Agilent 4200 TapeStation System - System Manual

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Agilent 4200 TapeStationSystemSystem ManualAgilent Technologies

Notices Agilent Technologies, Inc. 2015WarrantyNo part of this manual may be reproducedin any form or by any means (including electronic storage and retrieval or translationinto a foreign language) without prior agreement and written consent from AgilentTechnologies, Inc. as governed by UnitedStates and international copyright laws.The material contained in this document is provided “as is,” and is subject to being changed, without notice,in future editions. Further, to the maximum extent permitted by applicablelaw, Agilent disclaims all warranties,either express or implied, with regardto this manual and any informationcontained herein, including but notlimited to the implied warranties ofmerchantability and fitness for a particular purpose. Agilent shall not beliable for errors or for incidental orconsequential damages in connectionwith the furnishing, use, or performance of this document or of anyinformation contained herein. ShouldAgilent and the user have a separatewritten agreement with warrantyterms covering the material in thisdocument that conflict with theseterms, the warranty terms in the separate agreement shall control.Manual Part NumberG2991-90000Edition08/2015Printed in GermanyAgilent TechnologiesHewlett-Packard-Strasse 876337 Waldbronnreceive no greater than Restricted Rights asdefined in FAR 52.227-19(c)(1-2) (June1987). U.S. Government users will receiveno greater than Limited Rights as defined inFAR 52.227-14 (June 1987) or DFAR252.227-7015 (b)(2) (November 1995), asapplicable in any technical data.Safety NoticesCAUTIONA CAUTION notice denotes ahazard. It calls attention to anoperating procedure, practice, orthe like that, if not correctly performed or adhered to, couldresult in damage to the productor loss of important data. Do notproceed beyond a CAUTIONnotice until the indicated conditions are fully understood andmet.Technology LicensesThe hardware and/or software described inthis document are furnished under a licenseand may be used or copied only in accordance with the terms of such license.Restricted Rights LegendIf software is for use in the performance of aU.S. Government prime contract or subcontract, Software is delivered and licensed as“Commercial computer software” asdefined in DFAR 252.227-7014 (June 1995),or as a “commercial item” as defined in FAR2.101(a) or as “Restricted computer software” as defined in FAR 52.227-19 (June1987) or any equivalent agency regulationor contract clause. Use, duplication or disclosure of Software is subject to AgilentTechnologies’ standard commercial licenseterms, and non-DOD Departments andAgencies of the U.S. Government willWA R N I N GA WARNING notice denotes ahazard. It calls attention to anoperating procedure, practice,or the like that, if not correctlyperformed or adhered to, couldresult in personal injury ordeath. Do not proceed beyond aWARNING notice until the indicated conditions are fully understood and met.4200 TapeStation System Manual

In this Guide.In this Guide.This manual covers the Agilent 4200 TapeStation system.1 SafetyThis chapter provides information on safety symbols and safety messages.2 Legal and RegulatoryThis chapter provides additional information on legal and regulatoryaspects.3 Product DescriptionThis chapter gives an introduction to the instrument and providesinformation on intended use and instrument specifications.4 InstallationThis chapter gives information about the installation of the system.5 4200 TapeStation SoftwareThis chapter gives an overview on the four packages of software that comepreinstalled with your Agilent 4200 TapeStation system.6 Operating InstructionsThis chapter explains the operation of the 4200 TapeStation system.7 Essential Measurement PracticesThis chapter summarizes information on essential measurement practicesfor ScreenTape assays.8 Instrument DiagnosisThis chapter contains information on instrument diagnosis, available tests,and reporting.4200 TapeStation System Manual3

In this Guide.9 MaintenanceThis chapter describes the maintenance of the Agilent 4200 TapeStationsystem.10 TroubleshootingThis chapter gives an overview about the troubleshooting features of theAgilent 4200 TapeStation system.11 AppendixThis chapter contains parts information.44200 TapeStation System Manual

ContentsContents1 Safety7Symbols 8Safety Messages102 Legal and Regulatory 11Sound Emission 12Waste Electrical and Electronic Equipment (WEEE) Directive (2002-96-EC)Directives and Compliance 143 Product Description 15Intended use of the 4200 TapeStation System 16Overview of the System and ScreenTape ArchitectureProduct Descriptions 21Physical Specification 2813174 Installation 29Bench Space Required 30Unpacking 31Initial Setup of the System 32Prepare the Working Area 365 4200 TapeStation Software 37Agilent 4200 TapeStation Controller Software 38Agilent TapeStation Analysis Software 43Agilent Lab Advisor with TapeStation AddOn 45Agilent TapeStation Information Center 466 Operating Instructions 47Sample Preparation 48Preparing the Instrument 49Starting the Analysis 59Analysis end 61Follow up 624200 TapeStation System Manual5

