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December 2017 QIAGEN GeneReader ® User Manual For use with Advanced Process Flow (APF/HP) Instrument Configuration and GeneReader™ Software version 1.6 For Research Use Only. Not for use in diagnostic procedures. Sample to Insight__...
Status lights ..................22 3.3.2 Flow Cell door ..................22 3.3.3 Hood ....................23 3.3.4 Fluidic drawer ..................24 3.3.5 USB ports ....................24 3.3.6 Power switch ..................24 3.3.7 Power cord socket ................24 QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
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Status of Configuration view ..............39 6.1.7 File handling ..................41 Workflow procedures ...................41 6.2.1 Flow Cell setup ..................41 6.2.2 Loading and running the GeneReader .............43 6.2.3 Staggered loading of Flow Cells ............43 QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
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Technical Data .......................66 Environmental conditions – operating conditions ..........66 Mechanical data and hardware features ............66 Workstation specifications (hardware and software) .........66 9.3.1 Workstation ..................66 9.3.2 Software ....................67 Appendix A ........................68 QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
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Liability Clause ......................72 Appendix B ........................73 Ordering Information ....................73 Appendix C ........................74 Safety Information Translated into German and French ..........74 Sicherheitsinformationen ..................74 Informations de Sécurité ..................74 Index ..........................86 QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
Sequencing Q Wash Buffers procedure (9), cat. no. 185905, purchased separately GeneReader instruments released prior to the Advanced Process Flow instrument configuration can be upgraded to the APF/HP instrument configuration. QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
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Approximately 45 hours (4), cat. no. 185201 sequencing time GeneRead Sequencing Buffer • Parallel or staggered Q Kit, (16) cat. no. 185901 processing of up to 4 Flow Cells QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
Introduction Thank you for choosing the GeneReader. We are confident it will become an integral part of your laboratory. Before using the GeneReader, it is essential that you read this user manual carefully and pay particular attention to the safety information. The instructions and safety information in the user manual must be followed to ensure safe operation of the instrument and to maintain the instrument in a safe condition.
QIAGEN customers are a major source of information regarding advanced or specialized uses of our products. This information is helpful to other scientists as well as to the researchers at QIAGEN. We therefore encourage you to contact us if you have any suggestions about product performance or new applications and techniques.
The GeneReader is intended for use by professional users trained in molecular biological techniques and in the operation of the GeneReader. Requirements for GeneReader users Table 1covers the general level of competence and training necessary for transportation, installation, use, maintenance and servicing of the GeneReader.
Safety Information Before using the GeneReader, it is essential that you read this user manual carefully and pay particular attention to the safety information. The instructions and safety information in the user manual must be followed to ensure safe operation of the instrument and to maintain the condition of the instrument to ensure its continued safe operation.
Servicing of the GeneReader instrument must only be performed by a QIAGEN Field Service Specialist. Perform the maintenance as described in Section 7. QIAGEN charges for repairs that are required due to incorrect maintenance. WARNING Risk of personal injury and material damage (W2) The GeneReader is too heavy to be lifted by one person.
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(C3) Do not place any items on top of the instrument. In case of emergency, power OFF the GeneReader using the power switch at the right, rear panel of the instrument and unplug the power cord from the power outlet.
Risk of electric shock (W9) Do not open any panels on the GeneReader. Risk of personal injury and material damage Only perform maintenance that is specifically described in this user manual. QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
To ensure satisfactory and safe operation of the GeneReader, follow the advice below: The line power cord must be connected to a line power outlet that has a protective conductor (earth/ground). Place instrument in a location so that the power cord is accessible and can be connected/disconnected.
Used labware may contain hazardous chemicals. Waste must be collected and disposed of properly according to local safety regulations. For more information about how to dispose of the GeneReader instrument, see “Waste Electrical and Electronic Equipment (WEEE)” in Appendix A, page 70.
Mechanical hazards The door of the GeneReader must remain closed during operation of the instrument. Only handle the flow cell loading station when the flow cell door has been released by the software. Note: Only power OFF the instrument if the process has been properly terminated by the software and the flow cell door is closed.
