Dual Flat Block GeneAmp® PCR System 9700 User Guide (PN
Contents
1. 21 General instrument safety 22 Physical hazard safely eiue re Aene mem Re ERU MR BA eee 22 Electrical safety a sa3a Halk hk ee ev ez ek n e nera e EUR 23 Safety and electromagnetic compatibility EMC standards 24 Chemical safety sce haw eh aes ken ger auld Gee ge eee pa oon 25 General chemical safety 25 MIRACULI EDI 26 Chemical waste safety 27 Biological hazard safety 28 SS ii A AA ei ELLE aug 29 Chemical alerts 222 ka a Ala e etes demande tete ERA 29 Instrumentation alerts 29 Dual Flat Block GeneAmp PCR System 9700 User Guide iii Contents Documentations cx san Aeneas iw cee Se eee es er AWE A 31 Related documentation 2 2 iR eee sine dan amant a r Sa Pe sey eave eae an 31 Send us your comments 31 iv Dual Flat Block GeneAmp PCR System 9700 User Guide Preface Safety information Note For general safety information see this Preface and Appendix B Safety on page 19 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 a2. Dual Flat Block GeneAmp PCR System 9700 User Guide 23 Appendix B Safety 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 C 24 This section provides information on e US and Canadian safety standards Canadian EMC standard European safety and EMC standards Australian EMC Standards The Dual Flat Block sample module has been tested to and complies with standard UL 61010 1 CSA C22 2 No 61010 1 Safety Requirements for Electrical Equipment for Measurement Control and Laboratory Use Part 1 General Requirements UL 61010 2 010 Particular Requirements for Laboratory Equipment for the Heating of Materials 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 2006 95 EC 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 EN 61010 2 010 Particular Requirements for Laboratory Equipment for the Heating of Materials EN 61010 2 081 Particular Requirements for Automatic and Semi Automatic Laboratory Equipment for Anal
3. Accessories The accessories listed below are included with the Dual Flat Block sample module You can order replacements from Applied Biosystems Applied Biosystems Item Quantity Part Number OpenArray Adaptor for Dual Flat Block 1 4426824 GeneAmp PCR System 9700 OpenArray Compression Pad for Dual Flat 1 4426825 Block GeneAmp PCR System 9700 Firmware The GeneAmp PCR System 9700 base module requires 9700 firmware v3 12 or later to operate the Dual Flat Block sample module See Upgrade the firmware on page 4 IMPORTANT If you do not upgrade the firmware to v3 12 or later the Dual Flat Block sample module will be inoperable Dual Flat Block GeneAmp PCR System 9700 User Guide Dual Flat Block Sample Module Install the Dual Flat Block sample module Upgrade the The GeneAmp PCR System 9700 base module requires 9700 firmware v3 12 or firmware later to operate the Dual Flat Block sample module For instructions on upgrading the firmware Refer to the GeneAmp PCR System 9700 Base Module User s Manual see Related documentation on page 31 Or Goto www appliedbiosystems com support select Software Downloads Patches and Updates then search under GeneAmp PCR System 9700 for firmware updates IMPORTANT If you do not upgrade the firmware to v3 12 or later the Dual Flat Block sample module will be inoperable Install the module To install the Dual Flat Block sample module into
4. Reps 4 Post PCR 1 4 0 9959 100 overnight hold 5 Press F1 START to move to the next screen then confirm the reaction volume is set to 5 uL 6 Press F1 START to start the thermal cycling run 8 Dual Flat Block GeneAmp PCR System 9700 User Guide Thermal cycle the TaqMan OpenArray9 Genotyping Plates Remove the 1 Pull the heated cover handle up then slide the heated cover back plates 2 Remove the compression pad from the TaqMan OpenArray plates To prevent the adaptor from moving the plates when you remove the compression pad Applied Biosystems recommends the following a With your left hand hold the adaptor at the bottom and top positions on the left side place your thumb on the bottom and one or two fingers on the top of the adaptor do not hold the adaptor at the corners b Place your right thumb into the bottom groove in the compression pad then slowly peel the pad away from the TaqMan OpenArray plates Note Be careful when lifting the compression pad because some plates may stick to the pad 3 Hold the adaptor at the top center position then slowly lift it towards you Use your other hand to hold down any plates that are lifted with the adaptor 4 Wipe the plate surfaces with a lint free wipe and 7096 ethanol After thermal cycling run the TaqMan OpenArray plates on the OpenArray NT Imager according to the procedures in the ZagMan OpenArray Genotyping System User Guide Note After
