Applied Biosystems

Veriti

Thermal Cycler
User Guide
Applied Biosystems
Veriti

Thermal Cycler
User Guide
© Copyright 2008, 2010 Applied Biosystems. All rights reserved.
General Laboratory Use.
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, IN-
CLUDING 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:
The Veriti

Thermal Cycler is covered by US patent claims and corresponding claims in their non-US counterparts. 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 in-
formation 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), ABI PRISM, BigDye, and GeneAmp, are registered trademarks and MicroAmp, VeriFlex, and Veriti are
trademarks of Applied Biosystems or its subsidiaries in the U.S. and/or certain other countries.
AmpliCycle, AmpliTaq, and AmpliTaq Gold is a registered trademark of Roche Molecular Systems, Inc.
All other trademarks are the sole property of their respective owners.
Part Number 4375799 Rev. E
06/2010
Contents Front Matter
iii Veriti™ Thermal Cycler User Guide
Preface
How to Use This Guide . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . vii
How to Obtain More Information . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . viii
How to Obtain Support . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . viii
Safety and EMC Compliance Information
Safety Conventions Used in This Document . . . . . . . . . . . . . . . . . . . . . . . . . . . . . xii
Symbols on Instruments . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . xiii
Safety Labels on Instruments . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . xiv
General Instrument Safety . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . xv
Chemical Safety . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . xvi
Chemical Waste Safety . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . xvii
Electrical Safety . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . xvii
Physical Hazard Safety . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . xvii
Safety and Electromagnetic Compatibility (EMC) Standards . . . . . . . . . . . . . . . xvii
Chapter 1 System Overview
Introducing the Veriti

Thermal Cycler . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1-2
Using the Touchscreen . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1-3
Menu Overview . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1-6
About Run Methods . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1-8
About Folders . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1-15
Chapter 2 Getting Started
Installing the Veriti

Thermal Cycler . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2-2
Before You Start . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2-2
Environmental Requirements . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2-3
Materials . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2-3
Unpacking the Veriti

System . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2-3
Setting Up the Veriti

System . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2-4
Connecting to a Network Printer . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2-5
Connecting Together Multiple Instruments . . . . . . . . . . . . . . . . . . . . . . . . . 2-5
iv Veriti™ Thermal Cycler User Guide
Powering On . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2-6
Setting Up the Veriti

Thermal Cycler . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2-7
Recommended Instrument Settings . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2-7
Setting Up Instrument Security and User Accounts . . . . . . . . . . . . . . . . . . . 2-9
Adding Users . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2-10
Setting Other Options . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2-14
Chapter 3 Performing a Run
Selecting Disposables . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3-2
Disposables for 96-Well Veriti

Thermal Cyclers . . . . . . . . . . . . . . . . . . . . . 3-2
Disposables for the 384-Well Veriti

Thermal Cycler . . . . . . . . . . . . . . . . . . 3-4
Disposables for the 60-Well Veriti

Thermal Cycler . . . . . . . . . . . . . . . . . . . 3-4
Loading Samples into the Instrument . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3-5
Loading Samples in Veriti

96-Well Thermal Cyclers . . . . . . . . . . . . . . . . . . 3-5
Loading Samples in the Veriti

384-Well Thermal Cycler . . . . . . . . . . . . . . . 3-6
Loading Samples in the Veriti

60-Well Thermal Cycler . . . . . . . . . . . . . . . . 3-7
Creating a New Run Method . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3-8
Editing Details . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3-10
Performing a Run . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3-18
Monitoring a Run . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3-21
Viewing and Printing the Run Report . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3-25
Removing the Samples from the Instrument . . . . . . . . . . . . . . . . . . . . . . . . . . . 3-25
Chapter 4 Troubleshooting
Troubleshooting . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 4-2
Returning an Instrument for Service . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 4-3
Chapter 5 Utilities
Using GeneAmp
®
PCR System 9700 Run Methods . . . . . . . . . . . . . . . . . . . . . . 5-2
Upgrading System Firmware . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 5-5
Calculating Melting Temperatures . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 5-7
Viewing Instrument Statistics . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 5-8
Restoring the Factory Settings . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 5-8
Running the Cycle Performance Test . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 5-10
Tests Using the Temperature Verification Kit . . . . . . . . . . . . . . . . . . . . . . . . . . . 5-11
Running the Heated Cover Verification . . . . . . . . . . . . . . . . . . . . . . . . . . . . 5-11
Running the Temperature Verification . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 5-12
Running the Temperature Nonuniformity Test . . . . . . . . . . . . . . . . . . . . . . 5-13
TVK Recalibration . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 5-13
v Veriti™ Thermal Cycler User Guide
Chapter 6 Maintenance
Scheduled Maintenance . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 6-2
As-Needed Maintenance . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 6-2
Cleaning the Instrument . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 6-2
Replacing Fuses . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 6-4
Parts List . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 6-6
Appendix A Instrument Specifications
System Specifications . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . A-2
Printer Specifications . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . A-3
Appendix B Disposables
Disposables . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . B-2
Other Supplies for Sample Handling . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . B-4
Appendix C Predefined Run Methods
Predefined Run Methods . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . C-2
AmpliCycle
®
Seq Run Method . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . C-2
AmpliTaq Gold
®
DNA Polymerase Run Method . . . . . . . . . . . . . . . . . . . . . . C-3
AmpliTaq Gold
®
Fast PCR Run Method . . . . . . . . . . . . . . . . . . . . . . . . . . . . C-3
BigDye
®
Kit Fast Run Method . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . C-4
BigDye
®
Kit Standard Run Method . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . C-4
Fast PCR Run Method . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . C-5
General PCR Run Method . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . C-5
LMS2 Run Method . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . C-6
Time Release Run Method . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . C-6
Touchdown PCR Run Method . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . C-7
XL PCR Run Method . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . C-7
Index
vi Veriti™ Thermal Cycler User Guide
vii Veriti™ Thermal Cycler User Guide
Preface
How to Use This Guide
Purpose of This
Guide
The Applied Biosystems Veriti

User Guide provides information about installing,
using and maintaining the Applied Biosystems Veriti Thermal Cycler.
Audience This guide is intended for novice and experienced Veriti Thermal Cycler users who
use the instrument to perform PCR.
Assumptions This guide assumes you have knowledge of basic laboratory procedures and PCR
chemistry.
Text Conventions 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 FileOpenSpot Set.
Right-click the sample row, then select View Filter View All Runs.
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! If your instrument is so configured, you need a valid user ID and
password to log in.
Safety Alert
Words
Safety alert words also appear in user documentation. For more information, see
“Safety Alert Words” on page xii.
viii Veriti™ Thermal Cycler User Guide
Preface
How to Obtain More Information
Related
Documentation
The following document is shipped with the system:
Applied Biosystems Veriti

Thermal Cycler Quick Reference Card – Provides a
summary of information about the thermal cycler, its installation, and accessories. It
is designed to help you quickly learn to use the Veriti Thermal Cycler.
A portable document format (PDF) version of this guide is available on the Veriti


Thermal Cycler Documentation CD.
Note: To open the user documentation on the Veriti

Thermal Cycler
Documentation CD, use the Adobe
®
Reader
®
software available from
www.adobe.com.
Note: For additional documentation, see “How to Obtain Support” on page viii.
Obtaining
Information from
the Help System
The Veriti Thermal Cycler has a Help system that describes how to use each feature
of the user interface. Access the Help system by touching (Help) at the bottom
right corner of the instrument touchscreen.
Send Us Your
Comments
Applied Biosystems welcomes your comments and suggestions for improving its
user documents. You can e-mail your comments to:
techpubs@appliedbiosystems.com
IMPORTANT! The e-mail address above is for submitting comments and suggestions
relating only to documentation. To order documents, download PDF files, or for help
with a technical question, go to http://www.appliedbiosystems.com, then click the
link for Support. (See “How to Obtain Support” below).
How to Obtain Support
Support
Information
For the latest services and support information for all locations, go to
http://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
• Contact technical services by clicking the Care Center link.
In addition, the Support page provides access to worldwide telephone and fax
numbers to contact Applied Biosystems Technical Support and Sales facilities.
ix Veriti™ Thermal Cycler User Guide
Preface
TVK Support
To send the temperature verification kit equipment for recalibration:
1. Use the address or Fax information below to request a quote from Alpha
Technics for a recalibration order:
• Mail: Alpha Technics
17151 Gillette Avenue
Irvine, Ca. 92614-5602
• Fax: (949)-271-2300
2. Ensure that the probe assembly has been decontaminated (see
“Decontaminating the Probe Assembly” on page 5-13).
3. Pack the digital thermometer and the probe assembly in the black case.
4. Create a shipping package with:
• Black case containing the digital thermometer and probe assembly
• Completed copy of the Certificate of Instrument Decontamination
• Payment for shipping/handling in one of the following forms:
– Purchase order
– Company letterhead with the words “verbal purchase order”
– Visa/MasterCard credit card information
• Your address and contact information:
– Billing address
– Return shipping address
– Name and phone number of a contact (person most familiar with the
thermometer)
Note: If payment is not included with the package, Alpha Technics bills you for
$150.00 plus a 10% administrative fee. The total for the purchase order is then
$165.00.
5. Send the package freight prepaid to Alpha Technics at the address in step 1.
x Veriti™ Thermal Cycler User Guide
Preface
xi Veriti™ Thermal Cycler User Guide
Safety and EMC Compliance Information
This section covers:
Safety Conventions Used in This Document. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . xii
Symbols on Instruments . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . xiii
Safety Labels on Instruments . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . xiv
General Instrument Safety. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .xv
Chemical Safety . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . xvi
Chemical Waste Safety . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . xvii
Electrical Safety . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . xvii
Physical Hazard Safety . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . xvii
Safety and Electromagnetic Compatibility (EMC) Standards . . . . . . . . . . . . . . . xvii
xii Veriti™ Thermal Cycler User Guide
Safety and EMC Compliance Information
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 to be 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 xiii).
Examples
The following examples show the use of safety alert words:
IMPORTANT! You must create a separate sample entry spreadsheet for each 96-well
plate.
The lamp is extremely hot. Do not touch the lamp until it has
cooled to room temperature.
CHEMICAL HAZARD. Formamide. Exposure causes eye,
skin, and respiratory tract irritation. It is a possible developmental and birth defect
hazard. Read the MSDS, and follow the handling instructions. Wear appropriate
protective eyewear, clothing, and gloves.
ELECTRICAL HAZARD. Failure to ground the instrument
properly can lead to an electrical shock. Ground the instrument according to the
provided instructions.
xiii Veriti™ Thermal Cycler User Guide
Safety and EMC Compliance Information
Symbols on Instruments
Electrical
Symbols on
Instruments
The following table describes the electrical symbols that may be displayed on
Applied Biosystems instruments.
Safety Symbols The following table describes the safety symbols that 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 xiv). These
safety symbols may also appear next to DANGERS, WARNINGS, and CAUTIONS
that occur in the text of this and other product-support documents.
Symbol Description
Indicates the On position of the main power switch.
Indicates the Off position of the main power switch.
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 the On/Off position of a push-push 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 a protective grounding terminal that must be
connected to earth ground before any other electrical
connections are made to the instrument.
Indicates a terminal that can receive or supply alternating
current or voltage.
Indicates a terminal that can receive or supply alternating
or direct current or voltage.
Symbol Description
Indicates that you should consult the manual for further
information and to proceed with appropriate caution.
Indicates the presence of an electrical shock hazard and
to proceed with appropriate caution.
xiv Veriti™ Thermal Cycler User Guide
Safety and EMC Compliance Information
Environmental
Symbols on
Instruments
The following symbol applies to all Applied Biosystems electrical and electronic
products placed on the European market after August 13, 2005.
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.
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.
Indicates the presence of moving parts and to proceed
with appropriate caution.
Symbol Description
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
http://www.appliedbiosystems.com for a list of
customer service offices in the European Union.
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.
WARNING Hot lamp. AVERTISSEMENT Lampe
brûlante.
xv Veriti™ Thermal Cycler User Guide
Safety and EMC Compliance Information
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.
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 xvi.
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.
WARNING Hot. Replace lamp with
an Applied Biosystems lamp.
AVERTISSEMENT Composants
brûlants. Remplacer la lampe par
une lampe Applied Biosystems.
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.
English Francais
xvi Veriti™ Thermal Cycler User Guide
Safety and EMC Compliance Information
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.
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.
Obtain MSDSs
from Applied
Biosystems
The MSDS for any chemical supplied by Applied Biosystems is available to you free
24 hours a day. To obtain MSDSs:
1. Go to www.appliedbiosystems.com, click Support, then click MSDS Search.
2. In the Keyword Search field, enter the chemical name, product name, MSDS
part number, or other information that appears in the MSDS of interest, then
click Search.
3. Find the MSDS of interest, click the link or right-click the MSDS title, then
select any of the following:
• Open – To view the MSDS
• Print Target – To print the MSDS
• Save Target As – To download a PDF version of the MSDS
Note: For the MSDSs of chemicals not distributed by Applied Biosystems,
contact the chemical manufacturer.
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 xvi.)
• 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.
xvii Veriti™ Thermal Cycler User Guide
Safety and EMC Compliance Information
Chemical Waste Safety
Chemical Waste
Hazard
HAZARDOUS WASTE. Refer to Material Safety Data Sheets
and local regulations for handling and disposal.
Electrical Safety
ELECTRICAL SHOCK HAZARD. Severe electrical shock can
result from operating the Veriti Thermal Cycler 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. Use properly configured and approved line cords for the
voltage supply in your facility. Plug the system into a properly grounded receptacle
with adequate current capacity.
Overvoltage
Rating
The Veriti Thermal Cycler has an installation (overvoltage) category of II, and is
classified as portable equipment
Physical Hazard Safety
Moving Parts PHYSICAL INJURY HAZARD. Moving parts can crush and
cut. Keep hands clear of moving parts while operating the instrument. Disconnect
power before servicing the instrument.
Safety and Electromagnetic Compatibility (EMC)
Standards
This section provides information on:
• U.S. and Canadian Safety Standards
• Canadian EMC Standard
• European Safety and EMC Standards
• Australian EMC Standards
xviii Veriti™ Thermal Cycler User Guide
Safety and EMC Compliance Information
U.S. and
Canadian Safety
Standards
The Veriti Thermal Cycler has been tested to and complies with standard:
UL 61010A-1/CAN/CSA C22.2 No. 1010.1-92, “Safety Requirements for Electrical
Equipment for Measurement, Control, and Laboratory Use, Part 1: General
Requirements.”
UL 61010A-2-010, “Particular Requirements for Laboratory Equipment for the
Heating of Materials.”
Canadian EMC
Standard
This instrument has been tested to and complies with ICES-001, Issue 3: “Industrial,
Scientific, and Medical Radio Frequency Generators.”
European Safety
and EMC
Standards
Safety
This instrument meets European requirements for safety (Low Voltage Directive
2006/95/EC). This instrument has been tested to and complies with standards
EN 61010-1:2001, “Safety Requirements for Electrical Equipment for Measurement,
Control and Laboratory Use, Part 1: General Requirements.”
EN 61010-2-010, “Particular Requirements for Laboratory Equipment for the
Heating of Materials.”
EN 61010-2-081, “Particular Requirements for Automatic and Semi-Automatic
Laboratory Equipment for Analysis and Other Purposes.”
EMC
This instrument meets European requirements for emission and immunity (EMC
Directive 2004/108/EC). This instrument has been tested to and complies with
standard EN 61326 (Group 1, Class B), “Electrical Equipment for Measurement,
Control and Laboratory Use – EMC Requirements.”
Australian EMC
Standards
This instrument has been tested to and complies with standard AS/NZS 2064,
“Limits and Methods Measurement of Electromagnetic Disturbance Characteristics
of Industrial, Scientific, and Medical (ISM) Radio-frequency Equipment.”
1-1 Veriti™ Thermal Cycler User Guide
1 System Overview 1
This chapter covers:
Introducing the Veriti

Thermal Cycler . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1-2
Using the Touchscreen . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1-3
Menu Overview. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1-6
About Run Methods . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1-8
About Folders . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1-15
1-2 Veriti™ Thermal Cycler User Guide
Chapter 1 System Overview
Introducing the Veriti

Thermal Cycler
About the
Instrument
There are four models of the Veriti

Thermal Cycler:
• Veriti 96-Well Fast Thermal Cycler (PN 4375305), with 0.1–mL sample wells
• Veriti 96-Well Thermal Cycler (PN 4375786), with 0.2–mL sample wells
• Veriti 384-Well Thermal Cycler (PN 4388444), with 0.02–mL sample wells
• Veriti 60-Well Thermal Cycler (PN 4384638), with 0.5–mL sample wells
You control the Veriti Thermal Cycler using the touchscreen display and easy-to-use
interface. Up to twelve Veriti Thermal Cyclers can be connected in a satellite-like
format through a network switch. With this connection, you can transmit run
methods from one Veriti thermal cycler to another and start multiple thermal cyclers
at once.
The Veriti Thermal Cycler has a run recovery feature. If a power failure occurs
during a run, the instrument will attempt to continue the run when the power returns.
In addition, the Veriti 96-Well Thermal Cyclers have VeriFlex

Blocks. These are
six independently regulated thermal blocks to aid in designing a primer set and run
method for optimal PCR conditions.
Figure 1-1 The Applied Biosystems Veriti

Thermal Cycler
This user guide provides information on how to maximize the capabilities of your
new Veriti Thermal Cycler. This user guide provides instructions for all four models
of the Veriti Thermal Cycler. Functions which are not the same for each model are
indicated by a comment such as “This function is only available for the Veriti 96-
Well Thermal Cyclers”.
1-3 Veriti™ Thermal Cycler User Guide
Chapter 1 System Overview
Detailed specifications for the Veriti Thermal Cycler are found in Appendix A,
“Instrument Specifications.”
Using the Touchscreen
You interact with the Veriti Thermal Cycler using a touchscreen.
Table 1 describes several buttons common to many of the touchscreens.
Table 1 Buttons in the Veriti

Thermal Cycler touchscreen
Button Function
Returns to the Main Menu screen.
Returns to the previous screen.
When a run is in progress, displays the Status
Report to view any errors that occurred during the
run.
When a run is in progress, displays the Run Monitor
screen to view the run.
Scrolls up and down through a list of items.
Displays the run method folders.
Creates a “shortcut” to the selected run method (or
methods).
Indicates that a USB drive is connected to the
instrument’s USB port.
Opens the Help system.
1-4 Veriti™ Thermal Cycler User Guide
Chapter 1 System Overview
Entering Text When you touch a field that requires the input of text, the text editor opens
(Figure 1-2).
Figure 1-2 The Veriti

Thermal Cycler text editor
To... Touch...
Enter a lowercase letter A letter button.
Enter an uppercase letter Caps, then the letter(s).
When you are done, touch Caps
again.
Enter punctuation or other symbols Symbols, then the symbol(s).
When you are done, touch
Symbols again.
Remove the contents of the entire field
.
Delete the last letter
Close the editor and save any changes
1-5 Veriti™ Thermal Cycler User Guide
Chapter 1 System Overview
Entering
Numerals
When you touch a field that requires only numerical input, the numeric editor opens
(Figure 1-3).
Figure 1-3 The Veriti

Thermal Cycler numeric editor
To... Touch...
Enter a number A number button.
The instrument automatically adds the
decimal point for those fields that include a
decimal point, such as a temperature value.
Colons (for entering times) and dashes (for
entering dates) are also automatically added.
Delete the last number
Remove the entire contents of the field
.
Close the editor and save any changes
.
1-6 Veriti™ Thermal Cycler User Guide
Chapter 1 System Overview
Menu Overview
The Main Menu
Screen
After you log in to the system, the Main Menu screen opens. This screen is the
starting point for operating the Veriti Thermal Cycler. The date, current time, and
current user are shown at the bottom of the screen.
If your system does not require login, the My Account button is not shown.
Figure 1-4 The Veriti

