Applied Biosystems StepOne Instructions for use

Applied Biosystems StepOne™
and StepOnePlus™
Real-Time PCR Systems
Installation, Networking, and Maintenance
Installation, Networking, and Maintenance Guide

DRAFT September 25, 2007 1:07 am, 4376782_Title-Copyright.fm
Applied Biosystems StepOne™
and StepOnePlus™
Real-Time PCR Systems
Installation, Networking, and Maintenance Guide
Applied Biosystems StepOne™and
StepOnePlus™Real-Time PCR Systems
Installation, Networking, and Maintenance
Guide
Get Started
Set Up the
Instrument
Install the
Colocated Layout
Install the
Standalone Layout
Connect the
System
to a Network
Maintain the
System
Installation, Networking, and Maintenance Guide

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CONFIDENTIAL — For AB Internal Use Only. Do Not Distribute.
© Copyright 2007, Applied Biosystems. All rights reserved.
Information in this document is subject to change without notice. Applied Biosystems assumes no responsibility for any errors that may appear in this
document.
APPLIED BIOSYSTEMS DISCLAIMS ALL WARRANTIES WITH RESPECT TO THIS DOCUMENT, EXPRESSED OR IMPLIED, INCLUDING BUT
NOT LIMITED TO THOSE OF MERCHANTABILITY OR FITNESS FOR A PARTICULAR PURPOSE. IN NO EVENT SHALL APPLIED
BIOSYSTEMS BE LIABLE, WHETHER IN CONTRACT, TORT, WARRANTY, OR UNDER ANY STATUTE OR ON ANY OTHER BASIS FOR
SPECIAL, INCIDENTAL, INDIRECT, PUNITIVE, MULTIPLE OR CONSEQUENTIAL DAMAGES IN CONNECTION WITH OR ARISING FROM
THIS DOCUMENT, INCLUDING BUT NOT LIMITED TO THE USE THEREOF.
NOTICE TO PURCHASER: Label License
The StepOne™and StepOnePlus™Real-Time PCR Systems are covered by one or more of US Patents Nos. 5,038,852, 5,333,675, 5,656,493, 5,475,610,
5,602,756, 6,703,236, 7,238,517, 6,814,934, and corresponding claims in their non-US counterparts, owned by Applera Corporation. No right is conveyed
expressly, by implication, or by estoppel under any other patent claim, such as claims to apparatus, reagents, kits, or methods such as 5′nuclease methods.
Further information on purchasing licenses may be obtained by contacting the Director of Licensing, Applied Biosystems, 850 Lincoln Centre Drive, Foster
City, California 94404, USA.
TRADEMARKS:
Applera, Applied Biosystems, AB (Design), Primer Express, and VIC are registered trademarks, and FAM, JOE, MicroAmp, ROX, StepOne, StepOnePlus,
TAMRA, and VeriFlex are trademarks of Applera Corporation or its subsidiaries in the U.S. and/or certain other countries.
AmpErase and TaqMan are registered trademarks of Roche Molecular Systems, Inc.
SYBR is a registered trademark of Molecular Probes, Inc.
Microsoft and Windows are registered trademarks of Microsoft Corporation.
All other trademarks are the sole property of their respective owners.
Part Number 4376782 Rev. D
09/2007

Contents
iii
Applied Biosystems StepOne™and StepOnePlus™Real-Time PCR Systems
Installation, Networking, and Maintenance Guide
DRAFT September 25, 2007 1:07 am, 4376782_TOC.fm
Preface . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . vii
Purpose of This Guide . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . vii
How to Obtain More Information . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ix
How to Obtain Support . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . x
Safety Conventions Used in This Document . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . xi
Symbols on the Instruments . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . xii
Safety Labels on Instruments . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . xiii
General Instrument Safety . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . xiv
Chemical Safety . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . xv
Chemical Waste Safety . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . xvii
Electrical Safety . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . xviii
LED Safety . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . xviii
Biological Hazard Safety . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . xix
Workstation Safety . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . xix
Safety and Electromagnetic Compatibility (EMC) Standards . . . . . . . . . . . . . . . . . . . . xx
Chapter 1 Get Started. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1
About the StepOne™and StepOnePlus™Systems . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2
Before You Begin . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 5
Select Protective Hardware and Software . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 7
Select an Installation Layout . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 9
Plan the Installation . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 11
Chapter 2 Set Up the Instrument . . . . . . . . . . . . . . . . . . . . . . . . . 13
About the Installation . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 14
Unpack the Instrument . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 15
Check the Shipped Materials . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 17
Set Up the Instrument . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 20
Complete the Installation . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 23
Table of Contents