5. par l utilisateur Toute intervention doit tre effectu e par le personnel de service qualifi venant de chez Applied Biosystems CAUTION Moving parts Crush pinch hazard ATTENTION Pi ces en mouvement risque de pincement et ou d crasement vi Dual Flat Block GeneAmp PCR System 9700 User Guide How to use this guide How to use this guide Text conventions This guide uses the following conventions L e e 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 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 View All Runs User attention 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 How to obtain support For the latest services and support information for all locations go to
6. 638 5800 Toll Free 800 345 5224 headquarters or refer to our Web site at www appliedbiosystems com www appliedbiosystems com about offices cfm
7. distributed by Applied Biosystems contact the chemical manufacturer Before handling any chemicals refer to the MSDS provided by the manufacturer and observe all relevant precautions Cleaning position To clean the Dual Flat Block sample module slide the heated cover back then slide the protrusions on the lid up through the vertical slots in the module rails The cleaning position is shown below Channel guide Channel 12 Dual Flat Block GeneAmp PCR System 9700 User Guide Clean the Dual Flat Block sample module Clean the heated Clean the heated cover once a month or more frequently if needed cover l Turn off the instrument then wait 20 to 30 minutes for the instrument to cool down Raise the heated cover handle and slide the cover back almost but not completely to the back of its slide Line up the protrusions on the side of the heated cover with the vertical slots in the module rails Lift up the front of the heated cover until the protrusions travel up the vertical slots all the way to the top Soak a cotton swab or lint free wipe with pure isopropanol and gently wipe the bottom of the cover Remove any remaining isopropanol from the cover and return the cover to its normal position If the cover becomes contaminated with amplified DNA a Raise the heated cover to the cleaning position b Wipe the cover with a lint free wipe or cotton swab soaked in 10 bleach c Wipe with a damp lint fre
8. the GeneAmp PCR System 9700 base module 1 Pull the lever out from the Dual Flat Block sample module FLeve E SEU HN oT co 3 Top view Dual Flat Block Bottom view Dual Flat Block sample module sample module 2 Place the Dual Flat Block sample module onto the base module then push the Dual Flat Block sample module back to seat the electrical connections 3 Push the lever into the base module to secure the Dual Flat Block sample module Note If the Dual Flat Block sample module is not seated correctly the instrument cannot be turned on 4 Dual Flat Block GeneAmp PCR System 9700 User Guide Thermal cycle the TaqMan OpenArray9 Genotyping Plates Thermal cycle the TaqMan OpenArray Genotyping Plates To thermal cycle the TaqMan OpenArray Genotyping plates Prepare the plates page 6 Insert the plates in the Dual Flat Block sample module page 6 Perform thermal cycling page 8 Remove the plates from the Dual Flat Block sample module page 9 WARNING PHYSICAL INJURY HAZARD During instrument operation the temperature of the heated cover can be as high as 108 C and the temperature of the sample blocks can be as high as 100 C Before performing this procedure wait until the heated cover and sample blocks reach room temperature Materials required Item So
9. thermal cycling the TaqMan OpenArray plates can be stored at 4 C in the dark for up to 72 hours Dual Flat Block GeneAmp PCR System 9700 User Guide 9 Dual Flat Block Sample Module 10 Dual Flat Block GeneAmp PCR System 9700 User Guide Maintenance and Diagnostics This appendix covers n Clean the Dual Flat Block sample module n Perform the temperature tests m Perform the System Performance Diagnostics m Schedule preventive maintenance Dual Flat Block GeneAmp PCR System 9700 User Guide Appendix A Maintenance and Diagnostics Clean the Dual Flat Block sample module To clean the Dual Flat Block sample module Clean the heated cover page 13 Clean the sample blocks page 13 IMPORTANT Before using any cleaning or decontamination method except those recommended in this guide check with Applied Biosystems to ensure that the proposed method will not damage the equipment AN WARNING PHYSICAL INJURY HAZARD During instrument operation the temperature of the heated cover can be as high as 108 C and the temperature of the sample blocks can be as high as 100 C Before performing this procedure wait until the heated cover and sample blocks reach room temperature Materials Baj Ni required Item Source art Number Lint free wipes Major Laboratory Suppliers MLS Cotton swabs MLS Pure isopropanol MLS 1096 Bleach MLS t Forthe MSDS of any chemical not