Contents7 Essential Measurement Practices63ScreenTape Assays Portfolio 64Tools and Handling 65Mixing Recommendations 66Reagents and Reagent Mixes 67Sample Preparation 68ScreenTape Devices 69Partially Used ScreenTape Devices 71Centrifugation Recommendations 72Assays With Heat Denaturation 74Ladder Considerations 758 Instrument Diagnosis77Instrument DiagnosisTests 79Reporting 88789 Maintenance89Maintenance Information 90Exchange the Needle 92Preparing the Instrument for transportationTransportation Lock 98Engaging the Transportation Lock 99Boxing for Transportation 10110 Troubleshooting103Collecting Troubleshooting Information11 Appendix104105Accessories Shipment List6971064200 TapeStation System Manual

4200 TapeStation System Manual1SafetySymbols8Safety Messages10This chapter provides information on safety symbols and safety messages.Agilent Technologies7

SymbolsSymbolsTable 1SymbolsThe apparatus is marked with this symbol when the user should refer tothe instruction manual in order to protect risk of harm to the operator andto protect the apparatus against damage.Indicates dangerous voltages.Indicates a protected ground terminal.Confirms that a manufactured product complies with all applicableEuropean Community directives. The European Declaration of Conformityis available arch.htmManufacturing date.Power symbol indicates On/Off.The apparatus is not completely disconnected from the mains supplywhen the power switch is in the Off positionPacemakerMagnets could affect the functioning of pacemakers and implanted heartdefibrillators.A pacemaker could switch into test mode and cause illness. A heartdefibrillator may stop working. If you wear these devices keep at least55 mm distance to magnets. Warn others who wear these devices fromgetting too close to magnets.Magnetic fieldMagnets produce a far-reaching, strong magnetic field. They coulddamage TVs and laptops, computer hard drives, credit and ATM cards, datastorage media, mechanical watches, hearing aids and speakers. Keepmagnets at least 25 mm away from devices and objects that could bedamaged by strong magnetic fields.84200 TapeStation System Manual

SafetySymbolsTable 11SymbolsIndicates a pinching or crushing hazardIndicates a piercing or cutting hazard.4200 TapeStation System Manual9

1SafetySafety MessagesSafety MessagesWA R N I N GA WARNINGalerts you to situations that could cause physical injury or death. Do not proceed beyond a warning until you have fully understood and met theindicated conditions.CAUTIONA CAUTIONalerts you to situations that could cause loss of data, or damage of equipment. Do not proceed beyond a caution until you have fully understood and met theindicated conditions.104200 TapeStation System Manual

4200 TapeStation System Manual2Legal and RegulatorySound Emission12Waste Electrical and Electronic Equipment (WEEE) Directive(2002-96-EC) 13Directives and Compliance14This chapter provides additional information on legal and regulatory aspects.Agilent Technologies11

2Legal and RegulatorySound EmissionSound EmissionManufacturer’s DeclarationThis statement is provided to comply with the requirements of theGerman Sound Emission Directive of 18 January 1991.This product has a sound pressure emission (at the operator position) 70 dB. Sound Pressure Lp 70 dB (A) At Operator Position Normal Operation According to ISO 7779:1988/EN 27779/1991 (Type Test)124200 TapeStation System Manual

2Legal and RegulatoryWaste Electrical and Electronic Equipment (WEEE) Directive (2002-96-EC)Waste Electrical and Electronic Equipment (WEEE) Directive(2002-96-EC)AbstractThe Waste Electrical and Electronic Equipment (WEEE) Directive(2002/96/EC), adopted by EU Commission on 13 February 2003, isintroducing producer responsibility on all electric and electronicappliances starting with 13 August 2005.NOTEThis product complies with the WEEE Directive (2002/96/EC) marking requirements. Theaffixed label indicates that you must not discard this electrical/electronic product indomestic household waste.Product Category:With reference to the equipment types in the WEEE Directive Annex I, this product isclassed as a Monitoring and Control Instrumentation product.NOTEDo not dispose of in domestic household wasteTo return unwanted products, contact your local Agilent office, or seehttp://www.agilent.com for more information.4200 TapeStation System Manual13

2Legal and RegulatoryDirectives and ComplianceDirectives and ComplianceThe Agilent 4200 TapeStation instrument complies with the essentialrequirements of the following applicable European Directives, and carriesthe CE marking accordingly. EMC Directive 2004/108/EC Machinery Directive 2006/42/ECISM Classification:ISM Group 1 Class A According to CISPR 11NOTE14This is an ISM Class A product intended for use in industrial environment. In a domesticenvironment, this product may cause radio interference, in which case the user may berequired to take adequate measures.4200 TapeStation System Manual

