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Operating Manual

Biometra TOne
High-performance thermal cycler
for DNA amplification by PCR

Summary of Contents for analytikjena Biometra TOne

Page 1: ...Operating Manual Biometra TOne High performance thermal cycler for DNA amplification by PCR...

Page 2: ...15 37079 G ttingen Germany Phone 49 3641 77 7407 Fax 49 3641 77 9279 E mail service analytik jena com General Information http www analytik jena com Documentation Number 34 3000 000 23 e Edition C 07...

Page 3: ...esign 14 3 1 Principle of operation 14 3 2 Design 15 3 2 1 Thermal block 16 3 2 2 Temperature gradient 16 3 2 3 Heated lid 17 3 2 4 Terminals and interfaces on the rear of the device 17 3 3 Models 18...

Page 4: ...ngs 48 5 9 2 Viewing the documentation 50 5 9 3 Performing an extended self test 52 5 9 4 Creating a service info file for troubleshooting 53 5 9 5 Performing a backup 53 5 10 User management 54 5 10...

Page 5: ...Biometra TOne Table of contents 5 10 2 General characteristics 68 11 Revision history Manuals 70 Index 71...

Page 6: ...Table of contents Biometra TOne 6...

Page 7: ...e used to describe the same term in these instructions In this context a protocol or program is one or several consecutive temperature increments with the same or varying holding times which can be re...

Page 8: ...ts of a touch screen The screen can display the time and status of the temperature program for each cycle in form of a diagram or a table The operating personnel can use the touch screen keyboard to e...

Page 9: ...Warning symbol Meaning Comment Warning of a danger point Proceed with care when handling bio logical and biochemical samples and when working on the device Warning against hot surface There is a risk...

Page 10: ...nd lift it Empty the sample block before transporting the device There must be no sam ple vessels in the block Only send the device in its original packaging and with transport locks in place Risk of...

Page 11: ...nly use consumables such as plates and tubes that are suitable for high tem peratures up to 100 C that fit well into the thermal block without shaking and whose lids or sealing foils seal tightly 2 4...

Page 12: ...wipes or cellulose In case of biological contamination wipe the affected area with a suitable disin fectant Then wipe the cleaned areas so that they are dry The only suitable cleaning method for the h...

Page 13: ...been tested and ensure safe operation 2 6 Behavior during emergencies If there is no immediate risk of injury switch off the device and the connected system components immediately in hazardous situat...

Page 14: ...ward and reverse primers which define the beginning and the end of the characteristic DNA section 4 Elongation or extension 70 C Strand extension Construction of the complementary DNA strand by the en...

Page 15: ...n the samples turn the lid wheel clockwise until you can hear a click This lowers the lid until it touches the surface of the sample tubes The integrated clutch mechanism en sures that the same contac...

Page 16: ...ensed water from penetrating into the Peltier elements un derneath the sample block and other parts of the electronics The sealing protects the Peltier elements and prolongs the working life of the de...

Page 17: ...o the integrated clutch mechanism the pressure applied by the heated lid to the reaction tubes is always the same regardless of the height of the plasticware that is used The shape of the heated lid a...

Page 18: ...o adapt it to the respective experiment For programming PCR protocols the software incorporates Biometra s proven spread sheet philosophy and alternatively offers graphical programming One touch of a...

Page 19: ...all Plasticware can have curved or flat lids and may be sealed with sealing foil or other technologies Regardless of the sealing method used the pressure exerted by the device on the con sumables is...

Page 20: ...er objects and any additional thermal cycler devices Keep the ventilation slits free and do not obstruct them with other devices You can adjust the contrast of the display to suit the local lighting c...

Page 21: ...ch at the device s bottom If required adjust the operating voltage to the mains voltage Use the mains cable supplied with the device to connect it to a grounded electric socket Use the mains switch at...

Page 22: ...standard IEEE 803 2ab_1999 Otherwise the network cable must be crossed More recent net work interface controllers usually meet this standard It is possible to connect the device to a computer via the...

Page 23: ...If the lid is under pressure when opened this may damage the locking mechanism Always reduce the contact pressure on the lid using the lid wheel before opening the lid Opening the lid The heated lid...

Page 24: ...ntact pressure is designed for a fully populated block When using only a few samples in the block place an additional two empty tubes of the same height in the four corner positions of the block Other...