10. www appliedbiosystems com At the Applied Biosystems web site you can e 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 Dual Flat Block GeneAmp PCR System 9700 User Guide vil Preface viii Dual Flat Block GeneAmp PCR System 9700 User Guide Dual Flat Block Sample Module This chapter covers m About the Dual Flat Block sample module m Instruments accessories and firmware E Install the Dual Flat Block sample module m Thermal cycle the TaqMan OpenArray Genotyping Plates Dual Flat Block GeneAmp PCR System 9700 User Guide Dual Flat Block Sample Module About the Dual Flat Block sample module Instrument diagram Peltier heating cooling unit The Dual Flat Block GeneAmp PCR System 9700 amplifies nucleic acids using the polymerase chain reaction PCR process The Dual Flat Block sample module attaches to the top of the GeneAmp PCR System 9700 base module to run TaqMan OpenArray Genotyping Plates m Heated cover Dual F
11. 100 C Before performing this procedure wait until the heated cover and sample blocks reach room temperature Dual Flat Block GeneAmp PCR System 9700 User Guide 29 Appendix B Safety 30 Dual Flat Block GeneAmp PCR System 9700 User Guide Documentation Related documentation To obtain this and additional documentation see How to obtain support on page vii Applied Biosystems Document part number Dual Flat Block GeneAmp9 PCR System 9700 User Guide 4426457 GeneAmp PCR System 9700 Base Module User s Manual 4303481 Multiprobe Temperature Verification Kit User Guide 4376864 TaqMan OpenArray Genotyping System User Guide 4377476 Send us your comments Applied Biosystems welcomes your comments and suggestions for improving its user documents You can e mail your comments to techpubs appliedbiosystems com IMPORTANT The e mail address above is for submitting comments and suggestions relating only to documentation To order documents download PDF files or for help with a technical question see How to obtain support on page vil Dual Flat Block GeneAmp PCR System 9700 User Guide 31 Documentation 32 Dual Flat Block GeneAmp PCR System 9700 User Guide Part Number 4426457 Rev C 06 2010 Headquarters International Sales AR Applied 850 Lincoln Centre Drive Foster City CA 94404 USA For our office locations please call the division D Biosystems Phone 650
12. Dual Flat Block GeneAmp PCR System 9700 User Guide KS BP tem For Research Use Only Not for use in diagnostic procedures Information in this document is subject to change without notice 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 TO THE FULLEST EXTENT ALLOWED BY LAW 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 CONSEQUEN TIAL DAMAGES IN CONNECTION WITH OR ARISING FROM THIS DOCUMENT INCLUDING BUT NOT LIMITED TO THE USE THEREOF WHETHER OR NOT FORESEEABLE AND WHETHER OR NOT APPLIED BIOSYSTEMS IS ADVISED OF THE POSSIBILITY OF SUCH DAMAGES The combination of this GeneAmp PCR System 9700 Sample Block Module with a GeneAmp PCR System 9700 Base Unit is covered by U S patent claims and counterpart patent claims in other countries No other rights are conveyed expressly by implication or by estoppel Further information on purchasing licenses may be obtained by contacting the Director of Licensing Applied Biosystems 850 Lincoln Centre Drive Foster City California 94404 USA TRADEMARKS 2009 Life Technologies Corporation All rights reserved Trademarks of Life Technologies Corporation and its affiliated companies AB Design Applied Biosystems and