WEEE about the disposal of waste right side panel electrical and electronic equipment for Europe and rest of the world. Type plate on the – Legal manufacturer. right side panel QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
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Sticker on the – Sticker indicating GeneReader with instrument, right Advanced Process Flow (APF) and side panel UMI Advanced (HP) instrument configuration QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
The GeneReader software provides a FASTQ file of sequence information for each analyzed sample that is ready for QCI Analyze or GeneRead Link. QCI Analyze automatically runs an optimized workflow for GeneReader panels and generates a VCF result file that is ready for upload to QCI Interpret.
GeneReader Flow Cell. To read out the content of templates on each bead, the array of fragments is first subjected to reagents containing uniquely engineered dNTPs, as described above. These bases are incorporated by the addition of a modified DNA polymerase to the end of the growing strand of DNA in accordance with the base on the complementary strand.
Opening the Flow Cell door Flow Cells are inserted through the flow cell door. Opening the Flow Cell door is controlled by software. Note: The Flow Cell door cannot be opened manually. QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
The fluidic drawer must be closed (pushed all the way in until a clicking sound is heard) prior to manually pulling down the hood. Note: The Main Hood on the left side of the instrument must only be opened by QIAGEN Field Service Specialists.
3.3.8 Cooling air outlet Cooling air outlets are on the right side and back of the GeneReader. They allow cooling of the internal components. The instrument should not be positioned in close proximity to a wall that could block airflow.
Advanced Sequencing Q Handbook. The Flow Cell should be loaded into the GeneReader through the Flow Cell door with the bar code towards the left side of the GeneReader. QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
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Upon loading of a Flow Cell, the Flow Cell bar code reader scans the bar code on the Flow Cell and provides the information to the GeneReader software. If the Flow Fell has been inserted in the wrong orientation an error message is displayed.
Clinical Insight Analyze User Manual may be used. Site requirements The GeneReader must be located out of direct sunlight, away from heat sources, and away from sources of vibration and electrical interference. Refer to Section 9.1 for the operating conditions (temperature and humidity).
100–240 V AC, 50/60 Hz, max. 600 VA The workstation operates at: 100–240 V AC, 50/60 Hz, max. 400 VA Make sure that the voltage rating of the GeneReader and workstation are compatible with the AC voltage available at the installation site. WARNING...
AC power outlet that does not have a ground (earth) connection. 4.3.3 Installation of AC power cords, USB cables and workstation IMPORTANT: Make sure that the GeneReader and workstation power switches are set to the OFF position. Connect the power cords and USB cables as shown in the diagram below.
Windows ® shutdown command is issued shortly before backup power is lost. The UPS should be able to supply the GeneReader and workstation with a maximum 1000 VA for the desired time. AC Power Cord...
Getting started 4.5.1 Powering ON the GeneReader and workstation Power ON the GeneReader using the power switch located on the right side panel of the GeneReader. Power ON the workstation and monitor. Log in to the system using your password.
4.5.2 Software upgrade The GeneReader software is not preinstalled. QIAGEN Field Service will perform the installation. To upgrade software, follow the steps below: Confirm that the following requirements are met before you begin the upgrade process: A run is not being performed.
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The installer places shortcut icons for starting the GeneReader software on the desktop and in the start menu. In the start menu additional shortcuts are created to start the software in service mode, but they are intended for service purpose only.
Risk of material damage (C1) CAUTION Avoid moving the workbench and causing vibrations to the GeneReader during operation to prevent disturbing sensitive optical measurements. QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
Step-by-step loading instructions. Sequence detection. Generation of FASTQ data file. The software also provides step-by-step instructions for the maintenance wash that is part of routine GeneReader maintenance (see Section 7). QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
6.1.3 User interface The GeneReader software is divided into four distinct areas (see image above). At the top, the menu offers access to general functionalities. Below the menu bar, the navigation area contains quick links to the commonly used views and workflows. The main portion of the screen is dedicated to the work area, which displays the current setup of flow cells and status of a protocol run, and on the right side the message area displays messages relating to protocol function, setup and errors.
