii safety labels on instruments x safety standards Canadian xvi European xvi U S xvi safety symbols on instruments ix See also hazard symbols sample block about 1 3 cleaning the wells 2 3 DNA contamination in wells 2 4 interchanging modules 1 2 modules interchanging 1 2 removing sample block module 1 5 verifying temperature uniformity 3 9 to 3 13 sample compartment loading samples 1 10 sample tray configurations 1 8 1 9 sample tube configurations 1 9 choosing a tube configuration 1 8 sample tray configurations 1 8 1 9 samples loading 1 10 Services and Support obtaining vi standards EMC xvi safety xvi symbols hazard ix hot surface ix moving parts xiv symbols on instruments electrical ix safety ix system performance tests running 3 15 3 16 accessing the tests 3 15 Cycle Test running 3 16 Rate Test running 3 15 3 16 T Technical Communications contacting vi e mail address vi Technical Support contacting vi Temperature Non Uniformity Test 3 8 to 3 13 data sheet 3 14 discontinuing 3 8 evaluating the results 3 13 exiting 3 8 required materials 3 8 running the test 3 9 to 3 13 tests accessing system performance 3 15 Calibration Verification Test 3 2 to 3 6 system performance 3 15 3 16 system performance Cycle test 3 16 system performance Rate Test 3 16 Temperature Non Uniformity Test 3 8 to 3 13 training obtaining information about vi tray and retainer set samp
33. ion on e U S and Canadian Safety Standards e Canadian EMC Standard European Safety and EMC Standards e Australian EMC Standards This instrument has been tested to and complies with standard UL 3101 1 Safety Requirements for Electrical Equipment for Laboratory Use Part 1 General Requirements This instrument has been tested to and complies with standard CSA 1010 1 Safety Requirements for Electrical Equipment for Measurement Control and Laboratory Use Part 1 General Requirements This instrument has been tested to and complies with ICES 001 Issue 3 Industrial Scientific and Medical Radio Frequency Generators Safety This instrument meets European requirements for safety Low Voltage Directive 73 23 EEC This instrument has been tested to and complies with standards EN 61010 1 2001 Safety Requirements for Electrical Equipment for Measurement Control and Laboratory Use Part 1 General Requirements and EN 61010 2 010 Particular Requirements for Laboratory Equipment for the Heating of Materials EMC This instrument meets European requirements for emission and immunity EMC Directive 89 336 EEC This instrument has been tested to and complies with standard EN 61326 Group 1 Class B Electrical Equipment for Measurement Control and Laboratory Use EMC Requirements This instrument has been tested to and complies with standard AS NZS 2064 Limits and Methods Measurement of Electro
34. is signal word is to be limited to the most 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 icons that are affixed to Applied Biosystems instruments see Safety Symbols on page 1x Examples The following examples show the use of safety alert words IMPORTANT You must create a separate a Sample Entry Spreadsheet for each 96 well microtiter plate AN o7 The lamp is extremely hot Do not touch the lamp until it has cooled to room temperature Nee CHEMICAL HAZARD Formamide Exposure causes eye skin and respiratory tract irritation It is a possible developmental and birth defect hazard Read the MSDS and follow the handling instructions Wear appropriate protective eyewear clothing and gloves EN MMM ELECTRICAL HAZARD Failure to ground the instrument properly can lead to an electrical shock Ground the instrument according to the provided instructions GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide Symbols on Instruments 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 Indicates the Off position of the main power switch
35. l Sample Block Module N805 0251 96 Well Gold Sample Block Module 4314443 1 4 GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide About the Dual 96 Sample Block Module GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide Table 1 1 Modules for the 9700 Base Module continued Modules Part Number 96 Well Aluminum Sample Block Module 4314445 0 5 mL 60 Well Sample Block Module 4309131 Dual 96 Well GeneAmp PCR System 9700 4343176 Dual 384 Well Sample Block Module N805 0400 Table 1 2 Accessories for the 9700 Base Module Accessories Part Number Dual 96 Well Sample Block Module Temperature Verification Kit 4317939 Dual 384 Well Sample Block Module Temperature Verification Kit 4308354 Tool 384 Well Plate Extraction T 6273 Table 1 3 Disposables for the 9700 Base Module Disposable Part Number ABI PRISM 96 Well Optical Reaction Plate 4329989 Adhesive Covers 4311971 MicroAmp Clear Adhesive Covers 4306311 MicroAmp Optical 96 Well Reaction Plate N801 0560 MicroAmp Full Plate Cover N8010550 MicroAmp Cap Installing Tool N801 0438 MicroAmp 96 Well Tray Retainer Sets 403081 MicroAmp Cap Installing Tool N801 0438 MicroAmp 96 Well Support Base 4312063 MicroAmp Reaction Tubes N801 0533 MicroAmp Caps Twelve Caps Strip N801 0534 MicroAmp Caps Eight Caps Strip N801 0535 MicroAmp Reaction Tubes with Cap