Thermal Cycler Main Menu screen
In the Main Menu screen, touch:
• Browse/New Methods to view and work with all the run methods to which you
have access (see “Viewing a Run Method” on page 1-9).
• Settings Menu to access various instrument configuration options. If you have
administrative privileges, you access the Admin Menu screen from this screen
(see “The Settings Menu Screen” on page 1-7).
• Tools Menu to access instrument tests, tools such as a Tm calculator and run
method conversion, as well as viewing the results of the last run and statistics
about the instrument (see “The Tools Menu Screen” on page 1-8).
• My Account to view and edit your account information. If your system does not
require login, this button is not shown.
• The Shortcut buttons allow you to configure instrument functions you
frequently use to appear in the Main Menu screen (see “Configuring Main
Menu Shortcuts to Functions” on page 2-15).
• Log Off to log off the instrument. You can still log off when a run is in process.
If your system does not require login, the (Power) button is shown instead.
• , (Help) to access the Help system.
1-7 Veriti™ Thermal Cycler User Guide
Chapter 1 System Overview
The Settings
Menu Screen
Use this screen to set various instrument configuration options.
For instruments that require login, only Users and Administrators have access to this
menu.
Figure 1-5 The Settings Menu screen, with the Admin Menu button shown
The Admin Menu
Screen
Use this screen to manage user accounts, set instrument security, back up run
methods and settings, upgrade the firmware, and perform other functions.
If your system does not require login, the Manage Users button is not shown.
For instruments that require login, only Administrators have access to this menu.
Figure 1-6 The Admin Menu screen, available only to users with administrative
privileges
1-8 Veriti™ Thermal Cycler User Guide
Chapter 1 System Overview
The Tools Menu
Screen
Use this screen to access various tools and instrument tests.
Figure 1-7 The Tools Menu screen, available to all users
For more information about the functions on the Tools Menu, see Chapter 5,
“Utilities.”
About Run Methods
What Is a Run
Method?
A run method is a set of instructions that specifies how the instrument should heat
and cool your samples. Run methods are stored in the instrument firmware.
Predefined
Methods
The Veriti Thermal Cycler firmware has ten predefined run methods
• AmpliCycle
®
Seq Run Method
• AmpliTaq Gold
®
DNA Polymerase Run Method
• AmpliTaq Gold
®
Fast PCR Run Method
• BigDye
®
Kit Standard Run Method
• BigDye
®
Kit Fast Run Method
• Fast PCR Run Method
• General PCR Run Method
• LMS2 Run Method
• Time Release Run Method
• Touchdown PCR Run Method
• XL PCR Run Method
Each method is stored in the Shared folder. You can edit, copy, and run these
predefined methods as you would any other run method, but you cannot delete them.
For details on these methods, see Appendix C, “Predefined Run Methods.”
1-9 Veriti™ Thermal Cycler User Guide
Chapter 1 System Overview
Viewing a Run
Method
To view a run method:
1. In the Browse Run Methods screen, touch a run method to select it, then touch
View/Edit.
The run method is displayed:
IMPORTANT! If you are logged on as a Limited User, you can make changes to
the run method but you cannot save it. If you are logged on as a Guest, you can
make changes to the run method but you can only save it to a USB drive.
2. To view:
• Other steps in the run method – Touch the arrow buttons at the end of the
run method.
• View steps with ramp rates – Touch Options, then Ramp Rate. The fields
showing times update to show the corresponding ramp rates.
3. When you are done, touch to return to the Browse Run Methods screen.
1-10 Veriti™ Thermal Cycler User Guide
Chapter 1 System Overview
Managing Run
Methods
To see the run methods in the current folder:
• In the Main Menu screen, touch Browse/New Methods.
The Browse Run Methods screen is displayed. The title includes the number of
run methods in parentheses.
Figure 1-8 The Browse Run Methods screen, showing the most recently
accessed run methods
To select a run method:
1. If a run method is already selected in the Browse Run Methods screen:
a. Touch the row for the selected method to deselect it.
b. Touch the row for the method of interest.
2. To select more than one method, touch each method.
Table 2 lists the administrative tasks you can perform for run methods.
Table 2 Managing run methods
If you want to... Do this...
Sort run methods by different
criteria
Touch the title of the column with the criteria by which
you want to sort the run methods.
Touch the title a second time to sort in the opposite
order.
View more run methods in the
current folder
Touch (Page Down).
View run methods in a different
folder
Touch (folders). In the Manage Folders All screen
that opens, touch the folder you want to view.
Start a run In the list of run methods, touch a run method to select
it, then touch Start Run (see “Performing a Run” on
page 3-18).
1-11 Veriti™ Thermal Cycler User Guide
Chapter 1 System Overview
Copying a Run
Method
Note: If your instrument requires login, you must have User or Administrator level
permissions to copy a run method.
To copy a run method:
1. Log in as a user with User or Administrator access.
2. In the Browse Run Methods screen, find the run method or methods you want to
copy.
3. Touch each run method to select it, then touch Copy.
4. In the Save Run Method screen:
a. If you are copying one method – touch Name, then rename the method,
and/or touch (Folder) to save the run method to a different folder.
or
If you are copying more than one method – touch (Folder) to save the
run methods to a different folder.
Create a new run method Touch New (see “Creating a New Run Method” on
page 3-8).
View or edit a run method In the list of run methods, touch the run method to
select it, then touch View/Edit (see “Editing Details” on
page 3-10).
Copy one or more run methods In the list of run methods, touch each run method to
select it, then touch Copy (see “Copying a Run
Method” on page 1-11).
Print a run method In the list of run methods, touch a run method to select
it, then touch Print (see “Printing a Run Method” on
page 1-12).
Delete one or more run methods In the list of methods, touch each run method to select
it, then touch Delete (see “Deleting a Run Method” on
page 1-12).
Designate a run method as the
default
See “Designating a Run Method as the Default” on
page 1-12.
Create a shortcut to a run
method on the Main Menu
In the list of run methods, touch each run method to
select it, then touch (Create Method Shortcut.)
See “Creating a Shortcut to a Run Method” on
page 1-13.
Back up run methods See “Backing Up Run Methods and Other Settings” on
page 1-13.
Restore run methods that you
previously backed up
See “Restoring Run Methods and Other Settings” on
page 1-14.
Table 2 Managing run methods (continued)
If you want to... Do this...
1-12 Veriti™ Thermal Cycler User Guide
Chapter 1 System Overview
b. As needed, touch Reaction Volume, Cover Temperature and Notes to
edit the values. You can change any of these values when you perform a run
with this run method.
c. Touch Save & Exit, then OK.
Printing a Run
Method
Note: Before you print a run method, be sure your instrument is connected to a
printer. See “Connecting to a Network Printer” on page 2-5.
1. In the Browse Run Methods screen, locate the run method you want to print.
2. Touch the run method to select it, then touch Print.
Deleting a Run
Method
Note: If your instrument requires log in, you must have User or Administrator level
permissions to delete a run method.
To delete a run method:
1. Log in as a user with User or Administrator access.
2. In the Browse Run Methods screen, find the run method you want to delete.
3. Touch the run method to select it, then touch Delete.
4. In the dialog box that opens, verify the deletion.
5. Touch Yes in the message box.
The run method is deleted.
Designating a
Run Method as
the Default
The run method that is designated as the default method is used as the starting point
for all new methods. The Veriti Thermal Cycler uses the General PCR run method
(shown on page C-5) as the default, unless you change to another method.
IMPORTANT! If your instrument requires login, you must have User or
Administrator level permissions to set the default run method. Only a run method in
the Shared folder can be set as the default method.
To designate a run method as the default:
1. Log in as a user with User or Administrator access.
2. In the Main Menu screen, touch Settings Menu.
3. In the Settings Menu screen, touch Set Default Method.
The Set the Default Run Method screen is displayed, with only the run methods
in the Shared folder displayed.
4. In the Set the Default Run Method, touch the run method you wish to designate
as the default, then touch Make Default. In the message box that opens, touch
OK.
The Settings Menu screen opens and the selected run method is now the default.
1-13 Veriti™ Thermal Cycler User Guide
Chapter 1 System Overview
Creating a
Shortcut to a Run
Method
You can add buttons to the Main Menu screen that allow you to go directly to the
Edit Run Method screen for a particular run method. When login is required, each
user can configure his or her own shortcut buttons; otherwise the shortcut buttons are
displayed for all instrument users.
Note: You can also create shortcuts to instrument functions (see “Configuring Main
Menu Shortcuts to Functions” on page 2-15).
1. In the Browse Run Methods screen, touch one or more methods, then touch
(Create Method Shortcut).
2. In the message box that appears, touch OK.
The selected run methods appear as buttons in the Main Menu screen. The name
of the method is followed by the name, in parentheses, of the folder where the
method is stored.
Note: Run method names longer than twelve characters will appear truncated
on the shortcut button.
To delete a shortcut to a run method, see “Configuring Main Menu Shortcuts to
Functions” on page 2-15.
Backing Up Run
Methods and
Other Settings
You can back up the instrument's run methods and other settings to a USB drive. All
run methods, folders, user information, and other instrument settings are saved.
Note: If your instrument requires login, you must have Administrator level
permissions to back up run methods and instrument settings.
1. Insert the USB drive into the USB port on the front of the instrument.
2. Log in as a user with Administrator access.
3. In the Main Menu screen, touch Settings Menu, then Admin Menu.
USB Port
1-14 Veriti™ Thermal Cycler User Guide
Chapter 1 System Overview
4. In the Admin Menu screen, touch Back Up Methods & Settings.
The Back Up Method and Settings screen is displayed:
5. Touch Back Up.
If a back up file already exists, you are prompted to overwrite it.
The instrument copies all run methods, folders, user information, and other
instrument settings to the USB drive, then displays a message box when the
backup is complete.
6. Touch OK, then touch (Close) to return to the Admin Menu screen.
7. Remove the USB drive and store it in a safe place.
Restoring Run
Methods and
Other Settings
You can restore run methods and other settings from a USB drive to an instrument.
The restore feature can also be used to load run methods onto another instrument in
your lab.
To restore run methods and instrument settings:
1. Insert the USB drive containing the saved run methods and settings into the
USB port on the front of the instrument.
2. Open the About the Instrument screen in one of the following ways:
• Touch Log Off to return to the Login Options screen, then touch About
the Instrument.
• In the Main Menu screen, touch Settings Menu, then About the
Instrument.
1-15 Veriti™ Thermal Cycler User Guide
Chapter 1 System Overview
The About the Instrument screen is displayed:
3. In the About the Instrument screen, touch Restore Methods & Settings, then
Yes in the message box.
The instrument copies all run methods, folders, user information, and other
instrument settings from the USB drive to the instrument, then displays a
message box when the restore is complete.
4. Remove the USB drive and store it in a safe place.
5. Toggle the switch on the back of the instrument to power off.
6. Toggle the switch again to power on the instrument.
IMPORTANT! If you restore information to an instrument that is different from the
instrument that provided the backup data and your instruments are on a network, you
should change the instrument’s name. See “Setting the Instrument Name” on
page 2-8.
About Folders
Each run method is saved in a folder. There are three folders available by default:
• Default – Run methods are stored here if you do not select another folder. Run
methods stored in this folder, run methods can be accessed, edited, run, and
deleted only by the user who created them. The Default folder has a blue button.
• Shared – Run methods can be accessed, edited, run, and deleted by any user. In
the Browse Folders screen, the Shared folder has a blue button.
• USB – This folder shows all run methods on the USB drive. If a USB drive is
present in the instrument, this button is blue, otherwise it is grey.
In addition, you may create up to nine custom folders. In a custom folder, run
methods can be accessed, edited, run, and deleted only by the user who created them.
In the Manage Folders screen, custom folders have a yellow button.
1-16 Veriti™ Thermal Cycler User Guide
Chapter 1 System Overview
You can create a new folder when you save a run method (see step 6 on page 3-9) or
you can create one by touching New in the Manage Folders screen.
Deleting Custom
Folders
You can delete any custom folder. When you delete a custom folder, all run methods
in that folder are also deleted.
1. In the Main Menu screen, touch Settings Menu.
2. In the Settings Menu screen, touch Manage Folders.
3. In the Manage Folders screen, touch the button for the folder you want to delete,
then touch Delete.
4. Touch Yes in the dialog box that opens, then OK.
The folder is deleted.
5. Repeat steps 3 and 4 to delete other folders.
6. When you are done making changes to folders, touch (Close) to return to
the Settings Menu screen.
Renaming
Custom Folders
You can rename any custom folder.
1. In the Main Menu screen, touch Settings Menu.
2. In the Settings Menu screen, touch Manage Folders.
3. In the Manage Folders screen, touch the button for the folder you want to
rename, then touch Rename.
4. Enter up to 12 characters for the folder’s new name, then touch Done to return
to the Manage Folders screen.
5. Repeat steps 3 and 4 to rename any other folders.
6. When you are done making changes to folders, touch (Close) to return to
the Settings Menu screen.
2-1 Veriti™ Thermal Cycler User Guide
2 Getting Started 2
This chapter covers:
Installing the Veriti

Thermal Cycler . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2-2
Setting Up the Veriti

Thermal Cycler . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2-7
2-2 Veriti™ Thermal Cycler User Guide
Chapter 2 Getting Started
Installing the Veriti

Thermal Cycler
Before You Start
Site
Requirements
The Veriti

Thermal Cycler is for indoor use. Ensure that the installation site:
• Meets the spatial and weight requirements (see “System Specifications,” below)
• Meets environmental requirements (see “Environmental Requirements,” below)
• Is within 1 m (3 ft.) of a 800 VA power receptacle
• Is away from water
System
Specifications Table 1 Physical dimensions, weight, and power consumption
Parameter
Instrument
Footprint
Recommended
Clearance
Total
Length
48.5 cm
(19.1 in)
15.5 cm
(6.1 in)

‡ At the rear of the instrument to ensure adequate airflow and cooling.
64 cm
(15.2 in)
Width
23.7 cm
(9.3 in)
0 cm
(0 in)
23.7 cm
(9.3 in)
Height
§
§ With the heated cover open
40.0 cm
(15.7 in)
15.5 cm
(6.1 in)
#
# Above the instrument to provide adequate space for opening the heated cover, as shown
below.
55.5 cm
(21.8 in)
Weight
10.6 kg
(22.6 lbs)
Power
Consumption
800 VA – Maximum consumption
~260 VA – Average during thermal cycling
~10 VA – During sleep/standby
1 square. = 10 cm
2
(3.94 in
2
)
2-3 Veriti™ Thermal Cycler User Guide
Chapter 2 Getting Started
Environmental Requirements
Temperature and
Humidity
Requirements
Ensure that the installation site is maintained under the following conditions:
Avoid placing the instrument adjacent to heaters, cooling ducts, or in direct sunlight.
Fluctuations between day and night temperatures can cause system instability. Place
away from any equipment that vibrates, such as a refrigerator or centrifuge.
Pollution The Veriti Thermal Cycler has a Pollution Degree rating of 2. It may be installed in
an environment that has nonconductive pollutants only, such as dust particles or
wood chips. Typical environments with a Pollution Degree II rating are laboratories
and sales and commercial areas.
Altitude The safety of Veriti Thermal Cycler use was tested for altitudes up to 2000 ft.
Materials
Required
Materials
• Scissors, pocket knife, or box cutter
• Compressed air
• Protective hardware, as appropriate (see below)
Optional
Protective
Hardware
Applied Biosystems supports the use of the following devices to protect the Veriti
Thermal Cycler from damage resulting from electrical hazards and the resultant loss
of data. Before installing the system, decide what additional hardware (if any) you
want to install.
• Power line regulator (1.5-kVA)
• Surge protector/line conditioner (10-kVA)
• Uninterruptible power supply (1.5-kVA)
Unpacking the Veriti

System
IMPORTANT! Save the packing materials and box in case you need to ship the
instrument to Applied Biosystems for service.
1. To unpack the Veriti

System:
a. Cut the straps securing the instrument box.
b. Cut the tape securing the top flaps of the instrument crate, then open the
flaps.
c. Remove the Veriti

System Accessories from the instrument and set them
aside.
d. Lift and remove the cover from the instrument crate.
Condition Acceptable Range
Temperature 15 to 30 °C (59 to 86 °F)
Humidity 20 to 80% relative humidity, noncondensing
2-4 Veriti™ Thermal Cycler User Guide
Chapter 2 Getting Started
e. Remove the packing material from the Veriti

System, then inspect the
instrument for shipping damage.
IMPORTANT! If the Veriti

System is damaged, note the location and
appearance of the damage, then contact Applied Biosystems Technical Support
or your service representative (see “How to Obtain Support” on page viii).
2. Move the Veriti

System to the desired installation site. Follow these
guidelines for lifting and moving:
• Make sure that you have a secure, comfortable grip.
• Keep your spine in a neutral position.
• Bend at the knees and lift with your legs.
• Do not lift and twist your torso at the same time.
3. Open the bag containing the Veriti

System Accessories, then verify that it
contains:
• Applied Biosystems Veriti

Thermal Cycler User Guide CD
• Cable, Power 13A/125V North America (PN 4382067)
• Cable, Power 10A/220V Europe (PN 4382068)
• Veriti

System Starter Kit
Setting Up the Veriti

System
1. Remove the packing material:
a. Open the Veriti

System heated cover.
b. Remove the packing material from the sample block(s).
c. Using a can of compressed air, deliver a blast of air into each well of the
sample block(s) to remove any particles that may have collected during
transportation.
d. Close the heated cover.
2-5 Veriti™ Thermal Cycler User Guide
Chapter 2 Getting Started
2. Connect the power cable to the Veriti

System.
3. (Optional) Install any of the recommended protective devices (see “Optional
Protective Hardware” on page 2-3).
4. Connect the power cable to the 800 VA power source receptacle.
Connecting to a Network Printer
Requirements The Veriti Thermal Cycler requires a printer that:
• Has an Ethernet port
• Supports the LPD/LPR protocol (often called a “TCP/IP printer”)
1. Plug the Ethernet cable into the Ethernet port on the back of the instrument.
2. Plug the other end of the cable into a network port.
You must also configure the instrument firmware with printer information
before you can print (see “Configuring the Instrument for a Printer” on
page 2-8).
Connecting Together Multiple Instruments
You Will Need Connecting your Veriti Thermal Cycler to other Veriti Thermal Cyclers allows you
to use one instrument to control others. You can connect together up to 12
instruments.
To connect together multiple Veriti Thermal Cyclers, you need:
• An Ethernet cable for each Veriti Thermal Cycler
• A network switch
• A TCP/IP printer, if you want to print
For best results, do not connect the network switch to your laboratory’s network.
Communication between Veriti Thermal Cyclers works best on an isolated system,
free from interference by other network traffic.
Making the
Connections
1. Connect the Ethernet cable to the back of the thermal cycler and connect the
other end of the cable to the network switch.
2. Repeat step 1 for each thermal cycler.
3. Connect the printer to the network switch.
4. Power on the network switch.
5. For each thermal cycler, follow the instructions in “Setting the IP Address” on
page 2-7 and “Setting the Instrument Name” on page 2-8.
• When you set the instrument’s IP address, select Assign IP address
dynamically (using DHCP).
• Make sure each instrument name is unique.
2-6 Veriti™ Thermal Cycler User Guide
Chapter 2 Getting Started
6. Follow the instructions in “Configuring the Instrument for a Printer” on
page 2-8.
7. Continue with “Powering On,” below, and “Setting Up the Veriti

Thermal
Cycler” on page 2-7.
Powering On
1. Verify that the heated cover is closed.
2. Press the power button on the back left side of the instrument:
The instrument powers on and the Main Menu screen is displayed:
2-7 Veriti™ Thermal Cycler User Guide
Chapter 2 Getting Started
Setting Up the Veriti

Thermal Cycler
Recommended Instrument Settings
Before performing a run, be sure to set the following instrument settings:
• Instrument IP address (page 2-7)
• Instrument name (page 2-8)
• Current date and time (page 2-8)
• Printer information, if you want to print run methods or the run report
(page 2-8)
Optionally, you can also change the settings for:
• User accounts and security (page 2-9)
• Idle state temperatures for the cover and the sample block(s) (page 2-14)
• Durations for pauses and stand-by (page 2-15)
• “Shortcuts” to instrument functions (to be displayed on the Main Menu)
(page 2-15)
Setting the IP
Address
Note: If your instrument is not on a network, you do not need to set the IP address.
The IP address can be assigned dynamically by a computer on the network (using
DHCP) or set manually by entering a number in the IP Address screen.
Note: Ask your system administrator if the IP address is assigned statically or
dynamically. For static addresses, you need to know the IP address for the
instrument, the subnet mask, and the default gateway.
1. In the Main Menu screen, touch Settings Menu.
2. In the Settings Menu screen, touch Admin Menu.
3. In the Admin Menu screen, touch Set IP Address.
4. In the IP Settings screen, set the IP address:
2-8 Veriti™ Thermal Cycler User Guide
Chapter 2 Getting Started
• Dynamically – Touch Assign IP address dynamically (using DHCP). A
check mark appears when DHCP is selected.
or
• Manually – Touch Static, then enter the appropriate IP addresses for the
instrument, the subnet mask, and, optionally, the default gateway using the
numeric editor. Addresses are in the form of X.X.X.X, where each X is a 3-
digit number, from 001 to 255.
5. Touch Done, then OK to save your changes and return to the Admin Menu
screen.
Setting the
Instrument Name
By default the instrument name is set to the instrument serial number. You can
change the name to something more descriptive. The instrument name appears in the
About the Instrument and Run Report screens and, if you connect together multiple
instruments, in the Select Instruments screen.
1. In the Main Menu screen, touch Settings Menu.
2. In the Settings Menu screen, touch Admin Menu.
3. In the Admin Menu screen, touch Set Instrument Name.
4. Touch the field to enter the new name.
Names cannot contain spaces and cannot be more than 24 alphanumeric
characters or, for numeric-only names, 10 characters.
5. Touch Yes next to Allow Remote Runs to make the instrument available for
remote runs (a run on this instrument can be started from another instrument);
otherwise touch No.
6. Touch Done, then OK to save your changes and return to the Admin Menu
screen.
Note: If you edit the Instrument Name field, you can still view the serial number in
the About the Instrument screen. You can access the About the Instrument screen
from either the Login screen or the Settings Menu screen.
Configuring the
Instrument for a
Printer
If you want to print the run report, test results, and/or a run method, you must
configure the instrument with information about the printer.
1. In the Main Menu screen, touch Settings Menu.
2. In the Settings Menu screen, touch Configure Printer.
3. Touch the fields to set the printer’s name and IP address.
4. Touch Done to save your changes and return to the Settings Menu screen.
Setting the Date
and Time
The date and time appear in the run report and at the bottom of many of the screens
on the instrument.
1. In the Main Menu screen, touch Settings Menu.
2. In the Settings Menu screen, touch Admin Menu.
3. In the Admin Menu screen, touch Set Date & Time.
2-9 Veriti™ Thermal Cycler User Guide
Chapter 2 Getting Started
4. To set the date, touch Date, then enter today’s date, using the format YYYY-
MM-DD. The instrument automatically enters the “-”.
5. To set the time, touch Time, enter the current time using the format HH:MM,
then touch AM or PM. The instrument automatically enters the “:”.
6. Touch Done, then OK to save your changes and return to the Admin Menu
screen.
Setting Up Instrument Security and User Accounts
By default, the Veriti Thermal Cycler has all security settings disabled, allowing
anyone to use the instrument and/or change instrument settings.
To change the security settings for the instrument:
1. Log in as a user with Administrator access.
2. In the Main Menu screen, touch Settings Menu.
3. In the Settings Menu screen, touch Admin Menu.
4. In the Admin Menu screen, touch Security.
5. To allow VeritiLink

Remote Management Software to control this instrument,
touch Yes next to Allow VeritiLink Software Control.
6. To require each user to log in when using the instrument, touch Yes next to
Require Login.
7. To allow anyone to log in as a guest, touch Yes next to Enable Guest Account.
A guest user can perform runs, view and print run methods, and run tests. Also,
for run methods stored on a USB drive, a guest can create, view, edit, delete,
save, and print run methods.
A guest user cannot manage users or set instrument preferences.
8. To allow users to log in without entering a password, touch Yes next to Require
Password.
2-10 Veriti™ Thermal Cycler User Guide
Chapter 2 Getting Started
9. Touch Done, then touch:
• Yes, to restart the instrument and have the changes take effect
immediately. Toggle the switch on the back of the instrument to power off
then toggle the switch again to power on the instrument. After you restart,
follow the instructions in “Adding Yourself, as a User” on page 2-10.
or
• No to have the changes take effect the next time the instrument is restarted
with the power switch on the back of the instrument.
Adding Users
Access Levels Each user is assigned an access level that determines how he or she can interact with
the instrument. There are three access levels:
• Limited User – Can perform runs, view and print run methods, and run tests.
Cannot edit or create run methods, manage users, or set instrument preferences.
• User – Can perform runs, create, view, edit, delete, save and print run methods,
and run tests. Cannot manage users or set instrument preferences.
• Administrator – Can access all instrument functions, including setting security,
managing users and settings instrument preferences.
Adding Yourself,
as a User
If you set the instrument to require login, you need to use the default administrator
user name and password until you create your own user account.
To add yourself as a user:
1. In the opening screen, touch On, then Log In.
2. In the Log In screen, touch:
a. The User field, then enter admin.
b. The Password field, then enter password.
c. Log In.
3. In the Main Menu screen, touch Settings Menu.
2-11 Veriti™ Thermal Cycler User Guide
Chapter 2 Getting Started
4. In the Settings Menu screen, touch Admin Menu.
5. Follow the instructions in “Adding Users” to add yourself as a user. Make sure
you make yourself an Administrator.
Adding Users
To add a user:
1. Log in as a user with Administrator access.
2. In the Main Menu screen, touch Settings Menu.
3. In the Settings Menu screen, touch Admin Menu.
4. In the Admin Menu screen, touch Manage Users.
The Manage Users screen is displayed:
5. Touch Add User.
The Create New User Account screen is displayed:
6. Enter information for the new user. The required fields are User Name,
Password, Re-enter Password, and Permission Level.
2-12 Veriti™ Thermal Cycler User Guide
Chapter 2 Getting Started
a. User Name must be between 5 and 15 characters, with no spaces.
b. Password must be at least 1 character.
c. Touch Set Access, then touch one of the following:
• Limited User
• User
• Administrator
d. Touch Done to close the Permission screen.
7. Touch Done, then OK to add the user account to the instrument.
The new user appears in the Manage Accounts screen.
8. When you finish, touch (Close) to return to the Admin Menu screen.
Changing a User
To edit a user:
1. Log in as a user with Administrator access.
2. In the Main Menu screen, touch Settings Menu.
3. In the Settings Menu screen, touch Admin Menu.
4. In the Admin Menu screen, touch Manage Users.
The Manage Users screen is displayed:
5. In the list, touch the user in the list, then touch Edit User.
2-13 Veriti™ Thermal Cycler User Guide
Chapter 2 Getting Started
The Edit User screen is displayed:
6. In the Edit User Account screen, make the required changes:
• Touch Phone and/or Email to edit the contents.
• Touch Set Access to change the access level for the user.
• Touch Set Password to change the password for the user.
7. Touch Done, then OK to return to the Manage Users screen.
8. When you finish, touch (Close) to return to the Admin Menu.
Deleting a User
To delete a user:
1. Log in as a user with Administrator access.
2. In the Main Menu screen, touch Settings Menu.
3. In the Settings Menu screen, touch Admin Menu.
4. In the Admin Menu screen, touch Manage Users.
The Manage Accounts screen is displayed:
2-14 Veriti™ Thermal Cycler User Guide
Chapter 2 Getting Started
5. In the list, touch the user name for the account you want to delete, then touch
Delete User.
A confirmation message appears.
6. Touch OK to delete the user and any run methods or folders for that user, then
OK.
7. When you finish, touch (Close) to return to the Admin Menu.
Setting Other Options
Table 2 lists additional options that can be adjusted or activated. These settings apply
to all users.
Setting Idle
Temperatures for
the Block(s) and
Cover
1. In the Main Menu screen, touch Settings Menu.
2. In the Settings Menu screen, touch Set Idle Temperatures.
3. In the Idle State Temperatures screen, to set the temperatures for the sample
block(s) and the cover, touch:
Table 2 Additional options (and their default values) for the Veriti Thermal Cycler
Option Default Value
See
Page
Idle temperatures for the cover and the sample
block(s)
Cover: 105 °C
Sample block(s): 25 °C
2-14
Durations for pause and standby time-outs Pause: 10 sec.
Standby: 1 min. 30 sec.
2-15
Shortcuts to appear on the Main Menu screen None 2-15
2-15 Veriti™ Thermal Cycler User Guide
Chapter 2 Getting Started
a. Enabled to turn the option on. If this is disabled, the temperature for the
cover and/or block(s) is not maintained by the instrument and will
eventually come to room temperature.
b. The Temperature field, then enter the temperature. The temperature for
the cover must be between 4 and 99 °C.
4. Touch Done to save your changes and return to the Settings Menu screen.
Setting
Time-Outs
1. In the Main Menu screen, touch Settings Menu.
2. In the Settings Menu screen, touch Set Time-outs.
3. In the Set Time-Outs screen, touch Time-out, then enter the duration.
• Default Standby Time-Out sets the duration that the instrument is idle
before the touchscreen is turned off. Enter a duration of 00:00 if you do not
want the instrument to turn off the touchscreen.
• Default Pause Duration sets the duration the instrument pauses, after you
touch Pause during a run.
4. Touch Done, then OK to save your changes and return to the Settings Menu
screen.
Configuring Main
Menu Shortcuts
to Functions
You can add buttons to the Main Menu screen that allow you to go directly to various
instrument functions. When login is required, each user can configure his or her own
shortcut buttons; otherwise the shortcut buttons are displayed for all instrument
users.
You can also create shortcuts to run methods (see “Creating a Shortcut to a Run
Method” on page 1-13).
1. In the Main Menu screen, touch:
• Any button labeled Shortcut X (where X is a number).
or
• Settings Menu, then Configure Shortcuts.
2-16 Veriti™ Thermal Cycler User Guide
Chapter 2 Getting Started
2. In the list of functions available as shortcuts in the Configure Shortcuts screen,
touch the functions to select them. Touch (Page Up) and (Page Down) to
scroll through the list.
3. Touch Done to return to the Settings Menu screen.
The selected shortcut(s) appear in the Main Menu screen.
Deleting Shortcuts
To delete a shortcut, follow the steps above, but uncheck the function to remove it
from the Main Menu. Any run methods for which there is a shortcut are shown at the
bottom of the list and can also be deleted.
3-1 Veriti™ Thermal Cycler User Guide
3 Performing a Run 3
This chapter covers:
Selecting Disposables . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3-2
Loading Samples into the Instrument . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3-5
Creating a New Run Method. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3-8
Editing Details. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3-10
Performing a Run . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3-18
Monitoring a Run . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3-22
Viewing and Printing the Run Report . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3-25
Removing the Samples from the Instrument . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3-25
3-2 Veriti™ Thermal Cycler User Guide
Chapter 3 Performing a Run
Selecting Disposables
Use this section to determine the tube, sample tray, and plate configurations
appropriate for your thermal cycler and application.
• “Disposables for 96-Well Veriti

