BIO RAD 170-9703 Page 21 Instruction Manual Download | Manualshive

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Summary of Contents for 170-9703

Page 1: ...BE IS MyCycler Thermal Cycler Instruction Manual Catalog Number 170 9703 BIO RAD For Technical Service Call Your Local Bio Rad Office or in the U S Call 1 800 4BIORAD 1 800 424 6723 ...

Page 2: ...way up to allow maximum clearance and to avoid accidental skin burns This symbol on the reaction module indicates a hot surface Always connect the power supply to a 3 prong grounded AC outlet rated 10 A 100 120 V or 5 A 220 240 V using the AC power cord provided with the MyCycler Do not use an adapter to a two terminal outlet Before plugging the instrument in be sure that the correct fuse is insta...

Page 3: ...orized agent 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 and take appropriate mea sures to avoid interference This instrum...

Page 4: ...tions for the Protocol Library 12 4 3 Protocol Parameters 13 4 3 1 Basic Programming Options 13 4 3 2 Advanced Programming Options 13 4 3 2 1 Increment Decrement Temperature 13 4 3 2 2 Increment Decrement Time 14 4 3 2 3 Temperature Gradient 14 4 4 Graphical Representation 14 4 5 Viewing Protocols 16 4 5 1 Soft Key Functions for the View Screen 16 Section 5 Creating and Editing Protocols 17 5 1 Sp...

Page 5: ...e Utilities Menu 30 8 1 1 View Reports 30 8 1 2 Instrument Information 30 8 1 3 Set Date and Time 30 8 1 4 Set Display Contrast 30 8 1 5 Service Options 30 8 2 The Set Preferences Menu 30 8 2 1 Default Hot Start Options 30 8 2 2 Default Temperature Measurement Mode 31 8 2 3 Default Sample Volume 31 8 2 4 Idle Temperature Measurement Mode 31 8 2 5 Lid Temperature Control 31 8 2 6 Auto Standby Optio...

Page 6: ...he lid remains closed throughout the run The self adjusting heated lid provides the versatility to accommodate a variety of tubes or plates w The MyCycler offers two modes of temperature monitoring and control w Algorithm uses the experimentally derived sample temperature given a specific sample volume Block uses the actual sample block temperature Both modes of temperature control yield excellent...

Page 7: ...s Optional sleep mode saves power when the instrument is not in use USB port enables users to transfer and print protocols or reports with a host computer connected to the instrument and a printer Compact design saves bench space Temperature monitoring and control can be specified by instrument algorithm or reaction module block mode NIST traceable temperature performance 1 3 System Setup 1 3 1 Un...

Page 8: ... following procedure Warning Failure to follow this procedure may result in damage to the unit and invalidation of the warranty 1 Disconnect the power cord from the unit 2 Remove the fuse holder from the rear panel of the instrument with a small flat head screwdriver or similar tool 3 Pull the fuse holder out and install the correct fuse The MyCycler comes with the following two fuses a For 100 12...

Page 9: ...Cycler completely simply unplug the power cord from the power outlet An alternative to system shutdown is Standby mode 1 3 5 Standby Mode To conserve power the MyCycler has a user programmable standby option The green LED next to the Standby button blinks to indicate that the MyCycler is in Standby mode This option will turn off all non essential operations in an idle instrument including the LCD ...

Page 10: ...CS 1201 Domed 12 Cap Strips for 0 2 ml tubes and plates natural 200 MLP 9601 Multiplate 96 Well 0 2 ml Unskilled PCR Plates natural 25 MSB 1001 Microseal B Adhesive Seals 100 223 9442 96 Well PCR Plate Sealing Mats 5 170 8870 iTaq DNA Polymerase includes 250 U polymerase 10x PCR buffer and MgCI2 solution 170 8872 MgCI2 Solution 1 25 ml of 50 mM MgCI2 170 8874 dNTP Solution 200 u l of 10 mM of each...

Page 11: ...ich are arranged like the keys on a telephone Each numeric key except 1 and 0 is used to represent three or more letters The alphanumeric keys are usually used as number keys for the entry of time temperature and cycle repeats When entering a protocol or instrument name into a screen display the keys automatically shift to alpha mode for the entry of letters The word ALPHA is displayed in the top ...