13. GeneAmp TagMan is a registered trademarks of Roche Molecular Systems Inc OpenArray is a registered trademark of BioTrove Inc All other trademarks are the sole property of their respective owners Part Number 4426457 Rev C 06 2010 Contents Appendix A Appendix B Preface is HH HHH e yjijhj V Safety Information insect a GRE PERGERET Go pass V How to use this guide s s e RR ERE RR Ae kik a ara Pa bbe ER Wes vii How to obtain support kk kk kk kk kk kK KK KK KK KK KK KK KOK KK KK KK KK KK kk kk KK kK kk kk vii Dual Flat Block Sample Module 1 About the Dual Flat Block sample module 2 Instruments accessories and firmware 3 Install the Dual Flat Block sample module 4 Thermal cycle the TaqMan OpenArray Genotyping Plates 5 Maintenance and Diagnostics 11 Clean the Dual Flat Block sample module 12 Perform the temperature tests 14 Perform the System Performance Diagnostics 14 Schedule preventive maintenance 17 Safety ates NET KK EPA 19 Instrumentation safety neri diiit poria hr 20 Symbols on instruments 20 Safety labels on instruments
14. acility Applied Biosystems recommends that you schedule preventive maintenance once a year or as required by your laboratory s standard operating procedures and protocols Dual Flat Block GeneAmp PCR System 9700 User Guide 17 Appendix A Maintenance and Diagnostics 18 Dual Flat Block GeneAmp PCR System 9700 User Guide Safety This appendix covers M Instrumentation safety 20 Symbols on instruments 20 Safety labels on instruments 21 General instrument safety 22 Physical hazard safety 22 Electrical Safety en a qa ee USERS re Rn 23 Safety and electromagnetic compatibility EMC standards 24 BH Chemical safety oo cis one dans Han ue bee Ce Ghee dut bia D 25 General chemical safety 25 hup PME 26 Chemical waste safety 27 Biological hazard safety 28 B Safety al t S s xe o 455 beyda rado 29 Chemical alerts enerne apte n ee e eret e qe ee dee 29 Instrumentation alerts 29 Dual Flat Block GeneAmp PCR System 9700 User Guide 19 Appendix B Safety Instrumentation safety Symbols on instruments Electrical The following table de
15. anufacturer Dual Flat Block GeneAmp PCR System 9700 User Guide V Preface Safety labels on The following CAUTION WARNING and DANGER statements may be displayed instruments on Applied Biosystems instruments in combination with the safety symbols described in the preceding section Hazard symbol English Francais ZN CAUTION Hazardous chemicals Read the Material Safety Data Sheets MSDSs before handling ATTENTION Produits chimiques dangereux Lire les fiches techniques de s ret de mat riels avant toute manipulation de produits 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 mat riels et la r gulation locale associ es la manipulation et l limination des d chets CAUTION Potential slipping hazard ATTENTION Risque potentiel d avoir un sol glissant CAUTION Hot surface ATTENTION Surface br lante gt gt l gt DANGER High voltage DANGER Haute tension 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 AVERTISSEMENT Pour viter les risques d lectrocution ne pas retirer les capots dont l ouverture n cessite l utilisation d outils L instrument ne contient aucune pi ce r parable
16. aste in a glass container because of the risk of breaking or shattering Reagent and waste bottles can crack and leak Each waste bottle should be secured in a low density polyethylene safety container with the cover fastened and the handles locked in the upright position Wear appropriate eyewear clothing and gloves when handling reagent and waste bottles Chemical waste To minimize the hazards of chemical waste safety guidelines e 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 A 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 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 a waste container seal it with the cap provided Dispo
17. d and the handles locked in the upright position Wear appropriate eyewear clothing and gloves when handling reagent and waste bottles Chemical safety To minimize the hazards of chemicals guidelines Read and understand the Material Safety Data Sheets MSDSs provided by the chemical manufacturer before you store handle or work with any chemicals or hazardous materials See About MSDSs on page 26 Minimize contact with chemicals 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 Check regularly for chemical leaks or spills If a leak or spill occurs follow the manufacturer s cleanup procedures as recommended in the MSDS Comply with all local state provincial or national laws and regulations related to chemical storage handling and disposal Dual Flat Block GeneAmp PCR System 9700 User Guide 25 Appendix B Safety MSDSs About MSDSs 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 prov