Thermal Cyclers” on page 3-2
• “Disposables for the 384-Well Veriti

Thermal Cycler” on page 3-4
• “Disposables for the 60-Well Veriti

Thermal Cycler” on page 3-4
See Appendix B, “Disposables,” for part numbers for these items.
Disposables for 96-Well Veriti

Thermal Cyclers
96-Well Tube
Configurations
IMPORTANT! The tray or the tray/retainer is required for the operation of the Veriti
Thermal Cycler.
You can use three different types of tube configurations to hold your samples, as
shown in Figure 3-1.
Figure 3-1 Different tube configurations for use in 96-Well Veriti Thermal
Cyclers
GR 0 6


G
R

0

6

MicroAmp
®
Fast Reaction Tube with Cap (0.1-mL)
or
MicroAmp
®
Reaction Tube with Cap (0.2-mL)
MicroAmp
®
Reaction Tube (0.2-mL) with
MicroAmp

8-Cap Strip
MicroAmp

Fast 8-Tube Strip (0.1-mL)
or
MicroAmp

8-Tube Strip (0.2-mL)
with MicroAmp

8-Cap Strip
3-3 Veriti™ Thermal Cycler User Guide
Chapter 3 Performing a Run
96-Well Sample
Tray and Plate
Configurations
The following table lists the possible sample tray and plate configurations.
IMPORTANT! The MicroAmp

Splash Free 96-Well Base shown below is used
only when pipetting samples into tubes or trays. Do not place it in the sample
block(s).
Run Vessel Compatible Component Illustration
MicroAmp

Fast Optical
96-Well Reaction Plate
(0.1-mL)
MicroAmp

Caps, 8-Cap
Strip
or
MicroAmp

Clear Adhesive
Film (not shown) MicroAmp


Optical
96-Well Reaction Plate
(0.2-mL)
MicroAmp
®
Fast Reaction
Tube with Cap (0.1-mL)
96-Well Tray for VeriFlex


Blocks
MicroAmp
®
Reaction Tube
with Cap (0.2-mL)
MicroAmp

8-Tube Strip
(0.2-mL)
or
MicroAmp
®
Reaction Tube
without Cap (0.2-mL)
MicroAmp

8-Cap Strip
and
MicroAmp

96-Well
Tray/Retainer Set for
Veriti

Systems
G
R
2
0
0
6
MicroAmp

8-Cap Strip
MicroAmp

Fast Optical
96-Well Reaction Plate
(0.1-mL)
or
MicroAmp

Optical
96-Well Reaction Plate
(0.2-mL)
MicroAmp

Splash Free
96-Well Base
G
R
2
0
0

MicroAmp
®
Fast Reaction
Tube with Cap (0.1-mL)
or
MicroAmp
®
Reaction Tube
with Cap (0.2-mL)
MicroAmp

Splash Free
96-Well Base
MicroAmp

96-Well Tray
for VeriFlex

Blocks
MicroAmp

96-Well
Retainer
G
R
2
0
0
3
MicroAmp

Splash Free
96-Well Base
MicroAmp

8-Tube Strip
(0.2-mL)
or
MicroAmp
®
Reaction Tube
without Cap (0.2-mL)
MicroAmp

96-Well Tray
for Veriti

Systems
MicroAmp

8-Cap Strip
3-4 Veriti™ Thermal Cycler User Guide
Chapter 3 Performing a Run
Disposables for the 384-Well Veriti

Thermal Cycler
There is one plate configuration for the Veriti 384-Well Thermal Cycler, shown in
Figure 3-2, below. This uses the MicroAmp™ Optical 384-Well Reaction Plate.
Figure 3-2 MicroAmp

Optical 384-Well Reaction Plate with MicroAmp

Clear
Adhesive Cover
Disposables for the 60-Well Veriti

Thermal Cycler
You can use three types of tubes to hold your samples, as shown in Figure 3-3.
Figure 3-3 Different tubes for use in the Veriti

384-Well Thermal Cycler
GeneAmp
®
Thin-Walled Reaction Tube with Flat Cap (0.5-mL)
GeneAmp
®
Thin-Walled Reaction Tube with Domed Cap (0.5-mL)
or
GeneAmp
®
Thin-Walled Reaction Tube with Domed Cap,
Autoclaved (0.5-mL)
3-5 Veriti™ Thermal Cycler User Guide
Chapter 3 Performing a Run
Loading Samples into the Instrument
See the appropriate section for your instrument:
• “Loading Samples in Veriti

96-Well Thermal Cyclers” on page 3-5
• “Loading Samples in the Veriti

384-Well Thermal Cycler” on page 3-6
• “Loading Samples in the Veriti

60-Well Thermal Cycler” on page 3-7
Loading Samples in Veriti

96-Well Thermal Cyclers
This section describes how to load samples in:
• Tubes with attached caps
• 96-well reaction plates
• 96-well tray/retainer assemblies
Loading Tubes
with Attached
Caps
There is no need to use mineral oil or glycerine in the sample wells or as a vapor
barrier over the PCR reaction mixture in the tubes. The MicroAmp
®
Reaction Tubes
fit tightly in the wells, and the heated cover exerts an even pressure on all tubes,
eliminating condensation on the tubes.
1. Set the 96-well tray on a splash-free 96-well base.
2. Place the reaction tubes in the tray.
3. Pipette the samples into the reaction tubes.
4. Cap the tubes.
5. See “Placing the Sample Tray or Plate onto the Sample Block(s)” on page 3-6.
Loading the
Reaction Plate
1. Place the reaction plate on a splash-free 96-well base.
2. Pipette the samples into the sample wells.
3. Cap the plates using the MicroAmp

8-Cap Strips, or cover the plates with
MicroAmp

Clear Adhesive Film.
4. See “Placing the Sample Tray or Plate onto the Sample Block(s)” on page 3-6.
Loading Tubes
Without Caps
To load the 96-well tray/retainer:
1. Place the tray on the splash-free 96-well base.
2. Load tubes onto the tray using either single tubes or the 8-tube strips.
3. Place the retainer over the tubes.
4. Pipette the sample into the tubes.
5. Cap the tubes using a MicroAmp

8-Cap Strip.
6. See “Placing the Sample Tray or Plate onto the Sample Block(s)” on page 3-6.
3-6 Veriti™ Thermal Cycler User Guide
Chapter 3 Performing a Run
Placing the
Sample Tray or
Plate onto the
Sample Block(s)
The steps for placing the sample tray in the sample block(s) are the same for:
• A sample tray/retainer
• A sample tray without a retainer
• A 96-well plate.
1. Lift the sample tray from the splash-free 96-well base and place it in the sample
block(s).
2. Place the MicroAmp

Tray or Plate onto the sample block(s) so that well A1 is
at the upper left corner of the tray, as shown below:
IMPORTANT! Do not place the base in the sample block(s).
3. Close the heated cover.
Loading Samples in the Veriti

384-Well Thermal Cycler
This section describes how to load samples in 384-well reaction plates.
1. Pipette the samples into the sample wells.
2. Cover the plates with MicroAmp

Clear Adhesive Film.
3. Place the MicroAmp

Optical 384-Well Reaction Plate onto the sample
block(s) so that well A1 is at the upper left corner of the tray, as shown below:
4. Close the heated cover.
GR2380
7900
HS96_96Standard

G

2 3 6 0 2

G

2 3 6 0 2
G
R

0

0
MicroAmp

Optical 96-Well Reaction
Plate (0.2-mL)
MicroAmp

Fast Optical 96-Well
Reaction Plate (0.1-mL)

G
R
2

0

MicroAmp

Optical 384-Well Reaction Plate

3-7 Veriti™ Thermal Cycler User Guide
Chapter 3 Performing a Run
Loading Samples in the Veriti

60-Well Thermal Cycler
There is no need to use mineral oil or glycerine in the sample wells or as a vapor
barrier over the PCR reaction mixture in the tubes. The GeneAmp
®
Thin-Walled
Reaction Tubes fit tightly in the wells, and the heated cover exerts an even pressure
on all tubes, eliminating condensation on the tubes.
1. Pipette the samples into the reaction tubes.
2. Cap the tubes.
3. Place the GeneAmp
®
Thin-Walled Reaction Tubes with Flat or Domed Caps
(0.5 mL) onto the sample block(s).
4. Place the GeneAmp
®
Thermal Isolation Frame around the sample block(s).
5. Close the heated cover.
3-8 Veriti™ Thermal Cycler User Guide
Chapter 3 Performing a Run
Creating a New Run Method
1. In the Main Menu screen, touch Browse/New Methods.
2. In the Browse Run Methods screen, touch New.
The default run method is displayed in the Edit Run Method screen. (For
instructions on setting the default run method, see “Designating a Run Method
as the Default” on page 1-12.)
3. Edit the default run method as needed:
• Insert a stage (see “Adding a Stage” on page 3-10).
• Insert a step (see “Adding a Step” on page 3-11).
• Add an AutoDelta step (see “Creating an AutoDelta Step” on page 3-13).
• Add a pause (see “Adding a Pause” on page 3-15).
• Delete a step or stage (see “Deleting a Stage or Step” on page 3-15).
• For Veriti 96-Well Thermal Cyclers, you can add a step to program
different temperatures on the VeriFlex

Blocks (see “Creating a VeriFlex


Step” on page 3-16).
3-9 Veriti™ Thermal Cycler User Guide
Chapter 3 Performing a Run
4. Touch Save & Exit to display the Save Run Method screen.
5. Touch Run Method to enter the name of the run method. Names can be up to
48 characters. Names may not contain any of the following characters:
%*?|;:,!@#$.()<>/\"'`~{}[]=+&^ (tab). Spaces, underscores, and dashes are
allowed.
6. Touch (Folder) to select a folder in which to save the run method.
• To save the run method so that all users have access to it, touch Shared.
• To create a new folder for the run method, touch New Folder at the bottom
of the list, enter a name of up to 12 characters (no spaces), for the new
folder, then touch Done.
• To save the run method to the USB drive, touch USB (available only when
a USB drive is inserted in the instrument).
7. Touch Reaction Volume to enter the reaction volume. (You can change this
volume when you perform a run with this run method.)
8. Set the cover temperature, if any:
• Cover Temperature to enter the temperature for the heated cover.
or
• Do Not Heat Cover.
You can change this temperature when you perform a run with this run method.
9. Touch Notes, then enter any notes for the method.
10. Touch Save & Exit when you are done.
The Browse Run Methods screen is displayed.
3-10 Veriti™ Thermal Cycler User Guide
Chapter 3 Performing a Run
Editing Details
This section describes how to edit a run method by:
• Adding a stage (page 3-10)
• Adding a step (page 3-11)
• Editing a temperature or a time (page 3-12)
• Editing a ramp rate (page 3-12)
• Creating an AutoDelta step (page 3-13)
• Adding a pause (page 3-15)
• Creating a step to program different temperatures on the VeriFlex Blocks
(page 3-16) (Available only on Veriti 96-Well Thermal Cyclers.)
Adding a Stage The two types of run method stages are:
• Cycling – The steps in a cycling stage are repeated a specified number of times.
In general, the steps in a cycling stage are template denaturation, primer
annealing, and primer extension.
• Holding – The steps in a holding stage are not repeated.
To add a stage:
1. In the Edit Run Method screen, touch the stage name (at the top of the stage) to
select it. When a stage is selected, the area around the name is red.
2. Touch Add.
A copy of the selected stage is added to the run method.
3-11 Veriti™ Thermal Cycler User Guide
Chapter 3 Performing a Run
3. For a cycling stage, edit the number of cycles as needed.
a. Touch the stage to select it.
b. Touch the cycles field (the box below the Stage Name) to select it:
c. Enter the number of cycles, then touch Done.
4. To change the temperature and/or time for any step in the stage, see “Editing
Temperature and Time” on page 3-12.
Adding a Step 1. In the Edit Run Method screen, touch anywhere in the column for a step to
select it.
When the step is selected, the column turns red:
2. Touch Add.
A copy of the selected step is added to the run method:
3-12 Veriti™ Thermal Cycler User Guide
Chapter 3 Performing a Run
3. To change the temperature and/or time for the step, see “Editing Temperature
and Time” on page 3-12.
Editing
Temperature and
Time
1. Touch any temperature field to select it, then edit the temperature as desired.
or
Touch any time field to select it, then edit the time as desired.
2. You can edit any other times, temperatures, (or the number of cycles for a stage)
without closing the editor.
a. Touch the field.
b. Touch the keys in the editor.
c. Repeat for any other field.
3. Touch Done to close the editor.
Editing Ramp
Rates
You can edit the rate at which the instrument ramps to the temperature for the step.
The default ramp rate is 100%.
Note: You cannot edit ramp rates for methods created using the Convert Method
wizard (see “Using GeneAmp
®
PCR System 9700 Run Methods” on page 5-2).
1. Touch a step to select it.
2. Touch Options, then Ramp Rate.
The field displaying time changes to display the ramp rate.
3. Touch the ramp field, then enter the desired ramp rate.
Ramp rates from 0.1 to 100% are valid.
4. Touch Done to close the editor.
The ramp rate symbol appears next to any step with a ramp rate less than
100%.
3-13 Veriti™ Thermal Cycler User Guide
Chapter 3 Performing a Run
Creating an
AutoDelta Step
An AutoDelta step allows you to increase or decrease the temperature and/or change
the duration of the cycle during a cycling stage.
One use for an AutoDelta step is for touchdown PCR, a method in which the earliest
cycles have a high annealing temperature, followed by cycles where the annealing
temperature decreases slightly for each cycle. Touchdown PCR increases the
specificity of the PCR products. The high initial temperature favors more specific
annealing between the primer and the template. Because these fragments are further
amplified during subsequent cycles at lower temperatures, they outcompete the
nonspecific sequences to which the primers bind at lower temperatures.
Note: AutoDelta steps are allowed only in cycling stages.
To create an AutoDelta step:
1. Touch a step, then Options.
The options menu appears:
3-14 Veriti™ Thermal Cycler User Guide
Chapter 3 Performing a Run
2. In the Options menu, touch AutoDelta.
The Create an AutoDelta Step screen is displayed:
3. Touch Starting Cycle, then enter the cycle at which the AutoDelta step begins.
4. Select the parameter(s) to increment:
• Touch Delta Temperature, then enter the number of degrees that the
temperature changes for each cycle. To enter a temperature that decreases
with every cycle, touch + to change it to −. To enter a temperature that
increases, the button should show +.
and/or
• Touch Delta Time, then enter the minutes and seconds that the step
duration should change with each cycle. To enter a time that decreases with
each cycle, touch + to change it to −. To enter a time that increases, the
button should show +.
Note: Make sure the parameters you enter result in a final temperature greater
than 4.0 °C and less than 99.9 °C. Also, the Delta Time must be less than the
total time for the stage.
5. Touch OK to save the step and return to the screen that displays the run method.
The AutoDelta symbol appears on the step with the AutoDelta step. In this
example, Step 2 in Stage 2 is an AutoDelta step:
3-15 Veriti™ Thermal Cycler User Guide
Chapter 3 Performing a Run
Adding a Pause You can add a pause before any step in any cycling stage.
1. In the Edit Run Method screen, touch a step in a cycling stage to select it, then
touch Options.
2. In the Options Menu, touch Pause to display the Add a Pause Before a Step
dialog box:
3.
4. Enter:
• The first cycle in which the run will pause.
• The frequency of the pause.
• The duration of the pause, in mm:ss.
5. Touch Done to save the pause and return to editing the method.
The step preceded by the pause is indicated by the (see Step 3 in Stage 3,
below):
Deleting a Stage
or Step
1. In the Edit Run Method screen, touch the stage or step to select it.
2. Touch Delete, then OK.
The stage or step is deleted from the run method.
3-16 Veriti™ Thermal Cycler User Guide
Chapter 3 Performing a Run
Creating a
VeriFlex

Step
Note: This function is only available for the 96-well versions of the Veriti Thermal
Cycler.
The Veriti 96-Well Thermal Cyclers have six VeriFlex

blocks. You can specify
temperatures for each VeriFlex

block, or treat each VeriFlex

block the same (the
default). The VeriFlex

blocks can be used to provide up to six different temperature
zones for the 96 wells. A step that has different temperatures for different VeriFlex


blocks is called a “VeriFlex

step.” This feature is useful for quickly optimizing new
run methods.
To create a step with different temperatures for the VeriFlex

blocks:
1. Touch a step, then Options.
The options menu appears:
2. In the Options menu, touch VeriFlex step.
The Create a VeriFlex Step screen is displayed:
z
3-17 Veriti™ Thermal Cycler User Guide
Chapter 3 Performing a Run
3. Touch a temperature field, then enter the desired temperature. Temperatures for
neighboring VeriFlex

blocks can be the same, but if they are not the same,
they must be at least 0.1 °C apart but no more than 5.0 °C apart. The maximum
temperature is 99.9 °C.
4. Repeat step 3 for each of the six VeriFlex

blocks, then touch Done.
Note: To set each block to the same temperature, touch the desired temperature
field, then touch Apply Selected to All.
5. Depending on your instrument configuration, enter either a duration or a ramp
rate.
• Touch Time, enter the duration (in minutes and seconds), then touch Done.
or
• Touch Ramp Rate, enter the ramp rate (as a percentage value), then touch
Done.
The VeriFlex Step appears in the Edit Run Method screen, with the text “Zones”
in the temperature field.
3-18 Veriti™ Thermal Cycler User Guide
Chapter 3 Performing a Run
Performing a Run
Before You Begin Prepare your samples and load the sample block(s) as described in “Loading Samples
into the Instrument” on page 3-5.
IMPORTANT! You can start a run on multiple instruments at the same time if your
instruments are on a network.
To start a run from the Main Menu screen:
1. Close the cover.
2. Touch Browse/New Methods.
3. Locate the run method you want to use (see “Viewing a Run Method” on
page 1-9), then touch the run method to select it.
4. Touch Start Run. The Run Parameters screen is displayed:
5. Touch Reaction Volume to edit the reaction volume. By default, the reaction
volume you entered when you saved the method is displayed.
Reaction volumes are specific to the type of instrument:
• Veriti 96-Well Fast Thermal Cycler: 5 to 40 µL
• Veriti 96-Well Thermal Cycler: 10 to 100 µL
• Veriti 384-Well Thermal Cycler: 5 to 30 µL
• Veriti 60-Well Thermal Cycler: 10 to 100 µL
6. Set the cover temperature:
• Cover Temperature to enter the temperature for the heated cover.
or
• Do Not Heat Cover.
7. Touch Run ID, and/or Notes, then enter the applicable information.
The default Run ID is YYYYMMDDHHMM, where “YYYYMMDD” is the
date and “HHMM” is the current time.
3-19 Veriti™ Thermal Cycler User Guide
Chapter 3 Performing a Run
8. If you are making runs on:
• Only this instrument – Touch Start Run Now, then OK. The cover is
heated to the required temperature, then the run begins. When the run is
complete, the Run Report is displayed.
or
• Multiple instruments – Touch Start Multiple Runs. The Select
Instrument screen is displayed:
9. In the Select Instrument screen:
a. Touch the check box corresponding to each instrument on which you want
to perform the run. Only instruments that are compatible with the run
method are available. Incompatible instruments are indicated by .
If you want to perform the run on this instrument, be sure to touch the
check box in the upper left corner of the screen.
b. Touch Start Run Now, then OK. The run method is sent to each selected
instrument, and, if no problems are encountered, the run begins.
After the run begins, you must interact with any remote instruments
directly if you want to make changes to the run method, pause, or stop the
run. When the runs are complete, the Run Reports are displayed on each
instrument.
3-20 Veriti™ Thermal Cycler User Guide
Chapter 3 Performing a Run
10. While the cover heats, the Cover Heating dialog box appears in the Run Monitor
screen:
If you want to:
• Start the run immediately, before the cover reaches the specified
temperature – Touch (Skip).
• Stop the run – Touch (Stop).
3-21 Veriti™ Thermal Cycler User Guide
Chapter 3 Performing a Run
Monitoring a Run
The Run Monitor
Screen
You can follow the status of a run using the Run Monitor screen (below):
See “Actions in the Run Monitor Screen During a Run” on page 3-22 for information
about what you can do during a run.
Table 4 Elements of the Run Monitor screen
Location
in Figure
Element Description
A Run Monitor Button
and Status Bar
Displays the estimated temperature of the sample,
the temperature of the heated cover, the estimated
time remaining in the run, and the current stage.
B Hot Icon Indicates that the heated cover has achieved a
temperature sufficient to burn skin.
C Stage Indicator Indicates the stage that the Veriti

System is
performing and the current cycle in that stage.
D Step Temperature Indicates the temperature for the step.
E Hold Time Indicates the time for the step. When this is the
current step, this field counts down.
F Step Indicator Indicates the step that the Veriti

