Piko User Manual - Fisher Scientific
Contents
1. Thermo Fisher Scientific Thermo Scientific Piko Thermal Cycler User Manual 49 Thermo Fisher Scientific Oy Ratastie 2 P O Box 100 Fl 01621 Vantaa Finland www thermoscientific com N114692. Thermo Scientific Piko Thermal Cycler User Manual Rev 1 1 Cat no N11469 Copyright Copyright 2010 Thermo Fisher Scientific Corporation All rights reserved Reproduction of the accompanying user documentation in whole or in part is prohibited License and trademark information This product is licensed under U S patent Nos 5552580 and 5496517 and their foreign counterparts Notice Purchase of this instrument conveys a limited non transferable immunity from suit for the purchaser s own internal research and development and applied fields other than human in vitro diagnostics under one or more of Canadian Patent 1 339 653 U S Patent 5 475 610 claims 160 163 only or corresponding claims in their non U S counterparts owned by Applied Biosystems No right is conveyed expressly by implication or by estoppel under any other patent claim including under U S Patent No 6 814 934 or any global equivalent thereof which claims thermal cycler apparatus and systems capable of real time detection 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 Piko and UTW are trademarks or registered trademarks of Finnzymes Oy or its affiliates Finnzymes Oy and its affiliates are part of Thermo Fisher Scientific All other trademarks and registered trademarks are the property of their respe
3. 3 Plug the power supply into the back of the Piko Thermal Cycler 4 Insert the power cord into the power supply 5 Insert the power cord into the outlet The system will power up automatically Caution To prevent risk of shock or damage to the instrument it is very important that the power supply be first connected to the Piko Thermal Cycler before plugging it into the wall a Caution Always use a grounded outlet and cord to provide power to a Piko Thermal Cycler A Thermo Scientific Piko Thermal Cycler User Manual 15 Installation Setting up the Piko Thermal Cycler 16 Thermo Scientific Piko Thermal Cycler User Manual Thermo Fisher Scientific Chapter 4 Operation The operation of the Piko Thermal Cycler is described below Operating modes Programs can be edited either in a semigraphical mode or in a list mode You can change the mode by pressing the TOGGLE key at the lower left corner of the keypad The mode remains until you change it again with the TOGGLE key You can also change the mode when the instrument is running a protocol In the semigraphical mode the steps are displayed from left to right FILE SEQ CHSTEST1 95 0 98 0 7 7 00 05 2 0 SEI 05 00 00 15 01 00 35 START EDIT OPT BACK In the list mode the steps are in a numbered list FILE SEQ CHSTEST1 LOOP 35TIMES 98 0 C 00 05 72 0 C 01 00 4 0 C START EDIT 2 3 4 72 0 C 00 15 5 6 Note You cannot use the TO
4. Adjust the contrast by pressing the up and down arrow keys from the keypad 5 Accept the settings by pressing YES Adjusting the date To adjust the date and time and time settings Note If the Piko Thermal Cycler is unplugged and without power for more than 72 hours you may have to reset the clock A 1 In the Main menu press TOOLS 2 Highlight DIAGNOSTICS and press OPEN 3 Highlight CLOCK and press OPEN DATE 25 02 2010 TIME 10 55 33 4 Press MOD 5 Move to the date field and enter the new date MM DD YYYY using the keypad 6 Move to the other fields with the arrow keys and edit the values 7 Accept the changes by pressing SAVE Cha nging the 1n the Network menu you can change the IP address the subnet mask network settin gs MASK the gateway GW and the Domain Name Server DNS Caution Improper settings can cause problems with the network so caution should be used when changing the IP address from the default A 1 In the Main menu press TOOLS 28 Thermo Scientific Piko Thermal Cycler User Manual Thermo Fisher Scientific Settings Service 2 Highlight NETWORK and press OPEN 3 Scroll to the desired row with arrow keys and adjust the values 193 065 125 073 255 255 255 000 000 000 000 000 000 000 000 000 4 Accept the changes by pressing SAVE Pressing BACK will take you to the Main menu without changing the settings Service This function is to be used by
5. 7 Contents Chapter 5 Chapter 6 Chapter 7 Chapter 8 Chapter 9 8 Thermo Scientific Piko Thermal Cycler User Manual Firme SEATS SCLSE Nenei a aa i an 25 Functionsain the screens ecne e e Bie O N 25 Settihg Sinin a 27 Viewing general information about Piko Thermal Cycler 27 Adjusting the contrast of the LCD screen 27 Adjusting the date and time settings sesessesssssssesesrsesererrrreererseseees 28 Changing the network settings ss ceclacc hen eeceea acdc eae eres 28 SERVICE sors a a A E a R aai 29 Viewing protocol log files ssseeseeseesssssesesesssssrsrsesrsisrsrsesesesesrsesesese 29 Viewing instrument log tiles 3261 2 022 2 set nadaty tee ok auc ecseanes cnceatas 30 Parking the instrument for shipping or long term storage 31 WN aIMMON ANCE aise ssccciectscsnsencocsntacdesgnsinstanntnatensncousndgnsncisotesansnensenndsosninathianste 33 Cleaning the Piko Thermal Cycler vest tse ls cueestincs eats 33 Disposal of the instrument sc ja heen sits eed actectaeee ted 33 Technical Specifications ssssesssssssssseessesseseesessessesseeseseseeaseaeens 35 Instrument specifications gat ced tents aah cea ieee eee 35 Safety specifications ey Oe ere ST nO re er 36 In conformity with the requirements eceeseeseeseeeseeeeeeeeeeaeees 36 Troubleshooting Guide c csssssscsessssssseessseesessessesesaeeaeenesteseeateneenees 39 Saree ol te ca pepe Rem EDL etre gee nee Oar P
6. the next step if ramping by pressing PAUSE When paused this option becomes RESUME You can stop a run by pressing STOP Thermo Scientific Piko Thermal Cycler User Manual 25 Operation Monitoring a run You can also return to the Main menu for writing or editing protocols while the instrument is running by pressing the C key on the keypad E Note You can return to the Status screen from the Main menu screen by pressing STAT when a protocol is running A 26 Thermo Scientific Piko Thermal Cycler User Manual Thermo Fisher Scientific Viewing general information about Piko Thermal Cycler Adjusting the contrast of the Thermo Fisher Scientific LCD screen Chapter 5 Settings This section describes the different settings of the Piko Thermal Cycler You can view the block type serial number and the current version of the firmware in the System info menu 1 In the Main menu press TOOLS 2 Highlight SYSTEM INFO and press OPEN You will see the instrument type and the serial number on the screen TYPE PIKO 96 S N PKO960700148 PIKO 1 49 134 To adjust the contrast of the Piko Thermal Cycler s LCD screen 1 In the Main menu press TOOLS 2 Highlight DIAGNOSTICS and press OPEN 3 Highlight DISPLAY and press OPEN USE UP AND DOWN KEYS TO CHANGE DISPLAY CONTRAST HIGH ACCEPT Thermo Scientific Piko Thermal Cycler User Manual 27 Settings Adjusting the date and time settings 4