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Installation, Networking, and Maintenance Guide
iv
Chapter 3 Install the Colocated Layout . . . . . . . . . . . . . . . . . . . . 25
About the Colocated Installation . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 26
Install the Computer . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 27
Set Up the Computer . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 28
Install the StepOne™Software . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 31
Connect the System Components . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 35
Perform the RNase P Experiment . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 38
Set Up the Experiment . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 40
Run the Experiment . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 41
Analyze the Experiment . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 43
After the Installation . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 47
Chapter 4 Install the Standalone Layout. . . . . . . . . . . . . . . . . . . . 49
About the Standalone Installation . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 50
Set Up the Computer . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 51
Install the Computer . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 52
Install the StepOne™Software . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 54
Prepare the StepOne™Software for Standalone Use . . . . . . . . . . . . . . . . . . . . . 58
Perform the RNase P Experiment . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 60
Set Up the Experiment . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 62
Run the Experiment . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 63
Analyze the RNase P Experiment . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 65
Unload the Instrument . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 65
Transfer the Experiment . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 66
Analyze the Experiment . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 68
After the Installation . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 71
Chapter 5 Connect the System to a Network . . . . . . . . . . . . . . . . 73
Overview . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 74
Connect the Instrument to a Network . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 78
Set Up a Computer for Remote Monitoring . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 80
Monitor the Instrument . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 82

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Applied Biosystems StepOne™and StepOnePlus™Real-Time PCR Systems
Installation, Networking, and Maintenance Guide
Chapter 6 Maintain the System . . . . . . . . . . . . . . . . . . . . . . . . . . 87
Regular Maintenance . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 88
Perform a Spatial Calibration . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 90
Perform a Background Calibration . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 94
Perform a Dye Calibration . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 100
Archive and Back Up Data . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 113
Infrequent Maintenance . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 114
Decontaminate the Sample Block . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 115
Move the Instrument . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 118
Replace the External Fuses . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 120
Ship the Instrument for Service . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 122
Update the Windows Operating System . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 124
Update the StepOne™Software . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 125
Appendix A How to Troubleshoot the Installation . . . . . . . . . . . . . . . 127
StepOne™Software Problems . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 128
Network Connection Problems . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 129
Background Calibration Failure . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 132
Dye Calibration Failure . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 134
Glossary . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 137
Index . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 153

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Applied Biosystems StepOne™and StepOnePlus™Real-Time PCR Systems
Installation, Networking, and Maintenance Guide
vi

vii
Applied Biosystems StepOne™and StepOnePlus™Real-Time PCR Systems
Installation, Networking, and Maintenance Guide
DRAFT September 25, 2007 1:07 am, 4376782_Preface.fm
Preface
Purpose of This Guide
About the System
Documentation
The guides listed below are shipped with the Applied Biosystems StepOne™and
StepOnePlus™Real-Time PCR Systems (StepOne™and StepOnePlus™systems).
Guide Purpose and Audience PN
Applied Biosystems StepOne™and StepOnePlus™
Real-Time PCR Systems Getting Started Guide for
Genotyping Experiments
Explains how to perform experiments on the
StepOne™and StepOnePlus™systems. Each Getting
Started Guide functions as both:
• A tutorial, using example experiment data provided
with the Applied Biosystems StepOne™Real-Time
PCR System Software (StepOne™software).
• A guide for your own experiments.
Intended for laboratory staff and principal
investigators who perform experiments using the
StepOne™or StepOnePlus™system.
4376786
Applied Biosystems StepOne™and StepOnePlus™
Real-Time PCR Systems Getting Started Guide for
Presence/Absence Experiments
4376787
Applied Biosystems StepOne™and StepOnePlus™
Real-Time PCR Systems Getting Started Guide for
Relative Standard Curve and Comparative CT
Experiments
4376785
Applied Biosystems StepOne™and StepOnePlus™
Real-Time PCR Systems Getting Started Guide for
Standard Curve Experiments
4376784
Applied Biosystems StepOne™and StepOnePlus™
Real-Time PCR Systems Installation, Networking, and
Maintenance Guide
Explains how to install and maintain the StepOne™
and StepOnePlus™systems.
Intended for laboratory staff responsible for the
installation and maintenance of the StepOne™or
StepOnePlus™system.
4376782
Applied Biosystems StepOne™and StepOnePlus™
Real-Time PCR Systems Installation Quick Reference
Card
4376783
Applied Biosystems StepOne™and StepOnePlus™
Real-Time PCR Systems Reagent Guide
Provides information about the reagents you can use
on the StepOne™and StepOnePlus™systems,
including:
• An introduction to TaqMan®and SYBR®Green
reagents
• Descriptions and design guidelines for the
following experiment types:
– Quantitation experiments
– Genotyping experiments
– Presence/absence experiments
Intended for laboratory staff and principal
investigators who perform experiments using the
StepOne™or StepOnePlus™system.
4379704
Applied Biosystems StepOne™and StepOnePlus™
Real-Time PCR Systems Site Preparation Guide
Explains how to prepare your site to receive and install
the
StepOne™ or StepOnePlus
™
systems.
Intended for personnel who schedule, manage, and
perform the tasks required to prepare your site for
installation of the StepOne
™
or StepOnePlus
™
system.
4376768

