Roche MagNA Pure 96 Training Manual

Hide thumbs

Table Of Contents

Table of Contents

Quick Links

MagNA Pure 96 System

Customer Training Guide, Version 1.0

Software Version 2.0

December 2010

Table of Contents

Need help?

Do you have a question about the MagNA Pure 96 and is the answer not in the manual?

Questions and answers

Summary of Contents for Roche MagNA Pure 96

Page 1 MagNA Pure 96 System Customer Training Guide, Version 1.0 Software Version 2.0 December 2010...
Page 3: Table Of Contents
Conventions Used in this Guide ......................6 Warnings and Precautions ........................8 Start-up Starting the MagNA Pure 96 Instrument ..................11 Starting the MagNA Pure 96 Software ................... 12 Preparing the MagNA Pure System ....................13 System fluid ............................... 16 Waste containers .............................
Page 4 Table of Contents MagNA Pure 96 System, Customer Training Guide V1.0...
Page 5: Prologue
Nonnenwald 2 82372 Penzberg, Germany Every effort has been made to ensure that all the information contained in the MagNA Pure 96 Customer Training Guide is correct at the time of printing. However, Roche Diagnostics GmbH reserves the right to make any changes necessary without notice as part of ongoing product development.
Page 6: Trademarks
MagNA Pure 96 Kits, for the purpose of life science research only. The MagNA Pure 96 System is intended for life science research only. It is not for use in diagnostic pro- cedures.
Page 7 Refers to an imminent dan- ger that may result in death or serious personal injury. ULTRAVIOLET LIGHT This symbol indicates that the MagNA Pure 96 Instrument con- tains high-energy ultraviolet lamps which can cause serious temporary eye and skin irritation. Never expose unprotected eyes or skin to the UV light.
Page 8: Warnings And Precautions
Make sure you carefully read and understand the Roche Diagnostics safety statements contained in this section. This information should be kept for future reference and made available to new employees. Al- ways keep this Customer Training Guide available near the MagNA Pure 96 Instrument for use by all op- erators.
Page 9 UV light. General Precautions The MagNA Pure 96 Instrument is designed to ensure safe operation. However, since biological research sample material may be processed in the instrument, there is a possible risk of infection. Therefore, when handling potentially infectious material, always follow standard safety procedures and bear in mind the following steps to minimize the chance of contamination or infection.
Page 10 Maintenance" of the "MagNA Pure 96 Operator’s Guide"). The MagNA Pure 96 Instrument is not a fully airtight device. There is an air flow under the instru- ment platform. Although all air flow from the platform is filtered through the dust filters (see section "Main Components"...
Page 11: Start-Up
Starting the MagNA Pure 96 Instrument The main switch of the MagNA Pure 96 Instrument is located on the bottom right side of the instrument. See chapter "System Description" in the "MagNA Pure 96 Customer Training Guide" for a detailed de- scription of the instrument parts.
Page 12: Starting The Magna Pure 96 Software
User ID: Admin Initial Password: MagNAPure96 These values specify the admin user for the MagNA Pure 96 Software and the initial password. Af- ter entering the initial password at the first time you login, you are prompted to change the admin password.
Page 13: Preparing The Magna Pure System
Select the check box in front of Prime. In the global action bar click Start. The MagNA Pure 96 Instrument is primed. When the priming is fin- ished successfully, the Prime entry in the tree view is marked with the symbol.
Page 14 "Maintenance and Care" in the "MagNA Pure 96 Operator’s Guide". In the MagNA Pure 96 Software, select the Instrument tab. In the Instrument tab, select the Maintenance & Service sub-tab. In the tree view, select Daily Maintenance. The substructure below Daily Maintenance is expanded.
Page 15 Preparing the MagNA Pure System To confirm daily maintenance In the MagNA Pure 96 Software, select the Instrument tab. In the Instrument tab, select the Maintenance & Service sub-tab. In the tree view, select Daily Maintenance. The substructure below Daily Maintenance is expanded.
Page 16: System Fluid
Description" in the "MagNA Pure 96 Operator’s Guide". There is either an internal or an external container for the system fluid. The MagNA Pure 96 Instrument checks if there is enough system fluid left for a purification run of 96 samples. If there is not enough, the status of the system fluid is indicated as inadequate in the instrument status area of the Stage sub-tab in the MagNA Pure 96 Software.
Page 17 Preparing the MagNA Pure System System fluid Press the release knob on the aspiration port and extract the tube. Place the tube in the holder in the top left corner of the compartment frame. Remove the aspiration port from the empty container. To prevent contamination of the aspiration port, transfer it immediately into the new system fluid container.