18. e wipe Clean the sample Clean the sample blocks once a month or more frequently if needed blocks 1 Turn off the instrument then wait 20 to 30 minutes for the instrument to cool down Remove the compression pad adaptor and TaqMan OpenArray Genotyping Plates from the sample blocks Use a cotton swab soaked in pure isopropanol to clean the sample blocks thoroughly Remove any remaining isopropanol from the heated cover before using the instrument If the sample blocks become contaminated with amplified DNA a Clean the sample blocks thoroughly with a cotton swab soaked in 10 bleach b Wipe with a damp lint free wipe Dual Flat Block GeneAmp PCR System 9700 User Guide 13 Appendix A Maintenance and Diagnostics Perform the temperature tests The temperature tests for the Dual Flat Block sample module are the Temperature Verification Test This test determines the temperature accuracy of the Dual Flat Block sample module by measuring sample well temperatures at two set points 45 C and at 85 C Temperature Non Uniformity Test This test determines the temperature uniformity of the Dual Flat Block sample module by measuring the temperature at 8 well locations Applied Biosystems recommends that you perform the Temperature Verification and Temperature Non Uniformity Tests once a year or as required by your laboratory s standard operating procedures and protocols Procedures For p
19. ed according to applicable regulatory and company institution requirements before working with potentially infectious materials Read and follow the applicable guidelines and or regulatory requirements in the following US Department of Health and Human Services guidelines published in Biosafety in Microbiological and Biomedical Laboratories stock no 017 040 00547 4 bmbl od nih gov Occupational Safety and Health Standards Bloodborne Pathogens 29 CFR 1910 1030 www access gpo gov nara cfr waisidx 01 29cfr1910a 01 html Your company s institution s Biosafety Program protocols for working with handling potentially infectious materials Additional information about biohazard guidelines is available at www cdc gov 28 Dual Flat Block GeneAmp PCR System 9700 User Guide Safety alerts Safety alerts For the definitions of the alert words IMPORTANT CAUTION WARNING and DANGER see Safety alert words on page v Chemical alerts General alerts for For the MSDS of any chemical not distributed by Applied Biosystems contact the all chemicals chemical manufacturer Before handling any chemicals refer to the MSDS provided by the manufacturer and observe all relevant precautions Instrumentation alerts Specific WARNING PHYSICAL INJURY HAZARD During instrument operation instrumentation the temperature of the heated cover can be as high as 108 C and the alerts temperature of the sample blocks can be as high as
20. ide 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 in your files Obtaining The MSDS for any chemical supplied by Applied Biosystems is available to you free MSDSs 24 hours a day To obtain MSDSs 1 Goto www appliedbiosystems com click Support then select MSDS 2 In the Keyword Search field enter the chemical name product name MSDS part number or other information that appears in the MSDS of interest Select the language of your choice then click Search 3 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 Note For the MSDSs of chemicals not distributed by Applied Biosystems contact the chemical manufacturer 26 Dual Flat Block GeneAmp PCR System 9700 User Guide Chemical safety Chemical waste safety Chemical waste CAUTION HAZARDOUS WASTE Refer to Material Safety Data Sheets hazards and local regulations for handling and disposal WARNING CHEMICAL WASTE HAZARD Wastes produced by Applied Biosystems instruments are potentially hazardous and can cause injury illness or death WARNING CHEMICAL STORAGE HAZARD Never collect or store w
21. ing Plates 3 Position the TaqMan OpenArray plates a Orient each plate with the barcode facing up and along the edge of the block away from the center of the adaptor b Insert the plates into the adaptor slots as follows Fill up the right sample block first Right sample block Note The right sample block is the primary control block Fill up the center slots before any edge slots Recommended Insert unused TaqMan OpenArray plates into any empty slots Dual Flat Block GeneAmp PCR System 9700 User Guide Dual Flat Block Sample Module 4 Place the compression pad over the TaqMan OpenArray plates with the Teflon coating smooth side facing upwards away from the plates 5 Slide the heated cover over the compression pad then pull down the handle Perform thermal Use the touchpad on the GeneAmp PCR System 9700 base module to program and cycling start the thermal cycling run 1 Press F1 RUN 2 Press F2 VIEW to view a list of run methods 3 Select the OpenArray run method then confirm the method is set as follows Stage Step Temp C ia d Ri Reps 1 Pre PCR hold 1 93 0 10 00 100 2 PCR cycles 1 95 0 00 45 84 50 cycles 2 94 0 00 13 100 3 53 0 02 14 44 3 Post PCR hold 1 25 0 02 00 100 4 Optional Add a post PCR overnight hold as shown below Stage Step Temp C ur us