7. EN 3 Highlight the protocol file and press OPEN Thermo Scientific Piko Thermal Cycler User Manual 23 Operation Monitoring a run Monitoring a run Status screen The protocol will be displayed in semigraphical or list mode depending on which mode has most recently been used You can toggle between the modes by pressing the TOGGLE key at the lower left corner of the keypad 4 Press START 5 Enter the sample volume ul per well e 24 well Piko Thermal Cycler 10 50 pl e 96 well Piko Thermal Cycler 5 20 ul Note If you are using a 96 well Piko Thermal Cycler the run will start immediately after accepting by pressing YES A 6 Ifyou are using a 24 well Piko Thermal Cycler select lid pressure based on consumables Highlight the appropriate alternative and press SELECT SELECT CONSUMABLE lt 16 TUBES gt 16 TUBES OR PLATE SELECT Note If less than 16 x 0 2 ml tubes have been loaded and PLATE is selected by mistake the lid pressure may cause the tubes to become crushed or deformed A 7 Accept the changes and start the run by pressing YES Note When the run begins the lid will begin to move a blue LED light will flash and the running protocol will be displayed in semigraphical or list mode depending on which has been selected A You can monitor a run in two screens Status screen and Time status screen Upon initiation of a run the Piko Thermal Cycler will display the Status screen 24 Therm
8. GGLE key when editing the time of a temperature step It is used for changing the temperature step into an infinite hold A Creating anew To create a new protocol press NEW in the Main menu protocol A DEFAULT protocol is displayed on the screen Thermo Fisher Scientific Thermo Scientific Piko Thermal Cycler User Manual 17 Operation Opening an existing protocol FILE SHARED DEFAULT 15 0 92 0 72 0 72 05 00 00 30 60 0 f 01 00 00 15 The DEFAULT protocol is a typical PCR temperature cycling routine A temperature step is represented by a horizontal line with a temperature value with a resolution of 0 1 in C above the line and a time value in mm ss below the line The DEFAULT protocol is permanently stored in the SHARED folder If changes are made and saved to this file and folder the latest saved version of the DEFAULT protocol will appear each time a new protocol is selected e Note You can toggle between the semigraphical mode and list mode by pressing the TOGGLE key from the keypad A Opening an To open an existing protocol existing protocol 1 From the Main menu press RUN 2 Highlight the desired folder using the arrow keys 3 Press OPEN to open the selected folder 4 Highlight the desired protocol file using the arrow keys 5 Press OPEN to open the selected protocol file This will display the protocol in semigraphical or list mode depending on which mode has most recently been used If
9. IT E rr Perr Preer errr tener ere 39 Error messa pesien aaier i a AE R A ESA 39 Warning messageSsi oireen sorsi soa ieaiao E EEE N EiS 4 Reading the lid offset values 1 c iccsccriacsheeentiiandedtancadadts 41 Reading the sensor drawer and lid states cis 653 40 aseaens enna 42 Ordering Information ibciateciatatetinn nts nian condniales 43 PURO 220 ate cars ccc aE EE aE AE cee cera te eE TE a Eaa RENG 43 Thermo Fisher Scientific Chapter 1 Piko Thermal Cycler Overview The Piko Thermal Cycler Figure 1 1 delivers high performance in a compact package It incorporates novel technical solutions that allow significant reductions in PCR run times and the overall size of the instrument The Piko Thermal Cycler is an ideal solution for both conventional and fast PCR applications The Piko Thermal Cyclers are available in two different block configurations 24 well and 96 well Figure 1 1 Piko Thermal Cycler Thermo Fisher Scientific Thermo Scientific Piko Thermal Cycler User Manual 9 Piko Thermal Cycler Overview 10 Thermo Scientific Piko Thermal Cycler User Manual Thermo Fisher Scientific Chapter 2 Piko Thermal Cycler Main Parts This chapter describes the main parts of the Piko Thermal Cycler Fro nt view The front view of the Piko Thermal Cycler is shown in Figure 2 2 User interface UI Air exhaust Drawer open Air intake Figure 2 2 Piko Thermal Cycler front view Rear vieWw The rear view of the Piko Therm
10. Piko Thermal Cycler User Manual 19 Operation Editing a protocol FILE SHARED DEFAULT 6 0 92 0 05 00 00 30 60 0 00 15 3 In the loop editing mode the right and left arrow keys can be used to change the first or last step of the loop The symbol above the F3 key indicates whether the first step of the loop or the last step of the loop will be changed 4 To toggle between these modes press the F3 key Entering advanced Add temperature increments time extensions and adjust the ramp rate P J P prog ramming according to the following instructions options Note You can also edit temperature and time values in this screen A l In the FILE SHARED DEFAULT screen press OPT 20 Thermo Scientific Piko Thermal Cycler User Manual TEMPERATURE STEP TEMP 95 0 INC 0 TIME 05 00 EXT 0 RAMP 7 0 If you want to add or subtract an increment to the temperature step in a loop move to the INC field with the arrow key and edit the value The amount of the increment will be added to or subtracted from each successive cycle This is used for touchdown protocols The input range is 0 1 C to 9 9 C cycle If you want to add or subtract a defined time extension to a temperature step in a loop move to the EXT field with the arrow key and edit the value The amount of the extension is added to or subtracted from each successive cycle The input range is 1 to 99 seconds cycle Thermo Fisher S