4200 TapeStation System Manual3Product DescriptionIntended use of the 4200 TapeStation System16Overview of the System and ScreenTape ArchitectureOverview of the System 17ScreenTape Architecture 20Product DescriptionsPhysical Specification172128This chapter gives an introduction to the instrument and provides informationon intended use and instrument specifications.Agilent Technologies15

3Product DescriptionIntended use of the 4200 TapeStation SystemIntended use of the 4200 TapeStation SystemThe 4200 TapeStation system is intended to separate nucleic acids bymeans of electrophoresis. The system detects: Fluorescently stained double stranded DNA including genomic DNA Fluorescently stained total RNA (Eukaryotic and Prokaryotic)The 4200 TapeStation system is designed to exclusively run AgilentScreenTape kits and specified consumables. It can analyze 1 to 16 samplesprovided in tube strips or up to 96 samples using a well plate.Research use only. Not for use in diagnostic procedures.164200 TapeStation System Manual

Product DescriptionOverview of the System and ScreenTape Architecture3Overview of the System and ScreenTape ArchitectureOverview of the SystemThe Agilent 4200 TapeStation system offers automated sample processingof ScreenTape applications for DNA and RNA at scalable and highthroughput. The system includes the 4200 TapeStation instrument and alaptop.For the Agilent 4200 TapeStation system, a portfolio of ScreenTape assaysis available. The credit card- sized, disposable ScreenTape device carriesmultiple separation lanes for analyzing DNA and RNA samples. EachScreenTape device has 16 lanes so that each sample is analyzed in anindividual lane, completely eliminating contamination and carryover.A suite of intuitive software provides instrument control for creation ofexperimental data and streamlines data analysis and reporting.4200 TapeStation System Manual17

3Product DescriptionOverview of the System and ScreenTape ArchitectureThe Agilent 4200 TapeStation software comes preinstalled with the Agilent4200 TapeStation system and consists of four packages.4200 TapeStation Controller softwareAgilent TapeStation Data Analysis softwareAgilent Lab Advisor with TapeStation AddOnTapeStation Information CenterThe 4200 TapeStation Controller software is simple and intuitive,streamlining instrument control as well as data analysis and reporting.You can display your results as an electropherogram, as a familiar gelimage or in tabular format for effortless sample comparison. Depending onyour application, the software automatically determines size, quantity,purity, RINe or ribosomal ratios, saving you time and reducing errors.Reports can easily be generated and saved in PDF format, or exported forediting in Microsoft Word or Excel.Figure 118ScreenTape devices for DNA and RNA assays4200 TapeStation System Manual

Product DescriptionOverview of the System and ScreenTape Architecture3The Agilent Lab Advisor with TapeStation AddOn allows you to achievehighest productivity through advanced system diagnostics. It can be usedfor routine confirmation of the system functionality or for instrumenttroubleshooting. Using a dedicated TapeStation Test Tape device, you canrun an instrument self- test through the Agilent Lab Advisor software andcheck the performance of electrical and optical components. Test reportscan easily be generated and saved in PDF format.Figure 24200 TapeStation System ManualTapeStation Test Tape19

3Product DescriptionOverview of the System and ScreenTape ArchitectureScreenTape ArchitectureBarcode:The unique barcode tracks lane usage within each ScreenTape device andallows traceability of results.Buffer chamber:The buffer chamber is located at the top of each channel and containsoptimized buffers for the effective separation of nucleic acid fragments.Electrodes:The integrated electrodes apply a current across the ScreenTape deviceand eliminate the need for any additional electrophoresis equipment.Gel:The gel contained within the ScreenTape device has been developedspecifically to resolve nucleic acids.ScreenTape deviceproduct details:The information is unique to each ScreenTape device. This includes:ScreenTape assay type, product expiry date and a unique serial number. ;gdci 7j[[Zg X]VbWZg Za HXgZZcIVeZ cVbZ :aZXigdYZh 7VX 7Vg XdYZ HXgZZcIVeZ YZiV ah 204200 TapeStation System Manual

Product DescriptionProduct Descriptions3Product Descriptions1 Overview of the 4200 TapeStation instrument ( ' ) & * 1Power button2Lid release button3Lid4Status LED5Serial number4200 TapeStation System Manual21

3Product DescriptionProduct DescriptionsWA R N I N GHeart pacemakersMagnets could affect the functioning of pacemakers and implanted heartdefibrillators.A pacemaker could switch into test mode and cause illness.A heart defibrillator may stop working. Bearers of heart pacemakers or implanted defibrillators must stay off at least 55 mmfrom the magnets.CAUTIONMagnetic fieldsMagnets produce a far-reaching, strong magnetic field.You can damage for example televisions, laptops, computer harddisks, credit cards,magnetic cards may be damaged as well. Keep magnets at least 25 mm away from devices and objects that could bedamaged by strong magnetic fields.2 Lid operationFigure 322Position of magnet4200 TapeStation System Manual