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Preface
Purpose of This Guide
Applied Biosystems StepOne™and StepOnePlus™Real-Time PCR Systems
Installation, Networking, and Maintenance Guide
viii
Text Conv e n t i on s
This guide uses the following conventions:
•
Bold text indicates user action. For example:
Type
0 , then press Enter for each of the remaining fields.
•
Italic text indicates new or important words and is also used for emphasis. For example:
Before analyzing,
always prepare fresh matrix.
• A right arrow symbol (
 ) separates successive commands you select from a drop-down
or shortcut menu. For example:
Select
File  Open .
User Attention
Words
Two user attention words appear in Applied Biosystems user documentation. Each word
implies a particular level of observation or action as described below:
Note: – Provides information that may be of interest or help but is not critical to the use of
the product.
IMPORTANT! – Provides information that is necessary for proper instrument operation,
accurate chemistry kit use, or safe use of a chemical.
Examples of the user attention words appear below:
Note: The Calibrate function is also available in the Control Console.
IMPORTANT! To verify your client connection, you need a valid user ID.
Safety Alert Words
Safety alert words also appear in user documentation. For more information, see “Safety
Alert Words” on page xi.
Applied Biosystems StepOne™Real-Time PCR
System Software Help
Explains how to use the StepOne™software to:
• Set up, run, and analyze experiments using the
StepOne™and StepOnePlus™systems.
• Monitor networked StepOne™and StepOnePlus™
instruments.
• Calibrate StepOne™and StepOnePlus™
instruments.
• Verify the performance of StepOne™and
StepOnePlus™instruments with an RNase P run.
Intended for:
• Laboratory staff and principal investigators who
perform experiments using the StepOne™or
StepOnePlus™system.
• Laboratory staff responsible for the installation and
maintenance of the StepOne™or StepOnePlus™
system.
NA
Guide Purpose and Audience PN

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Preface
How to Obtain More Information
ix
Applied Biosystems StepOne™and StepOnePlus™Real-Time PCR Systems
Installation, Networking, and Maintenance Guide
How to Obtain More Information
Related
Documentation
StepOne™and StepOnePlus™System Documents Available for Sale
Note: For more documentation, see “How to Obtain Support” on page x.
Obtaining
Information from
the Software Help
The StepOne
™
Software Help describes how to use each feature of the user interface. Access
the Help from within the StepOne
™
software by doing one of the following:
• Press
F1 .
• Click in the toolbar.
• Select
Help  StepOne Help .
To find topics of interest in the Help:
• Review the table of contents.
• Search for a specific topic.
• Search an alphabetized index.
Send Us Your
Comments
Applied Biosystems welcomes your comments and suggestions for improving its user
documents. You can e-mail your comments to:
[e-mail]
IMPORTANT! The e-mail address above is only for submitting comments and suggestions
relating to documentation. To order documents, download PDF files, or for help with a
technical question, go to
www.appliedbiosystems.com , then click the link for Support . (See
“How to Obtain Support” below).
Document PN
Applied Biosystems StepOne™and StepOnePlus™Real-Time PCR Systems
Installation Performance Verification Protocol
4376791
Applied Biosystems StepOne™and StepOnePlus™Real-Time PCR Systems
Installation Qualification-Operation Qualification Protocol
4376790
Applied Biosystems StepOne™and StepOnePlus™Real-Time PCR Systems
Planned Maintenance Protocol
4376788

