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Applied Biosystems 3730/3730Xl DNA Analyzers User Guide P/N

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Applied Biosystems 3730/3730Xl DNA Analyzers User Guide P/N Applied Biosystems 3730/3730xl DNA Analyzers User Guide DRAFT © Copyright 2002, Applied Biosystems. All rights reserved. For Research Use Only. Not for use in diagnostic procedures. Information in this document is subject to change without notice. Applied Biosystems assumes no responsibility for any errors that may appear in this document. This document is believed to be complete and accurate at the time of publication. In no event shall Applied Biosystems be liable for incidental, special, multiple, or consequential damages in connection with or arising from the use of this document. NOTICE TO PURCHASER: This instrument, Serial No. __________, is Authorized for use in DNA sequencing and fragment analysis. This authorization is included in the purchase price of this instrument and corresponds to the up-front fee component of a license under process claims of U.S. Patent Nos. 5,821,058 and 5,332,666 and under all process claims for DNA sequence and fragment analysis of U.S. patents now or hereafter owned or licensable by Applied Biosystems for which an Authorization is required, and under corresponding process claims in foreign counterparts of the foregoing for which an Authorization is required. The running royalty component of licenses may be purchased from Applied Biosystems or obtained by using Authorized reagents purchased from Authorized suppliers in accordance with the label rights accompanying such reagents. Purchase of this instrument does not itself convey to the purchaser a complete license or right to perform the above processes. This instrument is also licensed under U.S. Patent No. 5,171,534 and apparatus and system claims in foreign counterparts thereof. No rights are granted expressly, by implication or by estoppel under composition claims or under other process or system claims owned or licensable by Applied Biosystems. For more information regarding licenses, please contact the Director of Licensing at Applied Biosystems, 850 Lincoln Centre Drive, Foster City, California 94404, USA. TRADEMARKS: The Applied Biosystems 3730 and 3730xl DNA Analyzer includes patented technology licensed from Hitachi, Ltd. as part of a strategic partnership between Applied Biosystems and Hitachi, Ltd., as well as patented technology of Applied Biosystems. ABI PRISM, Applied Biosystems, BigDye, and MicroAmp are registered trademarks of Applera Corporation or its subsidiaries in the U.S. and certain other countries. ABI, GeneMapper, GeneScan, Hi-Di, POP, and POP-7, are trademarks of Applera Corporation or its subsidiaries in the U.S. and certain other countries. Microsoft, Windows, and Windows NT are registered trademarks of the Microsoft Corporation in the United States and/or other countries. Oracle is a registered trademark of the Oracle Corporation. pGEM is a registered trademark of Promega Corporation. All other trademarks are the sole property of their respective owners. Part Number 4331468 Rev. C 11/2002 DRAFT November 12, 2002 8:56 am, Title_NPR.fm Contents Preface About This Guide . vii Conventions Used in This Guide . viii Obtaining Technical Support . viii General Safety . ix Chemical Safety . ix Instrument Safety . xi Safety and EMC Compliance Information Safety Conventions Used in This Document . xiv Sources of Safety Information . xiv Symbols on Instruments . xv Safety Labels on Instruments . xvi General Instrument Safety . xvii Chemical Safety . xviii Chemical Waste Safety . xix Electrical Safety . xx Physical Hazard Safety . xxi Biological Hazard Safety . xxii Laser Safety . xxii Bar Code Scanner Laser Safety . xxiii Computer Workstation Safety . xxiii Safety and Electromagnetic Compatibility (EMC) Standards . xxiv Chapter 1 Performing a Run Instrument Parts . 1-2 A Typical Run . 1-3 Working with Samples and Plate Assemblies . 1-5 Starting the Applied Biosystems 3730/3730xl System . 1-9 Preparing the Instrument . 1-14 Calibrating the Instrument . 1-23 Placing a Plate in the Stacker . 1-24 Running the Instrument . 1-26 Default Load Maps . 1-28 Applied Biosystems 3730/3730xl DNA Analyzers User Guide DRAFT iii November 12, 2002 9:07 am, BookTOC.fm Monitoring a Run . 1-43 Working with Data in The Run History View . 1-51 Viewing Analyzed Data . 1-60 Chapter 2 3730/3730xl Data Collection Software and DNA Sequencing 3730/3730xl Data Collection Software and Sequencing Analysis Software v5.0 . 2-2 About Plate Records and Sequencing . 2-4 Using the Plate Manager for Sequencing . 2-5 Working With a Results Group . 2-12 Creating an Instrument Protocol For Sequencing . 2-23 Working with Analysis Protocols for Sequencing . 2-28 Plate Search . 2-37 Chapter 3 3730/3730xl Data Collection and Fragment Analysis 3730/3730xl Data Collection Software and GeneMapper™ Software v3.0 . 3-2 Sample Preparation . 3-5 About Plate Records . 3-6 Using the Plate Manager For GeneMapper Software . 3-8 Working With a Results Group . 3-13 Working With Instrument Protocols For Fragment Analysis . 3-25 Using the AutoAnalysis Manager . 3-29 Plate Search . 3-35 Autoanalysis Integration . 3-39 Chapter 4 Spatial and Spectral Calibrations Spatial Calibration . 4-2 Spectral Calibration . 4-9 Chapter 5 Maintenance Instrument Maintenance . 5-2 Routine Cleaning . 5-3 Fluids and Waste . 5-9 Capillary Array . 5-12 Syringes . 5-18 Polymer Blocks . 5-21 Checking Available Space on Drives D, E, and F . 5-30 Hard Disk Status . 5-31 Deleting Records from the Database . 5-32 ivDRAFT Applied Biosystems 3730/3730xl DNA Analyzers User Guide November 12, 2002 9:07 am, BookTOC.fm Appendix A Warranty and Service Information Computer Configuration . A-2 Limited Product Warranty . A-2 Damages, Claims, Returns . A-4 Appendix B Error Messages Error Messages . ..
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