Arktik™ Thermal Cycler
Contents
1. cece ecceseesesseeseesetseneeneenes 6 4 3 MAU m n Ussesi eiiiai tates esivias cosstendsetieeceecatsaneseeneatte 6 4 4 Creating a new protocol 4 5 Managing folders 4 6 Creating a new folder 4 7 RUNNING A PYOLOCOI lse Soartaaas chen EE AEN 4 8 M nit riNg 8 MUM sssi seressosissrsitiiscnieinsgesir reakiris inni senn deiin d EsKA R 5 Managing diagnostics log files and USB link USING the Tools Mentsen E R ES 13 Dsl DIA BMOSUUCS secs 2cssscascstavcstaacesenceseucvenstsettcadtevagtessscueacesveecustedaneeestectegeesstents 13 Did Log HES aicesecasscess campos Sores veinevssuveseestsvasssedeabesveetsonsesnceveteesassidesvacdsessdutevieyt 14 5 3 USB link Giresse ias eE GA EEEE ENEE EAEE SERES 15 6 Maintenance of the instrument sssssssssssssssisisssessisisesessreesinensresnininesenenenes 16 Appendix CeritiCati Onis osrin a seh E E A A E T 17 INStFLIMENt SPECITICALIONS ccscsssecescescdaccnsonteravssonsorosesonsonseccsesvesssseeoesentones 18 Error log Warranty Trademark information cccccccecscssssssscscecscscecccccceeesesesesseseseseesssesssscseeseaeaeas 20 Finnzymes Arktik Thermal Cycler User Manual 1 User instructions 1 1 Safety warnings personal injury Always consult the User Manual before touching the area of the Arktik Thermal Cycler that displays this symbol A Caution This symbol indicates risk of harm or Caution This symbol indicates a risk of personal injury or2. Arktik Thermal Cycler User Manual version 1 0 lt FINNZYMES TOOLS FOR MOLECULAR BIOLOGY N Table of Contents Te User instrUCtiOnNS sssri eraga E EAEE ERIR EEE S ETEEN 3 1 1 Safety Warnings vssisses ssvecseoscossesssecassessensandstesssecsnesy doves saedcostevessadscssnesteieess 3 1 2 Safe Use guidelines sscssssviesciscstuscesssteiscensscctscebses i orena as ERa kaser Meese 3 1 3 Good laboratory PractiCeS ccsscsccssecsssssserseisessonsssesddvesvasstesesdessadvvoroareiesss 3 1 4 General chemical warnings sesessssssssssssisessestsisesesssisisesnsrrsinesessenesenee 3 1 5 General biohazard warnings sssesssessssssssersssisesessssisisesssrinisenrssenenenen 1 6 Glossary and conventions Dis nstallati Miena naa Voces a AEE A EE AEN EA E TAS Pid tems included sssr ena e E er a a T R 2 2 The Arktik Thermal Cycler set up 23 Conditions for proper USE sisscsescarassredendis lesessbaudsaeshssegoseadssetacsondvexssssesha vate 2 4 Vessels compatible with Arktik Thermal Cycler sssssssssesessisssssserssnen 4 3 Meet the Arktik N adaise aa i a E A 5 3 1 Arktik Thermal Cycler Overview c cccecesssseseesesscescesessessessessesseeeseenes 5 3 2 InterchanBeable DIGEKS iiinis animierten i 5 Operati ome en esses sapes 20s E E coasek eve vanes tases EE ERER 6 4 1 Installing blocks in the Arktik base unit c ccc eee ceeseeseeseneeneenes 6 4 2 Opening and closing the Arktik blocks
3. 69 1 72 1 73 0 13 14 15 16 17 18 19 20 21 22 23 24 73 8 77 1 79 3 81 6 83 2 84 9 86 3 87 7 88 5 89 2 89 6 90 0 BACK BACK The minimum gradient temperature is assigned to the far left column column 1 of the sample block and the maximum temperature is assigned to the far right column column 12 4 4 3 Editing a cycling loop Modifying a cycling loop In the default protocol edit the cycling loop by hightlighting the loop Use the lt 4 gt cursor keys to move the arrow to a different temperature step The number of cycles is displayed in the middle of the loop arrow at the bottom of the screen This value may be edited using the keypad Adding new cycling loop From the protocol editing screen with the cursor on the last step of the desired loop press the ADD selection using the F1 key Select GOTO using the F2 key An arrow will appear that will point by default to the temperature step directly before the final step in the loop Use the lt gt cursor keys to move 72 0 72 0 the arrow to a different temperature step The number of cycles is displayed 01 00 02 00 in the middle of the loop arrow at the bottom of the screen This value may be edited using the keypad Press the DEL selection F2 to delete a cycling routine Press the Yes key to accept changes or press the No key to cancel and go back to the previous screen Function key actions F1 F2 F3 No action F4 YES Accepts new cycl