DRAFT September 25, 2007 1:07 am, 4376782_Preface.fm
Preface
How to Obtain Support
Applied Biosystems StepOne™and StepOnePlus™Real-Time PCR Systems
Installation, Networking, and Maintenance Guide
x
How to Obtain Support
For the latest services and support information for all locations, go to
www.appliedbiosystems.com
, then click the link for Support .
At the Support page, you can:
• Search through frequently asked questions (FAQs)
• Submit a question directly to Technical Support
• Order Applied Biosystems user documents, MSDSs, certificates of analysis, and other
related documents
• Download PDF documents
• Obtain information about customer training
• Download software updates and patches
In addition, the Support page provides access to worldwide telephone and fax numbers to
contact Applied Biosystems Technical Support and Sales facilities.
Applied Biosystems Customer Care Center
Contact the Applied Biosystems Customer Care Center when directed by this guide, or to
schedule maintenance for your instrument (such as, annual planned maintenance or
temperature verification/calibration). To contact the Applied Biosystems Customer Care
Center call 1-800-762-4001, Option 1 (U.S.A. only). For all other countries, please contact
your local Applied Biosystems service representative.

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Preface
Safety Conventions Used in This Document
xi
Applied Biosystems StepOne™and StepOnePlus™Real-Time PCR Systems
Installation, Networking, and Maintenance Guide
Safety Conventions Used in This Document
Safety Alert Words
Four safety alert words appear in Applied Biosystems user documentation at points in the
document where you need to be aware of relevant hazards. Each alert word—
IMPORTANT,
CAUTION, WARNING, DANGER
—implies a particular level of observation or action, as
defined below.
Definitions
IMPORTANT! – Indicates information that is necessary for proper instrument operation,
accurate chemistry kit use, or safe use of a chemical.
– Indicates a potentially hazardous situation that, if not avoided, may
result in minor or moderate injury. It may also be used to alert against unsafe practices.
– Indicates a potentially hazardous situation that, if not avoided, could
result in death or serious injury.
– Indicates an imminently hazardous situation that, if not avoided, will
result in death or serious injury. This signal word is limited to the most extreme situations.
Except for IMPORTANTs, each safety alert word in an Applied Biosystems document
appears with an open triangle figure that contains a hazard symbol. These hazard symbols are
identical to the hazard symbols that are affixed to Applied Biosystems instruments (see
“Safety Symbols” on page xii).
Examples
IMPORTANT! You must create a separate spreadsheet for each 96-well plate.
CHEMICAL HAZARD . TaqMan Universal PCR Master Mix may
cause eye and skin irritation. Exposure may cause discomfort if swallowed or inhaled. Read
the MSDS, and follow the handling instructions. Wear appropriate protective eyewear,
clothing, and gloves.
PHYSICAL INJURY HAZARD. During instrument operation, the
heated cover and sample block can reach temperatures in excess of 100 ° C.
ELECTRICAL HAZARD. Grounding circuit continuity is vital for the
safe operation. Never operate the system with the grounding conductor disconnected.

