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Summary of Contents for STILLA Geode H14000
- Page 1 TILLA Geode for the naica® system User Manual Geode H14000...
- Page 2 Stilla Technologies. Stilla Technologies reserves the right to modify its products and services at any time. Information contained in this User Manual is subject to change without notice. Stilla Technologies assumes no liability for errors or any damage resulting from the use of this information.
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Page 3: Table Of Contents
Geode H14000 User Manual Table of Contents INTRODUCTION TO CRYSTAL DIGITAL PCR™ Purpose of the document Overview of the Crystal Digital PCR™ Workflow Intended use of the naica® system Citing the naica® system in scientific publications, presentations, seminars, etc. MATERIALS AND EQUIPMENT The packaging of the Geode contains: Safety instructions for the naica®... - Page 4 Geode H14000 User Manual Geode embedded software license Third-party licenses...
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Page 5: Introduction To Crystal Digital Pcr
The workflow and the different hardware components are described in detail. Overview of the Crystal Digital PCR™ Workflow Crystal Digital PCR™ is Stilla Technologies’ next-generation technology for the absolute quantification of nucleic acids. Using cutting-edge microfluidic innovations, this technology integrates the digital PCR process in a single consumable (Fig. -
Page 6: Intended Use Of The Naica® System
Research Use Only. Not for use in diagnostic procedures. ® Stilla Technologies recommends installing the devices in a clean, low-lint environment at an optimal operating temperature between 15-25°C. In general, Crystal Digital PCR™ can be performed with all types of DNA sample types on the naica®... -
Page 7: Materials And Equipment
Geode H14000 User Manual Materials and Equipment a) The packaging of the Geode contains: o For the Geode: ▪ The main instrument with the magnetic frame for Sapphire chips o For the peripheral box: ▪ Compressed air system (ISPTLAPG3) ▪... -
Page 8: B) Safety Instructions For The Naica® System
Keep the lid closed until the temperature reaches 30°C or less. Only use materials (chips and caps) provided by Stilla Technologies, which are heat resistant at temperatures up to 95°C. - Page 9 • Stilla Technologies cannot be held responsible for any damages or injuries arising from improper operation. • Do not use the instruments if any parts are broken, chipped, rusty, or if the power cables are damaged in any way.
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Page 10: C) Labeling
Geode H14000 User Manual • The power cord of the Geode and the compressed air system (ISPTLAPG3) must be connected to a wall outlet with a grounded conductor. • For the Geode and the compressed air system (ISPTLAPG3), the mains voltage must correspond to the range given in the product specification. -
Page 11: D) Declaration Of Conformity
Geode H14000 User Manual The product should be disposed of in an appropriate recovery and recycling structure. CE marking (manufacturer's declaration that the product meets the requirements of the applicable EC directives). Label type of the Geode d) Declaration of conformity To view the declaration of conformity certificate, please visit https://www.stillatechnologies.com/technical-resources/naica-system-prism3/. -
Page 12: E) Specifications
The initial naica system installation should always be executed by a Stilla Technologies Service ® Specialist. Following the installation, the naica® system performance will be validated according to Stilla Technologies specifications. At the end of the naica® system installation, Stilla Technologies... -
Page 13: G) Materials Required But Not Supplied
Materials required but NOT supplied Crystal Digital PCR™ recommended PCR mastermixes Depending on the application, Stilla Technologies recommends the use of naica® multiplex PCR MIX for fluorescently labeled probe-based digital PCR assays (TaqMan®) or naica® PCR MIX for EvaGreen® dye-based digital PCR assays for optimal results with Crystal Digital PCR™ for DNA amplification. -
Page 14: I) The Reference Dye
However, in case the red channel has to be used for droplet detection, Alexa Fluor® 647 can be added as a reference dye. Stilla Technologies recommends adding Alexa Fluor® 647 as reference dye to all EvaGreen® experiments. -
Page 15: Protocol For Setting Up Crystal Digital Pcr
Reaction mix preparation For Crystal Digital PCR™, Stilla Technologies recommends using the naica® PCR MIX reagents https://www.stillatechnologies.com/naica-system-dpcr-mixes/. Always thaw each reagent, vortex, and spin briefly in a microcentrifuge to collect the material in the bottom of the tube. - Page 16 In addition, the efficiency of a single plex reaction should always be evaluated first before proceeding to a multiplex one. For optimal results, Stilla Technologies recommends the use of high-quality quenchers such as Black Hole Quencher® (BHQ®). These quenchers absorb broadly, do not emit light, and thus allow the use of multiple reporters with the same quencher (see Table 1 for compatible fluorophores).
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Page 17: Crystal Digital Pcr™ Geode Protocol
Geode H14000 User Manual Crystal Digital PCR™ Geode protocol There are two microfluidic consumables compatible with the Geode: the Sapphire chips and the Opal chips. The Sapphire chips are compatible with all Geode versions. The Opal chips are only compatible with Geode version H14000 running with software version 2.6.0 and above. - Page 18 Geode H14000 User Manual Magnetic Opal chip clip-on cushions Figure 4: Magnetic clip-on cushions can be easily clipped next to the existing pressure points. 6) Following, ensure the respective Opal chip magnetic frame is placed on the thermal plate; chamfer placed on the lower left edge.