22. ion 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 20 Dual Flat Block GeneAmp PCR System 9700 User Guide Instrumentation safety Environmental The following symbol 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 Follow local municipal waste ordinances for proper disposal provisions to reduce c the environmental impact of waste electrical and electronic equipment WEEE Lo European Union customers Call your local Applied Biosystems Customer Service office for equipment MI pick up and recycling See www appliedbiosystems com for a list of customer service offices in the European Union Safety labels on instruments The Dual Flat Block sample module contains a warning at the location shown below Dual Flat Block GeneAmp PCR System 9700 User Guide 21 Appendix B Safety General instrument safety WARNING 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 in
23. ith solvents or any pressurized fluids 22 Dual Flat Block GeneAmp PCR System 9700 User Guide Electrical safety N Instrumentation safety WARNING ELECTRICAL SHOCK HAZARD Severe electrical shock can result from operating the Dual Flat Block sample module without its instrument panels in place Do not remove instrument panels High voltage contacts are exposed when instrument panels are removed from the instrument Fuses AN WARNING FIRE HAZARD Improper fuses or high voltage supply 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 WARNING FIRE HAZARD For continued protection against the risk of fire replace fuses only with fuses of the type and rating specified for the instrument Power N WARNING ELECTRICAL HAZARD Grounding circuit continuity is required for the safe operation of equipment Never operate equipment with the grounding conductor disconnected WARNING ELECTRICAL HAZARD Use properly configured and approved line cords for the voltage supply in your facility WARNING ELECTRICAL HAZARD Plug the system into a properly grounded receptacle with adequate current capacity Overvoltage The Dual Flat Block sample module system has an installation overvoltage rating category of II and is classified as portable equipment
24. jury or damage to the instrument A WARNING PHYSICAL INJURY HAZARD Using the instrument in a manner not specified by Applied Biosystems may result in personal injury or damage to the instrument Moving and lifting A CAUTION PHYSICAL INJURY HAZARD The instrument is to be moved the instrument 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 techniques Improper lifting can cause painful and permanent back injury Depending on the weight moving or lifting an instrument may require two or more persons Operating the Ensure that anyone who operates the instrument has Instrument Received instructions in both general safety practices for laboratories and specific safety practices for the instrument Read and understood all applicable Material Safety Data Sheets MSDSs See About MSDSs on page 26 Cleaning or CAUTION Before using a cleaning or decontamination method other than decontaminating those recommended by the manufacturer verify with the manufacturer that the the instrument proposed method will not damage the equipment Physical hazard safety Solvents and WARNING PHYSICAL INJURY HAZARD Always wear eye protection pressurized fluids when working w