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Preface
Symbols on the Instruments
Applied Biosystems StepOne™and StepOnePlus™Real-Time PCR Systems
Installation, Networking, and Maintenance Guide
xii
Symbols on the Instruments
Electrical
Symbols
The following electrical symbols may be displayed on Applied Biosystems instruments.
Safety Symbols
The following safety s ymbols may be displayed on Applied Biosystems instruments. Each
symbol may appear by itself or with text that explains the relevant hazard (see “Safety Labels
on Instruments” on page xiii). These safety symbols may also appear next to DANGERS,
WARNINGS, and CAUTIONS that occur in this and other documents.
Environmental
Symbols
The following symbol applies to all Applied Biosystems electrical and electronic products
placed on the European market after August 13, 2005.
Symbol Description Symbol Description
Indicates the On position of the
main power switch.
Indicates a terminal that may be
connected to the signal ground
reference of another instrument.
This is not a protected ground
terminal.
Indicates the
Off position of the
main power switch.
Indicates a protective grounding
terminal that must be connected to
earth ground before any other
electrical connections are made to
the instrument.
Indicates a standby switch by which
the instrument is switched on to the
Standby condition. Hazardous
voltage may be present if this
switch is on standby. Indicates a terminal that can receive
or supply alternating current or
voltage.
Indicates the
On/Off position of a
push-push main power switch.
Indicates a terminal that can receive
or supply alternating or direct
current or voltage.
Symbol Description Symbol Description
Indicates that you should consult
the manual for further information
and to proceed with appropriate
caution.
Indicates the presence of moving
parts and to proceed with
appropriate caution.
Indicates the presence of an
electrical shock hazard and to
proceed with appropriate caution.
Indicates the presence of a hot
surface or other high-temperature
hazard and to proceed with
appropriate caution.
Indicates the presence of a laser
inside the instrument and to
proceed with appropriate caution.
Symbol Description
Do not dispose of this product as unsorted municipal waste.
Follow local municipal waste ordinances for proper disposal provisions to reduce
the environmental impact of waste electrical and electronic equipment (WEEE).
European Union customers:
Call your local Applied Biosystems Customer Service office for equipment pick-up
and recycling. See www.appliedbiosystems.com for a list of customer service
offices in the European Union.

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Preface
Safety Labels on Instruments
xiii
Applied Biosystems StepOne™and StepOnePlus™Real-Time PCR Systems
Installation, Networking, and Maintenance Guide
Safety Labels on Instruments
The following CAUTION, WARNING, and DANGER statements may be displayed on
Applied Biosystems instruments in combination with the safety symbols described in the
preceding section.
Locations of
Warnings
The system contains a warning at the location shown below:
English Francais
CAUTION Hazardous chemicals. Read the
Material Safety Data Sheets (MSDSs) before
handling.
ATTENTION Produits chimiques dangeureux.
Lire les fiches techniques de sûreté de
matériels avant la manipulation des produits.
CAUTION Hazardous waste. Refer to
MSDS(s) and local regulations for handling
and disposal.
ATTENTION Déchets dangereux. Lire les
fiches techniques de sûreté de matériels et la
régulation locale associées à la manipulation
et l'élimination des déchets.
CAUTION Hot surface. ATTENTION Surface brûlante.
DANGER High voltage. DANGER Haute tension.
WARNING To reduce the chance of electrical
shock, do not remove covers that require tool
access. No user-serviceable parts are inside.
Refer servicing to Applied Biosystems
qualified service personnel.
AVERTISSEMENT Pour éviter les risques
d'électrocution, ne pas retirer les capots dont
l'ouverture nécessite l'utilisation d'outils.
L’instrument ne contient aucune pièce
réparable par l’utilisateur. Toute intervention
doit être effectuée par le personnel de service
qualifié de Applied Biosystems.
CAUTION Moving parts. ATTENTION Parties mobiles.
DANGER Class 3B (III) visible and/or invisible
LED radiation present when open and
interlocks defeated. Avoid exposure to beam.
DANGER Rayonnement visible ou invisible
d’un faisceau LED de Classe 3B, (III) en cas
d’ouverture et de neutralisation des
dispositifs de sécurité. Evitez toute
exposition au faisceau.