4. Heatsink temperature is too high Ensure that airflow is unobstructed see Section 2 3 Heatsink temperature is too low Do not run instrument immediately if it has been stored in a cold location Allow to warm to room temperature before operation Temperature sensor No 1 is disconnected block left temperature sensor Contact Finnzymes Temperature sensor No 1 is shorted Contact Finnzymes Temperature sensor No 2 is disconnected block mid temperature sensor Contact Finnzymes Temperature sensor No 2 is shorted Contact Finnzymes Temperature sensor No 3 is disconnected block right temperature sensor Contact Finnzymes Temperature sensor No 3 is shorted Contact Finnzymes Hotlid sensor is disconnected Contact Finnzymes Hotlid sensor is shorted Contact Finnzymes Dual block 48D Heatsink temperature is too high Ensure that airflow is unobstructed see Section 2 3 Heatsink temperature is too low Do not run instrument immediately if it has been stored in a cold location Allow to warm to room temperature before operation If not working contact Finnzymes for support Temperature sensor is disconnected Contact Finnzymes Temperature sensor is shorted Contact Finnzymes Hotlid sensor is disconnected Contact Finnzymes Hotlid sensor is shorted Contact Finnzymes USB INPUT OUTPUT ERROR File Input erro
5. TOOLS FOR MOLECULAR BIOLOGY FINNZYMES OY Keilaranta 16 A 02150 Espoo Finland Tel 358 9 2472 3010 Fax 358 9 2472 3200 fz finnzymes fi www finnzymes com
6. cyclers Do not have other instruments exhaust directly at the Arktik Thermal Cycler system Clean the fins of the heat sink and the instrument regularly see Section 6 2 4 Vessels compatible with Arktik Thermal Cycler Ultra thin wall vessels provided by Finnzymes or its affiliates are recommended We recommend using ultra thin wall vessels but standard vessels are also compatible For a complete listing of product numbers pricing and additional product information please visit Finnzymes website at www finnzymes com Finnzymes Arktik Thermal Cycler User Manual 3 Meet the Arktik 3 1 Arktik Thermal Cycler overview The Arktik Thermal Cycler suits the needs of dynamic laboratory where reliability and user friendliness are appreciated It accommodates three interchangeable blocks 96 block 48 dual block and 384 block allowing versatile use of the cycler You control the Arktik Thermal Cycler through simple user interface Graphical representation of a cycling routine makes navigation convenient The USB port enables protocol transfer Front view Lid Air exhaust USB ie port on the side Air intake Rear view Ethernet ji t por Locking handle Power switch OL cove ODUONOONIONID pge MON Power socket Fuse User interface Alpha numeric keypad Block shift Display key for dual blocks F
7. equipment when handling hazardous chemicals Do not inhale any fumes from chemicals Refer to chemicals material safety data sheets for more information about storage handling and disposal 1 5 General biohazard warnings Biological hazard When handling biological material A appropriate protective clothing is required Many biological materials e g micro organisms cell cultures tissues body fluids and parasites have the potential to transmit infectious diseases Personnel handling biologically hazardous material should be trained beforehand 1 6 Glossary and conventions 1 6 1 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 a step These changes continue to progress from cycle to cycle throughout the entire loop section of the protocol Gradient PCR a protocol in which the temperature across the sample block is varied column by column for a particular hold step UTW Ultra thin wall reaction vessel provided by Finnzymes Oy 1 6 2 Typographical All buttons on the keypad are referred to in brackets The following is an example referring to the shift block button on the keypad press SHIFT BLOCK to shift between the two blocks when a dual block is inserted in the machine Bolded words refer to items or functions that may be selected from the programming menu The following is an example for initia
8. is inserted in the machine A refers to the block on the left and B for the block on the right Version V00 00 RUN NEW TOOLS Finnzymes Arktik Thermal Cycler User Manual 4 4 Creating a new protocol 4 4 1 Basic protocol From the main screen press the NEW button using the second blue function key F2 This will bring up a DEFAULT protocol The DEFAULT protocol is a semi graphical representation of 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 If a step is highlighted this line will flash Use the cursor keys lt and gt to toggle between temperature steps Function key actions F1 ADD Adds a temperature step to the right of the highlighted step or allows the addition of a GOTO routine see Section 4 4 3 F2 DELETE Deletes the highlighted temperature step Also deletes a GOTO routine if it is highlighted 01 00 02 00 F3 OPTION Allows the programming of advanced options into the highlighted step temperature increment extend time or slow ramp rate and temperature gradient in the instruments with this feature enabled see Section 4 4 2 F4 BACK Exits edit mode without saving F5 SAVE Saves the protocol ADD DELETE OPTION BACK SAVE Cursor actions A V lt 4 gt Navigate between temperature time an