Page 12: ...ight and left arrows move the cursor within the name field and the only way to move out of the field is with the Enter key The up and down arrows are used to move the cursor from line to line within selection boxes or from one field to field when editing or creating protocols In some of the Utilities screens the up and down arrows are used to set the time date and default conditions When a time or...

Page 13: ...6 Running Protocols This chapter provides instructions on how to run any protocol This includes a number of options for controlling the execution and monitoring the progress of the protocol Section 7 Reports This chapter describes Validation reports and the Run reports in detail and explains how to read them Section 8 Utilities This chapter describes the features of the Utilities screen This scree...

Page 14: ...ween the different fields for each step of your protocol Set point temperature fields are shown immediately above the temperature plot line whereas dwell time fields are shown immediately below the temperature plot line The repeats field which specifies the number of times a cycle is to occur followed by an x is shown in the bottom right corner of the last step of a cycle To add an increment or de...

Page 15: ...yCycler Monday January 28 2002 10 35 AM My Personal Cycler Choose an option below Protocol Library Run Screen 3 1 Soft Key Functions for the Home Screen Softkey Option Description F1 Protocol Library F2 Create Displays the Protocol Library screen allows access to all saved protocols Displays a menu of Bio Rad protocol templates Select either the protocol template most similar to the desired protoc...

Page 16: ... of the screen in the column labeled Bio Rad Use the arrow keys to select a protocol and then press Enter for more options See Section 4 2 3 Protocol Options t Usei defined Protocols Use arrow keys to select a protocol and then press Enter i My Protocols My First Protocol Bio Rad WIIHSIITilHinU RT PCR 2 LONG PCR 2 CVCLE SEQ2 NESTED PRIM2 TOUCHDOWN STflNDfiRD 3 RT PCR 3 LONG PCR 3 CYCLE SEQ3 Bio Ra...

Page 17: ... a new name for the selected protocol Protocol names are limited to 25 characters Duplicate protocol names are not allowed 4 2 4 Soft Key Functions for the Protocol Library Softkey Option Description F1 Citations PageUp The Citations option is available when the cursor is in the Bio Rad template column This displays a short list of citations that describes the currently selected Bio Rad protocol T...

Page 18: ...instances you may wish to program an automatic increase or decrease in the step temperature after each repeat To input an automatic increment or decrement function for a step the cycle containing the step must have more than one cycle repeat The automatic increment and decrement function updates the set point temperature by a specified amount after every repeat starting after repeat one For exampl...

Page 19: ...en and displayed in the Validation and Run reports 4 3 2 3 Temperature Gradient The MyCycler Thermal Cycler offers a temperature gradient option for optimization of assay conditions Gradients may be programmed at any step of any cycle of the protocol The gradient option allows input of a temperature gradient of 1 25 degrees in total temperature span at temperatures as low as 30 C and as high as 99...

Page 20: ... and 1 repeat would be displayed as 1x For cycles with an infinite hold the repeats portion of the plot displays 1x The graphical representation of the protocol accommodates a maximum of five steps on the screen at any one time even if this results in a partial display of a cycle Cycle numbers and repeats are shown only in the first step of the cycle whether or not this step gets cut off from the ...

Page 21: ... display In addition a textual display of any increment or decrement option for the currently selected parameter is shown at the bottom of the screen Generally the View screen serves only as a means to browse through an existing protocol Therefore no modifications can be made on the View screen 4 5 1 Soft Key Functions for the View Screen Softkey Option Description F1 F2 F3 F4 F5 Cycle Cycle Run S...

Page 22: ...r an arrow key Note entering a fifth digit will cause the left most digit to be lost All protocols will have default values in each time field If you want to accept the default value press Enter or an arrow key The Clear key may be used to remove all numbers in the time field 5 2 Specifying Temperature Values Temperature values must be in the range of 4 0 C to 100 0 C Numbers are displayed on the ...

Page 23: ...t point temperature field For temperature increments a thermometer icon and an up arrow will appear next to the increment field For temperature decrements a thermometer icon and a down arrow will appear next to the decrement field The specified value will be added to or subtracted from the set point temperature accordingly for each repeat after repeat one Use the number keys to input a temperature...