Page 25: ...ters to the left of the cursor Del Delete all characters Tab Tabulator key Switch between input fields Enter infinite as a value for time input For some functions the maximum number of characters is l...

Page 26: ...cific A table provides an overview of the last pro grams that were used or changed DE EN CN Change login screen language settings Note You can use the user management for each indi vidual user to set...

Page 27: ...on for programs On the Home screen the quick start function is user specific A table provides an overview of the last pro grams that the user used or changed Programs Create or edit PCR programs Selec...

Page 28: ...the software the user will find a quick start function This quick start function is only enabled when the block is free Login screen You can start all recently used programs Home screen You can start...

Page 29: ...d User John Doe dd mm yyyy hh mm On On On Fig 9 Incubate page Use the numeric keypad to enter Block Temperature and Hold Time If you enter the device will keep the set block temperature for an indefin...

Page 30: ...the buttons and to choose between a graphical and a spreadsheet format for programming Name Lid Preheat Lid On Home Edit Insert Delete Done Back Step Go To Cycles T t R 30x 1 2 3 4 5 6 Step Step Step...

Page 31: ...es by the temperature increment with each cycle The temperature increment can be 0 1 to 20 C Time increment t The holding time increases e g in case of a long range PCR by this time incre ment with ea...

Page 32: ...what can be displayed in the list use the arrow keys to navigate through the list Tap Open template to open the selected program template The system will now open the graphical or spreadsheet program...

Page 33: ...urthermore proceeding like this will prolong the working life of the Peltier elements as they do not have to cool down the sample block unnecessarily against the temperature setting of the heated lid...

Page 34: ...n Enable or disable the preheating of the heated lid before the actual PCR run Step Step 1 Define at least one block temperature and holding time for each program step All other parameters are optiona...

Page 35: ...To Cycles T C t s R C s Three step dd mm yyyy hh mm Program Runtime 1h 15m 10s User John Doe Fig 14 Spreadsheet programming Program parameters Display example Description Name Three step Define the p...

Page 36: ...g steps There are two options to edit a program step in the software Directly in the graphical or spreadsheet view or via an extra page Prerequisite You have opened an existing program or a program te...

Page 37: ...ected program step This will not over write the existing step Instead this step and any subsequent steps will by moved down one position Deleting steps Use the button Delete to delete individual steps...

Page 38: ...4 33 times In step 5 the device executes the final extension at 72 C In the last step the device cools down the samples to 16 C for an indefinite period of time Step Cycles 34x 1 2 3 4 5 6 95 0 95 0 5...

Page 39: ...et a time increment The step must be within a loop Enter a time increment within the range of 1 to 240 s in the field ss Confirm the entry by tapping the green check mark Save the program after comple...

Page 40: ...ample block i e in horizontal direction from left to right You have the option to set the tem perature gradient so that the highest temperature is in the first or in the last column Fig 18 Temperature...

Page 41: ...96 block format this is Column 6 Define a temperature increment under Grad incr The software will calculate the effective temperatures and display them in a bar chart Lin Std Col Step Gradient 3 First...

Page 42: ...gram under a new name Confirm your entry by tap ping the green check mark Tap Save to save the program The system will overwrite the original program name You have saved a new or an edited program 5 7...

Page 43: ...ses the arrow keys to navigate through the list Or Use to open the quick selection and display all users or programs on one page Tap Delete Confirm the prompt The program or the programs are deleted T...

Page 44: ...l you clearly hear a clicking sound Tap Start to initiate the program Display during a program run During a program run the software displays the program that is running in form of a spreadsheet or a...

Page 45: ...d in yellow The graphical view di vides each step into heating phase and holding time Step Cycles 30x 1 2 3 4 5 6 95 0 95 0 55 0 72 0 72 0 16 0 0 05 00 0 05 00 0 00 30 0 00 30 0 00 30 Step Step Step S...

Page 46: ...g 24 Spreadsheet view during a program run Program parameters Display example Description Step 1 There is at least one block temperature and holding time for each program step All other parameters are...

Page 47: ...cuted programs skipping steps You have the option to pause resume or stop the program during a PCR run You can also skip individual steps Option Icon Description Pause Abort the program at the current...

Page 48: ...software version etc Toggle between the pages using the buttons System Info Cycler Info Contact Show contact information of the customer service Home Navigate back to the Home screen 5 9 1 Customizing...