36. le tray configuration 1 8 tube configurations 1 9 choosing a tube configuration 1 8 sample tray configurations 1 8 1 9 tubes with attached caps loading 1 10 sample tray configuration 1 9 U unloading samples procedures for loading samples 1 10 US safety standards xvi user attention words defined v GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide Index 3 W WARNING description viii waste disposal guidelines xiii workstation safety xv Index 4 GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide Headquarters 850 Lincoln Centre Drive Foster City CA 94404 USA Phone 1 650 638 5800 Toll Free In North America 1 800 345 5224 Fax 1 650 638 5884 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 www appliedbiosystems com Applied Bibsystems Applied Biosystems is committed to providing the world s leading technology and information for life scientists 06 2010 Part Number 4343363 Rev E
37. mables into the Sample Block Refer to System Performance Section of the Block User Manual Cont Cancel F1 F2 F3 F4 F5 2 After you have installed a plate cover press Cont The Cycle Test executes a standard PCR cycling reaction measures and reports the average cycle time and the cycle to cycle variation IMPORTANT Pressing Pause during the Cycle Test may generate false test results Re run the Cycle Test if Pause is pressed during the test 3 At the conclusion of the test the display indicates test results and whether the test results passed or failed Cycle Performance Pass Average Cycle Time xxx x sec Cycle Time STD XwA e Print Cancel F1 F2 F3 F4 F5 The following table lists the passing ranges for the Cycle Test 3 16 GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide Performing System Performance Diagnostics Cycle Time STD lt 5 sec GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide Chapter 3 Testing the Dual 96 Sample Block Module 3 18 GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide Index Numerics 0 2 uL Probe Assembly setting up Temperature Non Uniformity Test 3 8 96 Well Sample Block Module part number 1 4 1 5 96 well sample plate loading 1 10 sample tray configurations 1 8 1 9 A Accessories ordering 1 4 Applied Biosystems contacting vi customer feedback on documentation vi Services and
38. magnetic Disturbance Characteristics of Industrial Scientific and Medical ISM Radio frequency Equipment GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide Dual 96 Sample Block Module Overview This chapter covers About the Dual 96 Sample Block Module Installing the Dual 96 Sample Block Module Sample Tray and Plate Configurations Loading Samples ei et sc ka Sched hak ba al yane W done oo GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide Chapter 1 Dual 96 Sample Block Module Overview About the Dual 96 Sample Block Module 1 2 What It Does Compatible Software Heated Cover The GeneAmp PCR System 9700 amplifies nucleic acids using the polymerase chain reaction PCR process Sample block modules are interchangeable You can for example remove a 384 well Sample Block Module and replace it with the Dual 96 Sample Block Module This interchangeable module design allows you to change sample well formats as well as throughput capacity Interchanging sample block modules may require a firmware change If the sample block module is placed on a base module running an earlier software version the instrument will not operate correctly To upgrade the base module software use the floppy disk that is shipped with the Dual 96 Sample Block Module For instructions on upgrading the software see the GeneAmp PCR System 9700 Base Module User s Manual P N