11. Piko instrument Read the manual in its entirety before operating the instrument Bolded words refer to items or functions that may be selected from the programming menu or from the keypad of the instrument The following is an example for initiating a protocol To run a protocol first select RUN using the function key The following is an example referring to the Open button on the keypad Press OPEN to disengage the heated lid and release the block along the sliding rails of the Piko Thermal Cycler Keep the user manual for future reference The user manual is an important part of the instrument and should be readily available during use of the instrument Keep the user manual together with the instrument in case you distribute it onwards For the latest information on products and services visit our websites at http www thermoscientific com piko In our efforts to produce useful and appropriate documentation we would appreciate any comments you may have on this user manual for your local Thermo Fisher Scientific representative Thermo Scientific Piko Thermal Cycler User Manual 3 About This User Manual Safety instructions Safety instructions Safety warnings Http e 4 Thermo Scientific Piko Thermal Cycler User Manual Read the User Manual Operating the Piko Thermal Cycler without first reading the entire User Manual may constitute a risk to your health Only a person capable of handling electr
12. al Cycler is shown in Figure 2 3 Service door Power connector Ethernet port RJ45 Access screw Serial port Figure 2 3 Piko Thermal Cycler rear view Thermo Fisher Scientific Thermo Scientific Piko Thermal Cycler User Manual 11 Piko Thermal Cycler Main Parts Instrument user interface Instrument user The user interface of the Piko Thermal Cycler is shown in Figure 2 4 interface LED TA O se MA Power button Backlit LCD display Function keys F1 F4 Arrow keys for moving Alphanumeric keypad the display Toggle key Open drawer button Cancel key Figure 2 4 Piko Thermal Cycler instrument user interface Thermo SCi BN TY FTC PIKO 96 NEW The Piko Thermal Cycler user interface features four function keys which are used to select different menu options The function keys on the Main menu have the following actions Fl RUN Runs saved protocols Allows editing of saved protocols F2 NEW Begins programming of a new protocol gins prog 8 P F3 STAT Shows Status screen when running F4 TOOLS Accesses global settings or diagnostic routines c The red button with a C is the CANCEL button It will bring you back to the Main menu If you are performing a run and press the C button for more than a second it will cancel the run In certain cases for example when saving a file the button takes you back one screen 12 Thermo Scientific Piko Thermal Cycler User M
13. anual Thermo Fisher Scientific Piko Thermal Cycler Main Parts Automatic lid LED function To the left side of the power button on the keypad are two LEDs with the following indications Constant blue System on and NOT in use Blinking blue System on and in use Constant red System has recently experienced an error Refer to Chapter Troubleshooting Guide for more information Automatic lid The heated lid is internally motor controlled It will automatically adjust to the optimal temperature and sealing pressure External power The Piko Thermal Cycler uses an external 180 watt power supply an approach commonly used with lap top computers This is made supply ible by thei lly possible by the instrument s unusually low power consumption In countries with a low voltage power grid the Piko Thermal Cycler uses a 200 watt power supply Vessels The Piko Thermal Cycler sample blocks 24 well and 96 well will only accept microplates with a footprint in the dimension of a microscope compatible with slide This Piko format gives the Piko Thermal Cycler its compactness Piko Thermal as well as its ability to deliver excellent performance Cycler However note that some other low profile thin wall PCR tubes are also compatible with the 24 well Piko Thermal Cycler For a complete listing of product numbers and additional product information visit our website at www thermoscientific com piko UTW Ultra thin wall vessels prov
14. ate reliably in the following environmental conditions Avoid extremes of these environmental ranges to best preserve the long term performance and life span of the instrument e Ambient temperature 5 C 30 C e Ambient relative humidity up to 80 e Altitude under 2000 m e Indoor use only The Piko Thermal Cycler will perform optimally and with greater reliability in the following operating conditions e Ambient temperature 15 C 25 C e Ambient relative humidity under 50 e Altitude under 1000 m Airflow is paramount to high speed performance and reliability It is important to maintain good heat sink cooling capability It is best to have a cool source of incoming air and an unobstructed exhaust for outgoing air Follow these three guidelines to best ensure optimum heat sink function Thermo Scientific Piko Thermal Cycler User Manual 5 About This User Manual 6 Thermo Scientific Piko Thermal Cycler User Manual Obstruction free intake of air Do not place on a hot surface or on laboratory bench paper Do not slide any paper or other material under the system as this may hamper the airflow or be sucked into the system Obstruction free exhaust for outgoing air Always keep a distance of at least 10 cm between the exhaust vents and any large solid object such as walls larger instruments or other thermal cyclers Do not have other instruments exhaust blowing directly at the Piko Thermal Cycler system Clean fins o
15. authorized Thermo Fisher Scientific service personnel only Viewi Ng The system creates a log file for each run protocol as well as for pr otocol lo g files instrument errors Refer to Viewing instrument log files on page 30 1 In the Main menu press TOOLS 2 Highlight LOGFILES and press OPEN 3 Select PROTOCOL LOGS and press OPEN INSTRUMENT LOG 4 Select the desired log file in the list and press OPEN Thermo Fisher Scientific Thermo Scientific Piko Thermal Cycler User Manual 29 Settings Viewing instrument log files PROTOCOL LOGS 2010 02 25 10 43 03 E SEQ CHSTEST1 2010 02 25 10 04 57 E ICHAS CHSTEST1 2010 02 25 09 44 24 E IMIKKO RAD50EX3 OPEN The log file opens displaying the date and starting time of the run as well as the runtime LOG SEQ CHSTEST1 2010 02 25 10 43 03 RUNTIME 00 49 1 ENTRIES FILE LIST If there were no errors during the run the screen shows NO ENTRIES If errors or warnings occurred during the run the screen shows the number of entries a View the details of the error or warning by pressing LIST b See the entries in the protocol file by pressing FILE c In the event of an error see the recommended action by pressing ACTION 5 Quit the log file and PROTOCOL LOGS by pressing BACK Viewing The instrument log records errors that occur when a program is not running for example an anomalous sensor reading instrument log i p 6