9. on the lid while pulling the handle forwards To tighten lid turn dial clockwise To prevent over tightening the lid mechanism will begin ratcheting when the proper pressure has been achieved To open the block after a run first turn the dial counterclockwise to raise the heated lid then open as in step one Note that failure to raise the internal heated lid may result in crushing of tubes if the cycler is used with low profile tubes and subsequently used for standard profile tubes Note in some case slight expansion of the plate during thermal cycling may occur and this may cause difficulties in opening the lid In this case press the release button on top of the dial down while turning the dial counterclockwise 4 3 Main menu The Arktik Thermal Cycler user interface features five function keys which are used to select different menu options Note that the markings from F1 to F5 are not present in the actual user interface but instead are shown is this manual in order to help read the instructions The function keys on the Main Menu have the following actions F1 RUN Runs saved protocols Allows editing of saved protocols F2 NEW Begins programming of a new protocol hows Status Screen when running FINNZYMES F3 STATUS S F4 Not used F5 TOOLS Accesses global settings or diagnostic routines k SHIFT BLOCK The red button with labeled SHIFT BLOCK shifts between Block 48 well SN the two blocks when a dual block
10. temperature step or next step if ramping When paused this option becomes RESUME F3 NEXT Skips to next step F4 STATUS Toggles to the Status Screen F5 MAIN Returns to the Main Menu Finnzymes Arktik Thermal Cycler User Manual 5 Managing diagnostics log files and USB link using the Tools Menu From the Main Menu select TOOLS F5 e TAE The Tools Menu provides three options which are accessed by scrolling to DIAGNOSTICS the desired item using the cursor keys and pressing the OPEN F1 key LOG FILES e DIAGNOSTICS Allows users to check or adjust lid parameters sensor USB LINK parameters sound settings and clock settings see below e LOG FILES Allows users to review log files from previously run protocols e USB LINK Allows users to transfer files to or from a USB Flash device OPEN MAIN 5 1 Diagnostics 5 1 1 Lid From the TOOLS menu highlight DIAGNOSTICS and press OPEN F1 DIAGNOSTICS Scone Highlight LID and press OPEN F1 CLOCK SOUND GRADIENT OPEN BACK MAIN The LID screen displays the hot lid default temperature as well as setting determining whether the hot lid is ON or OFF by default Note These are default settings only The user has the opportunity to change these parameters each time they begin a new run Hotlid Default 009 c Block Type 96 well Function key actions F1 CHANGE Enables the user to change the default hot lid temper
11. 7 18 Instrument specifications Instrument Configuration Interchangeable Block Formats User Interface Heated Lid Memory Communications 96 x 0 2 ml 384 x 0 03 ml dual independent 48 x 0 2 ml Semi graphical Manually adjustable advanced lid design ensures proper pressure while preventing over tightening 50 folders with 99 programs in each Ethernet USB memory port for protocol transfer Programming Adjustable Ramp Rate Touchdown Thermal Control Yes Yes Optimized for standard and UTW vessels Thermal Performance Ramp Rate Gradient Range Thermal Uniformity Thermal Accuracy Thermal Range 2 5 C s 30 C max 0 4 C 0 3 C 4 C to 99 9 C Dimensions Size Weight 29 cm wide 38 cm deep 29 cm high 10 5 kg includes block Electrical Power Supply 600W Line Voltage 100 240 VAC Frequency 50 60 Hz Power failure recovery Yes Fuses 2 x 250V F8A Certifications CE Warranty 1 year Finnzymes Arktik Thermal Cycler User Manual Error log If an Error message appears in the display window of the Arktik Thermal Cycler it may indicate that the system cannot complete the requested action e g Heatsink temperature is too high Should you receive an Error message regarding block sensors please contact Finnzymes for support BLOCK SENSOR ERROR SUGGESTED ACTION Single block 96G 384G
12. OPEN F1 Highlight SOUND and press OPEN F1 The sound menu allows the editing of the Arktik Thermal Cycler s Settings for tones produced during Keystrokes KEY at the end of a run RUN END and at the beginning of an infinite hold INFINITE Function key actions F1 SAVE Accepts sound changes F2 ON Turns on the sound for the highlighted field F3 OFF Turns off the sound for the highlighted field INFINITE F4 BACK Returns to diagnostics main screen without changing date and RUN END time settings F5 MAIN Returns to the main screen without changing date and time settings Cursor key actions lt 4 P Toggles between editable fields 5 2 Log files From the TOOLS menu highlight LOG FILES and press OPEN F1 The log files menu displays the recent protocols that were run on the Arktik Thermal Cycler Each protocol log contains information about the protocol and possible error messages LOGFILES Page 1 of 1 F4 BACK Returns to the tools menu 2009 07 07 17 52 test SHARED Stop F5 MAIN Returns to the main screen Cursor key actions lt gt Toggles between pages BACK MAIN Finnzymes Arktik Thermal Cycler User Manual 5 3 USB link 5 3 1 Exporting a file to a USB flash drive Note Files are always transferred with the folder in which they exist If a file is transferred to or from a USB drive and its folder does not already exist in that location the folder will be autom