Page 18 Insert the new system fluid container completely into its compartment. In the MagNA Pure 96 Software switch to the Workplace tab and then to the Stage sub-tab. In the instrument status area click Replace. The Replace System Fluid dialog box opens.
Page 19 To replace the external system fluid container If there is not enough system fluid available for a purification run of 96 samples the MagNA Pure 96 Software indicates the system fluid status as inappropriate in the instrument status area of the Stage sub- tab.
Page 20: Waste Containers
The waste container collects the liquid waste during a purification run. There is either an internal or an external container for the liquid waste. The MagNA Pure 96 Instrument checks if there is enough capacity left in the waste container for a purification run of 96 samples. If there is not, the capacity status of the waste container is indicated as inadequate in the instrument status area of the Stage sub-tab in the MagNA Pure 96 Software.
Page 21 Rinse the waste container with a suitable disinfection/decontamination reagent, see chapter "Mainte- nance and Care" in the "MagNA Pure 96 Operator’s Guide". Clean the waste container with water and dry it on the outside before inserting it into the instrument.
Page 22 Close the load flap. To drain the external waste container Fold back the securing clip of the waste tube fastener. Remove the sensor and the waste tube from the external waste container. MagNA Pure 96 System, Customer Training Guide V1.0...
Page 23 Preparing the MagNA Pure System Waste containers Remove the black adapter from the external waste container. Remove the silver fastener from the external waste container. Start-up...
Page 24 Close the external waste container with its lid. Transfer the waste container horizontally to prevent liquid spillage. Remove both caps: the one from the opening hole the one from the vent hole MagNA Pure 96 System, Customer Training Guide V1.0...
Page 25 Drain the waste container. Discard the contents according to local regulations. Rinse the waste container with a suitable disinfection/decontamination reagent, see chapter "Mainte- nance and Care" in the "MagNA Pure 96 Operator’s Guide". Clean the waste container with water and dry it outside, before reinstalling the adapter and the sensor.
Page 26 MagNA Pure 96 System, Customer Training Guide V1.0...
Page 27: Main Applications
For each application the procedures describe: How to prepare the samples. How to specify the setup parameters. Unless otherwise stated, the applications are performed for 96 samples and the default MagNA Pure 96 Plates are used: The MagNA Pure 96 Processing Cartridge as source plate.
Page 28 MagNA Pure 96 System, Customer Training Guide V1.0...
Page 29: Setting Up A Run For Purification Of Genomic Dna From Whole Blood Samples
This procedure describes the purification of genomic DNA from 96 samples of 200 µl fresh or frozen whole blood using the MagNA Pure 96 DNA and Viral NA Small Volume Kit. Setting up a run for puri- fication of genomic DNA comprises the following steps: 1.
Page 30 Select the IC3 internal control and click the icon on the right. The Edit Internal Control Barcode dia- log box opens. In the Barcode field enter the barcode either Manually or With the handheld barcode scanner MagNA Pure 96 System, Customer Training Guide V1.0...
Page 31 Setting up a Run for Purification of Genomic DNA from Whole Blood Samples Preparing the Samples Click the Expiration Date cell and enter the date until when the internal control reagent is valid. Internal controls are valid up to the next day by default. Click the Tests cell and select the 96 as number of samples for which the internal control is to be ap- plied.
Page 32: Defining The Parameters In The Software
In the Volume group, select 50 in the Elution list. Select IC3 from the Internal Control list. Select None from the Custom Source Plate list. Select MP96 Output Plate from the Target Plate list. MagNA Pure 96 System, Customer Training Guide V1.0...
Page 33 Setting up a Run for Purification of Genomic DNA from Whole Blood Samples Defining the Parameters in the Software Specify the sample data in the sample table with the names and positions of all samples placed in the source plate. You can: Enter new sample names from scratch.
Page 34: Loading The Stage
Gloves should be worn for all handling of isolation reagents and disposables, all manipulation steps in- side the MagNA Pure 96 Instrument, and all manual pipetting steps. When removing the racks from the instrument, the outline color of the individual racks on the ‘Stage’...
Page 35 Setting up a Run for Purification of Genomic DNA from Whole Blood Samples Loading the Stage In the shaking section of the bottle rack, pull back the clip of the rearmost bottle holder (position 1) and insert the first MGP bottle. Press the bottle firmly into the holder until the clip slips over the bottle shoulder.
Page 36 Insert the left reagent rack back into the stage and press it in until its outline is displayed in blue on the Stage sub-tab. Pull the right reagent rack all the way out of the stage. MagNA Pure 96 System, Customer Training Guide V1.0...