39. mation Symbol Description appropriate caution AN Indicates the presence of a laser inside the instrument and to proceed with caution AN Indicates the presence of moving parts and to proceed with appropriate Safety Labels on Instruments The following CAUTION WARNING and DANGER statements may be displayed on Applied Biosystems instruments in combination with the safety symbols described in the preceding section English Francais CAUTION Hazardous chemicals Read the Material Safety Data Sheets MSDSs before handling ATTENTION Produits chimiques dangeureux Lire les fiches techniques de s ret de materiels avant la manipulation des produits CAUTION Hazardous waste Read the waste profile if any in the site preparation guide for this instrument before handling or disposal ATTENTION D chets dangereux Lire les renseignements sur les d chets avant de les manipuler ou de les liminer CAUTION Hazardous waste Refer to MSDS s and local regulations for handling and disposal ATTENTION D chets dangereux Lire les fiches techniques de s ret de materiels et la regulation locale associ es a la manipulation et l limination des d chets WARNING Hot lamp AVERTISSEMENT Lampe br lante WARNING Hot Replace lamp with an Applied Biosystems lamp AVERTISSEMENT Composants brulants Remplacer la lampe par une lampe Applied Biosystems CAUTION Ho
40. mperature of the sample block can e as high as 100 C Before performing the procedure keep hands away until the heated cover and sample block reach room temperature XIV GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide Workstation Safety Workstation Safety Correct ergonomic configuration of your workstation can reduce or prevent effects such as fatigue pain and strain Minimize or eliminate these effects by configuring your workstation to promote neutral or relaxed working positions JININ MUSCULOSKELETAL AND REPETITIVE MOTION HAZARD These hazards are caused by potential risk factors that include but are not limited to repetitive motion awkward posture forceful exertion holding static unhealthy positions contact pressure and other workstation environmental factors To minimize musculoskeletal and repetitive motion risks e Use equipment that comfortably supports you in neutral working positions and allows adequate accessibility to the keyboard monitor and mouse e Position the keyboard mouse and monitor to promote relaxed body and head postures GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide XV Safety and EMC Compliance Information Safety and Electromagnetic Compatibility EMC Standards U S and Canadian Safety Standards c UL us Canadian EMC Standard European Safety and EMC Standards CE Australian EMC Standards XVI This section provides informat
41. ntered the values accurately 6 Ifthe values agree press F1 Accept 7 Continue with Evaluating the Results on page 3 6 and Ending the Test on page 3 6 GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide 3 5 Chapter 3 Testing the Dual 96 Sample Block Module Evaluating the When the System 9700 completes the Calibration Verification Test one of two Results screens is displayed Table 3 1 to evaluate the results Table 3 1 Calibration Verification Test Results If the screen displays Then the sample block module Calibration Verification Calibration is good Is properly calibrated Calibration Verification Instrument may require service accurately read and entered the temperature Contact Applied Biosystems Technical Support Failed the Calibration Verification Test e Repeat the procedure to make sure you readings e If the test fails again contact Applied Exit Biosystems Technical Support For information see How to Obtain Services and Support on page vi Ending the Test To end the test 1 3 6 Press F5 Exit Continue to press F5 Exit until the Main Menu screen is displayed Remove the 0 2 mL Probe Assembly from the sample block Power off the digital thermometer and clean off the oil Wait for the sample block to reach room temperature 25 C then remove the 96 Well Temperature Verification Plates from the
42. ntion Two user attention words appear in Applied Biosystems user documentation Each Words word implies a particular level of observation or action as described below Note Provides information that may be of interest or help but is not critical to the use of the product IMPORTANT Provides information that is necessary for proper instrument operation accurate chemistry kit use or safe use of a chemical Examples of the user attention words appear below Note The size of the column affects the run time Note The Calibrate function is also available in the Control Console IMPORTANT To verify your client connection to the database you need a valid Oracle user ID and password IMPORTANT You must create a separate Sample Entry Spreadsheet for each 96 well microtiter plate Safety Alert Safety alert words also appear in user documentation For more information see Words Safety Alert Words on page viii GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide V Preface How to Obtain More Information Related The following related documents are shipped with the system Documentation GeneAmp PCR System 9700 Base Module User s Manual Describes the GeneAmp PCR System 9700 hardware and software and provides information on preparing maintaining and troubleshooting the system GeneAmp PCR System 9700 Quick Reference Guide Set The Quick Reference Guide provides the fundamentals of preparing and starting