13. a protocol is running The current running temperature step in the protocol is represented by a flashing line and the protocol and host folders are displayed on the top of the screen Below this are displayed the Time remaining in the current step and the current block temperature Returning to the Main Menu allows users to write or edit protocols while the instrument is running A STATUS F3 option will appear on the Main Menu FINNZYMES Screen to return to the Status Screen when a protocol is running Version V00 00 Block 96 well SN RUN new BACA Toots Press TIME F3 orad G The Time Status Screen displays additional information about the run As with TEMP 95 0 C the Status Screen the file name and host folders are displayed on the top of TIME 00 04 51 the screen Additionally the following status parameters are displayed STEP 1 e CYCLE Displays the current cycle number within a GOTO loop 09 e TEMP Displays the current temperature of the block e TIME Displays the estimated time remaining in the current step CANCEL PAUSE NEXT STATUS e STEP Displays the step number of the currently running temperature step Note The symbol is displayed on the screen if programmed into the protocol If not programmed into the protocol the time left is displayed Function key actions F1 CANCEL Terminates the run after confirming with user F2 PAUSE Pauses the run on the present
14. atically created Insert USB flash drive From the TOOLS menu highlight USB LINK and press OPEN F1 Then select F5 EXPORT USB flash Drive Connected Please Choose Import of Export File Press F1 to go Back Press F4 to Import File Press F5 to Export File MAIN BACK IMPORT EXPORT Navigate to the desired File and Folder and press F5 VIEW Local User List RECENT SHARED Page 1 of 1 To export the selected file press F4 COPY Local File List Note A message will be displayed if the same Folder file already exists on the USB drive giving the option to overwrite the existing file When transfer is complete FILE SAVED message will be displayed Press F1 BACK key to transfer additional files to the USB drive or F5 to return to the main screen Page 1 of 1 BACK COPY Finnzymes Arktik Thermal Cycler User Manual 15 16 5 3 2 Importing a file from a USB flash drive Insert USB flash drive From the TOOLS menu highlight USB LINK and press OPEN F1 Then select F4 IMPORT Navigate to the desired File and Folder and press F5 VIEW Usb Disk User list SHARED Page 1 of 1 To import the selected file press F4 COPY File List j Note A message will be displayed if the same folder file already exists on the Arktik giving the option to overwrite the existing file When transfer is complete FILE SAVED message will be displayed Press F1 BACK k
15. ature F2 OFF Toggles the default lid setting to OFF at this point the option changes to ON In order to save change to this setting press CHANGE F3 No Action F4 BACK Returns to previous screen Hotlid On F5 MAIN Returns to main screen 5 1 2 Sensors Highlight DIAGNOSTICS and press OPEN F1 Highlight SENSORS and press OPEN F1 The sensors menu simply displays the current sensor reading for temperature sensors located in the lid the block and the heat sink BLOCK 24 6 Function key actions LID 67 9 F1 F2 F3 No function F4 BACK Returns to diagnostics main screen SINK 24 4 F5 MAIN Returns to the main screen Finnzymes Arktik Thermal Cycler User Manual 13 5 1 3 Clock Highlight DIAGNOSTICS and press OPEN F1 Highlight CLOCK and press OPEN F1 The clock menu allows the editing of the Arktik Thermal Cycler s internal date and time settings Function key actions NIAAA E 09 07 07 F1 SAVE Accepts date and time changes l F2 FORMAT change the time and date format displayed TIME 18 31 43 F4 BACK Returns to previous screen without changing date and time DISPLAY FORMAT YY MM DD 24H settings F5 MAIN Returns to the main screen without changing date and time settings Cursor key actions A V 4 gt Toggles between editable fields Use the keypad 0 9 to insert numbers 5 1 4 Sound Highlight DIAGNOSTICS and press