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Preface
General Instrument Safety
Applied Biosystems StepOne™and StepOnePlus™Real-Time PCR Systems
Installation, Networking, and Maintenance Guide
xiv
General Instrument Safety
PHYSICAL INJURY HAZARD. Using the instrument in a manner not
specified by Applied Biosystems may result in personal injury or damage to the instrument.
Moving and Lifting
the Instrument
PHYSICAL INJURY HAZARD. The instrument is to be moved and
positioned only by the personnel or vendor specified in the applicable site preparation guide.
If you decide to lift or move the instrument after it has been installed, do not attempt to lift or
move the instrument without the assistance of others, the use of appropriate moving
equipment, and proper lifting techniques. Improper lifting can cause painful and permanent
back injury. Depending on the weight, moving or lifting an instrument may require two or
more persons.
Moving and Lifting
Computers and
Monitors
Do not attempt to lift or move the computer or the monitor without the
assistance of others. Depending on the weight of the computer and/or the monitor, moving
them may require two or more people.
Things to consider before lifting the computer and/or the monitor:
• Make sure that you have a secure, comfortable grip on the computer or the monitor when
lifting.
• Make sure that the path from where the object is to where it is being moved is clear of
obstructions.
• Do not lift an object and twist your torso at the same time.
• Keep your spine in a good neutral position while lifting with your legs.
• Participants should coordinate lift and move intentions with each other before lifting and
carrying.
• Instead of lifting the object from the packing box, carefully tilt the box on its side and
hold it stationary while someone slides the contents out of the box.
Operating the
Instrument
Ensure that anyone who operates the instrument has:
• Received instructions in both general safety practices for laboratories and specific safety
practices for the instrument.
• Read and understood all applicable Material Safety Data Sheets (MSDSs). See “About
MSDSs” on page xv.
Cleaning or
Decontaminating
the Instrument
Before using a cleaning or decontamination method other than those
recommended by the manufacturer, verify with the manufacturer that the proposed method
will not damage the equipment .

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Preface
Chemical Safety
xv
Applied Biosystems StepOne™and StepOnePlus™Real-Time PCR Systems
Installation, Networking, and Maintenance Guide
Chemical Safety
Chemical Hazard
Warning
CHEMICAL HAZARD. Before handling any chemicals, refer to the
Material Safety Data Sheet (MSDS) provided by the manufacturer, and observe all relevant
precautions.
CHEMICAL STORAGE HAZARD. Never collect or store waste in a
glass container because of the risk of breaking or shattering. Reagent and waste bottles can
crack and leak. Each waste bottle should be secured in a low-density polyethylene safety
container with the cover fastened and the handles locked in the upright position. Wear
appropriate eyewear, clothing, and gloves when handling reagent and waste bottles.
Chemical Safety
Guidelines
To minimize the hazards of chemicals:
• Read and understand the Material Safety Data Sheets (MSDSs) provided by the
chemical manufacturer before you store, handle, or work with any chemicals or
hazardous materials. (See “About MSDSs” on page xv.)
• Minimize contact with chemicals. Wear appropriate personal protective equipment when
handling chemicals (for example, safety glasses, gloves, or protective clothing). For
additional safety guidelines, consult the MSDS.
• Minimize the inhalation of chemicals. Do not leave chemical containers open. Use only
with adequate ventilation (for example, fume hood). For additional safety guidelines,
consult the MSDS.
• Check regularly for chemical leaks or spills. If a leak or spill occurs, follow the
manufacturer’s cleanup procedures as recommended in the MSDS.
• Comply with all local, state/provincial, or national laws and regulations related to
chemical storage, handling, and disposal.
About MSDSs
Chemical manufacturers supply current Material Safety Data Sheets (MSDSs) with
shipments of hazardous chemicals to
new customers. They also provide MSDSs with the first
shipment of a hazardous chemical to a customer after an MSDS has been updated. MSDSs
provide the safety information you need to store, handle, transport, and dispose of the
chemicals safely.
Each time you receive a new MSDS packaged with a hazardous chemical, be sure to replace
the appropriate MSDS in your files.

DRAFT September 25, 2007 1:07 am, 4376782_Preface.fm
Preface
Chemical Safety
Applied Biosystems StepOne™and StepOnePlus™Real-Time PCR Systems
Installation, Networking, and Maintenance Guide
xvi
Obtaining
MSDSs
The MSDS for any chemical supplied by Applied Biosystems is available to you free
24 hours a day. To obtain MSDSs:
1. Go to docs.appliedbiosystems.com/msdssearch.html
2. In the Search field of the MSDS Search page:
a. Type the chemical name, part number, or other information that you expect to
appear in the MSDS of interest.
b. Select the language of your choice.
c. Click Search .
3. To view, download, or print the document of interest:
a. Right-click the document title.
b. Select:
•
Open – To view the document
•
Save Target As – To download a PDF version of the document to a
destination that you select
•
Print Target – To print the document
4. To have a copy of an MSDS sent by fax or e-mail, in the Search Results page:
a. Select Fax or Email below the document title.
b. Click RETRIEVE DOCUMENTS at the end of the document list.
c. Enter the required information.
d. Click View/Deliver Selected Documents Now .
Note: For the MSDSs of chemicals not distributed by Applied Biosystems, contact the
chemical manufacturer.