System is
performing.
G Status Report Displays the run status and any errors that occur
during the run. Touch the triangle to view the entire
report.
H Arrow Button Touch this to see the additional steps in the run
method.
B
G
C
A
F
E
D
H
3-22 Veriti™ Thermal Cycler User Guide
Chapter 3 Performing a Run
Actions in the
Run Monitor
Screen During a
Run
During a run, the touchscreen is active, allowing you to perform the actions indicated
in the table.
Changing the
Number of Cycles
You can change the number of cycles for a cycling stage while a run is in progress.
1. If needed, click the orange run monitor button to return to the run monitor
screen.
2. Touch the cycles field (below the Stage Name) for a cycling stage, then enter
the new value. You cannot:
• Edit a stage that is already complete.
• Enter a number that is smaller than the number of cycles that have already
been completed.
3. Touch Send to return to the Run Monitor screen.
The run continues, using the new number of cycles.
Table 1 Actions in the Run Monitor Screen Allowed During a Run
To... Do This
View other stages Touch the scroll right and scroll left buttons.
Pause the run Touch Pause Run (see “Pausing a Run” on
page 3-23).
View run method information Touch View Method Information.
The information you entered in the Run
Parameters dialog box is shown.
Display the time for the run Touch Display Method Time.
The elapsed time and time remaining for the
run are shown.
Skip to the next step Touch SKIP.
Skip works only when the instrument is
holding.
Stop the run Touch STOP (see “Stopping a Run” on
page 3-23).
Change the number of cycles
for a cycling stage
Touch the Cycle field then change the number of cycles
(see “Changing the Number of Cycles” on page 3-22).
Go to the Main Menu screen Touch (Home). From the Main Menu Screen, you
can access most of the Veriti Thermal Cycler
functions while the run continues.
View the Status Report Touch (Status).
3-23 Veriti™ Thermal Cycler User Guide
Chapter 3 Performing a Run
Pausing a Run 1. In the Run Monitor screen, touch Pause Run.
The Pause Run dialog box is displayed:
The run pauses for the duration set in the Set Time-Outs screen (see page 2-15).
In the Pause Run dialog box:
• Remaining Time shows the remaining time for the pause.
• Elapsed Time is continually updated to show the time the run has been in
process.
2. If you want to:
• Pause until the default pause has elapsed – Do nothing.
• Pause for a specific amount of time – Touch Edit Time, enter the duration
of the pause, then touch Done. The run resumes when the pause is
complete.
• Resume the run immediately – Touch Resume Run (to the left of the
dialog box).
Stopping a Run In the Run Monitor screen, touch Stop, then OK.
The run stops and the Run Report opens.
3-24 Veriti™ Thermal Cycler User Guide
Chapter 3 Performing a Run
Using the Run
Monitor Button
The Run Monitor button (Figure 3-1) is displayed at the top of the Run Monitor
screen. If you leave the Run Monitor screen during a run, this button also appears at
the top of all menu screens.
Figure 3-1 The Run Monitor button
You can touch the Run Monitor button to return to the Run Monitor screen at any
time.
If an error occurs during the run, the area showing the current stage, in the middle of
the button, is replaced by an alert icon:
Figure 3-2 Alert icon, shown in the Run Monitor button when an error occurs
If the Power Fails If a power failure occurs during a run, the instrument attempts to continue the run
when the power returns. The run begins at the first step of the stage where the power
failed.
For example, the power fails during step 2 of the tenth cycle for a stage with three
steps and 20 cycles. After the power returns, the run starts at step 1 of the tenth cycle
and continues for 11 more cycles.
Note: If the time between the initial power failure and the time the power returns is
more than 18 hours, the run is not continued.
3-25 Veriti™ Thermal Cycler User Guide
Chapter 3 Performing a Run
Viewing and Printing the Run Report
At the end of a run, the Run Report screen is displayed (below). If the last stage of
the run method is an infinite hold, you must touch Stop, then OK in the message box
before the Run Report is displayed.
You can also see the Run Report by touching View Last Run in the Tools Menu:
Note: The run report is saved only until the next run is finished.
• To print the run report, in the Run Report screen, touch Print.
If any errors occurred during the run, the error information is also printed.
• To save the run report to the USB drive, touch Save.
Removing the Samples from the Instrument
Grasp the sample tray/retainer assembly or reaction plate firmly with both hands and
gently rock it back and forth until the tubes (or plate) are free.
Sample caps may pop off if the cover is opened when the sample
block(s) temperature is above 27 °C.
3-26 Veriti™ Thermal Cycler User Guide
Chapter 3 Performing a Run
4-1 Veriti™ Thermal Cycler User Guide
4 Troubleshooting 4
This chapter covers:
Troubleshooting. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 4-2
Returning an Instrument for Service. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 4-3
4-2 Veriti™ Thermal Cycler User Guide
Chapter 4 Troubleshooting
Troubleshooting
Use the following table to help troubleshoot problems with your Veriti

Thermal
Cycler.
Problem Possible Causes Check and/or Remedy
Cooling rate too slow • Peltier assembly failure • Run the Cycle Performance Test.
Temperature does not match
specified temperature
• Instrument may require
calibration
• Run the Temperature Verification
Test.
Heating rate too slow • Peltier failure • Run the Cycle Performance Test.
Printing fails • Printer incorrectly configured
on instrument
• Printer not connected to
network
• Instrument not connected to
network
• Ethernet cable bad
• Make sure the printer IP address on
the instrument matches the IP
address from the system
administrator.
• Is Ethernet cable connected to the
printer?
• Is Ethernet cable connected to the
instrument?
• Is network functioning?
• Try a different Ethernet cable.
Cycling time too long • Peltier assembly failure • Run the Cycle Performance Test.
When running on multiple
instruments, cannot see instruments
in “Select Instruments” screen
• Instrument(s) not connected to
network
• Switch powered off
• Ethernet cable bad
• IP address conflict
• Allow Remote Runs setting in
Instrument Name screen set to
No.
• Are all Ethernet cables connected to
the instruments?
• Are all Ethernet cables connected to
the network switch?
• Try a different Ethernet cable.
• Change the IP addresses on the
instruments.
• In Instrument Name screen, change
Allow Remote Runs to Yes.
No screen display
No response when you power on the
instrument
• Blown fuse
• Not connected to power source
• Check fuses.
• Is power switch on?
• Is power cord connected?
Screen display is missing characters
or is illegible
• LCD screen failure • Request service.
Sample tubes melt during run • Incompatible consumables
used
• Heated cover too hot
• Sample block(s) too hot
• Use recommended consumables
(see Appendix B, Disposables).
• Run the Heated Cover Verification
Test.
Heated cover stuck • Cam, platen, or cover assembly
malfunctioning
• Request service
Heated cover not responsive • Heated cover failure • Run the Heated Cover Verification
Test.
4-3 Veriti™ Thermal Cycler User Guide
Chapter 4 Troubleshooting
Returning an Instrument for Service
Before returning an instrument for service, back up the run methods and instrument
settings, as described in “Backing Up Run Methods and Other Settings” on
page 1-13. This practice ensures that if the service center sends you a replacement
instrument, you can restore the run methods and other settings.
To return an instrument for service:
1. Contact your local customer care center or technical support group to obtain a
copy of the Certificate of Instrument Decontamination, a service notification, a
service call number, and, if required, packaging.
2. Decontaminate the instrument.
IMPORTANT! If the sample block(s) become contaminated with radioactivity,
use a commercially available decontaminant to remove the contamination. If the
block(s) cannot be decontaminated, the instrument cannot be returned to
Applied Biosystems for service.
3. Complete and sign a copy of the Certificate of Instrument Decontamination.
4. Fax the Certificate of Instrument Decontamination to the customer care center.
5. Pack the instrument in the provided packaging, without any accessories or
power cords. Include a hard copy of the Certificate of Instrument
Decontamination in the box.
Note: Repairs for instruments without the Certificate of Instrument
Decontamination are delayed.
6. Affix the provided postage to the box, then ship the instrument to the designated
facility.
The repair process requires 2 to 3 weeks.
Cannot see Manage Users button in
Admin Menu screen
• Manage Users button is not
shown when instrument is
monitored by VeritiLink


Remote Management Software
• Use VeritiLink Software to manage
user accounts
or
• Change Allow VeritiLink Software
Control to No in the Security screen
on the instrument.
Problem Possible Causes Check and/or Remedy
4-4 Veriti™ Thermal Cycler User Guide
Chapter 4 Troubleshooting
5-1 Veriti™ Thermal Cycler User Guide
5 Utilities 5
This chapter covers:
Using GeneAmp
®
PCR System 9700 Run Methods. . . . . . . . . . . . . . . . . . . . . . . . 5-2
Upgrading System Firmware. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 5-5
Calculating Melting Temperatures . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 5-7
Viewing Instrument Statistics . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 5-8
Restoring the Factory Settings. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 5-8
Running the Cycle Performance Test . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 5-10
Tests Using the Temperature Verification Kit . . . . . . . . . . . . . . . . . . . . . . . . . . . . 5-11
5-2 Veriti™ Thermal Cycler User Guide
Chapter 5 Utilities
Using GeneAmp
®
PCR System 9700 Run Methods
Note: This function is only available on Veriti 96-Well Thermal Cyclers.
The Veriti

Thermal Cycler has a Convert Method tool to guide you through
importing existing run methods from a GeneAmp® PCR System 9700 thermal
cycler.
The tool is designed to create a method for the Veriti Thermal Cycler with ramp rates
that simulate those on the 9700 thermal cycler. Although the ramp rates may be
similar in the two methods, the results on the Veriti Thermal Cycler may differ from
those from the GeneAmp PCR System 9700 and, therefore, additional optimization
may be needed.
The available conversions are specific to the type of instrument:
• Veriti 96-Well Fast Thermal Cycler – Only 9700 Max Mode run methods can
be converted.
• Veriti 96-Well Thermal Cycler – Run methods in 9600 Emulation Mode or
9700 Max Mode can be converted.
Note: Only users who can save run methods (all users except Limited Users) have
access to this function.
To use a run method from a GeneAmp® PCR System 9700 thermal cycler:
1. Obtain a copy of the original method you want to convert, either by printing it
from the instrument or copying it manually to a piece of paper.
2. In the Main Menu screen, touch Tools Menu.
3. In the Tools Menu screen, touch Convert a Method to open the Convert
Method wizard:
4. Touch the check box next to the run method’s original format (9700 Max Mode
or 9600 Emulation Mode) then touch (Next).
5-3 Veriti™ Thermal Cycler User Guide
Chapter 5 Utilities
5. In the second page, enter the original run method. You can include AutoDelta
steps, pauses, and VeriFlex

steps, and you can edit the ramp rates:
Touch (Next). when you are done.
6. In the Save Run Method page (below), enter a name and select a folder for the
run method. Names are limited to 16 characters. By default, the name begins
with “9700-Max-Mode-” or “9600-Mode-”, depending on the format selected in
step 4.
Also enter the reaction volume, the temperature for the heated cover (if any),
and any notes for this method.
When you finish, touch Save & Exit.
The Tools Menu is displayed.
5-4 Veriti™ Thermal Cycler User Guide
Chapter 5 Utilities
Note: You cannot edit the ramp rates in the method created by the Convert Method
wizard. This is indicated by “9600” or “9700M” in the Time field, when you choose
to view ramp rates rather than time (see Figure 5-1).
Figure 5-1 Converted run method, showing “9700M” as the ramp rate
5-5 Veriti™ Thermal Cycler User Guide
Chapter 5 Utilities
Upgrading System Firmware
About the
Upgrade
If Applied Biosystems provides a new version of the firmware for the Veriti Thermal
Cycler, you may be required to load the new firmware on the instrument.
You will need a USB drive and, if your instrument requires login, Administrator
access to upgrade the firmware.
IMPORTANT! You cannot upgrade the firmware while a run is in progress.
Upgrading the
Veriti Thermal
Cycler Firmware
1. Determine the version number of the existing firmware from the About the
Instrument screen.
a. Open the About the Instrument screen:
• Touch Log Off to return to the Login Options screen, then touch
About the Instrument.
or
• In the Main Menu screen, touch Settings Menu, then About the
Instrument.
The About the Instrument screen opens:
b. Record the version number of the firmware, then touch Done.
2. Determine the version number of the new firmware.
a. On a computer connected to the Internet, go to
www.appliedbiosystems.com.
b. Click Support, then Software Downloads.
c. Select Veriti Thermal Cycler in the list, then click Updates & Patches.
d. Find the appropriate file. If the version number is:
• The same as the current version (from step 1), you do not need to
upgrade the firmware.
• Different from the current version (from step 1), follow the steps
below to download and upgrade the firmware.
5-6 Veriti™ Thermal Cycler User Guide
Chapter 5 Utilities
3. Download the new firmware to a USB drive:
a. Insert the USB drive into the USB port on the computer.
b. Click the link in the Software column to download the file. Select the USB
drive as the location for the saved file.
c. Remove the USB drive from the computer when the download is complete.
To upgrade the instrument with the new firmware:
1. Follow the instructions in “Backing Up Run Methods and Other Settings” on
page 1-13 to save your run methods and settings from the Veriti Thermal Cycler.
2. Insert the USB drive with the new firmware in the USB port on the front of the
Veriti Thermal Cycler,
3. Log in as a user with Administrator access.
4. In the Main Menu screen, touch Settings Menu.
5. In the Settings Menu screen, touch Admin Menu.
6. In the Admin Menu screen, touch Upgrade Firmware.
The Firmware Upgrade screen opens:
7. Touch Source File to display a list of the files on the USB drive. Veriti

system
firmware files end with “.update”.
8. Touch the name of the file with the new firmware, then touch Select.
9. Touch Upgrade, then Yes.
When the upgrade process is complete, a message box opens.
10. Restart the instrument.
5-7 Veriti™ Thermal Cycler User Guide
Chapter 5 Utilities
Calculating Melting Temperatures
To calculate the melting temperatures for a DNA primer pair:
1. In the Main Menu screen, touch Tools Menu.
2. In the Tools Menu screen, touch Calculate Tm to open the Tm Calculator
screen:
3. Enter the required information.
a. Touch Salt Concentration, then enter the salt concentration in mM.
b. Touch Primer Concentration, then enter the DNA concentration in µM.
c. Enter each primer sequence.
4. Touch Calculate.
The melting temperature for each primer is displayed:
5-8 Veriti™ Thermal Cycler User Guide
Chapter 5 Utilities
Viewing Instrument Statistics
The instrument records information about how it has been used. You can view this
information.
1. In the Main Menu screen, touch Tools Menu.
2. In the Tools Menu screen, touch Show Statistics.
The following statistics are shown:
• Total Cycles for Block(s) – The total number of cycles the instrument has
performed over its lifetime.
• Total Degrees for Block(s) – The total degrees the blocks) have climbed
over their lifetime. For example, if the sample block(s) were heated from
10 degrees to 30 degrees, for 3 cycles, the total degrees would be 60.
[3 × (30 − 10) = 60].
3. When you finish, touch Done to return to the Tools Menu screen.
Restoring the Factory Settings
You can reset the instrument to the default values for all instrument settings. When
you do this, the following are lost:
• All run methods except the predefined methods listed in Appendix C
• Any users and their custom folders
• The instrument name and IP address
• Any changes to time-outs, block idle temperatures, security settings, printer
settings, and any shortcuts to methods or functions
1. Log in as a user with Administrator access.
2. In the Main Menu screen, touch Settings Menu.
3. In the Settings Menu screen, touch Admin Menu.
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Chapter 5 Utilities
4. In the Admin Menu screen, touch Restore Factory Settings to open the Restore
Factory Settings screen:
5. In the Restore screen, touch Restore. The Restore Factory Settings dialog box is
displayed.
6. In the dialog box, touch:
• Yes to back up run methods and other settings before restoring the default
settings to the instrument. Insert a USB drive for the backup.
• No to restore the default settings, without first performing a back up.
Before the restore operation begins, you are prompted to confirm the
restore with a second dialog box.
IMPORTANT! Touching No erases all run methods, user accounts and
other settings from the instrument.
• Cancel to cancel the restore operation.
When the restore process is complete, a message box stating “Factory settings
have been restored.” opens.
7. Remove the USB drive, if present, then toggle the switch on the back of the
instrument to power off.
8. Toggle the switch again to power on the instrument and restart with the factory
default settings.
5-10 Veriti™ Thermal Cycler User Guide
Chapter 5 Utilities
Running the Cycle Performance Test
Use this test to verify that the sample block(s) are heating and cooling properly and
that the PCR cycling function operates properly.
Required
Materials
The appropriate equipment for your instrument:
• Veriti 96-Well Fast Thermal Cycler: MicroAmp

Fast Optical 96-Well
Reaction Plate with Barcode (PN 4346906)
• Veriti 96-Well Thermal Cycler: MicroAmp

Optical 96-Well Reaction Plate
(PN N8010560)
• Veriti 384-Well Thermal Cycler: MicroAmp

Optical 384-Well Reaction Plate
(PN 4309849)
• Veriti 60-Well Thermal Cycler: GeneAmp
®
Thermal Isolation Frame
(PN 4308927)
Procedure This test takes 10 minutes to complete.
1. Place the reaction plate or thermal isolation frame in the instrument.
2. In the Main Menu screen, touch Tools Menu.
3. In the Tools Menu screen, touch Run Cycle Performance Test.
4. Follow the instructions on the screen to perform the test. The results are
displayed at the end of the test.
5. At the end of the test, touch:
• Print to print the results.
• Save to save the results to the USB drive.
The results are saved to the file CyclePEvents.txt.
6. If the test fails, repeat the procedure. Ensure that the heated cover is closed.
7. If the test fails again, contact Applied Biosystems Technical Support.
5-11 Veriti™ Thermal Cycler User Guide
Chapter 5 Utilities
Tests Using the Temperature Verification Kit
You need the Temperature Verification Kit to perform the:
• Heated Cover Verification
• Temperature Verification
• Temperature Nonuniformity Test
About the
Temperature
Verification Kit
The Temperature Verification Kit consists of:
• A probe – The appropriate size for the sample wells in your instrument. The
probe can be ordered separately or a part of a kit. (See page 6-6 for part numbers
for the probes.)
• Digital thermometer – Model 4690 Digital thermometer with 9 V battery
• Light mineral oil
• Cotton swabs
You need the appropriate model of the Temperature Verification Kit for your Veriti
Thermal Cycler, as shown below.
For More
Information
See the Multiprobe Temperature Verification Kit User Guide (PN 4376864).
Running the Heated Cover Verification
Use this test to verify that the heated cover is within ±3 °C of the 105 °C set point.
Required
Materials
The appropriate Temperature Verification Kit for your Veriti Thermal Cycler model
(see table above).
Procedure This test takes 10 to 15 minutes to complete.
PHYSICAL INJURY HAZARD. Hot Surface. Use care when
working around the heated cover and sample block(s) to avoid being burned.
Veriti Thermal Cycler Model Temperature Verification Kit
Part
Number
Veriti 96-Well Fast Thermal Cycler
(PN 4375305), with 0.1-mL sample
wells
0.1-mL Temperature Verification Kit 4373997
Veriti 96-Well Thermal Cycler
(PN 4375786), with 0.2-mL sample
wells
0.2-mL Temperature Verification Kit 4377669
Veriti 384-Well Thermal Cycler
(PN 4388444), with 0.02-mL sample
wells
0.02-mL Temperature Verification Kit 4385338
Veriti 60-Well Thermal Cycler
(PN 4384638), with 0.5-mL sample
wells
0.5-mL Temperature Verification Kit 4309924
5-12 Veriti™ Thermal Cycler User Guide
Chapter 5 Utilities
1. In the Main Menu screen, touch Tools Menu.
2. In the Tools Menu screen, touch Run Heated Cover Verification.
3. Follow the instructions on the screen to perform the test.
4. At the end of the test, touch:
• Print to print the results.
• Save to save the results to the USB drive.
The results are saved to the file heatedCover.txt.
5. If the test fails, repeat the procedure. Ensure the:
• Probe plate is in the correct location. Probe 1 should be in well A5 during
this test.
• Cables are not damaged (no nicks, cuts or crimps) and are securely seated
in the digital thermometer and in the instrument.
• Heated cover is closed.
• Results are saved or printed.
6. If the test fails again, contact Applied Biosystems Technical Support.
Running the Temperature Verification
Use this test to verify that the average temperature for the sample block(s) is within
±0.25 °C of the set point temperature.
Required
Materials
The appropriate Temperature Verification Kit for your Veriti Thermal Cycler model
(see table above).
Procedure This test takes 25 to 30 minutes to complete, but you can cancel before it is complete.
PHYSICAL INJURY HAZARD. Hot Surface. Use care when
working around the heated cover and sample block(s) to avoid being burned.
1. In the Main Menu screen, touch Tools Menu.
2. In the Tools Menu screen, touch Run Temperature Verification.
3. Follow the instructions on the screen to perform the test.
4. At the end of the test, touch:
• Print to print the results.
• Save to save the results to the USB drive.
The results are saved to the file bcalevents.txt.
5. If the test fails, repeat the procedure. Ensure the:
• Probe is placed in the correct wells during the test.
• A drop of mineral oil is in each of the test wells.
• Cables are not damaged (no nicks, cuts or crimps) and are securely seated
in the digital thermometer and in the instrument.
• Results are saved or printed.
6. If the test fails again, contact Applied Biosystems Technical Support.
5-13 Veriti™ Thermal Cycler User Guide
Chapter 5 Utilities
Running the Temperature Nonuniformity Test
Use this test to verify that the sample well temperatures are within the threshold
temperature range.
Required
Materials
The appropriate Temperature Verification Kit for your Veriti Thermal Cycler model
(see table above).
Procedure This test takes 10 to 15 minutes to complete, but you can cancel before it is complete.
PHYSICAL INJURY HAZARD. Hot Surface. Use care when
working around the heated cover and sample block(s) to avoid being burned.
1. In the Main Menu screen, touch Tools Menu.
2. In the Tools Menu screen, touch Run TNU Test.
3. Follow the instructions on the screen to perform the test.
4. At the end of the test, touch:
• Print to print the results.
• Save to save the results to the USB drive.
The results are saved to the file tnuEvents.txt.
5. If the test fails, repeat the procedure. Ensure the:
• Cables are not damaged (no nicks, cuts or crimps) and are securely seated
in the digital thermometer and in the instrument.
• Heated cover is closed.
• Results are saved or printed.
6. If the test fails again, contact Applied Biosystems Technical Support.
TVK Recalibration
Applied Biosystems recommends that your Temperature Verification Kit be
recalibrated once a year.
Calibrating the thermometer and probe of the Temperature Verification Kit requires
that you:
• Decontaminate the probe assembly as described below.
• Send the equipment and the completed Certificate of Instrument
Decontamination to the manufacturer. See “TVK Support” on page ix.
Decontaminating
the Probe
Assembly
1. Contact your local customer care center or technical support group to obtain a
copy of the Certificate of Instrument Decontamination.
2. Gently wipe the probe cones with a cotton swab that has been moistened with
with a 1:10 v/v solution of 5.25% sodium hypochlorite (Chlorox bleach).
IMPORTANT! Do not submerge the probe in bleach solution. Do not
disassemble the probe assembly.
3. Complete the Certificate of Instrument Decontamination.
5-14 Veriti™ Thermal Cycler User Guide
Chapter 5 Utilities
6-1 Veriti™ Thermal Cycler User Guide
6 Maintenance 6
This chapter covers:
Scheduled Maintenance. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 6-2
As-Needed Maintenance . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 6-2
Parts List . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 6-6
6-2 Veriti™ Thermal Cycler User Guide
Chapter 6 Maintenance
Scheduled Maintenance
Run the following tests annually:
• Cycle Performance Test – page 5-10
• Heated Cover Verification – page 5-11
• Temperature Verification – page 5-12
As-Needed Maintenance
Tests Run the Temperature Nonuniformity Test (see page 5-13).
Cleaning the Instrument
Preparation
Before cleaning the instrument:
1. Power off the Veriti