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Page 19: Starting A Crystal Digital Pcr™ Run On The Geode
Crystal Digital PCR™ performance. If a modification is required, please contact Stilla Technologies before proceeding. Stilla Technologies recommends the use of the following cycling parameters for PCR and RT- PCR experiments: Table 2: Crystal Digital PCR™ template called “FAST-Template Stilla PCR 45 cycles” using the recommended naica®... - Page 20 Geode H14000 User Manual Table 3: Crystal Digital PCR™ template called “Template Stilla PCR 45 cycles” using the recommended naica® multiplex PCR MIX (Fluorescently labeled probes) with Sapphire chips. The total duration of the default program is approximately 2 hours and 30 min.
- Page 21 Geode H14000 User Manual iii. Release The release phase consists of the return of temperature and pressure conditions to the ambient state. It should always be the last step of Crystal Digital PCR™ of the Geode program. Figure 7: Typical graph showing the evolution of the measured pressure and temperature during the run of a default program for Sapphire chips loaded on the Geode named “Template...
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Page 22: Additional Protocols On Demand
How to use the Geode Software User Interface) Additional protocols on demand Stilla Technologies continuously develops new protocols to support the optimal utilization of the variety of naica® system applications. All support protocols are accessible on our website https://www.stillatechnologies.com/technical- resources/naica-system-prism3/. -
Page 23: Switch On/Off The Instrument
Geode H14000 User Manual Figure 8: The main panel of the Geode display. Note: The default password for the Administrator account is “admin”. Stilla Technologies does not recommend modifying the default user settings using the login button. Switch on/off the instrument To switch on: press the black power button located at the rear of the instrument and wait for initialization. - Page 24 Geode H14000 User Manual 3) Available commands (program steps): Partition This command should always be the first step of a Crystal Digital PCR™. It generates droplets and partitions the sample (enter 40 degrees for the temperature parameter and select “Sapphire V1” in the drop-down menu).
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Page 25: Edit A Pre-Existing Program
“local/scripts”. Four template programs recommended by Stilla Technologies are provided by default: • The “Sapphire Template PCR 45 cycles.js” program to perform a PCR experiment for Sapphire chips based on 45 cycles. -
Page 26: Run
“Pressurization” command. • The internal source pressure of the Geode during the cycling step is fixed by Stilla Technologies and should not be modified by the user for optimal results. If a modification is required, please contact Technical Support before proceeding 1) In the main panel, press “Run... -
Page 27: Pause A Program
Geode H14000 User Manual Figure 12: Live graph of measured pressure and temperature during a run. 5) When the run is done, a pop-up window is displayed with the message “PCR completed successfully, touch the screen to continue”. Touch the screen to close it. -
Page 28: Import Or Export A Program
Geode H14000 User Manual 2) After aborting an experiment, a Good Laboratory Practice (GLP) report can be generated by pressing the “validation icon” on the display. To avoid the generation of a GLP report, press the “cross icon” . To avoid the generation of GLP reports in the future, press the “double cross icon”... -
Page 29: Other Functionalities
All other functionalities can be accessed by pressing “System” in the main panel. These functions are intended for maintenance purposes only and shall only be modified by Stilla Technologies’ Service Specialist or following detailed instructions by Stilla Technologies Service Specialist. -
Page 30: Troubleshooting
Geode H14000 User Manual Troubleshooting Display Screen Error Messages The Geode: Description of the Recommendations error message Based on the phase of the run in which the power failure occurs, there might be two different scenarios: 1) The power failure occurred right at the beginning of the run. - Page 31 Geode H14000 User Manual If the problem persists after having checked that the gasket around the thermal plate is correctly placed, please extract the live and system logs (refer to Export Live Logs or system logs for troubleshooting support) and contact Technical Support.
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Page 32: Maintenance And Technical Support
Maintenance operations of the Geode should be executed by a Stilla Technologies Technical Specialist during a visit on-site or by the return of the device to Stilla Technologies premises. Stilla Technologies cannot be held responsible for any intervention or modification done by the user on devices of the naica®... -
Page 33: B) Decontamination
Geode H14000 User Manual j) Decontamination Material necessary for the decontamination procedure: o Gloves; o Glasses; o Mask; o Laboratory coat; o Hydroalcoholic disinfectant solution for device surfaces commonly used for biological and medical devices (Ex. Phagospray). Decontaminant solution for device’s surfaces used for biological and medical devices, specifically targeting nucleases and DNA contaminations (Ex. -
Page 34: License Information
Geode H14000 User Manual License information a) Geode embedded software license ©2017-2021 Stilla Technologies. All rights reserved. For research use only. Not for use in diagnostic procedures. b) Third-party licenses The software embedded in the Geode uses the following third-party software components: •... - Page 35 Villejuif Biopark 1, Mail du Professeur Georges Mathé 94800 Villejuif, FRANCE Phone: (+33) 09 82 29 50 50 North American Office Stilla Technologies Inc. 66 Cherry Hill Drive, Suite 110 Beverly MA 01915, USA Tel: 1-833-888-0150 For sales related queries...
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