16. d cycling loop fields Use the keypad 0 9 to edit the values The temperature or time value may be edited by moving the cursor to the field and then editing it directly To enter values use the numbers on the keypad as you would write them 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 O 1 4 5 Note To enter an infinite hold press the lower right key on the keypad with the symbol 4 4 2 Entering advanced programming options From the protocol editing screen press the OPTION selection using the F3 key The function key actions F1 INC Adds or subtracts a defined temperature increment to a temperature step such that the amount of the increment will be added to or subtracted 01 00 02 00 from each successive cycle This is used for Touchdown protocols Input range 0 1 C to 9 9 C per cycle F2 EXT Adds or subtracts a defined time extension to a temperature step such that the amount of the extension is added to or subtracted from each successive cycle Input range 1 to 99 seconds per cycle F3 RAMP Slows the ramp rate going to a highlighted step to a value below the maximum Input range 0 1 to 4 0 C second F4 GRAD set gradient for gradient blocks only For any hold step it is possib
17. e loop or edits to the cycle loop Accept YES NO F5 NO Cancels and returns to previous screen Cursor actions lt 4 P Toggles the arrow between steps to select GOTO destination for cycling Important The GOTO value is the number of repetitions of the loop which is 1 less than the total number of cycles For example to program 35 cycles 34 repetitions should be entered into the GOTO step Note A second GOTO routine can be added outside of existing GOTO routine only Finnzymes Arktik Thermal Cycler User Manual 4 4 4 Saving a protocol From the protocol editing screen press the SAVE selection using the F5 key File Name as Password LS Password Check FP CAPS DEL BACK SAVE The current file name will be displayed To save changes to current file name press SAVE F5 To change the file name use the keypad to rename the file then press SAVE F5 Note Text entry is similar to that of a mobile phone A number or character is automatically entered after a one second delay Pressing key will toggle through the assigned number and three characters for example press the key labeled 2 A B C once to select A and wait 1 second For capital letters press CAPS F2 To delete a letter press DEL F3 A file name can be a maximum of 11 characters long Files may be password protected by entering a password up to 11 characters into both the Password and Password Check fields Note the pass
18. en 5 C 30 C e Up to a maximum non condensing humidity of 80 e Transient over voltage per Installation Category 2 IEC664 e Pollution degree 2 in accordance with IEC664 Finnzymes Arktik Thermal Cycler User Manual 1 2 1 Electromagnetic interference This product conforms to the Class A 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 1 3 Good laboratory practices The polymerase Chain reaction PCR is an extremely sensitive assay and therefore the risk of false positive amplification is high if precautions during sample preparation and reaction setup are not observed e Clean lab coats e Clean gloves e Clean lab benches and equipment e Pre amplification areas should be separate from the amplification areas e Pre amplification and amplification areas should both have their dedicated lab equipment e Open reagent component tubes only when needed e Uncap and close tubes carefully 1 4 General chemical warnings Chemical Hazard Some of the chemicals used with A the instrument might be potentially hazardous Before handling chemicals read through the material safety data sheets provided by the chemical manufacturer Use protective
19. er meets all of the requirements for electronic equipment as needed to obtain Certification from the European Union CE EC Type Declaration of Conformity Finnzymes Instruments Oy a a s a Ths Dectaration of Contormity is sumable to the European Standard EN 45014 Keilaranta 16 A Gener at Criteria for wapplers Espoo Finland Dectaration of Conformity The basis for the criteria has been found in intennaticral documentation particularly in SO IEC Guide 22 1982 Information on Geclare under our sole responsibility that the product manufacturers Decieretion of Conformity Laboratory Equipment vat Rendares ox other dukal Arktik Thermal Cycler Tris declaration is a EC Type Oectaration of Conformity as referenced in article 10 1 of Sa tpe o modet eh e unas ee pee eee a nee g Sea to which this declaration solutes in conformity with the following European harmonized and published standards at date of this decteration EC directive 89 336 EEC The EMCdrective EN61010 2 010 2003 and as in Appendix 111 8 of EN61326 1 2006 EC directive 73 23 EEC The Low Voltage Owective Finnzymes Arktik Thermal Cycler User Manual Se eoor ee es ee following he provisions of the Deewctives if appbeable 2006 95 EC 2004 108 EC 98 37 EC These conchmors were based on test report CE20091202TCA002 Espoo Finland December 2 2009 Pime ani Goie Of me LLI wm ra tome GRAL David A Cohen am ad agm Ss emp a 1