Page 24: ...selected parameter contains no increment or decrement then this portion of the screen is empty 5 4 2 Temperature Gradient The MyCycler Thermal Cycler offers a temperature gradient option for optimization of assay conditions Gradients may be programmed at any step of any cycle of the protocol The gradient option allows input of a temperature gradient of 1 25 degrees in total temperature span at tem...

Page 25: ...n is for the MyCycler to adjust temperatures at the maximum ramp rate with the minimum ramp time The MyCycler allows you to change temperatures at a fixed rate less than the maximum Ramp Rate Ramp rates are adjustable to 0 1 C sec Ramp rates must fall within the range of 0 1 to 2 5 C per second for heating and 0 1 to 1 5 C per second for cooling To set the ramp rate make sure a temperature is high...

Page 26: ...y Functions for the Edit Screen Softkey Option Description F1 F2 F3 F4 F5 Cycle Cycle Option Add Del Done Shifts the protocol display to the left by one cycle Shifts the protocol display to the right by one cycle Adds or removes increments or decrements Adds or removes cycles and steps Allows you to save revisit or reject changes made to the protocol Also allows you to run the protocol without sav...

Page 27: ...le will consist of the time and temperature for each step of every cycle any gradient or automatic increment or decrement to the time or temperature for each step of every repeated cycle the number of times each cycle is repeated 5 7 Naming a Protocol r A protocol is given a name when Selecting the Save Protocol As option Selecting the Rename Protocol option Protocols are named using the alphanume...

Page 28: ...emperature Measurement Sample Volume Mode 15 100 uL Algorithmic Measurement Hot Start i yes i Hot Start Temperature C Use right left arrows or Enter to move between fields Use up down arrows to change selections Numeric keys may also be used for numeric field entries In this screen you can choose to specify Hot Start and the hot start temperature If Hot Start is chosen the MyCycler will heat to th...

Page 29: ...51 1 49 PM I The screen also shows the current temperature of the reaction module block when block monitoring mode is selected or the calculated sample temperature when the temperature is monitored via the algorithm mode The current repeat number and dwell time of the current repeat will also be shown and will count down as the protocol progresses The name of the protocol is displayed to the right...

Page 30: ...brary Select the gradient protocol that will be converted From the Choose Operation Menu select Convert Gradient A menu will appear that contains a temperature for each row of the gradient Select the conversion temperature from the Choose Row Menu Save the protocol with a unique name Please note that when a gradient protocol is converted to a non gradient protocol the ramp rates associated with th...

Page 31: ... programming additional protocols You may return anytime to the Run screen by pressing F3 Run Screen 6 2 2 A Power Failure while a Protocol is Running If a running protocol is interrupted by a power failure the MyCycler will resume execution of the protocol automatically when power is restored The protocol will resume at the step with the highest set point temperature of the cycle that was interru...

Page 32: ...ume counting down at the point at which the protocol was paused F2 End Run The instrument will be heated or cooled to the idle temperature and you will return to the Home screen 6 2 4 Terminating a Running Protocol To terminate execution of a protocol before it has been completed go into y Pause mode as described above and select F2 End Run or press Stop key 6 2 5 End of Run Screen The End of Run ...

Page 33: ...The Instrument Name at the time of the run The thermal cycling protocol in text The Temperature Measurement Mode selected for the run The Sample Volume selected for the run if Algorithmic Measurement Mode was specified The Validation Report summary which lists the total number of exceptions and errors Ramp Rates of Gradient Steps 7 2 The Validation Report The Validation Report includes all the det...

Page 34: ... rRepoi t unload Utility sion l ono u incj MtREMOTC Dll Dick on a Hun to View Selected Report Type 17 17 17 17 17 IS 16 16 16 16 16 IB IB 8 7 7 7 7 7 7 7 7 6 6 s 6 6 6 2882 2882 2882 2802 2002 2002 2882 2802 2882 2882 2802 2802 2002 2082 2882 2882 2882 2882 2002 2002 2002 2002 20B2 20B2 2002 2082 2882 1 28PM validation 11 51AM validation 18 45AM validation 9 36AM validation 9 34AH chi omS 5 25PM v...