43. ques Improper lifting can cause painful and permanent back injury Depending on the weight moving or lifting an instrument may require two or more persons Ensure that anyone who operates the instrument has e Received instructions in both general safety practices for laboratories and specific safety practices for the instrument e Read and understood all applicable Material Safety Data Sheets MSDSs See About MSDSs on page xi Chemical Safety Chemical Hazard Warning About MSDSs Nem CHEMICAL HAZARD Before handling any chemicals refer to the Material Safety Data Sheet MSDS provided by the manufacturer and observe all relevant precautions ATEN CHEMICAL HAZARD All chemicals in the instrument including liquid in the lines are potentially hazardous Always determine what chemicals have been used in the instrument before changing reagents or instrument components Wear appropriate eyewear protective clothing and gloves when working on the instrument Chemical manufacturers supply current Material Safety Data Sheets MSDSs with shipments of hazardous chemicals to new customers They also provide MSDSs with the first shipment of a hazardous chemical to a customer after an MSDS has been updated MSDSs provide the safety information you need to store handle transport and dispose of the chemicals safely Each time you receive a new MSDS packaged with a hazardous chemical be sure to replace the appropriate MSDS
44. riate protective eyewear clothing and gloves Putting the Heated Cover into Cleaning Position 2 2 Clean the heated cover at least once a month or more frequently if needed AN VAGADI During instrument operation the temperature of the heated cover can be as high as 108 C and the temperature of the sample block module can be as high as 100 C Before performing this procedure wait until the heated cover and sample block module reach room temperature To put the heated cover into cleaning position 1 Power off the instrument 2 Unplug the instrument 3 Wait 20 30 minutes for the heated cover to cool down GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide Cleaning the Heated Cover 4 Put the cover into the cleaning position by raising the front of the lid through the slots on each side of the module as shown in Figure 2 1 Raise front of the lid up through the slots Slot Figure 2 1 Heated cover in cleaning position Cleaning the Heated Cover To clean the heated cover 1 Soak a cotton swab or clean cloth with pure isopropanol and gently wipe the bottom of the heated cover ANITY CHEMICAL HAZARD Isopropanol is a flammable liquid and vapor It may cause eye skin and upper respiratory tract irritation Prolonged or repeated contact may dry skin and cause irritation It may cause central nervous system effects such as drowsiness dizziness and headache etc Please read the MSDS
45. s N801 0540 MicroAmp 96 Well Tray for Tubes with Caps N801 0541 MicroAmp Centrifuge Adapter N801 3822 1 5 Chapter 1 Dual 96 Sample Block Module Overview Installing the Dual 96 Sample Block Module Release Lever A lever behind the sample block module releases it from the GeneAmp PCR System 9700 Base Module The top and bottom of the Dual 96 Sample Block Module are shown below Figure 1 2 Top view Dual 96 Sample Block Module i Lever III Figure 1 3 Bottom view Dual 96 Sample Block Module Installing the To install the sample block module into the GeneAmp PCR System 9700 Base Sample Block Module Module 1 Pull out the lever from the sample block module 2 Place the sample block module onto the base module then push the sample block module back to seat the electrical connections 3 Push the lever into the base module to secure the sample block module Note If the sample block module is not seated correctly the instrument cannot be turned on 1 6 GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide Sample Tray and Plate Configurations Table 1 4 Sample tray and plate configurations Sample Tray and Plate Configurations The following section describes the possible sample tray and plate configurations IMPORTANT The Tray or the Tray Retainer Set are essential for the operation of the G