25. lat Block sample module System 9700 base module Sample blocks There are two sample blocks in the Dual Flat Block sample module Each block holds up to four TagMan OpenArray Genotyping Plates Heated cover The heated cover slides over the adaptor and compression pad The cover holds the TaqMan OpenArray plates firmly and precisely on the sample blocks to ensure proper heat transfer The internal Peltier heating cooling unit is housed in the sample block module The 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 99 9 C e Accuracy 0 25 C from 35 100 C e Uniformity of each sample block 40 5 C measured after 30 seconds at 95 C and 55 C Uniformity of combined sample blocks 0 75 C measured after 30 seconds at 95 C and 55 C Long term stability and high reliability Dual Flat Block GeneAmp PCR System 9700 User Guide Instruments accessories and firmware Instruments accessories and firmware Instruments You can purchase the GeneAmp PCR System 9700 base module and the Dual Flat Block sample module together or separately Applied Biosystems instrument Part Number Dual Flat Block GeneAmp PCR System 9700 4428234 GeneAmp PCR System 9700 Dual Flat Block 4425757 sample module only GeneAmp PCR System 9700 base module N805 0200
26. lert 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 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 20 MSDSs The MSDSs for any chemicals supplied by Applied Biosystems are available to you free 24 hours a day For instructions on obtaining MSDSs see MSDSs on page 26 IMPORTANT For the MSDSs of chemicals not distributed by Applied Biosystems contact the chemical m
27. menu 3 Press Diag to open the Diagnostics screen 4 Press System to open the System Performance screen System Performance Rate Cool and Heat Rate Test Cycle Cycle Performance Test Rate Cycle F1 F2 F3 FA F5 5 Press Cycle from the System Performance screen then install the adaptor and compression pad 6 Slide the heated cover forward and pull the lever down 7 Press Cont The Cycle Test executes a standard PCR cycling reaction then measures and reports the average cycle time and the cycle to cycle variation IMPORTANT Do not press Pause during the Cycle Test as this may generate false test results If you press Pause during the Cycle Test re run the test When the test is completed the Cycle Performance screen appears The screen displays the test results and whether the test passed or failed Cycle Performance Average Cycle Time xxx x sec Cycle Time STD X X Sec F1 F2 F3 FA F5 Passing ranges for the Cycle Test are Average Cycle Time 130 seconds Cycle Time STD 5 seconds If the test fails contact Applied Biosystems Technical Support 16 Dual Flat Block GeneAmp PCR System 9700 User Guide Schedule preventive maintenance Schedule preventive maintenance To maintain system performance Applied Biosystems recommends that the GeneAmp PCR System 9700 receives preventive maintenance by an authorized Applied Biosystems service representative or service f
28. rocedures on performing the temperature tests refer to the Multiprobe Temperature Verification Kit User Guide see Related documentation on page 31 Perform the System Performance Diagnostics The System Performance Diagnostics for the Dual Flat Block sample module are the Rate Test page 15 Cycle Test page 16 The System Performance Diagnostics verify the integrity of the cooling and heating system Applied Biosystems recommends that you perform the System Performance Diagnostics once a year or as required by your laboratory s standard operating procedures and protocols Materials ASDI BSN i pplied Biosystems required Item Part Number OpenArray Adaptor for Dual Flat Block 4426824 GeneAmp PCR System 9700 OpenArray Compression Pad for Dual Flat Block 4426825 GeneAmp PCR System 9700 TaqMan OpenArray Genotyping Plates Various 14 Dual Flat Block GeneAmp PCR System 9700 User Guide Perform the System Performance Diagnostics Perform the Rate Perform the Rate Test to verify that the Peltier units are operating correctly The test Test takes approximately 2 minutes to run IMPORTANT Ambient Temperature Conditions Cool and Heat Rate tests provide accurate results only if the normal operating ambient temperature is 15 to 24 C To run the Rate Test 1 Turn on the instrument The main menu appears 2 Press Util to open the Utilities screen Note To press the menu items use the corre
29. scribes 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 Q 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 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 l Indicates a terminal that may be connected to the signal ground reference ze amm Indicates a terminal that can receive or supply alternating or direct current cm or voltage 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 see Safety labels on instruments on page 21 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 informat