Page 35: ...emory 8 1 3 Set Date and Time Choose this option to set the current date and time The changes you make will not be saved unless you press F5 Accept Changes You may press F1 Cancel at any time to cancel the changes you have made and to close the Set Date and Time display 8 1 4 Set Display Contrast Choose this option to adjust the display contrast of the LCD screen The changes you make will not be s...

Page 36: ...o close the Idle Temperature Mode display 8 2 5 Lid Temperature Control Choose this option to specify the heated lid control You may choose between the following options Set lid temperature to any value from 100 C to 110 C or turn off lid temperature control completely Set the lid temperature to 40 C or turn off lid temperature control completely when block temperature is below 25 C Press F5 Accep...

Page 37: ...st of up to 20 characters The instrument name cannot be blank The new Instrument Name will be displayed on the Home screen as well as in Validation Reports and Run Reports for subsequent runs 8 2 8 Beeper Options Choose this option to set the instrument to make a particular sound for a number of different occasions End of Run Sets the beep option for whenever a protocol ends Error Sets the beep op...

Page 38: ...ning the Unit _ You should ensure that no liquid is spilled onto or into the MyCycler In addition periodically wipe it clean of dust and other residue that comes with normal operation of the instrument Use a soft lint free cloth and de ionized water 10 2 Replacing a Fuse or Battery The fuse is located on the rear panel of the instrument If the MyCycler does not turn on as indicated by its LED loca...

Page 39: ...ill not go to 4 degrees Condensation on the tops of tubes or plates menu Lid heater does not work Crushed tubes LCD too light or dark LCD panel blank but fan runs No fan but LCD panel on Time and date are not retained when power is off Operation Not Possible message Blown fuse in power entrymodule Bad power cord Circuit tripped Wrong fuse installed Ambient temperature too hot Lid heater turned off...

Page 40: ...fferent name Press Enter key Incorrect password entered You pressed an inappropriate key for the selected item Time or Temperature values were outside allowed ranges If a cycle is repeated you may not specify an infinite dwell time within the cycle Programming a protocol with more than nine cycles Programming a protocol with a cycle containing more than nine steps Pressing the option softkey when ...

Page 41: ...t least 2 5 C sec maximum heating rate and 1 5 C sec maximum cooling rate Less than 3 minutes to cool from 40 C to 4 C less than 0 5 C 0 5 C to NIST traceable standard after 30 seconds at 90 C block mode Well to well uniformity of 0 5 C within 30 seconds after arrival at 90 C r Input Gradient Range Functional Gradient Range Minimum Temperature of Gradient Maximum Temperature of Gradient Gradient A...

Page 42: ... to 99 00 01 99 59 minutes Yes Templates for cycling sequencing Touchdown RT PCR Nested PCR Gradient temperature PCR long PCR Authorized Thermal Cycler Note Use of the MyCycler with authorized reagents also provides a limited PCR license in accordance with the label rights accompanying such reagents Some applications may require licenses from other parties EN 61010 TUV approved Compliance with EN6...

Page 43: ...s for 0 2 ml tubes and plates natural 120 TCS 0803 Optical Flat 8 Cap Strips for 0 2 ml tubes and plates ultraclear 120 TBS 1201 0 2 ml 12 Tube Strips Without Caps natural 100 TCS 1201 Domed 12 Cap Strips for 0 2 ml tubes and plates natural 200 MLP 9601 Multiplate 96 Well 0 2 ml Unskirted PCR Plates natural 25 MSB 1001 Microseal B Adhesive Seals 100 223 9442 96 Well PCR Plate Sealing Mats 5 170 88...

Page 44: ... Hong Kong 852 2789 3300 Hungary 36 1 455 8800 India 91 124J 2398112I3I4 5018111 6450092 93 Israel 03951 4127 Italy 39 02 216091 Japan 03 5811 6270 Korea 82 2 3473 4460 Latin America 305 894 5950 Mexico 55 52 00 05 20 The Netheriands 0318 540666 New Zealand 64 9 415 2280 Norway 23 38 41 30 Poland 48 22 331 99 99 Portugal 351 21 472 7700 Russia 7 095 721 1404 Singapore 65 64153188 South Africa 00 2...

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