16. cientific Operation Saving a protocol file 4 Ifyou want to slow the ramp rate to a value below the maximum go to the RAMP field and edit the value The input range is 0 1 to 7 0 C second 5 Accept the changes by pressing OK You can go back to the protocol editing screen without saving the changes by pressing BACK be reverse displayed have a white background when the affected step is highlighted This is to remind you that an option has been programmed into that step A Note If advanced options have been entered the OPT menu label will Deleting a cycling 1 In the protocol editing screen go to any step in the loop loop 2 Go to the number of cycles value in the loop arrow using the arrow keys and press DEL The loop is deleted from the protocol Adding an infinite When editing the time field of any temperature step press the TOGGLE hold key at the lower left corner of the keypad to add an infinite hold Saving a After editing a protocol file save it according to the following protocol file instructions 1 In the protocol editing screen press SAVE Note If you do not want to save the changes press the C button from 1 the keypad A 2 Ifyou are saving a new protocol file select the folder in which you wish to save the file and press OPEN SELECT FOLDER SHARED SEQ HP PCR Thermo Fisher Scientific Thermo Scientific Piko Thermal Cycler User Manual 21 Operation Saving a protocol file
17. ctive holders Disclaimer Thermo Fisher Scientific reserves the right to change its products and services at any time to incorporate technological developments This manual is subject to change without prior notice as part of a continuous product development Although this manual has been prepared with every precaution to ensure accuracy Thermo Fisher Scientific assumes no liability for any errors or omissions nor for any damages resulting from the application or use of this information This manual supersedes all previous editions Warranty Finnzymes Instruments Oy warrants that the Piko Thermal Cycler is free from defects in materials and workmanship for 2 years from the date of purchase Defects that are covered by this warranty and that occur during this warranty period will be repaired or the system will be replaced free of charge and at the sole discretion of Finnzymes Instruments Oy or its licensed distributors Repairs that occur outside this warranty period will be charged for parts labor and shipping Fulfillment of warranty obligations is the responsibility of the company that sold the Piko Thermal Cycler For specific information regarding warranty coverage please contact said company directly This warranty shall not apply to any of the following 1 Defects caused by repairs or modifications made by anyone other than Finnzymes Instruments Oy or its licensed distributors 2 Defects caused by improper packaging of returned go
18. e e ea e E treet ete er trite 13 Automatic lid nessieira Neea saia REE tR SEAE REEERE 13 External power supply essseseseesssisrsrsrsrsrsrsrsrsrsrsrsrseststseseseseseseseseses 13 Vessels compatible with Piko Thermal Cycler sssseseeeseeeeeeeeeesssss 13 Block formaty anann a a a Na 13 Installation hi ee cr 15 Itemsineluded saiesie od ieccy iis ae ope ee eeu tes acu ecient cee neces 15 Setting up the Piko Thermal Cycler on 4cce in on ee eens 15 OPS AUN OOD szosch EEEE AE cert E E E A ieee alanis 17 Operating mod sicis scveciscsiveriivss wataaesiadeceiletintaeeel eaiaptinecee 17 Creating a new protocol et ci kc t parece ea a celts 17 Opening an existing protocol yia ss astess esveaas ase saat antavaneaestoneadgcettgaedeaee 18 Editing a protocol alto Staak an aerial ana ee ae al elated 18 Adding a temperature SCOP iasesscsesadscoseas a heeratescs tevlaeedtuetibeceenavicanes 19 Adding a cycling loop ci neces deere 19 Entering advanced programming Options sssseseeeeseeeeeeneesees 20 Deleting a cycling loops sali A eee a eee tats econ 21 Adding an infinite NOI ata sor as cca cesta eae 21 Saving aprot col filen ia eea aa aE EE TE paces 21 Renaming or deleting an existing folder ees eceseeseeeeneeeeeeeeees 23 Running a protocol setasion iier E eka 23 Monitoring a TUN o iestaiordisnctecneinedinasraciebisntsioctesa dis tirerai istia sinens sis 24 Status SCLOCH 9 sativa a r r a E EA TS 24 Thermo Scientific Piko Thermal Cycler User Manual
19. e original packaging and packing materials use the recycling operators known to you For more information contact your local Thermo Fisher Scientific representative Thermo Scientific Piko Thermal Cycler User Manual 33 Maintenance Disposal of the instrument 34 Thermo Scientific Piko Thermal Cycler User Manual Thermo Fisher Scientific Chapter 7 Technical Specifications Instrument Thermo Fisher Scientific reserves the right to change any specifications gr without prior notice as part of our continuous product development specifications program Table 7 1 Table 7 1 Instrument specifications Instrument specifications Dimensions Size 16 cm wide 17 cm deep 23 cm high Weight 4 kg includes power supply and cord Electrical Power supply 200 W 24V 8 33 A Line voltage 100 240 VAC Input current 2 5 A and 4 0 A Frequency 50 60 Hz Power failure recovery Yes Instrument configuration Block formats 24 well 96 well not interchangeable Display Backlit LCD Memory 40 folders with 99 programs each Communication ports Ethernet Serial Programming Adjustable ramp rate Yes Touchdown Yes Typical thermal performance Max ramp rate gt 5 C s heating gt 4 5 C s cooling Thermal uniformity 0 3 C Thermal accuracy 0 2 C Thermal range 4 C to 99 9 C Thermo Fisher Scientific Thermo Scientific Piko Thermal Cycler User Manual 35 Technical Spec