Thermal Cycler, then remove the power cord.
2. Allow the instrument to cool until the heated cover and sample block(s) reach
room temperature.
Cleaning the
Touchscreen
Clean the touchscreen with any commercially available LCD cleaning product. Be
careful not to scratch the screen.
Cleaning the
Sample Wells
If you use any cleaning or decontamination method, except those recommended in
the manual, you risk damaging the equipment. Clean the sample wells once a month
or as needed.
Always wear protective glasses and gloves when servicing the
instrument. Also, make sure you disconnect the instrument from AC line power
before you begin any service procedure.
During instrument operation, the temperature of the heated cover
can be as high as 108 °C, and the temperature of the sample block(s) can be as high
as 100 °C. Before performing the procedure, keep hands away until the heated cover
and sample block(s) reach room temperature
To clean the sample wells:
1. Follow the steps in Preparation, above.
2. Open the heated cover.
3. Remove the sample tray from the sample block(s) and set it aside.
4. Use a cotton swab soaked in pure isopropanol to clean the sample wells
thoroughly. Make certain that the isopropanol has evaporated completely before
reloading a sample tray.
6-3 Veriti™ Thermal Cycler User Guide
Chapter 6 Maintenance
Decontaminating
the Sample Wells
If the sample wells become contaminated with any biological agents, clean the wells
thoroughly with a cotton swab soaked in 1:10 v/v dilution of 5.25% sodium
hypochlorite (Chlorox bleach).
Use bleach solution in moderation. Applied Biosystems recommends the use of
10% bleach solution for removing contamination from the Veriti™ instrument
sample block(s); excessive use of the solution, however, can corrode the sample
block(s) material. To prevent damage to the sample block(s):
• Avoid applying excessive amounts of bleach solution. If possible, instead of
using a squeeze bottle or soaked cloth, use an atomizer to deliver the solution to
the wells of the block(s).
• After treating with bleach solution, rinse the sample block(s) thoroughly using
deionized water.
Note: Removing residual bleach from the surfaces of the Veriti™ instrument using
water minimizes the long-term effects of bleach treatments.
If the sample block(s) become contaminated with radioactivity, use a commercially
available decontaminant to remove the contamination. If the block(s) cannot be
decontaminated, the instrument cannot be returned to Applied Biosystems for
service.
Cleaning the
Heated Cover
Clean the heated cover once a month or as needed.
During instrument operation, the temperature of the heated cover
can be as high as 108 °C, and the temperature of the sample block(s) can be as high
as 100 °C. Before performing the procedure, keep hands away until the heated cover
and sample block(s) reach room temperature.
To clean the heated cover:
1. Follow the steps in “Preparation” on page 6-2.
2. Open the heated cover.
3. Soak a cotton swab or piece of clean cloth with pure isopropanol and gently
wipe the heated platen.
CHEMICAL HAZARD. Isopropanol is a flammable
liquid and vapor. Exposure may cause eye, skin, and upper respiratory tract
irritation. Prolonged or repeated contact may dry skin and cause irritation.
Exposure may cause central nervous system effects such as drowsiness,
dizziness, and headache. Read the MSDS, and follow the handling instructions.
4. Remove any remaining isopropanol from the cover.
Note: If the platen becomes contaminated with amplified DNA, then raise the
heated cover to the cleaning position, wipe the platen with a cloth or cotton
swab soaked in bleach, then rinse with water.
Clean the heated platen once a month or as needed.
6-4 Veriti™ Thermal Cycler User Guide
Chapter 6 Maintenance
Decontaminating
the Heated Cover
If the heated cover become contaminated with amplified DNA, raise the heated cover
to the cleaning position and wipe the cover with a cloth or cotton swab soaked in 1:10
v/v dilution of 5.25% sodium hypochlorite (Chlorox bleach), then wipe the cover
with a damp cloth.
Replacing Fuses
Fuse Overview The instrument has two 10 A Type M 250 V 5 × 20 mm fuses (PN 4377690).
FIRE HAZARD. For continued protection against the risk of
fire, replace fuses only with Listed and Certified fuses of the same type and rating as
those currently in the instrument.
ELECTRICAL HAZARD. To protect yourself against shock
hazards, use a properly wired three-terminal outlet. Do not use an adapter to a two-
terminal outlet since this does not provide positive ground protection.
Acceptable AC line voltage tolerances: 100, 120, 220, 230 ±10%; 240 VAC
+6%/–10%, 50/60 Hz ± 1%
Required
Materials
• Two 10 A Type M 250 V 5 × 20 mm fuses
• Fine flat-tip screwdriver
Procedure 1. Turn off the instrument and disconnect the power cord from the back of the
instrument.
ELECTRICAL SHOCK HAZARD. Severe electrical
shock, which could cause physical injury or death, can result from working on
an instrument when the high voltage power supply is operating. To avoid
electrical shock, disconnect the power supply to the instrument, unplug the
power cord, and wait at least 1 minute before working on the instrument.
Instrument Configuration* Main Fuse Rating Part Number
All configurations 10 A 4377690
6-5 Veriti™ Thermal Cycler User Guide
Chapter 6 Maintenance
The fuses are in the power entry module:
2. Insert a small flat-tip screwdriver into the slot in the upper portion of the power
entry module, and open the door.
3. Pull out the fuse compartment to inspect the two fuses in the fuse compartment:
4. Pull out the blown fuse(s) from the fuse compartment and replace with new
10 A Type M 250 V 5 × 20 mm fuses.
5. Place the fuse compartment back into the power entry module (there is only one
orientation) and close the door.
6. Press the door until it locks in place.
7. Connect the instrument power cord.
Power entry module
Fuse compartment
G
R
0

6

6-6 Veriti™ Thermal Cycler User Guide
Chapter 6 Maintenance
Parts List
Table 6-1 Kits and Spares
Part PN
Kits
Temperature Verification Kit (0.1-mL) 4373997
Temperature Verification Kit (0.2-mL) 4377669
Temperature Verification Kit (0.02-mL) 4385338
Temperature Verification Kit (0.5-mL) 4309924
Spares
Cable, AC Power Supply 4374647
Cam, Left Side 4374274
Cam, Right Side 4374275
Foot, Rubber (Package of 4) 4375246
Fuse 10A Slo-Blo 4377690
Grill, Plastic Mold 4374178
Handle, Plastic 4374277
Handle, Rubber Grip 4374181
Heated Cover 4374276
Panel, Left 4374176
Panel, Rear (Heated Cover) 4374280
Panel, Right 4374175
Probe, Temperature Verification Kit (0.1-mL) 4375938
Probe, Temperature Verification Kit (0.2-mL) 4377670
Probe, Temperature Verification Kit (0.02-mL) 4308757
Probe, Temperature Verification Kit (0.5-mL) 4309925
A-1 Veriti™ Thermal Cycler User Guide
A Instrument Specifications A
This appendix covers:
System Specifications . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . A-2
Printer Specifications . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . A-3
A-2 Veriti™ Thermal Cycler User Guide
Chapter A Instrument Specifications
System Specifications
Physical
Dimensions and
Electrical
Specifications
Power and
Communication
Connections
Figure A-1 Connections for power and communications on the Veriti

Thermal
Cycler
Physical Dimensions
Width 23.7 cm (9.3 in)
Height 24.5 cm (9.6 in)
Depth 48.5 cm (19.1 in)
Weight 10.2 kg (22.5 lbs)
Electrical
Input Voltage 100 to 240 VAC 50/60 Hz
Max Power 10 A
AC Line Voltage Tolerances 100, 120, 220, 230 ±10%
240 VAC +6%/–10%, 50/60 Hz ± 1%
Table 1 Power and Communication
Port Description
800 VA power cable
10/100 fast Ethernet port for a network connection
USB v1.0 port for a connection to an external USB drive
RS232 serial communication port for connecting the probe for the Temperature
Verification Kit
A-3 Veriti™ Thermal Cycler User Guide
Chapter A Instrument Specifications
Sample
Temperature
Range
• Sample temperature range: +4 to +99.9 °C
• Temperature calibration accuracy: Traceable to National Institute of Standards
and Technology (NIST)
Touchscreen
Specifications
640 × 480 pixel LCD color display with full VGA resolution.
Sample Well
Specifications
Printer Specifications
The Veriti Thermal Cycler requires a printer that:
• Has an Ethernet port
• Supports the LPD/LPR protocol (often called a “TCP/IP printer”)
Instrument Model
No. of
Wells
Volume/Well
Veriti

96-Well Fast Thermal Cycler (PN 4375305) 96 0.1 mL
Veriti 96-Well Thermal Cycler (PN 4375786) 96 0.2 mL
Veriti 384-Well Thermal Cycler (PN 4388444) 384 0.02 mL
Veriti 60-Well Thermal Cycler (PN 4384638) 60 0.5 mL
A-4 Veriti™ Thermal Cycler User Guide
Chapter A Instrument Specifications
B-1 Veriti™ Thermal Cycler User Guide
B Disposables B
This appendix covers:
Disposables . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .B-2
Other Supplies for Sample Handling. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .B-4
B-2 Veriti™ Thermal Cycler User Guide
Chapter B Disposables
Disposables
Table B-1 Disposables for the Veriti

Thermal Cycler
Part Description
96-Well
(0.1-mL)
96-Well
(0.2-mL)
384-Well
(0.02-mL)
60-Well
(0.5-mL)
Part
Number
96-Well Plates
MicroAmp™ Fast 96-Well Reaction Plate (0.1 mL) x 4346907
MicroAmp™ Fast Optical 96-Well Reaction Plate
with Barcode (0.1 mL)
x 4346906
x 4366932
MicroAmp™ Optical 96-Well Reaction Plate x N8010560
x 4316813
MicroAmp™ Optical 96-Well Reaction Plate with
Barcode
x 4306737
x 4326659
MicroAmp™ Optical 96-Well Reaction Plate with
Barcode and Optical Caps
x 403012
MicroAmp™ Optical 96-Well Reaction Plate with
Barcode and Optical Adhesive Films
x 4314320
MicroAmp™ Optical 384-Well Reaction Plate x 4309849
MicroAmp™ Optical 384-Well Reaction Plate with
Barcode
x 4309849
x 4326270
x 4343814
12-Well Strips
MicroAmp™ 12-Cap Strip x x N8010534
x x N8011534
MicroAmp™ 12-Cap Strip, Assorted Colors x x N8010834
8-Well Strips
MicroAmp™ Fast 8-Tube Strip (0.1 mL) x 4358293
MicroAmp™ 8-Tube Strip (0.2 mL) x N8010580
MicroAmp™ 8-Tube Strip, Assorted Colors (0.2
mL)
x N8010838
MicroAmp™ Optical 8-Tube Strip (0.2 mL) x 4316567
B-3 Veriti™ Thermal Cycler User Guide
Chapter B Disposables
MicroAmp™ 8-Cap Strip x x N8010535
x x N8011535
MicroAmp™ 8-Cap Strip, Assorted Colors x x N8010835
MicroAmp™ Optical 8-Cap Strip x x 4323032
Single Tubes
MicroAmp® Fast Reaction Tube with Cap (0.1 mL) x 4358297
MicroAmp® Reaction Tube with Cap (0.2 mL) x N8010540
x N8011540
MicroAmp® Reaction Tube with Cap, Assorted
Colors (0.2 mL)
x N8010840
MicroAmp® Reaction Tube with Cap, Autoclaved
(0.2 mL)
x N8010612
MicroAmp® Reaction Tube without Cap (0.2 mL) x N8010533
x N8011533
MicroAmp® Reaction Tube without Cap, Assorted
Colors (0.2 mL)
x N8010833
MicroAmp® Optical Tube without Cap (0.2 mL) x N8010933
GeneAmp® Thin-Walled Reaction Tube with Flat
Cap (0.5 mL)
x N8010737
GeneAmp® Thin-Walled Reaction Tube with
Domed Cap (0.5 mL)
x N801537
GeneAmp® Thin-Walled Reaction Tube with
Domed Cap, Autoclaved (0.5 mL)
x N8010611
Seals & Covers
MicroAmp™ Clear Adhesive Film x x x 4306311
MicroAmp™ Optical Adhesive Film x x x 4360954
x x x 4311971
MicroAmp™ Optical Adhesive Film Kit x x 4313663
Reaction Trays
MicroAmp™ 96-Well Tray for VeriFlex™ Blocks x x 4379983
MicroAmp™ 96-Well Tray/Retainer Set for Veriti


Systems
x 4381850
Table B-1 Disposables for the Veriti

Thermal Cycler (continued)
Part Description
96-Well
(0.1-mL)
96-Well
(0.2-mL)
384-Well
(0.02-mL)
60-Well
(0.5-mL)
Part
Number
B-4 Veriti™ Thermal Cycler User Guide
Chapter B Disposables
Other Supplies for Sample Handling
The following parts can simplify working with your samples and the Veriti


Thermal Cycler.
Product Part Number
MicroAmp™ 96-Well Base N8010531
MicroAmp™ Splash Free 96-Well Base 4312063
GeneAmp
®
Thermal Isolation Frame 4308927
MicroAmp™ Cap Installing Tool (Handle) 4330015
MicroAmp™ Multi-Removal Tool 4313950
MicroAmp™ Adhesive Film Applicator 4333183
MicroAmp™ Centrifuge Adapter N8013822
C-1 Veriti™ Thermal Cycler User Guide
C Predefined Run Methods C
This appendix covers:
Predefined Run Methods. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .C-2
C-2 Veriti™ Thermal Cycler User Guide
Chapter C Predefined Run Methods
Predefined Run Methods
The following run methods are supplied with the Veriti

Thermal Cycler and are
stored in the Shared folder. These run methods are based on recommended protocols
from Applied Biosystems and should be considered as starting points for the
different applications. Your results may vary between instrument models, so some
optimization may be needed. Please note that the ramp rates of these methods are
100%.
• AmpliCycle
®
Seq Run Method
• AmpliTaq Gold
®
DNA Polymerase Run Method
• AmpliTaq Gold
®
Fast PCR Run Method
• BigDye
®
Kit Fast Run Method
• BigDye
®
Kit Standard Run Method
• Fast PCR Run Method
• General PCR Run Method
• LMS2 Run Method
• Time Release Run Method
• Touchdown PCR Run Method
• XL PCR Run Method
These run methods cannot be edited or deleted, but if you save them with a different
name or to a different folder, you can edit them.
AmpliCycle
®
Seq Run Method
Use this run method to achieve clean sequence ladders from femtomole quantities of
template. The cycle sequencing process and the benefits of AmpliTaq
®
DNA
Polymerase, CS, are described in the product insert for the AmpliCycle
®
Sequencing
Kit (PN N8080175).
C-3 Veriti™ Thermal Cycler User Guide
Chapter C Predefined Run Methods
AmpliTaq Gold
®
DNA Polymerase Run Method
Use this run method for hot-start PCR in place of labor-intensive methods such as
manual hot-start or wax-bead-mediated hot-start techniques. The hot-start technique
helps to minimize the formation of primer-dimers or nonspecific products, thereby
increasing specificity and sensitivity of PCR. This run method specifies a pre-PCR
heat step for activation of AmpliTaq Gold
®
DNA Polymerase.
AmpliTaq Gold
®
Fast PCR Run Method
Use this run method for PCR with AmpliTaq Gold
®
Fast PCR Master Mix, UP to
produce optimal yield and specificity for a 500 bp amplicon. This run method is
optimized to generate template for DNA sequencing reactions and is only available
on Veriti

96-Well Thermal Cyclers.
Note: By default, the annealing temperature is set at 62 °C. Replace this temperature
with the melting temperature of the primer (see “Calculating Melting Temperatures”
on page 5-7).
C-4 Veriti™ Thermal Cycler User Guide
Chapter C Predefined Run Methods
BigDye
®
Kit Fast Run Method
Use this run method for cycle sequencing of dideoxy (Sanger) terminator sequencing
using ABI PRISM
®
BigDye
®
Terminator Cycle Sequence Ready Reaction Kits.
.
BigDye
®
Kit Standard Run Method
Use this run method, which consists of cycle-sequencing parameters for dideoxy
(Sanger) terminator sequencing, with ABI PRISM
®
BigDye
®
Terminator Cycle
Sequencing Ready Reaction Kits.
The pre-coded conditions in this run method are optimized for AmpliTaq
®
DNA
Polymerase, FS and the cycle sequencing reagents supplied with the BigDye
®

Terminator kits.
C-5 Veriti™ Thermal Cycler User Guide
Chapter C Predefined Run Methods
Fast PCR Run Method
Use this run method for use with the GeneAmp
®
Fast PCR Master Mix. For more
information on how to convert your standard methods to Fast methods, refer to the
product literature for Fast PCR Master Mix available from
www.appliedbioystems.com.
General PCR Run Method
Use this run method for standard PCR use. This method is set as the default run
method for the Veriti Thermal Cycler.
C-6 Veriti™ Thermal Cycler User Guide
Chapter C Predefined Run Methods
LMS2 Run Method
Use this run method for ABI PRISM
®
Linkage Mapping Set Version 2.5 (LMS2)
thermal cycling. Linkage Mapping Set Version 2 uses over 400 fluorescently labeled
PCR primer pairs for analysis of select microsatellite loci from the Généthon human
linkage map.
Time Release Run Method
Use this run method for use with AmpliTaq Gold
®
DNA Polymerase. This method
minimizes the pre-PCR activation step and adds a minimum of 10 additional cycles,
allowing for slow activation of the enzyme during cycling. This provides a simple
method where polymerase activity increases more slowly as product accumulates,
improving specificity.
C-7 Veriti™ Thermal Cycler User Guide
Chapter C Predefined Run Methods
Touchdown PCR Run Method
Use this run method if the optimal annealing temperature is not known. This method
incrementally decreases the annealing temperature in early cycles to maximize the
yield of specific products.
XL PCR Run Method
Use this run method for amplification of 5 to 40 kb PCR products using rTth DNA
Polymerase, XL and unique reaction conditions. By providing longer templates, XL
PCR complements technologies for rapid, long-range PCR. More complete genes
can be amplified in one reaction from known expressed sequences, allowing more
introns to be spanned. You can use XL PCR to amplify the control target (a 20.8-kb
product from Lambda DNA) supplied in the kit.
C-8 Veriti™ Thermal Cycler User Guide
Chapter C Predefined Run Methods
Veriti™ Thermal Cycler User Guide Index-1
Index
A
About the Instrument screen 5-5
adding
AutoDelta steps 3-13
folders 3-9
pauses in a run method 3-15
stages 3-10
steps 3-11
users 2-10
VeriFlex steps 3-16
Admin Menu screen 1-7
AmpliCycle run method C-2
AmpliTaq run methods C-3
appendices
Disposables B-1
Instrument Specifications A-1
Predefined Run Methods C-1
Applied Biosystems
contacting viii
customer feedback on documentation viii
Information Development department viii
Technical Support viii
assumptions for using this guide vii
AutoDelta step 3-13
B
backing up
before restoring to factory settings 5-9
run methods and settings 1-13
Big Dye Kit run methods C-4
bold text, when to use vii
C
calibrating, temperature verification kit 5-13
CAUTION, description xii
chapters
Getting Started 2-1
Maintenance 6-1
Performing a Run 3-1
System Overview 1-1
Troubleshooting 4-1
Utilities 5-1
chemical safety xvi
chemical waste safety xvii
cleaning
heated cover 6-3
sample wells 6-2
touchscreen 6-2
conventions
bold text vii
for describing menu commands vii
IMPORTANTS! vii
in this guide vii
italic text vii
Notes vii
safety xii
user attention words vii
creating
folders 3-9
run methods 3-8
shortcuts to instrument functions 2-15
shortcuts to run methods 1-13
users 2-10
customer feedback, on Applied Biosystems
documents viii
Cycle Performance Test 5-10
cycles
changing during a run 3-22
editing in a run method 3-11
D
DANGER, description xii
date, setting current 2-8
decontaminating
heated cover 6-4
sample wells 6-3
temperature verification kit 5-13
default administrator user name and password 2-10
default settings, restoring 5-8
deleting
folders 1-16
run methods 1-12
shortcuts 2-16
steps or stages 3-15
users 2-13
Display Method Time button 3-22
Disposables appendix B-1
documentation, related viii
Veriti™ Thermal Cycler User Guide
Index
Index-2
E
elapsed time for run, viewing 3-22
electrical safety xvii
electromagnetic compatibility standards. See EMC
standards
EMC standards xvii
Ethernet port A-2
F
factory settings, restoring 5-8
FAST PCR run method C-5
firmware
upgrading 5-5
version number 5-5
folders
creating 3-9
deleting 1-16
renaming 1-16
fuses
changing 6-4
specification 6-4
G
General PCR run method C-5
Getting Started chapter 2-1
guest users 2-9
guidelines
chemical safety xvi
chemical waste disposal xvii
H
hazard icons. See safety symbols, on instruments
hazard symbols. See safety symbols, on instruments
hazards. See safety
heated cover
cleaning 6-3
decontaminating 6-4
setting temperature for a run 3-18
skipping heating during a run 3-20
temperature when idle 2-14
verification 5-11
Help system, accessing viii
Hot icon 3-21
I
IMPORTANT, description xii
Information Development department, contacting viii
installation category xvii
instrument operation, safety xv
instrument properties
IP address 2-7
name 2-8
serial number 2-8
Instrument Specifications appendix A-1
IP address, setting 2-7
italic text, when to use vii
L
linkage mapping C-6
LMS2 run method C-6
M
Main Menu screen 1-6
Maintenance chapter 6-1
maintenance schedule 6-2
Manage Users button missing 4-3
melting temperatures, calculating 5-7
menu commands, conventions for describing vii
moving parts, safety xvii
MSDSs
description xvi
MSDSs, obtaining viii
N
naming the instrument 2-8
O
online Help. See Help system
overvoltage category (rating) xvii
P
part numbers
disposable supplies B-2
Temperature Verification Kits 6-6
thermal cycler parts 6-6
password
default administrator 2-10
editing 2-13
logging in without 2-9
Pause Run button 3-22
pausing
before a step in run method 3-15
default duration 2-15
during a run 3-23
Performing a Run chapter 3-1
physical hazard safety xvii
power failure during a run 3-24
Predefined Run Methods appendix C-1
printing
run methods 1-12
run report 3-25
Veriti™ Thermal Cycler User Guide
Index
Index-3
test results 5-10, 5-12, 5-13
troubleshooting 4-2
R
ramp rates
9600 5-4
9700M 5-4
editing 3-12
in converted methods 5-4
viewing 1-9
recalibrating, temperature verification kit 5-13
remaining time for run, viewing 3-22
remote runs
enabling 2-8
performing 3-19
troubleshooting 4-2
renaming
folders 1-16
instrument 2-8
restarting, after a power failure 3-24
restoring
factory settings 5-8
run methods and settings 1-14
returning an instrument, instructions 4-3
RS232 serial port A-2
rTth DNA polymerase C-7
run methods
backing up 1-13
copying 1-11
creating 3-8
deleting 1-12
predefined C-1
printing 1-12
restoring 1-14
saving 3-9
scrolling to left and right 3-22
shortcuts 1-13
Run Monitor screen 3-21
run parameters
entering 3-18
viewing during a run 3-22
run report
printing 3-25
saving 3-25
viewing most recent 3-25
S
safety
before operating the instrument xv
chemical xvi
chemical waste xvii
conventions xii
electrical xvii
guidelines xvi, xvii
instrument operation xv
moving and lifting instrument xv
moving parts xvii
moving/lifting xv
physical hazard xvii
standards xvii
safety labels, on instruments xiv
safety standards xviii
safety symbols, on instruments xiii
sample block(s)
statistics 5-8
temperature when idle 2-14
sample wells
cleaning 6-2
decontaminating 6-3
specifications A-3
samples
loading 3-5
unloading 3-25
Sanger sequencing C-4
saving
run methods 3-9
run report 3-25
test results 5-10, 5-12, 5-13
serial number 2-8
serial port A-2
service, returning an instrument 4-3
Settings Menu screen 1-7
shortcuts
removing 2-16
to instrument functions 2-15
to run methods 1-13
SKIP button 3-22
stages
adding 3-10
cycling 3-10
deleting 3-15
holding 3-10
standards
EMC xvii
safety xvii
statistics, instrument 5-8
steps
adding 3-11
AutoDelta 3-13
deleting 3-15
pausing before 3-15
skipping during a run 3-22
VeriFlex 3-16
STOP button 3-22
symbols, safety xiii
System Overview chapter 1-1
Veriti™ Thermal Cycler User Guide
Index
Index-4
T
Technical Support, contacting viii
Temperature Nonuniformity Test 5-13
temperature verification kit
contents 5-11
decontaminating 5-13
instructions for shipping ix
recalibrating 5-13
user guide 5-11
Temperature Verification Test 5-12
temperature, editing 3-12
test results files
bcalevents.txt 5-12
CyclePEvents.txt 5-10
heatedCover.txt 5-12
tnuEvents.txt 5-13
test results, saving 5-10, 5-12, 5-13
tests
Cycle Performance 5-10
Heated Cover Verification 5-11
Temperature Nonuniformity 5-13
Temperature Verification 5-12
text conventions vii
time
editing 3-12
elapsed for run 3-22
remaining for run 3-22
setting, current 2-8
Time Release run method C-6
Tools Menu screen 1-8
total cycles 5-8
total degrees for block(s) 5-8
Touchdown PCR
description 3-13
predefined run method C-7
touchscreen
cleaning 6-2
training, information on viii
Troubleshooting chapter 4-1
TVK See temperature verification kit 5-11
U
upgrading firmware 5-5
USB port A-2
user attention words, described vii
users
access levels 2-10
adding 2-10
changing 2-12
default administrator user name and password 2-10
deleting 2-13
Manage Users button missing 4-3
Utilities chapter 5-1
V
VeriFlex Blocks, description 1-2
VeriFlex Step, creating 3-16
VeritiLink Software 2-9
version number for firmware 5-5
View Method Information button 3-22
W
WARNING, description xii
X
XL PCR run method C-7
www.appliedbiosystems.com
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For sales office locations and technical support,
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06/2010
Part Number 4375799 Rev. E

Applied Biosystems Veriti™ Thermal Cycler
User Guide

Applied Biosystems. BigDye. OR UNDER ANY STATUTE OR ON ANY OTHER BASIS FOR SPECIAL. or methods such as 5’ nuclease methods. Foster City. or by estoppel under any other patent claim. INCLUDING BUT NOT LIMITED TO THE USE THEREOF. California 94404. VeriFlex. E 06/2010 . by implication. NOTICE TO PURCHASER: The Veriti™ Thermal Cycler is covered by US patent claims and corresponding claims in their non-US counterparts. reagents. Part Number 4375799 Rev. All other trademarks are the sole property of their respective owners. and Veriti are trademarks of Applied Biosystems or its subsidiaries in the U. APPLIED BIOSYSTEMS DISCLAIMS ALL WARRANTIES WITH RESPECT TO THIS DOCUMENT. INCIDENTAL. kits. Inc. IN NO EVENT SHALL APPLIED BIOSYSTEMS BE LIABLE. AB (Design). USA. Further information on purchasing licenses may be obtained by contacting the Director of Licensing. and GeneAmp. TRADEMARKS: Applera. MULTIPLE OR CONSEQUENTIAL DAMAGES IN CONNECTION WITH OR ARISING FROM THIS DOCUMENT.S. Applied Biosystems. WARRANTY. INDIRECT. No right is conveyed expressly. INCLUDING BUT NOT LIMITED TO THOSE OF MERCHANTABILITY OR FITNESS FOR A PARTICULAR PURPOSE. AmpliTaq. ABI PRISM.© Copyright 2008. 850 Lincoln Centre Drive. WHETHER IN CONTRACT. and/or certain other countries. General Laboratory Use. and AmpliTaq Gold is a registered trademark of Roche Molecular Systems. Applied Biosystems assumes no responsibility for any errors that may appear in this document. 2010 Applied Biosystems. such as claims to apparatus. All rights reserved. TORT. EXPRESSED OR IMPLIED. are registered trademarks and MicroAmp. Information in this document is subject to change without notice. AmpliCycle. PUNITIVE.

. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2-3 Materials . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2-5 Connecting Together Multiple Instruments . . . . . . . . . . . . . . . . xvii Chapter 1 System Overview Introducing the Veriti™ Thermal Cycler . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . xv Chemical Safety . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . xvii Electrical Safety . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2-3 Setting Up the Veriti™ System . . . . . . . . . . . 2-3 Unpacking the Veriti™ System . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2-4 Connecting to a Network Printer . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1-2 Using the Touchscreen . . . . . . . . . . . . . . . . . . . . . . . . xii Symbols on Instruments . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . viii How to Obtain Support . . . . . . . . . . . . . . . . . . . . .Contents Preface Front Matter How to Use This Guide . . . . . 2-5 Veriti™ Thermal Cycler User Guide iii . . . . . . . . . . . . . . . . . . . . . . . 1-6 About Run Methods . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . xiv General Instrument Safety . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . xiii Safety Labels on Instruments . . . . . . . . . . . . . . . . . . 2-2 Before You Start . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . viii Safety and EMC Compliance Information Safety Conventions Used in This Document . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1-15 Chapter 2 Getting Started Installing the Veriti™ Thermal Cycler . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . xvii Safety and Electromagnetic Compatibility (EMC) Standards . . . 2-2 Environmental Requirements . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1-8 About Folders . . . . . . . . . . . . . . . . . . . . . . xvii Physical Hazard Safety . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . vii How to Obtain More Information . . . . . . . . . . . . xvi Chemical Waste Safety . . . . . . . . . . . . . 1-3 Menu Overview . . . . . . . . .

. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3-4 Disposables for the 60-Well Veriti™ Thermal Cycler . . . . . . . . . 2-14 Chapter 3 Performing a Run Selecting Disposables . . . . . . . 3-5 Loading Samples in Veriti™ 96-Well Thermal Cyclers . . . . . . . . . . . . . . . . . . . . . . 5-11 Running the Temperature Verification . . . . . . . . . . . . . . . . . . . . . . . 3-21 Viewing and Printing the Run Report . . . . . . . . 5-13 iv Veriti™ Thermal Cycler User Guide . . . . . . . . . . . . . . . . 3-6 Loading Samples in the Veriti™ 60-Well Thermal Cycler . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3-25 Removing the Samples from the Instrument . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2-7 Setting Up Instrument Security and User Accounts . . . . . . . . . . . . . . . . . . . 4-3 Chapter 5 Utilities Using GeneAmp® PCR System 9700 Run Methods . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 5-8 Restoring the Factory Settings . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2-7 Recommended Instrument Settings . . . . . . . . . . . . . . . . . . . . . . . . . . 3-5 Loading Samples in the Veriti™ 384-Well Thermal Cycler . . . . . . . . . 5-11 Running the Heated Cover Verification . . . . . . . . . . . . . . . . . . . . . . . . . . . 5-13 TVK Recalibration . . . . . . . . . . . 3-25 Chapter 4 Troubleshooting Troubleshooting . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3-10 Performing a Run . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2-9 Adding Users . . . . . . . . . . . . . . . . . . . . . . . . . . . .Powering On . . . 5-5 Calculating Melting Temperatures . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 5-7 Viewing Instrument Statistics . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 4-2 Returning an Instrument for Service . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3-18 Monitoring a Run . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2-6 Setting Up the Veriti™ Thermal Cycler . . . 5-2 Upgrading System Firmware . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 5-12 Running the Temperature Nonuniformity Test . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3-7 Creating a New Run Method . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 5-8 Running the Cycle Performance Test . . . . . . . . . . 3-8 Editing Details . . . . . . . . . . . . . . 5-10 Tests Using the Temperature Verification Kit . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3-4 Loading Samples into the Instrument . . . . . . . . . . . . . . . . . . . . 2-10 Setting Other Options . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3-2 Disposables for 96-Well Veriti™ Thermal Cyclers . . 3-2 Disposables for the 384-Well Veriti™ Thermal Cycler . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .

. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . C-4 BigDye® Kit Standard Run Method . . . . . . . . . . . 6-2 Cleaning the Instrument . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . C-5 LMS2 Run Method . . . . . . . . . . . . . . A-2 Printer Specifications . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . C-3 AmpliTaq Gold® Fast PCR Run Method . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 6-2 As-Needed Maintenance . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .Chapter 6 Maintenance Scheduled Maintenance . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 6-2 Replacing Fuses . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . C-3 BigDye® Kit Fast Run Method . . . . . . . . . . . . . . . . . . . . . . . 6-6 Appendix A Instrument Specifications System Specifications . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . C-7 XL PCR Run Method . . . . . . . . B-2 Other Supplies for Sample Handling . . . . . . . . . . . C-5 General PCR Run Method . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . A-3 Appendix B Disposables Disposables . . . . . B-4 Appendix C Predefined Run Methods Predefined Run Methods . . . . . . C-4 Fast PCR Run Method . . . . . . . 6-4 Parts List . . . . . . . . . . . . . . . . . . . . . . . . . . . C-2 AmpliCycle® Seq Run Method . . . . . . . C-2 AmpliTaq Gold® DNA Polymerase Run Method . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . C-6 Time Release Run Method . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . C-7 Index Veriti™ Thermal Cycler User Guide v . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . C-6 Touchdown PCR Run Method . . . . . . .

vi Veriti™ Thermal Cycler User Guide .

Examples of the user attention words appear below: Note: The Calibrate function is also available in the Control Console. • Italic text indicates new or important words and is also used for emphasis. using and maintaining the Applied Biosystems Veriti Thermal Cycler. IMPORTANT! If your instrument is so configured. For example: Before analyzing. accurate chemistry kit use. see “Safety Alert Words” on page xii. IMPORTANT! – Provides information that is necessary for proper instrument operation. • A right arrow symbol ( ) separates successive commands you select from a drop-down or shortcut menu. 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. then press Enter for each of the remaining fields. This guide uses the following conventions: • Bold text indicates user action. Veriti™ Thermal Cycler User Guide vii . For example: Select File Open Spot Set. Safety Alert Words Safety alert words also appear in user documentation.Preface How to Use This Guide Purpose of This Guide Audience Assumptions Text Conventions The Applied Biosystems Veriti ™ User Guide provides information about installing. Right-click the sample row. User Attention Words Two user attention words appear in Applied Biosystems user documentation. you need a valid user ID and password to log in. then select View Filter View All Runs. always prepare fresh matrix. or safe use of a chemical. This guide is intended for novice and experienced Veriti Thermal Cycler users who use the instrument to perform PCR. For more information. For example: Type 0. This guide assumes you have knowledge of basic laboratory procedures and PCR chemistry.

Note: To open the user documentation on the Veriti™ Thermal Cycler Documentation CD. To order documents.com. Access the Help system by touching (Help) at the bottom right corner of the instrument touchscreen. How to Obtain Support Support Information For the latest services and support information for all locations. and accessories.appliedbiosystems. then click the link for Support.com. Obtaining Information from the Help System Send Us Your Comments The Veriti Thermal Cycler has a Help system that describes how to use each feature of the user interface. You can e-mail your comments to: techpubs@appliedbiosystems. the Support page provides access to worldwide telephone and fax numbers to contact Applied Biosystems Technical Support and Sales facilities. and other related documents • Download PDF documents • Obtain information about customer training • Download software updates and patches • Contact technical services by clicking the Care Center link. download PDF files. Applied Biosystems welcomes your comments and suggestions for improving its user documents. A portable document format (PDF) version of this guide is available on the Veriti™ Thermal Cycler Documentation CD. Note: For additional documentation. viii Veriti™ Thermal Cycler User Guide . (See “How to Obtain Support” below).com IMPORTANT! The e-mail address above is for submitting comments and suggestions relating only to documentation. then click the link for Support.Preface How to Obtain More Information Related Documentation The following document is shipped with the system: Applied Biosystems Veriti™ Thermal Cycler Quick Reference Card – Provides a summary of information about the thermal cycler. MSDSs. go to http://www. certificates of analysis. In addition.com. It is designed to help you quickly learn to use the Veriti Thermal Cycler. see “How to Obtain Support” on page viii. At the Support page. you can: • Search through frequently asked questions (FAQs) • Submit a question directly to Technical Support • Order Applied Biosystems user documents. its installation. or for help with a technical question. go to http://www. use the Adobe® Reader® software available from www.adobe.appliedbiosystems.

Pack the digital thermometer and the probe assembly in the black case. 92614-5602 • Fax: (949)-271-2300 2.00. 5. Ensure that the probe assembly has been decontaminated (see “Decontaminating the Probe Assembly” on page 5-13). Use the address or Fax information below to request a quote from Alpha Technics for a recalibration order: • Mail: Alpha Technics 17151 Gillette Avenue Irvine. 3. Ca.00 plus a 10% administrative fee. Send the package freight prepaid to Alpha Technics at the address in step 1. The total for the purchase order is then $165. Veriti™ Thermal Cycler User Guide ix . Create a shipping package with: • Black case containing the digital thermometer and probe assembly • Completed copy of the Certificate of Instrument Decontamination • Payment for shipping/handling in one of the following forms: – Purchase order – Company letterhead with the words “verbal purchase order” – Visa/MasterCard credit card information • Your address and contact information: – Billing address – Return shipping address – Name and phone number of a contact (person most familiar with the thermometer) Note: If payment is not included with the package. 4. Alpha Technics bills you for $150.Preface TVK Support To send the temperature verification kit equipment for recalibration: 1.

Preface x Veriti™ Thermal Cycler User Guide .

. . . . . . . . . . . . . . . . . xvii Safety and Electromagnetic Compatibility (EMC) Standards . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . xvi Chemical Waste Safety . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . xiii Safety Labels on Instruments . . . . . . . . . .Safety and EMC Compliance Information This section covers: Safety Conventions Used in This Document. . . . . . . . . . . . . . . . xiv General Instrument Safety. . . . . . . . . . . . . . xvii Veriti™ Thermal Cycler User Guide xi . . . . . . xvii Physical Hazard Safety . . . . . . . . . . . . . . . . . . . . . . . . . . . . . xii Symbols on Instruments . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .xv Chemical Safety . . . . . xvii Electrical Safety . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .

Safety and EMC Compliance Information 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. could result in death or serious injury. or safe use of a chemical. Exposure causes eye. Each alert word—IMPORTANT. Read the MSDS. skin. as defined below. These hazard symbols are identical to the hazard symbols that are affixed to Applied Biosystems instruments (see “Safety Symbols” on page xiii). and respiratory tract irritation. DANGER—implies a particular level of observation or action. each safety alert word in an Applied Biosystems document appears with an open triangle figure that contains a hazard symbol. – Indicates a potentially hazardous situation that. Formamide. accurate chemistry kit use. Except for IMPORTANTs. Ground the instrument according to the provided instructions. and follow the handling instructions. CHEMICAL HAZARD. WARNING. may result in minor or moderate injury. – Indicates a potentially hazardous situation that. ELECTRICAL HAZARD. clothing. The lamp is extremely hot. Do not touch the lamp until it has cooled to room temperature. Definitions IMPORTANT! – Indicates information that is necessary for proper instrument operation. Wear appropriate protective eyewear. and gloves. – Indicates an imminently hazardous situation that. if not avoided. xii Veriti™ Thermal Cycler User Guide . Failure to ground the instrument properly can lead to an electrical shock. This signal word is to be limited to the most extreme situations. Examples The following examples show the use of safety alert words: IMPORTANT! You must create a separate sample entry spreadsheet for each 96-well plate. if not avoided. if not avoided. will result in death or serious injury. It may also be used to alert against unsafe practices. It is a possible developmental and birth defect hazard. CAUTION.

Indicates the On/Off position of a push-push main power switch. Indicates the presence of an electrical shock hazard and to proceed with appropriate caution. This is not a protected ground terminal. Hazardous voltage may be present if this switch is on standby. Indicates a terminal that may be connected to the signal ground reference of another instrument. Indicates a protective grounding terminal that must be connected to earth ground before any other electrical connections are made to the instrument. Indicates a terminal that can receive or supply alternating or direct current or voltage.Safety and EMC Compliance Information Symbols on Instruments Electrical Symbols on Instruments The following table describes the electrical symbols that may be displayed on Applied Biosystems instruments. These safety symbols may also appear next to DANGERS. Safety Symbols The following table describes the safety symbols that may be displayed on Applied Biosystems instruments. Symbol Description Indicates that you should consult the manual for further information and to proceed with appropriate caution. Indicates a standby switch by which the instrument is switched on to the Standby condition. WARNINGS. Indicates the Off position of the main power switch. Indicates a terminal that can receive or supply alternating current or voltage. Veriti™ Thermal Cycler User Guide xiii . Each symbol may appear by itself or with text that explains the relevant hazard (see “Safety Labels on Instruments” on page xiv). and CAUTIONS that occur in the text of this and other product-support documents. Symbol Description Indicates the On position of the main power switch.

See http://www. Indicates the presence of a laser inside the instrument and to proceed with appropriate caution. WARNING. 2005. Symbol Description Do not dispose of this product as unsorted municipal waste. Read the Material Safety Data Sheets (MSDSs) before handling. Francais ATTENTION Produits chimiques dangeureux. Safety Labels on Instruments The following CAUTION. ATTENTION Déchets dangereux. Refer to MSDS(s) and local regulations for handling and disposal. European Union customers: Call your local Applied Biosystems Customer Service office for equipment pick-up and recycling.Safety and EMC Compliance Information Symbol Description Indicates the presence of a hot surface or other high-temperature hazard and to proceed with appropriate caution. AVERTISSEMENT Lampe brûlante.com for a list of customer service offices in the European Union. Lire les fiches techniques de sûreté de matériels et la régulation locale associées à la manipulation et l'élimination des déchets. Lire les fiches techniques de sûreté de matériels avant la manipulation des produits. Follow local municipal waste ordinances for proper disposal provisions to reduce the environmental impact of waste electrical and electronic equipment (WEEE). Indicates the presence of moving parts and to proceed with appropriate caution.appliedbiosystems. CAUTION Hazardous waste. Environmental Symbols on Instruments The following symbol applies to all Applied Biosystems electrical and electronic products placed on the European market after August 13. WARNING Hot lamp. xiv Veriti™ Thermal Cycler User Guide . and DANGER statements may be displayed on Applied Biosystems instruments in combination with the safety symbols described in the preceding section. English CAUTION Hazardous chemicals.

See “About MSDSs” on page xvi. The instrument is to be moved and positioned only by the personnel or vendor specified in the applicable site preparation guide. the use of appropriate moving equipment.Safety and EMC Compliance Information English WARNING Hot. Operating the Instrument Cleaning or Decontaminating the Instrument Veriti™ Thermal Cycler User Guide xv . If you decide to lift or move the instrument after it has been installed. Using the instrument in a manner not specified by Applied Biosystems may result in personal injury or damage to the instrument. verify with the manufacturer that the proposed method will not damage the equipment. and proper lifting techniques. Depending on the weight. DANGER High voltage. AVERTISSEMENT Pour éviter les risques d'électrocution. L’instrument ne contient aucune pièce réparable par l’utilisateur. Improper lifting can cause painful and permanent back injury. CAUTION Moving parts. General Instrument Safety PHYSICAL INJURY HAZARD. Before using a cleaning or decontamination method other than those recommended by the manufacturer. Remplacer la lampe par une lampe Applied Biosystems. Ensure that anyone who operates the instrument has: • Received instructions in both general safety practices for laboratories and specific safety practices for the instrument. ATTENTION Surface brûlante. WARNING To reduce the chance of electrical shock. ATTENTION Parties mobiles. ne pas retirer les capots dont l'ouverture nécessite l'utilisation d'outils. Francais AVERTISSEMENT Composants brûlants. DANGER Haute tension. No user-serviceable parts are inside. Refer servicing to Applied Biosystems qualified service personnel. Replace lamp with an Applied Biosystems lamp. Toute intervention doit être effectuée par le personnel de service qualifié de Applied Biosystems. do not attempt to lift or move the instrument without the assistance of others. moving or lifting an instrument may require two or more persons. Moving and Lifting the Instrument PHYSICAL INJURY HAZARD. • Read and understood all applicable Material Safety Data Sheets (MSDSs). CAUTION Hot surface. do not remove covers that require tool access.

• Check regularly for chemical leaks or spills. handling. In the Keyword Search field.Safety and EMC Compliance Information Chemical Safety Chemical Hazard Warning About MSDSs CHEMICAL HAZARD. handle. For additional safety guidelines. enter the chemical name. • Minimize the inhalation of chemicals. gloves.appliedbiosystems. Wear appropriate personal protective equipment when handling chemicals (for example. or protective clothing). (See “About MSDSs” on page xvi. xvi Veriti™ Thermal Cycler User Guide . follow the manufacturer’s cleanup procedures as recommended in the MSDS. click Support. Go to www. MSDSs provide the safety information you need to store. be sure to replace the appropriate MSDS in your files. then select any of the following: • Open – To view the MSDS • Print Target – To print the MSDS • Save Target As – To download a PDF version of the MSDS Note: For the MSDSs of chemicals not distributed by Applied Biosystems. consult the MSDS. Before handling any chemicals.) • Minimize contact with chemicals. MSDS part number. Find the MSDS of interest. and observe all relevant precautions. 2. then click Search. To obtain MSDSs: 1. and disposal. 3. consult the MSDS. Chemical manufacturers supply current Material Safety Data Sheets (MSDSs) with shipments of hazardous chemicals to new customers. click the link or right-click the MSDS title. state/provincial.com. • Comply with all local. transport. and dispose of the chemicals safely. safety glasses. Use only with adequate ventilation (for example. 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. They also provide MSDSs with the first shipment of a hazardous chemical to a customer after an MSDS has been updated. fume hood). or work with any chemicals or hazardous materials. If a leak or spill occurs. or national laws and regulations related to chemical storage. or other information that appears in the MSDS of interest. Each time you receive a new MSDS packaged with a hazardous chemical. product name. handle. For additional safety guidelines. contact the chemical manufacturer. refer to the Material Safety Data Sheet (MSDS) provided by the manufacturer. then click MSDS Search. Do not leave chemical containers open. Obtain MSDSs from Applied Biosystems The MSDS for any chemical supplied by Applied Biosystems is available to you free 24 hours a day.

Fuses FIRE HAZARD. Safety and Electromagnetic Compatibility (EMC) Standards This section provides information on: • • • • U. Grounding circuit continuity is vital for the safe operation of equipment. Before turning on the instrument. The Veriti Thermal Cycler has an installation (overvoltage) category of II. Plug the system into a properly grounded receptacle with adequate current capacity. Never operate equipment with the grounding conductor disconnected. and is classified as portable equipment Overvoltage Rating Physical Hazard Safety Moving Parts PHYSICAL INJURY HAZARD. Use properly configured and approved line cords for the voltage supply in your facility. verify that the fuses are properly installed and that the instrument voltage matches the power supply in your laboratory. Disconnect power before servicing the instrument. Refer to Material Safety Data Sheets and local regulations for handling and disposal. Do not remove instrument panels. and Canadian Safety Standards Canadian EMC Standard European Safety and EMC Standards Australian EMC Standards xvii Veriti™ Thermal Cycler User Guide . Severe electrical shock can result from operating the Veriti Thermal Cycler without its instrument panels in place. Keep hands clear of moving parts while operating the instrument. Improper fuses or high-voltage supply can damage the instrument wiring system and cause a fire. For continued protection against the risk of fire. Power ELECTRICAL HAZARD. Electrical Safety ELECTRICAL SHOCK HAZARD. FIRE HAZARD. Moving parts can crush and cut. replace fuses only with fuses of the type and rating specified for the instrument.S.Safety and EMC Compliance Information Chemical Waste Safety Chemical Waste Hazard HAZARDOUS WASTE. High-voltage contacts are exposed when instrument panels are removed from the instrument.

Control and Laboratory Use – EMC Requirements.” EN 61010-2-081. Control and Laboratory Use.1-92.” xviii Veriti™ Thermal Cycler User Guide .S. Class B). Part 1: General Requirements. “Particular Requirements for Laboratory Equipment for the Heating of Materials. and Laboratory Use. This instrument has been tested to and complies with standards EN 61010-1:2001. Scientific. “Electrical Equipment for Measurement. “Safety Requirements for Electrical Equipment for Measurement. and Canadian Safety Standards The Veriti Thermal Cycler has been tested to and complies with standard: UL 61010A-1/CAN/CSA C22. Part 1: General Requirements. “Safety Requirements for Electrical Equipment for Measurement.” Safety This instrument meets European requirements for safety (Low Voltage Directive 2006/95/EC).” Australian EMC Standards This instrument has been tested to and complies with standard AS/NZS 2064. “Particular Requirements for Automatic and Semi-Automatic Laboratory Equipment for Analysis and Other Purposes. Control.Safety and EMC Compliance Information U. This instrument has been tested to and complies with standard EN 61326 (Group 1.” EN 61010-2-010. Scientific.” EMC This instrument meets European requirements for emission and immunity (EMC Directive 2004/108/EC).” Canadian EMC Standard European Safety and EMC Standards This instrument has been tested to and complies with ICES-001. and Medical (ISM) Radio-frequency Equipment. Issue 3: “Industrial. and Medical Radio Frequency Generators. 1010.2 No.” UL 61010A-2-010. “Limits and Methods Measurement of Electromagnetic Disturbance Characteristics of Industrial. “Particular Requirements for Laboratory Equipment for the Heating of Materials.