20. ey to transfer additional files from the USB drive or F5 to return to the main screen Page 1 of 1 BACK COPY Note If USB flash drive is not inserted NO DISK CONNECTION message will be displayed No disk connection Press F1 to go back MAIN BACK 6 Maintenance of the instrument Cleaning the fins of heat sink Inspect the fins of the heat sink on a regular basis Dirty heat sinks have a significantly lower capacity to eject heat Please 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 Cleaning the Arktik Thermal Cycler Clean the outside of the Arktik 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 Replacing the fuse s You will need the new fuse s 250 V 8A fast 5x20 mm and a slotted screwdriver First turn the instrument off and unplug it The fuses are located at the back of the instrument see Rear view in Chapter 3 1 Use the slotted screwdriver to open the fuse holder Remove the fuse s and replace it with the new one Slide the fuse holder back into the instrument Plug in the instrument and turn it on Finnzymes Arktik Thermal Cycler User Manual Appendix Certifications CE The Arktik Thermal Cycl
21. harm by electrical shock Always consult the User Manual before touching the area of the Arktik Thermal Cycler that displays this symbol Caution This symbol indicates risk of personal injury or burn by contact with a very hot surface Avoid touching such surfaces Read the User Manual Operating the Arktik Thermal Cycler without first reading the entire User Manual may constitute a risk to your health Only a person capable of handling electrical equipment should use the Arktik 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 Do NotTouch the Sample Block Certain components including the sample block and heated lid will become excessively hot Touching these components may cause burns 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 Do Not Use Flammable or Hazardous Liquids with the Arktik Thermal Cycler 1 2 Safe use guidelines The Arktik Thermal Cycler is designed to be used safely under the following conditions e Indoor use e Altitudes up to 2000 m e Ambient environmental temperatures betwe
22. ive function keys Enter key Note the function keys are marked here as F1 F5 Cursor to help read the keys instructions Finnzymes Arktik Thermal Cycler User Manual 3 2 Interchangeable blocks Block unit Locking PU ee EE hy gt Main unit Heat sink connector 96 block 48 dual block 384 block Szi 4 Operation 4 1 Installing blocks in the Arktik base unit Make sure the Arktik base unit is turned off A 1 Caution Do not insert or remove a block with the cycler turned on Doing so can cause electrical arcing that can melt 2 the contacts in the connector joining the Arktik block to the cycler Raise the handle at the back of the Arktik block and hold the block by the front and back edges Lower the block into the Arktik base unit leaving at least 2 cm between the front edge of the block and the front of the Arktik base unit Note never lift or carry the block by handle only always support the block from the side or underneath Slide the block forward as far as it will go and push the handle down Do not use force The block should click into place and the handle should be completely horizontal To remove the block lift the handle slide the block backwards and lift out of the base unit 4 2 Opening and closing the Arktik blocks 1 2 To access the sample blocks open the lid by grasping the handle and pulling it forward To close the sample block apply downward pressure
23. le to set up a horizontal temperature gradient across the block each column of wells will have a different temperature To program a gradient step select this feature from the OPTION menu and input the desired upper and lower temperatures the maximum range is 30 C using keypad 0 9 See Gradient setup Menu on page 10 F5 DONE Accepts advanced option values and returns to protocol editing screen Note If advanced options have been entered the OPTION menu label will be reverse displayed have a white text when the modified step is highlighted This will remind the user that an option has been programmed into that step Finnzymes Arktik Thermal Cycler User Manual Gradient setup Menu The function keys on the Gradient setup Menu have the following actions F1 no function F2 no function 72 0 72 0 F3 PREVIEW Displays the temperature setting for each column with the given 01 00 02 00 upper and lower temperatures F3 back returns to gradient setup screen F4 BACK Exits mode without saving F5 DONE Sets displayed gradient and returns to advanced programming options screen 30 Set from 60 0 C to 90 0 C Previews for the 96 block and the 384 block respectively 90 0 72 0 72 0 01 00 02 00 90 0 72 0 72 0 01 00 02 00 04 0 1 2 3456 7 8 9 10 11 12 60 0 60 6 62 1 64 6 67 9 72 1 77 1 81 6 84 9 87 7 89 2 90 0 04 0 1 2 34 5 6 7 8 9 10 11 12 60 0 60 3 60 6 61 4 62 1 63 3 64 6 66 3 67 9