20. entific Renaming or existing folder Thermo Fisher Scientific deleting an Running a protocol Operation Renaming or deleting an existing folder Note If you select YES amp RUN make sure that the samples are already loaded at this point The instrument asks for the volume and then starts running the protocol A You can rename or delete all other folders except the RECENT and the SHARED folder The RECENT folder stores the last six protocols that have been run on the Piko Thermal Cycler The SHARED folder is a default folder that can be used and accessed by all users 1 In the Main menu press RUN 2 Select a folder and press MOD 3 Ifyou want to rename the folder select RENAME and type the new name Password protected folders require a password to delete or rename a folder Note Text entry is similar to that of a cell phone A number or character is automatically entered after a one second delay Pressing the key will toggle through the assigned number and three characters for example press the key labelled 2 A B C twice to select A and wait 1 second A folder name can be a maximum of 7 characters long A 4 Ifyou want to delete an existing folder press DEL Note Deleting a folder also deletes all the protocol files in it A 5 Accept the changes by pressing YES To run a protocol 1 From the Main menu press RUN 2 Highlight the folder in which the protocol file has been saved press OP
21. f heat sink Inspect the fins of the heat sink on a regular basis Dirty heat sinks have a significantly lower capacity to dissipate heat Clean the fins if they become dirty or covered in dust You can use a cotton swab a brush or compressed air to remove dust Thermo Fisher Scientific Thermo Fisher Scientific Chapter 1 Chapter 2 Chapter 3 Chapter 4 Contents Jntended Users sick hc Dea eiiean e eaa ia ateis 3 How to use this user manual vs cciastcccdvaccastevasenstivapdentueeduastenetacteetereats 3 Formore mformatoh rennin ee T AS 3 S fety INStrUCHO NS i a RR EA E AAR ER 4 Saf ey Warns ait e lesa cee heen tae ae 4 Electromagnetic itererence cc2s2hc cect bcdee ss 2 ie cee cteadd cnr cancrneetette 5 Environmental requirements 23 21 2ecaissecdesteii csevethaveaiandiaccsieiedtdtaseyts 5 Absolute environmental requirement cseeeseeeeeeeeeeeeeeeeeneeneees 5 Recommended working conditions s02 2sc s2cidstaczagsnestdechishenatevsctas 5 AOW aaron epee Sean ee nar Pur E a Ne NEM SE etre 5 Piko Thermal Cycler Overview ssssssssssssssssssssseesssessssassssseeeseeeeeeeee 9 Piko Thermal Cycler Main Parts sssscssssssssssssssseesesssstesseateaeeneens 11 Front VIR Wai xxii ssc aa a eE tart eaten teeth de denna 11 TREAT NLGW seet n cleus t i a a a a ti aa 11 Instrument user interface seeseeeeseseeerererereesisisisisisisrsesesesesesesrseses 12 Main menu nenaiieinu niini eiiiai ii aiii 12 LED fUnCUO Nue ae
22. files In the Main menu press TOOLS 2 Highlight LOGFILES and press OPEN 3 Select INSTRUMENT LOG and press OPEN 4 Select the desired log file and press OPEN 30 Thermo Scientific Piko Thermal Cycler User Manual Thermo Fisher Scientific Settings Parking the instrument for shipping or long term storage Pa rking the instrument If the instrument is shipped or stored for a longer period park the for shippin g or lon g instrument according to the following instructions term stora ge Note You will need an empty sample plate for parking the instrument amp 1 In the Main menu press TOOLS 2 Highlight PARK INSTRUMENT and press OPEN PARKING INSTRUMENT PLEASE INSERT EMPTY PLATE AND CLOSE DRAWER 3 Insert an empty plate and close the drawer 4 Press OK When parking is completed the following message will be displayed PARKING INSTRUMENT PARKING DONE 5 Press BACK to return to the TOOLS menu Thermo Fisher Scientific Thermo Scientific Piko Thermal Cycler User Manual 31 Settings Parking the instrument for shipping or long term storage 32 Thermo Scientific Piko Thermal Cycler User Manual Thermo Fisher Scientific Cleaning the Piko Thermal Cycler Disposal of the Thermo Fisher Scientific instrument Chapter 6 Maintenance Contact local authorized technical service or your local Thermo Fisher Scientific representative for assistance if necessary Clean the outside of
23. ical equipment should use the Piko Thermal Cycler NOT FOR CHILDREN Do Not Attempt to Repair Do not remove the cover of the system Do not try to repair or replace broken components you put yourself at risk for electrical shock Removing the cover or replacing removing components will void the warranty Contact customer service or your local distributor if your system is not functioning properly A Do Not Touch the Sample Block Certain components including the sample block and heated lid will become excessively hot Touching these components may cause burns A Do Not Tamper with Electronics Coming in contact with the electronics even when the system is off or unplugged may cause an electrical shock or harm A Do Not Use Flammable or Hazardous Liquids with the Piko Thermal Cycler a These symbols are intended to draw your attention to particularly important information and alert you to the presence of hazards as indicated Caution This symbol indicates risk of harm or personal injury Always consult the User Manual before touching the area of the Piko Thermal Cycler that displays this symbol A Caution This symbol indicates a risk of personal injury or harm by electrical shock Always consult the User Manual before touching the area of the Piko Thermal Cycler that displays this symbol a Caution This symbol indicates risk of personal injury or burn by contact with a very hot surface Avoid touching such surfaces A WEEE sy
24. ided by Thermo Fisher Scientific are recommended These vessels were used in the optimization of the temperature algorithms of the instrument as well as in the validation of its performance UTW vessels provide more consistent results in fast PCR protocols Note Conventional format microplates will not fit within the Piko I1 Thermal Cycler A Block fo rmats The Piko Thermal Cycler is available in two block formats Figure 2 5 and Figure 2 6 Thermo Fisher Scientific Thermo Scientific Piko Thermal Cycler User Manual 13 Piko Thermal Cycler Main Parts Block formats Figure 2 5 24 well max volume 50 ul Figure 2 6 96 well max volume 20 ul 14 Thermo Scientific Piko Thermal Cycler User Manual Thermo Fisher Scientific Items included Setting up the Piko Thermal Thermo Fisher Scientific Cycler gt gt Chapter 3 Installation This chapter describes the installation and setup of the Piko Thermal Cycler Inside the Piko Thermal Cycler package you should find the following e Piko Thermal Cycler e Power supply e CD ROM with User Manual and Piko Studio Installer e Quick Reference Guide e Power cord Setting up the Piko Thermal Cycler can be performed in 5 simple steps 1 Remove all components from packaging 2 Install the Piko Thermal Cycler in a protected location where no one can step on or trip over the line cord and where the line cord remains accessible in case of a need to unplug the unit