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Preface
Chemical Waste Safety
xvii
Applied Biosystems StepOne™and StepOnePlus™Real-Time PCR Systems
Installation, Networking, and Maintenance Guide
Chemical Waste Safety
Chemical Waste
Hazard
HAZARDOUS WASTE. Refer to Material Safety Data Sheets and local
regulations for handling and disposal.
CHEMICAL WASTE HAZARD. Wastes produced by Applied
Biosystems instruments are potentially hazardous and can cause injury, illness, or death.
CHEMICAL STORAGE HAZARD. Never collect or store waste in a
glass container because of the risk of breaking or shattering. Reagent and waste bottles can
crack and leak. Each waste bottle should be secured in a low-density polyethylene safety
container with the cover fastened and the handles locked in the upright position. Wear
appropriate eyewear, clothing, and gloves when handling reagent and waste bottles.
Chemical Waste
Safety Guidelines
To minimize the hazards of chemical waste:
• Read and understand the Material Safety Data Sheets (MSDSs) provided by the
manufacturers of the chemicals in the waste container before you store, handle, or
dispose of chemical waste.
• Provide primary and secondary waste containers. (A primary waste container holds the
immediate waste. A secondary container contains spills or leaks from the primary
container. Both containers must be compatible with the waste material and meet federal,
state, and local requirements for container storage.)
• Minimize contact with chemicals. Wear appropriate personal protective equipment when
handling chemicals (for example, safety glasses, gloves, or protective clothing). For
additional safety guidelines, consult the MSDS.
• Minimize the inhalation of chemicals. Do not leave chemical containers open. Use only
with adequate ventilation (for example, fume hood). For additional safety guidelines,
consult the MSDS.
• Handle chemical wastes in a fume hood.
• After emptying a waste container, seal it with the cap provided.
• Dispose of the contents of the waste tray and waste bottle in accordance with good
laboratory practices and local, state/provincial, or national environmental and health
regulations.
Waste Disposal
If potentially hazardous waste is generated when you operate the instrument, you must:
• Characterize (by analysis if necessary) the waste generated by the particular
applications, reagents, and substrates used in your laboratory.
• Ensure the health and safety of all personnel in your laboratory.
• Ensure that the instrument waste is stored, transferred, transported, and disposed of
according to all local, state/provincial, and/or national regulations.
IMPORTANT! Radioactive or biohazardous materials may require special handling, and
disposal limitations may apply.

DRAFT September 25, 2007 1:07 am, 4376782_Preface.fm
Preface
Electrical Safety
Applied Biosystems StepOne™and StepOnePlus™Real-Time PCR Systems
Installation, Networking, and Maintenance Guide
xviii
Electrical Safety
ELECTRICAL SHOCK HAZARD. Severe electrical shock can result
from operating the system
without its instrument panels in place. Do not remove instrument
panels. High-voltage contacts are exposed when instrument panels are removed from the
instrument.
Fuses
FIRE HAZARD. Improper fuses or high-voltage supply can damage
the instrument wiring system and cause a fire. Before turning on the instrument, verify that
the fuses are properly installed and that the instrument voltage matches the power supply in
your laboratory.
FIRE HAZARD. For continued protection against the risk of fire,
replace fuses only with fuses of the type and rating specified for the instrument.
Power
ELECTRICAL HAZARD. Grounding circuit continuity is vital for the
safe operation of equipment. Never operate equipment with the grounding conductor
disconnected.
ELECTRICAL HAZARD. Use properly configured and approved line
cords for the voltage supply in your facility.
ELECTRICAL HAZARD. Plug the system into a properly grounded
receptacle with adequate current capacity.
Overvoltage Rating
The StepOne
™
and StepOnePlus
™
systems have an installation (overvoltage) category of II,
and are classified as portable equipment.
LED Safety
To ensure safe LED operation:
• The system must be maintained by an
Applied Biosystems Technical Representative.
• All instrument panels must be in place on the instrument while the instrument is
operating. When all panels are installed, there is no detectable radiation present. If any
panel is removed when the LED is operating (during service with safety interlocks
disabled), you may be exposed to LED emissions in excess of
the Class 3B rating.
• Do not remove safety labels or disable safety interlocks.