46. sample blocks Clean the oil from the sample block GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide Performing the Calibration Verification Test Data Sheet When you run the Calibration Verification Test record the setpoint values for Calibration well R3 on a copy of the data sheet At the end of the Calibration Verification Test Verification Test check the values displayed on the System 9700 against the values recorded to ensure accurate test records IMPORTANT Use a photocopy of this page to record values and keep the original intact Setpoint Value Well R3 Date Tested By Probe Thermometer Serial No Serial No 85 C 45 C GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide 3 7 Chapter 3 Testing the Dual 96 Sample Block Module Performing the Temperature Non Uniformity Test 3 8 Overview Use this test to find wells within the GeneAmp PCR System 9700 Dual 96 Well Sample Block Module that exhibit unacceptable temperature variation Required Materials Setting Up the 0 2 mL Probe Assembly To complete the Temperature Non Uniformity Test you perform the following tasks in order Tasks See Page Setting Up the 0 2 mL Probe Assembly 3 8 Configuring the System 9700 3 9 Performing the Temperature Non Uniformity Test 3 9 Evaluating the Results 3 13 Ending the Test 3 13
47. t surface ATTENTION Surface br lante DANGER High voltage WARNING To reduce the chance of electrical shock do not remove covers that require tool access No user serviceable parts are inside Refer servicing to Applied Biosystems qualified service personnel DANGER Haute tension AVERTISSEMENT Pour viter les risques d lectrocution ne pas retirer les capots dont l ouverture n cessite l utilisation d outils Linstrument ne contient aucune pi ce r parable par l utilisateur Toute intervention doit tre effectu e par le personnel de service qualifi de Applied Biosystems CAUTION Moving parts ATTENTION Parties mobiles GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide General Instrument Safety General Instrument Safety Moving and Lifting the Instrument Operating the Instrument Zane PHYSICAL INJURY HAZARD Use this product only as specified in this document Using this instrument in a manner not specified by Applied Biosystems may result in personal injury or damage to the instrument N ez 00 PHYSICAL INJURY HAZARD The instrument is to be moved and positioned only by the personnel or vendor specified in the applicable site preparation guide If you decide to lift or move the instrument after it has been installed do not attempt to lift or move the instrument without the assistance of others the use of appropriate moving equipment and proper lifting techni
48. temperature is 15 to 24 C To perform the Rate Test 1 Press Rate in the System Performance screen If appropriate the following reminder is displayed WARNING Install the appropriate empty Consumables into the Sample Block Refer to System Performance Section of the Block User Manual Cont _ Cancel F1 F2 F3 F4 F5 2 After you have installed a plate and lid press Cont The instrument then runs through a series of tests where the sample block is stabilized at 35 C 94 C and 4 C At the conclusion of the test the Cool and Heat Test screen is displayed The screen displays the test results and whether the test results passed or failed GeneAmp PCR System 9700 Dual 96 Sample Block Module User Guide 3 15 Chapter 3 Testing the Dual 96 Sample Block Module Cool and Heat Rate Test Heating rate x xx C s Cooling rate sxx C s Print Cancel F1 F2 F3 F4 F5 The passing ranges for the Rate Test are Block Type Heating Rate Cooling Rate Dual 96 well gt 0 70 C second gt 1 4 C second Performing the Use the Cycle Test to verify that the PCR cycling function operates properly This Cycle Test test takes approximately 15 minutes to run To perform the Cycle Test 1 Press Cycle from the System Performance screen This runs the Cycle Test If appropriate the following reminder is displayed WARNING Install the appropriate empty Consu
49. ty Conventions Used in This Document viii Symbols on Instruments k kk kk kk kK kK KK KK KK KK KK KK KK KK kK kk kk kk uo kk dus Ix Safety Labels on Instruments xX General Instrument Safety i nk a kk kk kK ee KK KK kk kK kk kk a xi da Ad dk ALA Bb d dR WAK di dnd eee a d A B A xi Chemical Waste Safety Jk kk kk kk kk kK KK KK kK KK KK KK KK KK KK kk kk kK kK kk kk kk ka xiii Chemical Safety it iw kk kk kk kk kk k kk kK kk KIR KIR KUR KUK kU kU we A kla lk See a ia XIV Physical Hazard Safety 4 ani wwe dade eheus KI KIR KK KIRI KK KIR KIR KK KK kK kK kK kk kk a XIV Workstation Safety 4 kk ka kk kk a kk kk kk RI kK kk KIR kk KUK ee re kk kk kk a KO lk lk kU ee XV Safety and Electromagnetic Compatibility EMC Standards XVI Dual 96 Sample Block Module Overview About the Dual 96 Sample Block Module 1 2 Installing the Dual 96 Sample Block Module 1 6 Sample Tray and Plate Configurations 1 7 Loading SASS oon Se a aya a st teorine ai ieaiai bd eee oe eee oe 1 9 Maintaining the Sample Block Module Cleaning the Sample Block Module 2 2 Putting the Heated Cover into Cleaning Position 2 2 Cleaning the Heated Cover kk kk kk kk kK kK KK KK k
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