25. ifications Safety specifications Safety specifications In conformity with the requirements This section describes the safety specifications for the Piko Thermal Cycler instrument Piko Thermal Cycler bears the following markings Type 5000 CE mark 100 240 Vac 50 60 Hz EUT 24 VDC 8 33 A PSU 100 240 Vac 50 60 Hz 2 5 A or 4 A Piko Thermal Cycler conforms to the following requirements 2006 42 EC Machinery Directive 2006 95 EC Low Voltage Directive 2004 108 EC Electromagnetic Compatibility Directive EMC 2002 96 EC WEEE Directive Safety performance IEC 61010 1 2001 Ed 2 including US and CA National differences The safety specifications are also met under the following environmental conditions in addition to or in excess of those stated in the operating conditions Altitude Up to 2000 m Temperature 5 C to 40 C Humidity Maximum relative humidity 80 for temperatures up to 31 C decreasing linearly to 50 relative humidity at 40 C Mains supply fluctuations 10 from nominal Installation category ll according to IEC 60664 1 see Note 1 overvoltage category Pollution degree 2 according to IEC 60664 1 see Note 2 Note 1 The installation category overvoltage category defines the level of transient overvoltage which the instrument is designed to withstand safely It depends on the nature of the electricity supply and its overvoltage protection means For example
26. in CAT II which is the category used for instruments in installations supplied from a supply comparable to public mains such as hospital and research laboratories and most industrial laboratories the expected transient overvoltage is 2500 V for a 230 V supply and 1500 V for a 120 V supply 36 Thermo Scientific Piko Thermal Cycler User Manual Thermo Fisher Scientific Technical Specifications Safety specifications 2 The pollution degree describes the amount of conductive pollution present in the operating environment Pollution degree 2 assumes that normally only nonconductive pollution such as dust occurs with the exception of occasional conductivity caused by condensation A EMC performance EN 61000 6 3 2007 Generic standards Emission standard for residential commercial and light industrial environments EN 61000 6 2 2005 Generic standards Immunity standard for industrial environment EN 61326 1 2006 Product family standard Electrical equipment for measurement control and laboratory use Test standards Performance limits EN 55011 2007 A2 2007 Class B 150 kHz 1 GHz rad cond EN 61000 3 2 2006 Class A EN 61000 3 3 1995 A1 2001 A2 2005 EN 61000 4 2 1995 A1 1998 A2 2005 4 kV CD AD Criteria C EN 61000 4 3 2002 A1 2002 10 V m 80 MHz 1 GHz 3 V m 1 4 2 7 GHz Criteria A EN 61000 4 4 2004 1 kV 2kV Criteria B EN 61000 4 5 2006 0 5 kV 1kV 2kV Cr
27. iteria B EN 61000 4 6 2007 10 Vims 150 kHz 80 MHz Criteria A EN 61000 4 8 1993 A1 2001 30 A m Criteria A EN 61000 4 1 1 2004 30 500 ms Criteria B Thermo Fisher Scientific 60 100 ms Criteria B 100 10 ms Criteria B 100 20 ms Criteria B 100 5000 ms Criteria C Thermo Scientific Piko Thermal Cycler User Manual 37 Technical Specifications Safety specifications 38 Thermo Scientific Piko Thermal Cycler User Manual Thermo Fisher Scientific Error log Error messages Chapter 8 Troubleshooting Guide Note Do not use the instrument if it appears that it does not function properly A In case of an error there are two types of messages the Piko Thermal Cycler may display warning messages and error messages A warning message may be displayed if the system is experiencing difficulty in running a protocol for example Block temperature Too High or Lid Temperature Too Low In case of a temperature related warning message check to ensure that the air vents are not blocked and that the fan is working A warning message is also displayed if a protocol is altered during a run for example paused or if steps are skipped If an error message appears in the display window your Piko Thermal Cycler will abort the protocol and immediately shut down to prevent any damage to the system Should you receive an error message or a persistent warning message contact your local distributor for support Error
28. mbol This product is required to comply with the European Union s Waste Electrical amp Electronic Equipment WEEE Directive 2002 96 EC A Note Marks a hint important information that is useful in the optimum operation of the system or an item of interest A Thermo Fisher Scientific Electromagnetic interference Environmental requirements Absolute environmental requirements Recommended working conditions Thermo Fisher Scientific Airflow About This User Manual Electromagnetic interference This product conforms to the Class B standards for electromagnetic emissions intended for laboratory equipment applications It is possible that emissions from this product may interfere with some sensitive appliances when placed nearby or in the same circuit as these appliances The user should be aware of this potential risk and take appropriate measures to avoid interference This section describes the environmental requirements of the Piko Thermal Cycler Note Important It is highly recommended that all users of the Piko Thermal Cycler read the following section carefully The performance and reliability of the Piko Thermal Cycler are closely linked to the working conditions in which the system is run To ensure that your Piko Thermal Cycler will provide years of top level performance and have the fewest problems adhere to the environmental requirements described here A The Piko Thermal Cycler is rated to oper
29. o Scientific Piko Thermal Cycler User Manual Thermo Fisher Scientific Time status screen Functions in the Thermo Fisher Scientific screens Operation Monitoring a run FILE SHARED MIRECT 95 0 92 0 72 0 05 00 00 30 60 0 J 01 00 T 00 15 35 PAUSE NEXT TIME STOP The current running temperature step in the protocol is represented by a flashing line and the file name and host folder are displayed on the top of the screen To skip to the next temperature step in the protocol press NEXT Note Pressing the TOGGLE key will switch the display between list mode and semigraphical mode A You can toggle to the Time status screen by pressing TIME FILE SHARED MIRECT STEP 1 7 95 0 05 00 CYCLE 1 1 RUNNING 01 34 40 PAUSE NEXT STAT STOP The Time status screen displays additional information about the run As with the Status screen the file name and host folder are displayed on the top of the screen Additionally the following status parameters are displayed e STEP Displays the step number of the currently running temperature step as well as the programmed temperature and time of the step e CYCLE Displays the current cycle number e The large numbers in the middle of the screen display the hours minutes and seconds remaining until the completion of the running protocol To return to the Status screen press STAT In both screens you can pause the run on the present temperature step or