24. r Disconnect USB stick go back to the Main screen attach USB drive and try again If not working contact Finnzymes for support File Output error Confirm that there is enough free space on the USB drive Disconnect USB stick go back to the Main screen attach USB drive and try again If not working contact Finnzymes for support MEMORY ERROR Memory is full Delete older protocols or back them up into a USB drive and then delete the protocols FILE FIND ERROR File not found Protocol is corrupted or removed Try again or create a new protocol Finnzymes Arktik Thermal Cycler User Manual 19 Warranty Finnzymes Instruments Oy warrants that the Arktik Thermal Cycler is free from defects in materials and workmanship for 1 year 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 Arktik 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 an
25. t screen sample or block mode is specified by pressing SAMPLE F4 or BLOCK F5 Note Sample mode is strongly recommended for most protocols In the next screen vessel type is specified by pressing UTW F4 or COMMON F5 In the next screen sample volume is specified by typing in a volume 5 to 50 ul for 48 dual and 96 blocks 5 to 20 pl for 384 block Confirm selection by pressing YES F4 or return to vessel section screen by pressing No F5 After confirming the volume the protocol will start immediately see Monitoring a Run Section 4 8 Note When a run begins the running protocol will be displayed in semi graphical mode on a Status Screen see Monitoring a Run Section 4 8 11 12 4 8 Monitoring a run Upon initiation of a run the Arktik Thermal Cycler will display the Status Screen Time Remaining 00 05 00 Block Temp 61 3 Function key actions F1 CANCEL Terminates the run after confirming with user 95 0 92 0 72 0 72 0 F2 PAUSE Pauses the run on the present temperature step or next step if 01 00 02 00 ramping When paused this option becomes RESUME F3 NEXT Skips to next step F4 TIME Toggles to the Time Status Screen F5 MAIN Returns to the Main Menu CANCEL PAUSE NEXT TIME MAIN Note Returning to the Main Menu allows users to write or edit protocols while the instrument is running A STATUS F3 option will appear on the Main Menu Screen to return to the Status Screen when
26. ting a protocol To run a protocol first select RUN using the function key 2 Installation 2 1 Items included Inside the Arktik Thermal Cycler package you should find the following e Arktik Thermal Cycler base unit e Power cord e Two spare fuses 250 V fast 8A 5x20 mm e Quick user guide e User manual e Sample pack of UTW PCR vessels If you have not received the above items in your shipment please contact your local distributor or Finnzymes Oy directly Please save all packing material in case you need to return the Arktik Thermal Cycler for maintenance Required blocks sold separately 2 2 The Arktik Thermal Cycler set up Setting up the Arktik Thermal Cycler can be performed in five simple steps 1 Remove all components from packaging 2 Place 96 well block 384 well block or dual block into Arktik Thermal Cycler base unit see section 4 1 Note never lift or carry the block by handle only always support the block from the side or underneath 3 Plug the power cord into the back of the Arktik Thermal Cycler 4 Insert the power cord into the outlet 5 Turn on the power switch on back of the instrument 2 3 Conditions for proper use Important It is highly recommended that all users of the Arktik Thermal Cycler read the next section carefully The performance and the reliability of the Arktik Thermal Cycler are closely linked to the working conditions in which the system is run To ens
27. to select A and wait 1 second A folder name can be a maximum of 11 characters long Function key actions F1 No function F2 CAPS Toggles between capital and lowercase letters F3 DEL Deletes a character F4 BACK Returns to the folder selection screen F5 SAVE Saves the new folder and returns to folder selection screen There are two permanent folders the RECENT folder stores the last nine protocols that were run on the Arktik Thermal Cycler and the SHARED folder can be saved to and accessed by all users Highlight a folder and press OPEN F1 The protocols residing in that folder will be displayed Highlight protocol and press OPEN F1 The protocol will be displayed in semi graphical mode Press START F1 A lid temperature screen will be displayed showing the default lid temperature Note the default lid temperature may be set in the TOOLS LID menu see section 5 1 1 for details Lid temperatures between 30 C and 110 C are allowed Note The heated lid may be turned off completely by pressing the co button Finnzymes Arktik Thermal Cycler User Manual 30 LID TEMP 099 C BACK OK 05 00 00 15 30 TEMP MODE SAMPLE BLOCK BACK SAMPLE BLOCK 72 0 72 0 01 00 02 00 30 VESSEL TYPE UTW COMMON 72 0 72 0 01 00 02 00 30 Sample Volume 31 uL Accept YES NO Finnzymes Arktik Thermal Cycler User Manual Press OK F5 to proceed In the nex