Page 37 Setting up a Run for Purification of Genomic DNA from Whole Blood Samples Loading the Stage Place a processing cartridge in position 1 of the right reagent rack. Remove the blue lid from reagent tray 1. Do not remove the foil from the reagent containers. Place reagent tray 1 in position 2 of the reagent rack as recommended on the Stage sub-tab.
Page 38 The tip rack provides the necessary tips packed in tip trays for a purification run. Pull the tip rack all the way out of the stage. Place three tip trays in the tip rack as recommended on the Stage sub-tab of the MagNA Pure 96 Soft- ware.
Page 39 Handle the purification rack carefully because of its imbalance. Do not place it on the load flap, to prevent it from falling off. Place an empty MagNA Pure 96 Output Plate in position 4 of the purification rack. Place the processing cartridge with the pre-pipetted samples in position 1 of the purification rack.
Page 40 Press the waste rack into the stage until its outline is displayed in blue on the Stage sub-tab. Close the load flap. Resource Check About five seconds after the load flap is closed, the MagNA Pure 96 Instrument locks it and starts the re- source check. The resource check ensures that All required accessories for the defined run are present.
Page 41 "Troubleshooting" in the "MagNA Pure 96 Operator’s Guide". After the resource check, the MagNA Pure 96 Instrument unlocks the load flap. If positions on the Stage sub-tab are displayed in yellow or red, proceed as follows: Open the load flap of the MagNA Pure 96 Instrument.
Page 42 MagNA Pure 96 System, Customer Training Guide V1.0...
Page 43: Setting Up A Run For Purification Of Cellular Rna From Cultured Cells
This procedure describes the purification of cellular RNA from 1 x 10 cultured cells resuspended in 200 µl PBS using the MagNA Pure 96 Cellular RNA Large Volume Kit. Do not use more than 1 x 10 cells. If necessary, count the cells prior to the purification run. If the cell number should be too high, dilute the cells using PBS.
Page 44: Defining The Parameters In The Software
Order type Kit name Purification protocol Sample and elution volume Number and name of samples Once it has this information, the software calculates the type and amount of isolation reagents and dis- posables. MagNA Pure 96 System, Customer Training Guide V1.0...
Page 45 Setting up a Run for Purification of Cellular RNA from Cultured Cells Defining the Parameters in the Software To create the order In the Overview tab click . The Orders sub-tab opens. Above the Test Parameter area, select Purification from the order type list. Select the Cellular RNA LV kit from the MagNA Pure Kit Name list.
Page 46: Loading The Stage
Gloves should be worn for all handling of isolation reagents and disposables, all manipulation steps in- side the MagNA Pure 96 Instrument, and all manual pipetting steps. When removing the racks from the instrument, the outline color of the individual racks on the ‘Stage’...
Page 47 Setting up a Run for Purification of Cellular RNA from Cultured Cells Loading the Stage In the shaking section of the bottle rack, pull back the clip of the rearmost bottle holder (position 1) and insert the first MGP bottle. Press the bottle firmly into the holder until the clip slips over the bottle shoulder.
Page 48 The tip rack provides the necessary tips packed in tip trays for a purification run. Pull the tip rack all the way out of the stage. Place three tip trays in the tip rack as recommended on the Stage sub-tab of the MagNA Pure 96 Soft- ware.
Page 49 Press the waste rack into the stage until its outline is displayed in blue on the Stage sub-tab. Close the load flap. Resource Check About five seconds after the load flap is closed, the MagNA Pure 96 Instrument locks it and starts the re- source check. The resource check ensures that All required accessories for the defined run are present.
Page 50 Setting up a Run for Purification of Cellular RNA from Cultured Cells Loading the Stage After the resource check, the MagNA Pure 96 Instrument unlocks the load flap. If positions on the Stage sub-tab are displayed in yellow or red, proceed as follows: Open the load flap of the MagNA Pure 96 Instrument.
Page 51: Performing A Run
The tip park position is empty. If during the load check the MagNA Pure 96 Instrument detects a lack of waste capacity, a message is dis- played. For more information on the load check, see chapter "Software" in the "MagNA Pure 96 Opera- tor’s Guide".
Page 52: End Of A Run
Cellular RNA Small Volume Kit: about 60 minutes. Cellular RNA Large Volume Kit: about 90 minutes. A message box notifies you that the run has finished. Accept the message with OK. The Overview tab is displayed. MagNA Pure 96 System, Customer Training Guide V1.0...
Page 53 Open the load flap. The Overview tab then indicates the used accessories and disposables. Click the button. The results are displayed on the Results sub-tab of the MagNA Pure 96 Soft- ware, see chapter "Software" in the "MagNA Pure 96 Operator’s Guide".