System Overview
This chapter covers:

1

1

Introducing the Veriti™ Thermal Cycler . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1-2 Using the Touchscreen . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1-3 Menu Overview . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1-6 About Run Methods . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1-8 About Folders . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1-15

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Chapter 1

System Overview

Introducing the Veriti™ Thermal Cycler
About the Instrument
There are four models of the Veriti™ Thermal Cycler: • • • • Veriti 96-Well Fast Thermal Cycler (PN 4375305), with 0.1–mL sample wells Veriti 96-Well Thermal Cycler (PN 4375786), with 0.2–mL sample wells Veriti 384-Well Thermal Cycler (PN 4388444), with 0.02–mL sample wells Veriti 60-Well Thermal Cycler (PN 4384638), with 0.5–mL sample wells

You control the Veriti Thermal Cycler using the touchscreen display and easy-to-use interface. Up to twelve Veriti Thermal Cyclers can be connected in a satellite-like format through a network switch. With this connection, you can transmit run methods from one Veriti thermal cycler to another and start multiple thermal cyclers at once. The Veriti Thermal Cycler has a run recovery feature. If a power failure occurs during a run, the instrument will attempt to continue the run when the power returns. In addition, the Veriti 96-Well Thermal Cyclers have VeriFlex™ Blocks. These are six independently regulated thermal blocks to aid in designing a primer set and run method for optimal PCR conditions.

Figure 1-1

The Applied Biosystems Veriti™ Thermal Cycler

This user guide provides information on how to maximize the capabilities of your new Veriti Thermal Cycler. This user guide provides instructions for all four models of the Veriti Thermal Cycler. Functions which are not the same for each model are indicated by a comment such as “This function is only available for the Veriti 96Well Thermal Cyclers”.

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Veriti™ Thermal Cycler User Guide

Chapter 1

System Overview

Detailed specifications for the Veriti Thermal Cycler are found in Appendix A, “Instrument Specifications.”

Using the Touchscreen
You interact with the Veriti Thermal Cycler using a touchscreen. Table 1 describes several buttons common to many of the touchscreens.
Table 1 Buttons in the Veriti™ Thermal Cycler touchscreen
Button Function Returns to the Main Menu screen.

Returns to the previous screen.

When a run is in progress, displays the Status Report to view any errors that occurred during the run. When a run is in progress, displays the Run Monitor screen to view the run. Scrolls up and down through a list of items.

Displays the run method folders.

Creates a “shortcut” to the selected run method (or methods). Indicates that a USB drive is connected to the instrument’s USB port. Opens the Help system.

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1-3

touch Caps again. the text editor opens (Figure 1-2). Enter punctuation or other symbols Symbols.Chapter 1 System Overview Entering Text When you touch a field that requires the input of text. Remove the contents of the entire field . Enter a lowercase letter Enter an uppercase letter A letter button. Caps. then the symbol(s). Delete the last letter Close the editor and save any changes 1-4 Veriti™ Thermal Cycler User Guide ... then the letter(s).. When you are done. When you are done. Touch.. Figure 1-2 The Veriti™ Thermal Cycler text editor To. touch Symbols again.

such as a temperature value. Touch.Chapter 1 System Overview Entering Numerals When you touch a field that requires only numerical input. Close the editor and save any changes .. Veriti™ Thermal Cycler User Guide 1-5 . Enter a number A number button... Figure 1-3 The Veriti™ Thermal Cycler numeric editor To. The instrument automatically adds the decimal point for those fields that include a decimal point. Colons (for entering times) and dashes (for entering dates) are also automatically added. Delete the last number Remove the entire contents of the field .. the numeric editor opens (Figure 1-3).

If your system does not require login. the My Account button is not shown. • Log Off to log off the instrument. • Settings Menu to access various instrument configuration options. current time. • The Shortcut buttons allow you to configure instrument functions you frequently use to appear in the Main Menu screen (see “Configuring Main Menu Shortcuts to Functions” on page 2-15). If your system does not require login. and current user are shown at the bottom of the screen. • My Account to view and edit your account information. • .Chapter 1 System Overview Menu Overview The Main Menu Screen After you log in to the system. If you have administrative privileges. touch: • Browse/New Methods to view and work with all the run methods to which you have access (see “Viewing a Run Method” on page 1-9). The date. the Main Menu screen opens. as well as viewing the results of the last run and statistics about the instrument (see “The Tools Menu Screen” on page 1-8). this button is not shown. the (Power) button is shown instead. This screen is the starting point for operating the Veriti Thermal Cycler. (Help) to access the Help system. 1-6 Veriti™ Thermal Cycler User Guide . tools such as a Tm calculator and run method conversion. If your system does not require login. You can still log off when a run is in process. • Tools Menu to access instrument tests. Figure 1-4 The Veriti™ Thermal Cycler Main Menu screen In the Main Menu screen. you access the Admin Menu screen from this screen (see “The Settings Menu Screen” on page 1-7).

and perform other functions. set instrument security. upgrade the firmware. For instruments that require login.Chapter 1 System Overview The Settings Menu Screen Use this screen to set various instrument configuration options. back up run methods and settings. Figure 1-6 privileges The Admin Menu screen. the Manage Users button is not shown. only Administrators have access to this menu. Figure 1-5 The Settings Menu screen. only Users and Administrators have access to this menu. available only to users with administrative Veriti™ Thermal Cycler User Guide 1-7 . If your system does not require login. with the Admin Menu button shown The Admin Menu Screen Use this screen to manage user accounts. For instruments that require login.

You can edit. available to all users For more information about the functions on the Tools Menu. copy. For details on these methods. see Appendix C.” About Run Methods What Is a Run Method? Predefined Methods A run method is a set of instructions that specifies how the instrument should heat and cool your samples. see Chapter 5.Chapter 1 System Overview The Tools Menu Screen Use this screen to access various tools and instrument tests. “Predefined Run Methods. Run methods are stored in the instrument firmware. “Utilities.” 1-8 Veriti™ Thermal Cycler User Guide . The Veriti Thermal Cycler firmware has ten predefined run methods: • • • • • • • • • • • AmpliCycle® Seq Run Method AmpliTaq Gold® DNA Polymerase Run Method AmpliTaq Gold® Fast PCR Run Method BigDye® Kit Standard Run Method BigDye® Kit Fast Run Method Fast PCR Run Method General PCR Run Method LMS2 Run Method Time Release Run Method Touchdown PCR Run Method XL PCR Run Method Each method is stored in the Shared folder. and run these predefined methods as you would any other run method. but you cannot delete them. Figure 1-7 The Tools Menu screen.

The fields showing times update to show the corresponding ramp rates. When you are done. Veriti™ Thermal Cycler User Guide 1-9 . then touch View/Edit. • View steps with ramp rates – Touch Options. you can make changes to the run method but you cannot save it. you can make changes to the run method but you can only save it to a USB drive. 3. If you are logged on as a Guest. touch a run method to select it. To view: • Other steps in the run method – Touch the arrow buttons at the end of the run method.Chapter 1 System Overview Viewing a Run Method To view a run method: 1. 2. then Ramp Rate. The run method is displayed: IMPORTANT! If you are logged on as a Limited User. In the Browse Run Methods screen. touch to return to the Browse Run Methods screen.

Touch the row for the selected method to deselect it. The title includes the number of run methods in parentheses. Touch the row for the method of interest. Figure 1-8 The Browse Run Methods screen.. In the Manage Folders All screen that opens. showing the most recently accessed run methods To select a run method: 1. b. Touch (folders). Table 2 lists the administrative tasks you can perform for run methods. touch the folder you want to view.Chapter 1 System Overview Managing Run Methods To see the run methods in the current folder: • In the Main Menu screen... In the list of run methods. The Browse Run Methods screen is displayed. then touch Start Run (see “Performing a Run” on page 3-18). Touch the title a second time to sort in the opposite order. Table 2 Managing run methods If you want to. Touch the title of the column with the criteria by which you want to sort the run methods. 2. To select more than one method. If a run method is already selected in the Browse Run Methods screen: a.. touch a run method to select it. touch each method. touch Browse/New Methods. View more run methods in the current folder View run methods in a different folder Start a run Touch (Page Down). 1-10 Veriti™ Thermal Cycler User Guide . Sort run methods by different criteria Do this.

then touch (Create Method Shortcut. In the list of run methods. See “Restoring Run Methods and Other Settings” on page 1-14. then touch View/Edit (see “Editing Details” on page 3-10). touch each run method to select it. 3. you must have User or Administrator level permissions to copy a run method. touch a run method to select it.. then touch Copy (see “Copying a Run Method” on page 1-11). In the list of run methods. or If you are copying more than one method – touch (Folder) to save the run methods to a different folder.. In the list of methods. In the list of run methods. In the list of run methods. touch the run method to select it. Back up run methods Restore run methods that you previously backed up See “Backing Up Run Methods and Other Settings” on page 1-13.Chapter 1 System Overview Table 2 Managing run methods (continued) If you want to. Log in as a user with User or Administrator access.. If you are copying one method – touch Name. Touch New (see “Creating a New Run Method” on page 3-8). Create a new run method View or edit a run method Do this. then touch Delete (see “Deleting a Run Method” on page 1-12). To copy a run method: 1. then rename the method. In the Browse Run Methods screen. touch each run method to select it.. In the Save Run Method screen: a. then touch Print (see “Printing a Run Method” on page 1-12). 2.) See “Creating a Shortcut to a Run Method” on page 1-13. then touch Copy. 4. Touch each run method to select it. See “Designating a Run Method as the Default” on page 1-12. and/or touch (Folder) to save the run method to a different folder. Copy one or more run methods Print a run method Delete one or more run methods Designate a run method as the default Create a shortcut to a run method on the Main Menu Copying a Run Method Note: If your instrument requires login. find the run method or methods you want to copy. touch each run method to select it. Veriti™ Thermal Cycler User Guide 1-11 .

Chapter 1

System Overview

b. As needed, touch Reaction Volume, Cover Temperature and Notes to edit the values. You can change any of these values when you perform a run with this run method. c. Touch Save & Exit, then OK.

Printing a Run Method

Note: Before you print a run method, be sure your instrument is connected to a printer. See “Connecting to a Network Printer” on page 2-5.

1. In the Browse Run Methods screen, locate the run method you want to print. 2. Touch the run method to select it, then touch Print.

Deleting a Run Method

Note: If your instrument requires log in, you must have User or Administrator level permissions to delete a run method. To delete a run method:

1. Log in as a user with User or Administrator access. 2. In the Browse Run Methods screen, find the run method you want to delete. 3. Touch the run method to select it, then touch Delete. 4. In the dialog box that opens, verify the deletion. 5. Touch Yes in the message box. The run method is deleted.

Designating a Run Method as the Default

The run method that is designated as the default method is used as the starting point for all new methods. The Veriti Thermal Cycler uses the General PCR run method (shown on page C-5) as the default, unless you change to another method.
IMPORTANT! If your instrument requires login, you must have User or

Administrator level permissions to set the default run method. Only a run method in the Shared folder can be set as the default method.
To designate a run method as the default:

1. Log in as a user with User or Administrator access. 2. In the Main Menu screen, touch Settings Menu. 3. In the Settings Menu screen, touch Set Default Method. The Set the Default Run Method screen is displayed, with only the run methods in the Shared folder displayed. 4. In the Set the Default Run Method, touch the run method you wish to designate as the default, then touch Make Default. In the message box that opens, touch OK. The Settings Menu screen opens and the selected run method is now the default.

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System Overview

Creating a Shortcut to a Run Method

You can add buttons to the Main Menu screen that allow you to go directly to the Edit Run Method screen for a particular run method. When login is required, each user can configure his or her own shortcut buttons; otherwise the shortcut buttons are displayed for all instrument users.
Note: You can also create shortcuts to instrument functions (see “Configuring Main

Menu Shortcuts to Functions” on page 2-15). 1. In the Browse Run Methods screen, touch one or more methods, then touch (Create Method Shortcut). 2. In the message box that appears, touch OK. The selected run methods appear as buttons in the Main Menu screen. The name of the method is followed by the name, in parentheses, of the folder where the method is stored.
Note: Run method names longer than twelve characters will appear truncated on the shortcut button.

To delete a shortcut to a run method, see “Configuring Main Menu Shortcuts to Functions” on page 2-15.

Backing Up Run Methods and Other Settings

You can back up the instrument's run methods and other settings to a USB drive. All run methods, folders, user information, and other instrument settings are saved.
Note: If your instrument requires login, you must have Administrator level permissions to back up run methods and instrument settings.

1. Insert the USB drive into the USB port on the front of the instrument.

USB Port

2. Log in as a user with Administrator access. 3. In the Main Menu screen, touch Settings Menu, then Admin Menu.

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Chapter 1

System Overview

4. In the Admin Menu screen, touch Back Up Methods & Settings. The Back Up Method and Settings screen is displayed:

5. Touch Back Up. If a back up file already exists, you are prompted to overwrite it. The instrument copies all run methods, folders, user information, and other instrument settings to the USB drive, then displays a message box when the backup is complete. 6. Touch OK, then touch (Close) to return to the Admin Menu screen.

7. Remove the USB drive and store it in a safe place.

Restoring Run Methods and Other Settings

You can restore run methods and other settings from a USB drive to an instrument. The restore feature can also be used to load run methods onto another instrument in your lab.
To restore run methods and instrument settings:

1. Insert the USB drive containing the saved run methods and settings into the USB port on the front of the instrument. 2. Open the About the Instrument screen in one of the following ways: • Touch Log Off to return to the Login Options screen, then touch About the Instrument. • In the Main Menu screen, touch Settings Menu, then About the Instrument.

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Veriti™ Thermal Cycler User Guide

IMPORTANT! If you restore information to an instrument that is different from the instrument that provided the backup data and your instruments are on a network. In the Manage Folders screen. In the About the Instrument screen. run. Run methods stored in this folder. See “Setting the Instrument Name” on page 2-8. If a USB drive is present in the instrument. The Default folder has a blue button. 5. run methods can be accessed. touch Restore Methods & Settings. the Shared folder has a blue button. and other instrument settings from the USB drive to the instrument. run.Chapter 1 System Overview The About the Instrument screen is displayed: 3. and deleted only by the user who created them. About Folders Each run method is saved in a folder. In the Browse Folders screen. folders. and deleted by any user. edited. In a custom folder. then Yes in the message box. you may create up to nine custom folders. • USB – This folder shows all run methods on the USB drive. • Shared – Run methods can be accessed. edited. In addition. custom folders have a yellow button. 6. Toggle the switch on the back of the instrument to power off. The instrument copies all run methods. Veriti™ Thermal Cycler User Guide 1-15 . Toggle the switch again to power on the instrument. then displays a message box when the restore is complete. user information. run. 4. Remove the USB drive and store it in a safe place. edited. There are three folders available by default: • Default – Run methods are stored here if you do not select another folder. you should change the instrument’s name. and deleted only by the user who created them. this button is blue. otherwise it is grey. run methods can be accessed.

In the Manage Folders screen. 3. In the Main Menu screen. In the Main Menu screen. 4. touch Manage Folders. 2. When you are done making changes to folders. touch Manage Folders. 2. then touch Delete. 6. then touch Done to return to the Manage Folders screen. The folder is deleted. 3. touch the button for the folder you want to delete. Enter up to 12 characters for the folder’s new name. touch Settings Menu. 1. In the Manage Folders screen. When you delete a custom folder. all run methods in that folder are also deleted. then touch Rename. Repeat steps 3 and 4 to delete other folders. 1. Repeat steps 3 and 4 to rename any other folders.Chapter 1 System Overview You can create a new folder when you save a run method (see step 6 on page 3-9) or you can create one by touching New in the Manage Folders screen. 5. touch the button for the folder you want to rename. (Close) to return to 1-16 Veriti™ Thermal Cycler User Guide . In the Settings Menu screen. touch the Settings Menu screen. (Close) to return to Renaming Custom Folders You can rename any custom folder. touch the Settings Menu screen. Touch Yes in the dialog box that opens. Deleting Custom Folders You can delete any custom folder. touch Settings Menu. then OK. When you are done making changes to folders. 5. 4. In the Settings Menu screen. 6.

. . . . . . . . . . . . . 2-2 Setting Up the Veriti™ Thermal Cycler . . . . . . . . . . . . . . . . . . . . . . . . . 2-7 Veriti™ Thermal Cycler User Guide 2-1 . . .Getting Started This chapter covers: 2 2 Installing the Veriti™ Thermal Cycler . . . . . . . . . . . . . . . . . . . . . . . . . . . . .

8 in) Length Width Height § Weight Power Consumption 1 square.Chapter 2 Getting Started Installing the Veriti™ Thermal Cycler Before You Start Site Requirements The Veriti™ Thermal Cycler is for indoor use.0 cm (15. § With the heated cover open # Above the instrument to provide adequate space for opening the heated cover.6 kg (22.5 cm (6. = 10 cm2 (3.6 lbs) 800 VA – Maximum consumption ~260 VA – Average during thermal cycling ~10 VA – During sleep/standby ‡ At the rear of the instrument to ensure adequate airflow and cooling.1 in) # 10.7 in) Recommended Clearance 15.3 in) 55. Ensure that the installation site: • • • • Meets the spatial and weight requirements (see “System Specifications.1 in) 23. as shown below.2 in) 23.) of a 800 VA power receptacle Is away from water System Specifications Table 1 Physical dimensions. Total 64 cm (15.94 in2) 2-2 Veriti™ Thermal Cycler User Guide . weight.” below) Is within 1 m (3 ft.5 cm (6.3 in) 40.1 in) ‡ 0 cm (0 in) 15.” below) Meets environmental requirements (see “Environmental Requirements.5 cm (21.7 cm (9.7 cm (9.5 cm (19. and power consumption Parameter Instrument Footprint 48.

Place away from any equipment that vibrates. such as dust particles or wood chips. The safety of Veriti Thermal Cycler use was tested for altitudes up to 2000 ft. pocket knife. Altitude Materials Required Materials • Scissors. 1. It may be installed in an environment that has nonconductive pollutants only. Lift and remove the cover from the instrument crate. then open the flaps. such as a refrigerator or centrifuge. noncondensing Avoid placing the instrument adjacent to heaters. as appropriate (see below) Applied Biosystems supports the use of the following devices to protect the Veriti Thermal Cycler from damage resulting from electrical hazards and the resultant loss of data. • Power line regulator (1. d. Before installing the system. or in direct sunlight. b. Typical environments with a Pollution Degree II rating are laboratories and sales and commercial areas. or box cutter • Compressed air • Protective hardware.Chapter 2 Getting Started Environmental Requirements Temperature and Humidity Requirements Ensure that the installation site is maintained under the following conditions: Condition Temperature Humidity Acceptable Range 15 to 30 °C (59 to 86 °F) 20 to 80% relative humidity. Fluctuations between day and night temperatures can cause system instability. Pollution The Veriti Thermal Cycler has a Pollution Degree rating of 2.5-kVA) Optional Protective Hardware Unpacking the Veriti™ System IMPORTANT! Save the packing materials and box in case you need to ship the instrument to Applied Biosystems for service. decide what additional hardware (if any) you want to install. cooling ducts. Remove the Veriti™ System Accessories from the instrument and set them aside. Veriti™ Thermal Cycler User Guide 2-3 . Cut the straps securing the instrument box.5-kVA) • Surge protector/line conditioner (10-kVA) • Uninterruptible power supply (1. To unpack the Veriti™ System: a. c. Cut the tape securing the top flaps of the instrument crate.

Power 10A/220V Europe (PN 4382068) • Veriti™ System Starter Kit Setting Up the Veriti™ System 1. Power 13A/125V North America (PN 4382067) • Cable. Open the bag containing the Veriti™ System Accessories. b. Using a can of compressed air. 3. Remove the packing material from the Veriti™ System. then inspect the instrument for shipping damage. Close the heated cover.Chapter 2 Getting Started e. Follow these guidelines for lifting and moving: • Make sure that you have a secure. note the location and appearance of the damage. • Keep your spine in a neutral position. c. deliver a blast of air into each well of the sample block(s) to remove any particles that may have collected during transportation. Remove the packing material from the sample block(s). Open the Veriti™ System heated cover. then contact Applied Biosystems Technical Support or your service representative (see “How to Obtain Support” on page viii). d. 2. Move the Veriti™ System to the desired installation site. 2-4 Veriti™ Thermal Cycler User Guide . IMPORTANT! If the Veriti™ System is damaged. comfortable grip. • Do not lift and twist your torso at the same time. then verify that it contains: • Applied Biosystems Veriti™ Thermal Cycler User Guide CD • Cable. • Bend at the knees and lift with your legs. Remove the packing material: a.

5. Plug the other end of the cable into a network port. Connect the printer to the network switch. For each thermal cycler. 3. To connect together multiple Veriti Thermal Cyclers. Connecting Together Multiple Instruments You Will Need Connecting your Veriti Thermal Cycler to other Veriti Thermal Cyclers allows you to use one instrument to control others. 3. 4.Chapter 2 Getting Started 2. • When you set the instrument’s IP address. 4. You must also configure the instrument firmware with printer information before you can print (see “Configuring the Instrument for a Printer” on page 2-8). Plug the Ethernet cable into the Ethernet port on the back of the instrument. Repeat step 1 for each thermal cycler. Making the Connections 1. Veriti™ Thermal Cycler User Guide 2-5 . 2. free from interference by other network traffic. you need: • An Ethernet cable for each Veriti Thermal Cycler • A network switch • A TCP/IP printer. 2. if you want to print For best results. Connect the power cable to the Veriti™ System. follow the instructions in “Setting the IP Address” on page 2-7 and “Setting the Instrument Name” on page 2-8. You can connect together up to 12 instruments. • Make sure each instrument name is unique. Connect the power cable to the 800 VA power source receptacle. Power on the network switch. do not connect the network switch to your laboratory’s network. select Assign IP address dynamically (using DHCP). Connect the Ethernet cable to the back of the thermal cycler and connect the other end of the cable to the network switch. Communication between Veriti Thermal Cyclers works best on an isolated system. (Optional) Install any of the recommended protective devices (see “Optional Protective Hardware” on page 2-3). Connecting to a Network Printer Requirements The Veriti Thermal Cycler requires a printer that: • Has an Ethernet port • Supports the LPD/LPR protocol (often called a “TCP/IP printer”) 1.

” below. Continue with “Powering On. Verify that the heated cover is closed. Follow the instructions in “Configuring the Instrument for a Printer” on page 2-8. Powering On 1.Chapter 2 Getting Started 6. 7. and “Setting Up the Veriti™ Thermal Cycler” on page 2-7. 2. Press the power button on the back left side of the instrument: The instrument powers on and the Main Menu screen is displayed: 2-6 Veriti™ Thermal Cycler User Guide .