Page 49: ...device to a network and to run a query to get a list of network users on the page Network Option Icon Description Network settings Set up a network connection via a static or dynamic IP address Networ...

Page 50: ...matically performs the initial self test when the device is started The self test documents the date and time the device is switched on and lists any error messages in a table Self Test Log File View...

Page 51: ...m in graphi cal view View the program in spread sheet view Self Test Log File During an extended self test the software checks the most important device functions and components such as the heating an...

Page 52: ...se the heated lid Use the menu option Tools Settings Self Test to navigate to the page Self Test Initiate the self test with the button Start Self Test During the following approximately 30 min the so...

Page 53: ...e and attach the file You will find the contact information inside the front cover or under Tools Contact 5 9 5 Performing a backup The backup function allows you to back up the contents of all folder...

Page 54: ...er roles and rights By default an administrator Admin is predefined with the password Admin in the software Change the default password after switching on the device for the first time to protect the...

Page 55: ...ator Admin to protect the system from unauthorized access The default password that is set when the device is delivered is Admin User name and initials of the predefined default administrator cannot b...

Page 56: ...letters Password optional If you enter no password the password protection is lifted Select the corresponding check box to set a particular language for the software in terface English German or Chin...

Page 57: ...u have to log in again as a user 6 3 Automatic restart without an apparent cause Strong voltage fluctuations may trigger a restart of the device The reaction of the device in this case will be the sam...

Page 58: ...either confirm or reject the automatic program adjustment If you refuse a required ad justment the device will not be able to start this program The following table provides an overview of possible ad...

Page 59: ...l This will bypass the clutch mechanism Take care not to apply excessive pressure Lid deadlocked in upper position Use a pen to press down the metal pin on the top of the lid wheel 1 Apply only slight...

Page 60: ...eel counterclockwise until it moves without resistance and you can hear no more clicking Release the pin and keep turning the lid further up in counterclockwise direction until the pressure is complet...

Page 61: ...you observe the ambient conditions at the site of installation the device does not require any tem perature validation or temperature calibration after the installation 7 2 Cleaning the housing WARNIN...

Page 62: ...taminated externally or internally with dangerous substances Splashes drops or larger liquid spillages should be removed using an absorbent ma terial such as absorbent cotton laboratory wipes or cellu...

Page 63: ...Biometra TOne Maintenance and care 63 7 4 Firmware update Please contact the customer service or your local distributor if you wish to update the firmware...

Page 64: ...omponents pose a risk of injury Before moving the device remove all loose parts and disconnect all connections from the device As the device does not have carrying handles grip the device firmly with...

Page 65: ...register the return Clean all device components from biologically hazardous chemical and radioactive contamination When registering the return you will receive a decontamination report from the cus t...

Page 66: ...ions Environmental influences and condensation can destroy individual components of the device Only store the device in air conditioned rooms Ensure that the atmosphere is free of dust and corrosive v...

Page 67: ...esponsible for correct disposal of biological samples in accordance with statutory regulations At the end of its service life the device and its electronic components must be dis posed of as electroni...

Page 68: ...C Control accuracy 0 1 C Maximum heating rate 4 0 C s Average heating rate 3 7 C s Maximum cooling rate 3 3 C s Average cooling rate measured in the block 3 0 C s Temperature uniformity 95 C 0 60 C af...

Page 69: ...l or spreadsheet programming mode Simplified program creation using protocol templates Incubation mode Export function via USB port Time increment 1 to 240 s per cycle Temperature increment decrement...

Page 70: ...Changes A 2021 01 First Version Note New version labeling after introduction of the Document Management System A B etc B 2021 11 Minor corrections to software description C 2022 05 Adoption of the ma...

Page 71: ...error messages 50 F factory settings resetting 49 functional test 50 G German 56 GLP compliance 18 gradient programming 40 gradient view 47 graphical view 34 45 H heated lid 17 automatic deactivation...

Page 72: ...pping a step 47 spreadsheet programming 33 starting 43 stopping 47 temperature increment 38 time increment 39 Q quick start 18 28 R remote diagnosis 53 restart automatic 15 57 S self test 26 carrying...

Page 73: ...heet programming 35 Fig 15 Defining all parameters for a step 37 Fig 16 Program with loop spreadsheet view 38 Fig 17 Program with loop graphical view 38 Fig 18 Temperature gradient block format 96 40...

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