28. ure that your Arktik Thermal Cycler system will provide years of top level performance and will have the fewest problems please adhere to the following environmental requirements Absolute environmental requirements The Arktik Thermal Cycler is rated to operate reliably within the following environmental conditions Please avoid extremes of these environmental ranges to best preserve the long term performance and life span of the instrument Ambient temperature 5 C 30 C Ambient relative humidity up to 80 Altitude under 2000 m Recommended working conditions The Arktik Thermal Cycler will perform optimally and exhibit highest reliability when the working conditions are as close to standard laboratory conditions 20 C ambient relative humidity 40 Airflow Airflow is paramount to high speed performance and high 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 of air Follow these guidelines to best ensure optimum heat sink function Obstruction free intake of air Do not set 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 of air Always keep at least 10 cm of distance between the exhaust vents and any large solid object such as walls larger instruments or other thermal
29. ursor keys 3 Press OPEN F1 to open the selected folder 4 Highlight a protocol file using the cursor keys 5 Press OPEN F1 to open the selected protocol file This will display the semi graphical representation of the protocol Function key actions F1 START Begins to run selected protocol F2 EDIT Allows editing of the protocol in semigraphical mode F3 No Function F4 BACK Returns to previous screen F5 MAIN Returns to Main Menu 10 4 5 Managing folders From the Main Menu select RUN F1 FOLDERS RECENT SHARED EES 1of1 EES NEW RENAME MAIN 4 6 Creating a new folder Function key actions F1 OPEN Opens a folder and displays its contents F2 NEW Creates a new folder F3 DEL Deletes a folder F4 RENAME Allows renaming a folder F5 MAIN Returns to Main Menu Press F1 RUN to access the Managing folders selection Press NEW F2 and a prompt will appear in the folder name box Enter the desired folder name using the keypad 11 character maximum CAPS DEL BACK SAVE 4 7 Running a protocol From the Main Menu press RUN F1 al FOLDERS i RECENT EE 1 of 1 eee NEW MAIN 72 0 72 0 01 00 02 00 Note Text entry is similar to that of a mobile 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 labeled 2 A B C once
30. words in both fields must match exactly Press BACK F4 to resume editing the protocol without saving Press SAVE F5 to save the protocol to a folder The screen will display the folder options E FOLDERS f SHARED Coua 1of1 Coua NEW BACK Function key actions F1 SELECT Selects the folder to which the protocol will be saved F2 NEW Creates a new named folder see Section 4 6 F3 No Action F4 BACK Returns to previous screen F5 No Action Cursor actions A V Highlights folder for selection Note A protocol may not be saved to the RECENT folder Before a protocol is saved to a folder final confirmation will be presented a FOLDERS SHARED Page 1 of 1 Save file in SHARED YES YES amp RUN BACK 4 4 5 Editing a protocol 1 From the Main Menu select RUN F1 05 00 90 15 72 0 01 00 02 00 START EDIT BACK MAIN Finnzymes Arktik Thermal Cycler User Manual Function key actions F1 YES Saves protocol file to selected folder and returns to Main Menu F2 YES amp RUN Saves protocol file to selected folder and proceeds to the Running a protocol step see Section 4 7 F3 No Action F4 BACK Returns to previous screen F5 No Action Note If a file with the same name already exists in the folder the user will be warned and offered the choice of overwriting the file or going back to choose a different file name or folder 2 Highlight a folder using the c
31. yone other than Finnzymes Instruments Oy or its licensed distributors 2 Defects caused by improper packaging of returned goods If necessary please contact the company that sold the Arktik 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 Arktik 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 Notice to Purchaser 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 non real time thermal cycler patents of Applera Corporation Legal Notice Finnzymes Instruments Oy or its licensed distributors are not responsible for any injury or damage caused by using this instrument for any purpose other than that for which it is intended or by modifications made to the instrument that are not performed by Finnzymes Instruments Oy or its licensed distributors Trademark information Arktik and UTW are trademarks or registerered trademarks of Finnzymes Oy or its affiliates FINNZYMES
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