Status of Flow Cells view Status of Flow Cells is displayed in the main work area and displays an overview of all Flow Cells loaded inside the instrument. QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
Status of Fluids view The Status of Fluids view is displayed in the main work area and provides an overview of all fluids currently loaded on the GeneReader. QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
The user must provide the network share directory that the QCI Analyze experiment planner files will be stored, and the directory that the result data files will be saved to. For more information refer to the current version of the QIAGEN Clinical Insight Analyze User Manual.
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Third, the user must provide the time (in minutes) to wait for a retry if the data upload failed. For more information refer to the GeneRead Link User Manual. Note: Previous settings for the connection of the GeneReader software to an external experiment planner system are saved after connection settings are changed.
GeneReader instrument and software. 6.1.7 File handling Required files The GeneReader software performs an inventory of its own files and configuration upon start-up. If a message is shown about missing or invalid files, please contact QIAGEN Technical Services (see back cover). Workflow procedures 6.2.1...
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GeneReader software can be directly used for a Flow Cell setup. See “Protocol: Loading and Running the GeneReader” in the current QIAGEN GeneRead UMI Advanced Sequencing Q Handbook for a step-by-step guide on how to add a Flow Cell manually using the GeneReader software user interface.
Note: If GeneReader software is used for Flow Cell setup with staggered loading, ensure that sufficient reagents are loaded at the beginning of the run, for all of the planned Flow Cells 6.2.2 Loading and running the GeneReader See “Protocol: Loading and Running the GeneReader” in the current QIAGEN GeneRead UMI Advanced Sequencing Q Handbook for a step-by-step guide on how to load one or more Flow Cells using the GeneReader software user interface.
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\<timestamp>_<run_name>\FC<flow_cell_name>_<bar_code>\Analyze\<timestamp>_<flo w_cell_name>_FinalReport.pdf. An example file is as follow: D:\QIAGEN\GRSData\2016_10_06_133222_SampleRun\FC_FC1_2c0sbgi977zjkqbktbg 1vuj71\Analyze\1610061332_ FC1_FinalReport.pdf The FinalReport.pdf file contains important run information such as: General information about the run Sample information QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
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Reagent kits Wash kits Software version Quality score distribution Run metrics QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
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Yield [bases] reports the total number of base calls before demultiplexing. Yield Past Demultiplexing reports the total number of base calls for which a sample bar code could be identified. Sequence quality score Reads information QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
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Validity indicates if samples analyzed in a flow cell are “Valid” or “Invalid”. The GeneReader software calculates in the background the presence of unexpected bar codes in the pool of samples analyzed in each flow cell. If the number of reads belonging to unexpected bar codes exceeds 5% of the total number of all indexed reads, all samples of this Flow Cell are labeled as “Invalid”...
Routine maintenance (DI water wash) After a sequencing run has finished and the GeneReader will be idle or no other sequencing run is planned, a DI water wash will prevent the formation of air pockets and the drying out of the fluidic lines inside the instrument.
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The Flow Cell door will open. Load an empty or used Flow Cell (priming Flow Cell) to allow liquid flow. Close the Flow Cell door and click Next. QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
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Instrument will now prime with DI water. The Routine Maintenance wash will take about 15 minutes. Once complete, click Next. The Flow Cell door will open. Unload the priming Flow Cell. Close the Flow Cell door and click Next. QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
The reagent hood will open. Unload the reagent and wash kit. Empty the waste bottle. Close the hood and click Done. Note: If the GeneReader is not used immediately for another run, leave the reagent and wash bottles containing DI water in the system. This is important to ensure that the fluidic lines of the system do not dry out.
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Buffer) from the GeneRead UMI Sequencing Q Wash Buffer Kit. Add 100 ml DI water to the Maintenance Wash Buffer for a final volume of 1000 ml. Label a second empty 1000 ml bottle (QIAGEN GeneReader 1 liter bottle) with a Maintenance Wash Buffer sticker.