Page 54: Unloading The Instrument
Unloading the Instrument Unloading the Instrument To prepare the MagNA Pure 96 Instrument for another run, unload and discard the disposables and take care of the used reagents and eluates. The Stage sub-tab indicates the accessories and disposables used. Figure 4 Stage Sub-Tab after a Purification Run When you open the load flap after a purification run, the cooling plate is removed from under the output plate.
Page 55 If there are some tips left in a tray, do not change the number of tips in the tray manually. The re- source inventory of the MagNA Pure 96 Software keeps track of all used resources and integrates partially used resources, e.g., tip trays, into its resource calculation.
Page 56: Handling Partially Used Reagent Sets
Partially used reagent sets are created if a purification run has not exceeded the number of re-uses for a given set of reagents. Partially used reagent sets can be stored and used for another purification run. The MagNA Pure 96 Database administers all reagent sets, see chapter "Software" in the "MagNA Pure 96 Operator’s Guide".
Page 57 Unloading the Instrument Handling Partially Used Reagent Sets To unload the reagent racks Pull the reagent racks all the way out of the stage. Remove the processing cartridges and discard them according to local regulations. Unload the reagent trays. If there is any isolation reagent left in the reagent trays, seal them with a sealing foil for subsequent pu- rification runs: Place a sealing foil over the reagent tray and remove the perforation.
Page 58: Handling The Waste
Discard the tip trays with the wasted tips according to local regulations. Insert the waste rack back into the stage. If the MagNA Pure 96 Instrument uses an internal waste container, it is recommended that you drain it after each run.
Page 59: Performing A Volume Transfer
2. Loading the instrument, see section Loading the Stage. In this example the eluates reside in the MagNA Pure 96 Output Plate (defined as source plate in position ® 4 of the purification rack) and are transferred to a LightCycler 480 Multiwell Plate 96 (defined as target plate in position 3 of the purification rack).
Page 60 Handle the purification rack carefully because of its imbalance. Do not place it on the load flap, to prevent it from falling off. Place the MagNA Pure 96 Output Plate with the eluates purified by the same instrument before in posi- tion 4 of the purification rack.
Page 61: Loading The Stage
Gloves should be worn during all handling of isolation reagents and disposables, all manipulation steps inside the MagNA Pure 96 Instrument, and all manual pipetting steps. When removing the racks from the instrument, the outline color of the individual racks on the ‘Stage’...
Page 62 Insert the rack carefully so as not to spill the PCR master mix onto the stage. Press the purification rack into the stage until its outline is displayed in blue on the Stage sub-tab. On the Stage sub-tab of the MagNA Pure 96 Software, click next to the Rack Position 3 field in the Purification Rack Overrides group.
Page 63 The tip rack provides the necessary tips packed in tip trays for a volume transfer. Pull the tip rack all the way out of the stage. Place one tip tray in the tip rack as recommended on the Stage sub-tab of the MagNA Pure 96 Soft- ware.
Page 64 Performing a Volume Transfer Loading the Stage Resource Check About five seconds after the load flap is closed, the MagNA Pure 96 Instrument locks it and starts the re- source check. The resource check ensures that All required accessories for the defined run are present.
Page 65 Performing a Volume Transfer Loading the Stage Once the resource check is successfully completed, the Stage sub-tab of the MagNA Pure 96 Software looks as follows: Figure 5 Stage Sub-tab after a Successful Resource Check During the load check, the MagNA Pure 96 Instrument requests a visual confirmation that the custom plate is positioned as displayed on the Stage sub-tab.
Page 66 MagNA Pure 96 System, Customer Training Guide V1.0...
Page 67: Shutting Down The System
Shutting Down the System A shutdown of the system comprises the following steps: Ensure that the MagNA Pure 96 Instrument is properly cleaned and decontaminated. Exit the MagNA Pure 96 Software. Switch off the instrument. To shut down the software Ensure that all necessary data is saved.
Page 68 MagNA Pure 96 System, Customer Training Guide V1.0...
Page 69: D Appendix
..........32 ............. 51 Custom plate Local administrator register initial password ............62 .......... 12 visual confirmation ........65 MagNA Pure 96 Instrument ................. 7 ............11 genomic main switch ............29 ..........11 DNase solution start ............44 ............11...
Page 70 ............40 suspension cells ...........44 unload ............58 Setup Waste wack DNase solution ..........44 load ............. 63 WEEE ..............7 For life science research only. Not for use in diagnostic procedures. MagNA Pure 96 System, Customer Training Guide V1.0...