30. se 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 e 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 Dual Flat Block GeneAmp PCR System 9700 User Guide 27 Appendix B Safety 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 Biological hazard safety General WARNING BIOHAZARD Biological samples such as tissues body fluids biohazard infectious agents and blood of humans and other animals have the potential to transmit infectious diseases Follow all applicable local state provincial and or national regulations Wear appropriate protective equipment which includes but is not limited to protective eyewear face shield clothing lab coat and gloves All work should be conducted in properly equipped facilities using the appropriate safety equipment for example physical containment devices Individuals should be train
31. sponding F keys For example Util is F4 on this menu 3 Press Diag to open the Diagnostics screen 4 Press System to open the System Performance screen System Performance Rate Cool and Heat Rate Test Cycle Cycle Performance Test Rate Cycle F1 F2 F3 FA F5 5 Press Rate from the System Performance screen then install the adaptor and compression pad 6 Slide the heated cover forward and pull the lever down 7 Press Cont The instrument runs through a series of tests in which the sample blocks are stabilized at 35 C 94 C and 4 C When the test is completed the Cool and Heat Rate Test screen appears The screen displays the test results and whether the test passed or failed Cool and Heat Rate Test Heating rate x xx C s Cooling rate x xx C s F1 F2 F3 FA F5 Passing ranges for the Rate Test are Heating rate gt 1 0 C second Cooling rate gt 1 0 C second If the test fails contact Applied Biosystems Technical Support Dual Flat Block GeneAmp PCR System 9700 User Guide 15 Appendix A Maintenance and Diagnostics Perform the Perform the Cycle Test to verify that the PCR cycling function operates properly Cycle Test This test takes approximately 15 minutes to run 1 Turn on the instrument The main menu appears 2 Press Util to open the Utilities screen Note To press the menu items use the corresponding F keys For example Util is F4 on this
32. urce Part Number OpenArray Adaptor for Dual Flat Block Applied 4426824 GeneAmp PCR System 9700 Biosystems OpenArray Compression Pad for Dual Flat Applied 4426825 Block GeneAmp PCR System 9700 Biosystems TagMan OpenArray Genotyping Plates Applied Various Biosystems 7096 Ethanol Major Laboratory Suppliers MLS Lint free wipes MLS t Forthe MSDS of any chemical not distributed by Applied Biosystems contact the chemical manufacturer Before handling any chemicals refer to the MSDS provided by the manufacturer and observe all relevant precautions Dual Flat Block GeneAmp PCR System 9700 User Guide Dual Flat Block Sample Module Prepare the Prepare the TaqMan OpenArray plates according to the procedures in the ZagMan plates OpenArray Genotyping System User Guide see Related documentation on page 31 Guidelines for handling loaded plates Hold the TaqMan OpenArray plate by the edges at the end opposite from the barcode Do not touch the through holes Ifyou drop a loaded TaqMan OpenArray plate discard it in the appropriate waste container Insert the plates 1 Pull up the heated cover handle then slide the heated cover back Heated cover handle 2 Position the adaptor a Insert the two adaptor pins into the circular slots on the module b Be sure the adaptor sits flat 6 Dual Flat Block GeneAmp PCR System 9700 User Guide Thermal cycle the TagMan OpenArray Genotyp
33. ysis and Other Purposes EMC This instrument meets European requirements for emission and immunity EMC Directive 2004 108 EC 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 Electromagnetic Disturbance Characteristics of Industrial Scientific and Medical ISM Radio frequency Equipment Dual Flat Block GeneAmp PCR System 9700 User Guide Chemical safety Chemical safety General chemical safety Chemical hazard WARNING CHEMICAL HAZARD Before handling any chemicals refer warning to the Material Safety Data Sheet MSDS provided by the manufacturer and observe all relevant precautions A WARNING 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 A WARNING CHEMICAL STORAGE HAZARD Never collect or store waste in a glass container because of the risk of breaking or shattering Reagent and waste bottles can crack and leak Each waste bottle should be secured in a low density polyethylene safety container with the cover fastene
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