30. ods If necessary please contact the company that sold the Piko Thermal Cycler to receive new shipping materials prior to shipment and instructions for proper shipment 3 Defects caused by use of improper materials including tubes plates or sealers not designed and approved for the Piko Thermal Cycler or solvents and agents such as radioactivity or biohazardous agents not approved for use or allowable for public shipment 4 Defects caused by negligence accidents unreasonable or improper use natural disasters or by other causes unrelated to defective materials or workmanship No liability for consequential damages Thermo Fisher Scientific shall not be liable for any damages whatsoever arising out of the use or inability to use this product Intended users How to use this user manual For more information Thermo Fisher Scientific About This User Manual The Piko Thermal Cycler can be used in research and routine test laboratories by professional personnel This user manual is for the following instruments Piko Thermal Cycler 24 well Cat no TCP0024 and Piko Thermal Cycler 96 well Cat no TCP0096 It has been designed to give you the information you need to e Review safety precautions e Install the Piko Thermal Cycler e Operate the instrument e Adjust the settings and service the instrument e Troubleshoot the instrument performance This user manual also describes all the features and specifications of the
31. ra the operating temp If the very low device temperature problem persists contact support E13 BLOCK TEMP LOW This error is set if the block temperature sets below 20 C Wait for the instrument to reach The reason for this can be a broken temperature gauge ora the operating temp If the very low device temperature problem persists contact support E14 LID TEMP LOW This error is set if the lid temperature sets below 20 C The Wait for the instrument to reach reason for this can be a broken temperature gauge or avery the operating temp If the low device temperature problem persists contact support E15 BLOCK TEMP SHIFT This error is set if consecutive reads of the block Reboot the instrument If the temperature differ more than is physically possible problem persists contact support E17 LID TEMP SHIFT This error is set if consecutive reads of the lid temperature Reboot the instrument If the differ more than is physically possible problem persists contact support E18 LID POS FAILURE This error is set if the lid hit pressure before it was supposed Retry If the problem persists to It can be caused by hitting an obstruction see the manual E21 BLOCK TEMP This error is set if power is applied to the block but the Contact support CHANGE temperature does not change E33 SELF TEST FAILURE The Piko unit fails self test Reboot the instrument If the problem persists contact support E35 LID TEMP CHANGE This error is
32. s inform you that a fatal event has occurred during the execution of the protocol Table 8 2 For all errors except E1 the protocol will be stopped and all heating units will be turned off For the case of a power interruption E1 the instrument will resume operating as it was but will display the error message until the user clears it Table 8 2 Error codes reported Code Error message Description Action E1 POWER FAILURE This error is set if the power was lost during protocol Check log files execution E3 BLOCK TEMP This error is set if the block temperature is far above normal Contact support use limits E4 LID TEMP This error is set if the lid temperature is far above normal Contact support use limits E5 SINK TEMP This error is set if the heat sink temperature is far above Ensure that the airflow to the normal use limits fan is not obstructed If the problem persists contact support Continued Thermo Fisher Scientific Thermo Scientific Piko Thermal Cycler User Manual 39 Troubleshooting Guide Error messages Cont Code Error message Description Action E11 CALIB TABLE This error is set if any calibration temperature is out of the Reboot the instrument If the valid range problem persists contact support E12 SINK TEMP LOW This error is set if the sink temperature sets below 20 C Wait for the instrument to reach The reason for this can be a broken temperature gauge o
33. set if power is applied to the lid but the Contact support temperature does not change E36 STRAIN GAUGE This error is set if the measured pressure value is not within Contact support FAILURE valid limits or if the target pressure is not reached in a certain time E37 LID OPTO FAILURE This error is set if the lid was driven up but fails to detectas Retry If the problem persists being fully up within a specified time limit see the manual E40 DRAWER FAILURE This error is set if the drawer is opened but the drawer is Contact support not detected to be open within a specified time limit 40 Thermo Scientific Piko Thermal Cycler User Manual Thermo Fisher Scientific Warning messages Troubleshooting Guide Warning messages Warnings inform you that an unwanted event has possibly occurred during the execution of the protocol Table 8 3 The protocol is not stopped but the event may have an effect on the results Table 8 3 Warning codes reported Code Warning message Description Action W1 POWER FAILURE This warning is set if there has been a power failure that has Check the log files lasted less than 24h and the protocol was recovered W8 BLOCK TEMP HIGH This warning is set if the block temperature is above normal use limits wg LID TEMP HIGH This warning is set if the lid temperature is above normal use limits W10 SINK TEMP HIGH This warning is set if the heat sink temperature is above use Check that