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The GeneReader instrument will begin to scan for Flow Cells. If prompted by the GeneReader, remove any Flow Cells, and close the Flow Cell door after removal (depending on the previous run, up to 3 Flow Cells may prompt for their removal from the GeneReader instrument).
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Load 50 ml conical tubes (QIAGEN standard 50 ml conical tubes) containing approximately 30–35 ml Maintenance Wash Buffer onto positions 1, 2, 4, 5, 6 and 8 of the reagent cooler, leaving positions 3 and 7 empty, according to Figure 9.
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Use Maintenance Wash Buffer bottle on position 11 for this re-fill: prepare new when the liquid level in the maintenance wash reagent tubes falls below the conical mark. QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
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An incorrect orientation may damage the instrument. Do not use force to close the reagent hood. If blocked, check the waste bottle orientation and correct if necessary before trying to close the hood again. QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
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20. The instrument will now start the water wash. The DI water wash will take about 40 minutes. After the final wash is complete, click Next. 21. The Flow Cell door will open. Unload the Flow Cell, close the Flow Cell door, and click Next. QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
Preparing the GeneReader fluidics lines for long-term storage If the GeneReader instrument will be stored for a prolonged period of time (i.e., no runs planned for longer than 1 month), the GeneReader must be prepared for storage by executing a DI water wash and the emptying of the fluidic lines.
7.2.4 Monthly cleaning procedure Thoroughly wipe the inside and outside of the GeneReader using the cleaning agents described in Section 7.3.1. IMPORTANT: Do not use alcohol or alcohol-based disinfectants or detergents to decontaminate the GeneReader hood. General cleaning procedures 7.3.1...
Do not use spray bottles to spray cleaning liquids onto surfaces of the GeneReader instrument. If solvents or saline, acidic or alkaline solutions are spilled on the GeneReader, or if QIAGEN buffers splash the instrument door, wipe the spilled liquid away immediately.
Service Support Agreements from QIAGEN (see back cover). Cleaning the workstation hard disk A sequencing run requires a large amount of hard disk space. Therefore, the GeneReader software provides a “Manage Files” Wizard to assist with backup tasks in case GeneRead Databank is not used as an external data management tool.
To include images in the service archive, select either All Images to archive all images or Special Images only to archive only specific images of interest for troubleshooting. QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
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Select a destination folder for the service archive by clicking the Browse… button. Start the service archive creation by clicking the Start Archiving button. Click Close to close the wizard. QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
Troubleshooting This section provides information about what to do if an error occurs when using the GeneReader system. If you need to contact QIAGEN Technical Services about an error, note the steps leading to the error and the information from any dialog boxes. This will help the QIAGEN Technical Service Specialist to resolve the error.
Verify that the Flow Cell orientation is correct and that the bar code is clean and undamaged. failed. Load the Flow Cell The bar code should be face up and to the left. Refer to the relevant QIAGEN kit handbook for and ensure that the Flow more information.
Display resolution of 1920 x 1080 pixels 4 x USB 3.0 (front), 2 x USB 2.0 (rear), and 4 x USB 3.0 (rear) DVD drive Keyboard and mouse Monitor Handheld bar code scanner QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
9.3.2 Software Microsoft Windows 7 Professional 64-bit (D/F/E/I) GeneReader software v1.6 Adobe Reader software is preinstalled on the computer to view reports generated in PDF format. QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
Declaration of Conformity Name and address of the legal manufacturer: QIAGEN GmbH QIAGEN Strasse 1 40724 Hilden Germany An up-to-date Declaration of Conformity can be requested from QIAGEN Technical Services. QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
License Terms The license terms for all software used with GeneReader, including QIAGEN software components, commercial software components and open source software components, are provided in the files licenses.rtf and Prerequisite.LicenseAgreements.rtf located on the GeneReader workstation under the following paths: C:\ProgramData\QIAGEN\GeneReader\licenses.rtf...
Recycling can be provided by QIAGEN upon request at additional cost. In the European Union, in accordance with the specific WEEE recycling requirements and where a replacement product is being supplied by QIAGEN, free recycling of its WEEE-marked electronic equipment is provided.