Product DescriptionProduct Descriptions3The 4200 TapeStation instrument lid is opened by pressing the lidrelease button. Subsequently the lid swings open and allows access tothe working area. Opening and closing of the lid is best assisted by twohands guiding the lid up or down. The lid should be closed each timethe 4200 TapeStation instrument is initialized or when the 4200TapeStation Controller software is started. Close the lid by moving itgently downwards until latching is complete. '# '# &# Figure 44200 TapeStation System ManualLid operation23

3Product DescriptionProduct Descriptions3 Overview of the instrument workspace & ' &% ( . ) - * , 241Gantry cover2Upper nest cover3Lower nest cover4ScreenTape nest5Tip waste6Tip rack7Sample tube strip holder8Sample well plate9ScreenTape rack10ScreenTape waste location4200 TapeStation System Manual

Product DescriptionProduct Descriptions34 Electrical connections '# &# 1. Power line in, 2. USB- B to PCRemaining connectors are blocked by plugs and reserved for factoryuse.4200 TapeStation System Manual25

3Product DescriptionProduct Descriptions5 Status indicators (LED)Figure 526Status indicators1offIdle2greenRun mode3yellowNot-ready, waiting for a specific pre-run condition to bereached or completed4redError mode (restart required)5red blinkingError mode (restart required)4200 TapeStation System Manual

Product DescriptionProduct Descriptions36 Status indicators (Lid)Figure 6Lid release button status light1. On; 2. Off.Normal status is off. Blinking indicates an input request from theAgilent 4200 Controller software to confirm a run stop request.4200 TapeStation System Manual27

3Product DescriptionPhysical SpecificationPhysical SpecificationTable 228Physical SpecificationsTypeSpecificationWeight25.5 kg (56.3 lbs)Dimensions (w d h)435 x 510 x 445 mm (17.1 x 20.0 x 17.5 inches)Line voltage100 – 240 VAC 10 %Line frequency50 or 60 Hz 5 %Power consumption50 VA / 50 WInterfaceUSB2 (Instrument: USB-B; PC: USB-A)Ambient operating temperature10 – 40 C (50 – 104 F)Operating humidity15 – 80 %, non-condensingStorage temperature-40 to 70 C (-40 to 158 F)Operating altitudeUp to 3000 m (9842 ft)Safety standardsIEC, CSA, UL, KC, Installation category II,Pollution degree 2For indoor use only. See “Directives andCompliance” on page 14Sound pressure 70 dB (A)4200 TapeStation System Manual

4200 TapeStation System Manual4InstallationBench Space RequiredUnpacking3031Initial Setup of the System32Prepare the Working Area36This chapter gives information about the installation of the system.Agilent Technologies29

4InstallationBench Space RequiredBench Space RequiredIdentify the laboratory bench space based on the specifications table (see“Physical Specification” on page 28).Pay special attention to the total height and total weight requirements forall system components you have ordered. Also pay special attention to thetotal weight of the modules you have ordered to ensure your laboratorybench can support this weight. The work bench should be stable andvibration free.75 mm75mm250 mm75 mmAllow approximately 75 mm (3 inches) of clear space around theinstrument for air circulation and electrical connections.Performance can be affected by sources of heat and cold, for exampledirect sunlight, heating/cooling from air conditioning outlets, drafts and/orvibrations.A computer system is supplied with your instrument. Account forrespective electrical outlets. Two plug sockets must be available near theallocated bench space for the instrument itself and a laptop.NOTE30Additional space of approximately 25 cm is required on top of the listed height in order toopen the 4200 TapeStation lid. Please avoid locations with low overhanging shelves.4200 TapeStation System Manual

InstallationUnpacking4UnpackingFor unpacking the instrument follow the instructions listed below.Do not remove the instrument from its original shipping box immediately.Upon delivery, store in a temperature stable, dry environment suitable foroperation, see “Physical Specification” on page 28. If actual shipmentconditions are unknown or were outside operating conditions, wait for atleast 5 h before unpacking to allow the instrument to adjust to theambient temperature and humidity of the operating envi

The Agilent 4200 TapeStation system offers automated sample processing of ScreenTape applications for DNA and RNA at scalable and high throughput. The system includes the 4200 TapeStation instrument and a laptop. For the Agilent 4200 TapeStation system, a portfolio of ScreenTape assays is available.File Size: 2MB

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