34. the Piko Thermal Cycler with a damp soft cloth or tissue whenever something has been spilled on it or the cover is dusty A mild soap solution may be used if needed Clean block wells with swabs moistened with water 95 ethanol or a 1 100 dilution of bleach in water If the Piko Thermal Cycler is exposed to potentially infectious biological samples toxic or corrosive chemicals or radioactive chemicals waste management of the complete instrument must be carried out to ensure that there is no risk of contamination Follow laboratory and country specific procedures for biohazardous or radioactive waste disposal Dispose of the instrument according to the legislation stipulated by the local authorities concerning take back of electronic equipment and waste The proposals for the procedures vary by country Pollution degree 2 see Safety specifications on page 36 Method of disposal Electronic waste Contaminated waste Infectious waste WEEE symbol Thermo Fisher Scientific has contracted with one or more recycling disposal companies in each EU Member State European Country and this product should be disposed of or recycled through them Further information on Thermo Fisher Scientific s compliance with these Directives the recyclers in your country and information on Thermo Scientific products which may assist the detection of substances subject to the RoHS Directive are available at www thermo com WEEEROHS A Regarding th
35. the heat normal limits sink is clean W27 PROTOCOL STOPPED This warning is set if the protocol is stopped before the end of protocol W29 PROTOCOL PAUSED This warning is set if the protocol is paused during the protocol Check the log files run W30 CYCLES ADDED This warning is set if extra cycles are added to the protocol loop Check the log files W31 STEP SKIPPED This warning is set if the protocol step is skipped the NEXT key Check the log files was used W32 LID TEMP OVERRIDDEN This warning is set if the lid temperature is overridden from the Check the log files Reading the lid offset values Thermo Fisher Scientific service menu To read the lid offset values 1 In the Main menu press TOOLS 2 Highlight DIAGNOSTICS and press OPEN 3 Highlight LID and press OPEN 4 Read the LID SETTINGS values OFFSET ZERO 50 LOW 160 MED 400 HIGH 630 LID DOWN UP DOWN Thermo Scientific Piko Thermal Cycler User Manual 41 Troubleshooting Guide Reading the sensor drawer and lid states Reading the sensor drawer and lid states The LID screen displays the calibration settings for ZERO LOW MEDIUM and HIGH lid pressure The LID menu will also periodically display the current location of the lid UP or DOWN To read the sensor drawer and lid states 1 In the Main menu press TOOLS 2 Highlight DIAGNOSTICS and press OPEN 3 Highlight SENSORS and press OPEN DRAWER CLOSED LID UP You can vie
36. the same folder as before and you do not need to select the folder from the screen If you wish to save the file to a new folder press BACK and select a folder or create a new one A Note If you are editing an existing protocol file the file will be saved in If you want to create a new folder in the SELECT FOLDER screen do as follows a Press NEW b Type the folder name 7 characters maximum c Type your password 4 characters maximum The password is optional A password protected folder will prevent unauthorized users from editing protocols within the folder or from saving new protocols to the folder Password protection does not prevent unauthorized users from viewing or running the protocols within the folder If the PASSWORD field is left blank the folder will not be password protected Note Ifa password is lost or forgotten contact Thermo Fisher Scientific tech support finnzymes techsupport thermofisher com for instructions on how to reset the folder A d Press YES e Inthe SELECT FOLDER screen press OPEN to open the new folder SELECT FILE HSTEST1 3 To save the protocol file with a new name press NEW type the file name and press YES If you want to overwrite an existing file select the file in the list and press OPEN 4 Confirm by pressing YES The protocol file is saved and you will return to the Main menu 22 Thermo Scientific Piko Thermal Cycler User Manual Thermo Fisher Sci
37. w the block lid and sink temperatures as well as the drawer and lid states 42 Thermo Scientific Piko Thermal Cycler User Manual Thermo Fisher Scientific Thermo Fisher Scientific Piko Chapter 9 Ordering Information Contact your local Thermo Fisher Scientific representative for ordering and service information Table 9 4 Table 9 4 Instrument catalog number Code Item TCP0024 Piko Thermal Cycler 24 well TCP0096 Piko Thermal Cycler 96 well Thermo Scientific Piko Thermal Cycler User Manual 43 Ordering Information 44 Thermo Scientific Piko Thermal Cycler User Manual Thermo Fisher Scientific Glossary PCR Polymerase chain reaction touchdown PCR A protocol in which time and or temperature are changed in small increments and are added or subtracted to each step in a loop These changes continue to progress from cycle to cycle throughout the entire loop section of the protocol UI User interface Thermo Fisher Scientific Thermo Scientific Piko Thermal Cycler User Manual 45 Glossary 46 Thermo Scientific Piko Thermal Cycler User Manual Thermo Fisher Scientific Notes Thermo Fisher Scientific Thermo Scientific Piko Thermal Cycler User Manual 47 Notes 48 Thermo Scientific Piko Thermal Cycler User Manual Thermo Fisher Scientific Notes
38. you want to run the protocol press START If you want to start editing the existing protocol press EDIT Editing This section describes how to edit a protocol protocol 18 Thermo Scientific Piko Thermal Cycler User Manual Thermo Fisher Scientific Operation Editing a protocol Adding a To add a temperature step temperature step FILE SHARED DEFAULT 25 0 92 0 05 00 00 30 60 0 00 15 im TEMP LOOP 1 In the protocol editing screen add a new temperature to the right of the highlighted step by pressing ADD and then TEMP You can delete a highlighted temperature step by pressing DEL 2 Modify the temperature and time values by moving to the value field with the arrow keys and entering a new value using the keypad The decimal point will be added automatically For a temperature of 60 5 C enter the following 6 0 5 Similarly for a time value enter the numbers as you would write them for a 1 minute and forty five second hold enter the following 0 1 4 5 Adding a cycling To add a cycling loop loop 1 In the protocol editing screen go to the last step of the desired loop and press ADD 2 Press LOOP The default loop has 3 steps and 35 cycles 3 Move to the number of cycles value field in the left corner of the loop arrow and change the number of cycles if desired FILE SHARED DEFAULT 25 0 92 0 05 00 00 30 60 0 00 15 Thermo Fisher Scientific Thermo Scientific
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