Consult the dealer or an experienced radio/TV technician for help. QIAGEN GmbH Germany is not responsible for any radio television interference caused by unauthorized modifications of this equipment or the substitution or attachment of connection cables and equipment other than those specified by QIAGEN GmbH, Germany. The correction of interference caused by such unauthorized modification, substitution or attachment will be the responsibility of the user.
Representations and warranties made by any person, including representatives of QIAGEN, which are inconsistent or in conflict with the conditions in this warranty shall not be binding upon the Company unless produced in writing and approved by an officer of QIAGEN.
Bar code scanner for the NGS system 9022959 System Waste Bottle Wash bottle for the NGS system 9243790 GeneReader Workstation NGS Worstation for the NGS system 9024359 System, V2 W7, 64bit QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
La formule WARNING (DANGER) est utilisée pour avertir des situations pouvant occasionner des dommages corporels à l’utilisateur ou à d’autre personnes. Les détails sur ces circonstances sont données dans un encadré semblable a celui-ci. QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
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Risk of personal injury and material damage (W2) The GeneReader is too heavy to be lifted by one person. To avoid personal injury or damage to the instrument, do not lift the instrument alone. Contact QIAGEN Technical Services to relocate the instrument.
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Empty the liquid waste bottle before each run and make sure to place it in the correct orientation back in the GeneReader instrument. Spilling of liquid- waste may cause an electrical short-circuit and fire. QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
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Wenn das Gerät an die Stromversorgung angeschlossen ist, sind die Anschlussstellen unter Umständen spannungsführend. Es wird dringend vom Öffnen der Abdeckungen und dem Entfernen von Gehäuseteilen abgeraten, da Stromschlag- und Todesgefahr besteht. QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
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Risk of electric shock (W9) Do not open any panels on the GeneReader. Risk of personal injury and material damage Only perform maintenance that is specifically described in this user manual. QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
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Risk of explosion (W11) WARNING The GeneReader is intended for use with reagents and substances supplied with QIAGEN kits. Use of other reagents and substances may lead to fire or explosion. Explosionsgefahr Der GeneReader ist ausschließlich mit Reagenzien und Substanzen aus den QIAGEN Kits zu benutzen.
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Dokumenten festgelegt ist. Bei der Behandlung von Abluft und bei der Abfallbeseitigung sind alle gesetzlichen Regelungen zur Gesundheit und Sicherheit auf nationaler, regionaler und lokaler Ebene zu berücksichtigen. QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
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To avoid contact with moving parts during operation of the GeneReader, the instrument must be operated with the flow cell door closed. If the door sensor is not functioning correctly, contact QIAGEN Technical Services. QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
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(W15) To ensure proper ventilation, maintain a minimum clearance of 10 cm at the sides and rear of the GeneReader. Slits and openings that ensure the ventilation of the GeneReader must not be covered. Überhitzung des Gerätes Zur Sicherstellung einer ausreichenden Belüftung des GeneReader muss ein Mindestabstand von 10 cm an den Seiten und an der Rückseite des...
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GeneReader en fonctionnement, afin de ne pas fausser les mesures optiques sensibles. CAUTION Damage to the instrument (C2) Avoid spilling water or chemicals onto the GeneReader. Damage caused by water or chemical spillage will void your warranty. QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
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CAUTION Damage to the instrument (C5) Make sure that the flow cell is inserted in the correct position. Incorrect insertion of the flow cell can damage the instrument. QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
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Détérioration de l’instrument Ne pas utiliser de l’eau de Javel, des produits solvents ou abrasifs, ou de réactifs contenant des acides ou des solutions alcaliques pour nettoyer le GeneReader. QIAGEN GeneReader User Manual for Advanced Process Flow (APF/HP) Instrument Configuration 12/2017...
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qual o peso do genereader
The weight of the Qiagen GeneReader is 102 kg (224.9 lb.).
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Qual o peso do Generead Qiacube?
The weight of the Qiagen GeneReader is 102 kg (224.9 lb.).
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