4. you do not need to set the IP address. In the Settings Menu screen. and the default gateway. In the Main Menu screen. touch Set IP Address. For static addresses. the subnet mask. 3. if you want to print run methods or the run report (page 2-8) User accounts and security (page 2-9) Idle state temperatures for the cover and the sample block(s) (page 2-14) Durations for pauses and stand-by (page 2-15) “Shortcuts” to instrument functions (to be displayed on the Main Menu) (page 2-15) Optionally. In the IP Settings screen. The IP address can be assigned dynamically by a computer on the network (using DHCP) or set manually by entering a number in the IP Address screen.Chapter 2 Getting Started Setting Up the Veriti™ Thermal Cycler Recommended Instrument Settings Before performing a run. 1. be sure to set the following instrument settings: • • • • Instrument IP address (page 2-7) Instrument name (page 2-8) Current date and time (page 2-8) Printer information. Note: Ask your system administrator if the IP address is assigned statically or dynamically. In the Admin Menu screen. you can also change the settings for: • • • • Setting the IP Address Note: If your instrument is not on a network. set the IP address: Veriti™ Thermal Cycler User Guide 2-7 . you need to know the IP address for the instrument. touch Settings Menu. 2. touch Admin Menu.

and.Chapter 2 Getting Started • Dynamically – Touch Assign IP address dynamically (using DHCP). Touch Done to save your changes and return to the Settings Menu screen. then OK to save your changes and return to the Admin Menu screen. The instrument name appears in the About the Instrument and Run Report screens and. 2-8 Veriti™ Thermal Cycler User Guide . 2.X. 1. 3. In the Main Menu screen. Configuring the Instrument for a Printer If you want to print the run report. Setting the Date and Time The date and time appear in the run report and at the bottom of many of the screens on the instrument. In the Settings Menu screen. In the Settings Menu screen. Note: If you edit the Instrument Name field. touch Set Instrument Name. Touch the fields to set the printer’s name and IP address. in the Select Instruments screen. 10 characters. Touch Done. A check mark appears when DHCP is selected. touch Settings Menu. In the Main Menu screen. the subnet mask. touch Settings Menu. You can access the About the Instrument screen from either the Login screen or the Settings Menu screen. 4. Touch Done. the default gateway using the numeric editor. 1. for numeric-only names. 1. 5. In the Admin Menu screen. if you connect together multiple instruments. touch Set Date & Time. You can change the name to something more descriptive. 3. you must configure the instrument with information about the printer.X. 4. otherwise touch No. touch Admin Menu. then OK to save your changes and return to the Admin Menu screen. Touch Yes next to Allow Remote Runs to make the instrument available for remote runs (a run on this instrument can be started from another instrument). touch Settings Menu. test results. In the Admin Menu screen. 2. 5. optionally. 2. then enter the appropriate IP addresses for the instrument. Names cannot contain spaces and cannot be more than 24 alphanumeric characters or. touch Configure Printer. touch Admin Menu. In the Settings Menu screen. from 001 to 255. In the Main Menu screen. Setting the Instrument Name By default the instrument name is set to the instrument serial number. you can still view the serial number in the About the Instrument screen. where each X is a 3digit number. Touch the field to enter the new name.X. Addresses are in the form of X. and/or a run method. 3. or • Manually – Touch Static. 6.

The instrument automatically enters the “:”. In the Main Menu screen. edit. To set the time. enter the current time using the format HH:MM. view and print run methods. touch Time. 4. allowing anyone to use the instrument and/or change instrument settings. delete. Log in as a user with Administrator access. A guest user cannot manage users or set instrument preferences. then OK to save your changes and return to the Admin Menu screen. and run tests. To require each user to log in when using the instrument. Veriti™ Thermal Cycler User Guide 2-9 . 8. The instrument automatically enters the “-”. a guest can create. 3. In the Settings Menu screen. 6. Setting Up Instrument Security and User Accounts By default. 5. touch Date. Also. touch Security. touch Admin Menu. then touch AM or PM. To set the date. A guest user can perform runs. view. 2. touch Yes next to Allow VeritiLink Software Control. and print run methods. using the format YYYYMM-DD. touch Yes next to Require Password. To allow users to log in without entering a password. the Veriti Thermal Cycler has all security settings disabled. To allow VeritiLink™ Remote Management Software to control this instrument. In the Admin Menu screen. save. To allow anyone to log in as a guest. touch Yes next to Require Login. 7. touch Yes next to Enable Guest Account. 6. then enter today’s date.Chapter 2 Getting Started 4. touch Settings Menu. Touch Done. for run methods stored on a USB drive. To change the security settings for the instrument: 1. 5.

then enter password. Adding Users Access Levels Each user is assigned an access level that determines how he or she can interact with the instrument. and run tests. The User field. to restart the instrument and have the changes take effect immediately. Cannot edit or create run methods. edit. including setting security. then Log In. delete. create. as a User” on page 2-10. In the Log In screen. save and print run methods. and run tests. b. then touch: • Yes. view and print run methods. • Administrator – Can access all instrument functions. Cannot manage users or set instrument preferences. 2-10 Veriti™ Thermal Cycler User Guide . managing users and settings instrument preferences. • User – Can perform runs. There are three access levels: • Limited User – Can perform runs. touch: a. 2. After you restart. c. manage users. Log In. In the opening screen. The Password field. view. 3. Touch Done. then enter admin. Adding Yourself. touch Settings Menu. In the Main Menu screen. you need to use the default administrator user name and password until you create your own user account. Toggle the switch on the back of the instrument to power off then toggle the switch again to power on the instrument. or • No to have the changes take effect the next time the instrument is restarted with the power switch on the back of the instrument. follow the instructions in “Adding Yourself. as a User If you set the instrument to require login. touch On.Chapter 2 Getting Started 9. To add yourself as a user: 1. or set instrument preferences.

In the Main Menu screen. 3. Make sure you make yourself an Administrator. The Create New User Account screen is displayed: 6. touch Manage Users. Password. 2. Log in as a user with Administrator access. Adding Users To add a user: 1. In the Admin Menu screen. The required fields are User Name. Follow the instructions in “Adding Users” to add yourself as a user. The Manage Users screen is displayed: 5. 5. Touch Add User. In the Settings Menu screen. touch Settings Menu. In the Settings Menu screen. touch Admin Menu. touch Admin Menu. 4.Chapter 2 Getting Started 4. and Permission Level. Enter information for the new user. Veriti™ Thermal Cycler User Guide 2-11 . Re-enter Password.

3. The new user appears in the Manage Accounts screen. Touch Done to close the Permission screen. User Name must be between 5 and 15 characters. b. Password must be at least 1 character. Touch Done. In the Settings Menu screen. 7. In the list. touch Manage Users. c. In the Admin Menu screen. In the Main Menu screen. 8.Chapter 2 Getting Started a. touch the user in the list. then OK to add the user account to the instrument. The Manage Users screen is displayed: 5. When you finish. Log in as a user with Administrator access. touch (Close) to return to the Admin Menu screen. Changing a User To edit a user: 1. touch Admin Menu. with no spaces. then touch Edit User. then touch one of the following: • Limited User • User • Administrator d. Touch Set Access. 2-12 Veriti™ Thermal Cycler User Guide . 4. 2. touch Settings Menu.

2. 8. In the Main Menu screen. Deleting a User To delete a user: 1. touch Admin Menu. When you finish. make the required changes: • Touch Phone and/or Email to edit the contents. In the Admin Menu screen. Touch Done. The Manage Accounts screen is displayed: Veriti™ Thermal Cycler User Guide 2-13 . In the Settings Menu screen. then OK to return to the Manage Users screen.Chapter 2 Getting Started The Edit User screen is displayed: 6. • Touch Set Access to change the access level for the user. Log in as a user with Administrator access. 7. touch (Close) to return to the Admin Menu. touch Settings Menu. 4. 3. • Touch Set Password to change the password for the user. In the Edit User Account screen. touch Manage Users.

6. to set the temperatures for the sample block(s) and the cover. then touch Delete User. touch Set Idle Temperatures.Chapter 2 Getting Started 5. In the Idle State Temperatures screen. Setting Other Options Table 2 lists additional options that can be adjusted or activated. See Page 2-14 2-15 Shortcuts to appear on the Main Menu screen None 2-15 Setting Idle Temperatures for the Block(s) and Cover 1. 2. touch Settings Menu. touch (Close) to return to the Admin Menu. then OK. In the Settings Menu screen. touch: 2-14 Veriti™ Thermal Cycler User Guide . 7. 3. In the list. Table 2 Additional options (and their default values) for the Veriti Thermal Cycler Option Idle temperatures for the cover and the sample block(s) Durations for pause and standby time-outs Default Value Cover: 105 °C Sample block(s): 25 °C Pause: 10 sec. When you finish. In the Main Menu screen. Standby: 1 min. A confirmation message appears. These settings apply to all users. Touch OK to delete the user and any run methods or folders for that user. 30 sec. touch the user name for the account you want to delete.

If this is disabled. each user can configure his or her own shortcut buttons. otherwise the shortcut buttons are displayed for all instrument users. b. touch Set Time-outs. then enter the duration. touch Settings Menu. or • Settings Menu. then Configure Shortcuts. 3. 4. touch: • Any button labeled Shortcut X (where X is a number).Chapter 2 Getting Started a. Veriti™ Thermal Cycler User Guide 2-15 . • Default Standby Time-Out sets the duration that the instrument is idle before the touchscreen is turned off. the temperature for the cover and/or block(s) is not maintained by the instrument and will eventually come to room temperature. Setting Time-Outs 1. In the Set Time-Outs screen. then enter the temperature. The Temperature field. Touch Done to save your changes and return to the Settings Menu screen. Enabled to turn the option on. You can also create shortcuts to run methods (see “Creating a Shortcut to a Run Method” on page 1-13). • Default Pause Duration sets the duration the instrument pauses. Touch Done. 4. The temperature for the cover must be between 4 and 99 °C. In the Settings Menu screen. When login is required. Configuring Main Menu Shortcuts to Functions You can add buttons to the Main Menu screen that allow you to go directly to various instrument functions. then OK to save your changes and return to the Settings Menu screen. In the Main Menu screen. Enter a duration of 00:00 if you do not want the instrument to turn off the touchscreen. touch Time-out. 2. In the Main Menu screen. after you touch Pause during a run. 1.

Deleting Shortcuts To delete a shortcut. 2-16 Veriti™ Thermal Cycler User Guide . follow the steps above. The selected shortcut(s) appear in the Main Menu screen. In the list of functions available as shortcuts in the Configure Shortcuts screen. 3.Chapter 2 Getting Started 2. but uncheck the function to remove it from the Main Menu. touch the functions to select them. Touch Done to return to the Settings Menu screen. Any run methods for which there is a shortcut are shown at the bottom of the list and can also be deleted. Touch (Page Up) and (Page Down) to scroll through the list.

. . . . . . . . . . . . . . . . . . 3-22 Viewing and Printing the Run Report . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .Performing a Run This chapter covers: 3 3 Selecting Disposables . . . . . . . . . . . . . . . . . . . . . 3-2 Loading Samples into the Instrument . . . . . . . . . . . . . . . . . . . . . . . . 3-8 Editing Details . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3-18 Monitoring a Run . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3-25 Veriti™ Thermal Cycler User Guide 3-1 . . . 3-10 Performing a Run . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3-5 Creating a New Run Method. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3-25 Removing the Samples from the Instrument . . . . .

Disposables for 96-Well Veriti™ Thermal Cyclers 96-Well Tube Configurations IMPORTANT! The tray or the tray/retainer is required for the operation of the Veriti Thermal Cycler. sample tray.2-mL) with MicroAmp™ 8-Cap Strip MicroAmp™ Fast 8-Tube Strip (0.2-mL) with MicroAmp™ 8-Cap Strip GR1086c Sedona Tubes. You can use three different types of tube configurations to hold your samples.2-mL) MicroAmp® Reaction Tube (0.” for part numbers for these items. Strip Figure 3-1 Cyclers Different tube configurations for use in 96-Well Veriti Thermal 3-2 Veriti™ Thermal Cycler User Guide GR1086c . MicroAmp® Fast Reaction Tube with Cap (0. “Disposables. Caps.1-mL) or MicroAmp® Reaction Tube with Cap (0.1-mL) or MicroAmp™ 8-Tube Strip (0. • “Disposables for 96-Well Veriti™ Thermal Cyclers” on page 3-2 • “Disposables for the 384-Well Veriti™ Thermal Cycler” on page 3-4 • “Disposables for the 60-Well Veriti™ Thermal Cycler” on page 3-4 See Appendix B. as shown in Figure 3-1. and plate configurations appropriate for your thermal cycler and application.Chapter 3 Performing a Run Selecting Disposables Use this section to determine the tube.

Do not place it in the sample block(s).2-mL) or MicroAmp® Reaction Tube without Cap (0.1-mL) MicroAmp Optical 96-Well Reaction Plate (0.2-mL) or MicroAmp® Reaction Tube without Cap (0.1-mL) or MicroAmp™ Optical 96-Well Reaction Plate (0.1-mL) or MicroAmp® Reaction Tube with Cap (0.2-mL) MicroAmp™ 96-Well Tray for Veriti™ Systems GR2003 MicroAmp™ Splash Free 96-Well Base Veriti™ Thermal Cycler User Guide 3-3 .Chapter 3 Performing a Run 96-Well Sample Tray and Plate Configurations The following table lists the possible sample tray and plate configurations.2-mL) 96-Well Tray for VeriFlex™ Blocks GR2006 MicroAmp® Fast Reaction Tube with Cap (0. 8-Cap Strip or MicroAmp™ Clear Adhesive Film (not shown) Illustration MicroAmp™ 8-Cap Strip MicroAmp™ Fast Optical 96-Well Reaction Plate (0.2-mL) MicroAmp™ Splash Free 96-Well Base Run Vessel MicroAmp™ Fast Optical 96-Well Reaction Plate (0. IMPORTANT! The MicroAmp™ Splash Free 96-Well Base shown below is used only when pipetting samples into tubes or trays.1-mL) MicroAmp® Reaction Tube with Cap (0.2-mL) MicroAmp™ 96-Well Tray for VeriFlex™ Blocks GR2007 MicroAmp™ Splash Free 96-Well Base MicroAmp™ 8-Tube Strip (0. Compatible Component MicroAmp™ Caps.2-mL) MicroAmp™ 8-Cap Strip and MicroAmp™ 96-Well Tray/Retainer Set for Veriti™ Systems MicroAmp™ 8-Cap Strip MicroAmp™ 96-Well Retainer MicroAmp™ 8-Tube Strip (0.2-mL) ™ MicroAmp® Fast Reaction Tube with Cap (0.

Figure 3-2 MicroAmp™ Optical 384-Well Reaction Plate with MicroAmp™ Clear Adhesive Cover Disposables for the 60-Well Veriti™ Thermal Cycler You can use three types of tubes to hold your samples. as shown in Figure 3-3.5-mL) GeneAmp® Thin-Walled Reaction Tube with Domed Cap (0. below. GeneAmp® Thin-Walled Reaction Tube with Flat Cap (0. This uses the MicroAmp™ Optical 384-Well Reaction Plate. shown in Figure 3-2.5-mL) or GeneAmp® Thin-Walled Reaction Tube with Domed Cap. Autoclaved (0.Chapter 3 Performing a Run Disposables for the 384-Well Veriti™ Thermal Cycler There is one plate configuration for the Veriti 384-Well Thermal Cycler.5-mL) Figure 3-3 Different tubes for use in the Veriti™ 384-Well Thermal Cycler 3-4 Veriti™ Thermal Cycler User Guide .

Chapter 3 Performing a Run Loading Samples into the Instrument See the appropriate section for your instrument: • “Loading Samples in Veriti™ 96-Well Thermal Cyclers” on page 3-5 • “Loading Samples in the Veriti™ 384-Well Thermal Cycler” on page 3-6 • “Loading Samples in the Veriti™ 60-Well Thermal Cycler” on page 3-7 Loading Samples in Veriti™ 96-Well Thermal Cyclers This section describes how to load samples in: • Tubes with attached caps • 96-well reaction plates • 96-well tray/retainer assemblies Loading Tubes with Attached Caps There is no need to use mineral oil or glycerine in the sample wells or as a vapor barrier over the PCR reaction mixture in the tubes. 3. 4. 5. Loading the Reaction Plate 1. Place the retainer over the tubes. 3. Veriti™ Thermal Cycler User Guide 3-5 . Load tubes onto the tray using either single tubes or the 8-tube strips. 4. The MicroAmp® Reaction Tubes fit tightly in the wells. Set the 96-well tray on a splash-free 96-well base. 5. 6. See “Placing the Sample Tray or Plate onto the Sample Block(s)” on page 3-6. 1. 3. Pipette the sample into the tubes. Cap the plates using the MicroAmp™ 8-Cap Strips. Cap the tubes. 4. Pipette the samples into the reaction tubes. Place the tray on the splash-free 96-well base. 2. and the heated cover exerts an even pressure on all tubes. Pipette the samples into the sample wells. See “Placing the Sample Tray or Plate onto the Sample Block(s)” on page 3-6. Loading Tubes Without Caps To load the 96-well tray/retainer: 1. eliminating condensation on the tubes. 2. 2. Cap the tubes using a MicroAmp™ 8-Cap Strip. or cover the plates with MicroAmp™ Clear Adhesive Film. Place the reaction plate on a splash-free 96-well base. Place the reaction tubes in the tray. See “Placing the Sample Tray or Plate onto the Sample Block(s)” on page 3-6.

Close the heated cover. 1. 3-6 Veriti™ Thermal Cycler User Guide GR2107 GR1070 . as shown below: A1 MicroAmp™ Optical 384-Well Reaction Plate 4.1-mL) MicroAmp™ Optical 96-Well Reaction Plate (0. 2. 1. Loading Samples in the Veriti™ 384-Well Thermal Cycler This section describes how to load samples in 384-well reaction plates. Cover the plates with MicroAmp™ Clear Adhesive Film. as shown below: A1 1 A B C D E F G H 2 3 4 GR2380 7900 6 7 8 9 5 HS96_96Standard A1 10 11 12 A B C D E F G H 1 2 3 4 5 6 7 8 9 10 11 12 MicroAmp™ Fast Optical 96-Well Reaction Plate (0. Place the MicroAmp™ Optical 384-Well Reaction Plate onto the sample block(s) so that well A1 is at the upper left corner of the tray. 3.Chapter 3 Performing a Run Placing the Sample Tray or Plate onto the Sample Block(s) The steps for placing the sample tray in the sample block(s) are the same for: • A sample tray/retainer • A sample tray without a retainer • A 96-well plate. 2. 3. Place the MicroAmp™ Tray or Plate onto the sample block(s) so that well A1 is at the upper left corner of the tray.2-mL) IMPORTANT! Do not place the base in the sample block(s). Pipette the samples into the sample wells. Close the heated cover. Lift the sample tray from the splash-free 96-well base and place it in the sample block(s).

eliminating condensation on the tubes.Chapter 3 Performing a Run Loading Samples in the Veriti™ 60-Well Thermal Cycler There is no need to use mineral oil or glycerine in the sample wells or as a vapor barrier over the PCR reaction mixture in the tubes. Place the GeneAmp® Thermal Isolation Frame around the sample block(s). Place the GeneAmp® Thin-Walled Reaction Tubes with Flat or Domed Caps (0.5 mL) onto the sample block(s). and the heated cover exerts an even pressure on all tubes. 2. Veriti™ Thermal Cycler User Guide 3-7 . The GeneAmp® Thin-Walled Reaction Tubes fit tightly in the wells. Cap the tubes. Close the heated cover. 3. Pipette the samples into the reaction tubes. 5. 1. 4.

see “Designating a Run Method as the Default” on page 1-12. In the Browse Run Methods screen. touch New. you can add a step to program different temperatures on the VeriFlex™ Blocks (see “Creating a VeriFlex™ Step” on page 3-16).Chapter 3 Performing a Run Creating a New Run Method 1. • Delete a step or stage (see “Deleting a Stage or Step” on page 3-15). • Insert a step (see “Adding a Step” on page 3-11).) 3. • Add a pause (see “Adding a Pause” on page 3-15). 3-8 Veriti™ Thermal Cycler User Guide . The default run method is displayed in the Edit Run Method screen. 2. • For Veriti 96-Well Thermal Cyclers. In the Main Menu screen. • Add an AutoDelta step (see “Creating an AutoDelta Step” on page 3-13). (For instructions on setting the default run method. touch Browse/New Methods. Edit the default run method as needed: • Insert a stage (see “Adding a Stage” on page 3-10).

6. (You can change this volume when you perform a run with this run method. You can change this temperature when you perform a run with this run method. • To save the run method to the USB drive.()<>/\"'`~{}[]=+&^ (tab). or • Do Not Heat Cover. enter a name of up to 12 characters (no spaces).Chapter 3 Performing a Run 4. Touch Notes. then touch Done. Touch Reaction Volume to enter the reaction volume. • To save the run method so that all users have access to it. Set the cover temperature. for the new folder. Touch Run Method to enter the name of the run method. and dashes are allowed. The Browse Run Methods screen is displayed. if any: • Cover Temperature to enter the temperature for the heated cover. 9.) 8. 5. Touch Save & Exit when you are done. then enter any notes for the method. 10. touch New Folder at the bottom of the list. • To create a new folder for the run method.:. Spaces. touch Shared. Names can be up to 48 characters. Touch (Folder) to select a folder in which to save the run method.!@#$. Veriti™ Thermal Cycler User Guide 3-9 . underscores. touch USB (available only when a USB drive is inserted in the instrument). 7. Names may not contain any of the following characters: %*?|. Touch Save & Exit to display the Save Run Method screen.

A copy of the selected stage is added to the run method. primer annealing. 2. the steps in a cycling stage are template denaturation. • Holding – The steps in a holding stage are not repeated. Touch Add. In general. touch the stage name (at the top of the stage) to select it. the area around the name is red.) Adding a Stage The two types of run method stages are: • Cycling – The steps in a cycling stage are repeated a specified number of times. and primer extension. 3-10 Veriti™ Thermal Cycler User Guide .Chapter 3 Performing a Run Editing Details This section describes how to edit a run method by: • • • • • • • Adding a stage (page 3-10) Adding a step (page 3-11) Editing a temperature or a time (page 3-12) Editing a ramp rate (page 3-12) Creating an AutoDelta step (page 3-13) Adding a pause (page 3-15) Creating a step to program different temperatures on the VeriFlex Blocks (page 3-16) (Available only on Veriti 96-Well Thermal Cyclers. In the Edit Run Method screen. When a stage is selected. To add a stage: 1.

see “Editing Temperature and Time” on page 3-12. Touch the cycles field (the box below the Stage Name) to select it: c. When the step is selected. Touch the stage to select it. 4. the column turns red: 2. edit the number of cycles as needed. b. A copy of the selected step is added to the run method: Veriti™ Thermal Cycler User Guide 3-11 . Adding a Step 1. a. In the Edit Run Method screen. touch anywhere in the column for a step to select it. Touch Add. To change the temperature and/or time for any step in the stage. For a cycling stage. then touch Done. Enter the number of cycles.Chapter 3 Performing a Run 3.

3. Editing Ramp Rates You can edit the rate at which the instrument ramps to the temperature for the step. temperatures. To change the temperature and/or time for the step. You can edit any other times. b. c. 3. (or the number of cycles for a stage) without closing the editor. then Ramp Rate. then edit the temperature as desired. Ramp rates from 0. 4. The ramp rate symbol 100%. appears next to any step with a ramp rate less than 3-12 Veriti™ Thermal Cycler User Guide . then enter the desired ramp rate. The field displaying time changes to display the ramp rate. Touch Done to close the editor.1 to 100% are valid. 2. Touch the keys in the editor. then edit the time as desired. Touch a step to select it. Touch Done to close the editor. see “Editing Temperature and Time” on page 3-12. Touch the ramp field. The default ramp rate is 100%. Touch the field. a. Touch any temperature field to select it.Chapter 3 Performing a Run 3. 1. Editing Temperature and Time 1. or Touch any time field to select it. Note: You cannot edit ramp rates for methods created using the Convert Method wizard (see “Using GeneAmp® PCR System 9700 Run Methods” on page 5-2). Repeat for any other field. Touch Options. 2.

The high initial temperature favors more specific annealing between the primer and the template. a method in which the earliest cycles have a high annealing temperature. The options menu appears: Veriti™ Thermal Cycler User Guide 3-13 . then Options. Touchdown PCR increases the specificity of the PCR products. they outcompete the nonspecific sequences to which the primers bind at lower temperatures. Touch a step. followed by cycles where the annealing temperature decreases slightly for each cycle.Chapter 3 Performing a Run Creating an AutoDelta Step An AutoDelta step allows you to increase or decrease the temperature and/or change the duration of the cycle during a cycling stage. Note: AutoDelta steps are allowed only in cycling stages. Because these fragments are further amplified during subsequent cycles at lower temperatures. To create an AutoDelta step: 1. One use for an AutoDelta step is for touchdown PCR.

To enter a temperature that increases. and/or • Touch Delta Time.0 °C and less than 99. Step 2 in Stage 2 is an AutoDelta step: 3-14 Veriti™ Thermal Cycler User Guide . then enter the minutes and seconds that the step duration should change with each cycle. Note: Make sure the parameters you enter result in a final temperature greater than 4. Touch Starting Cycle. To enter a time that decreases with each cycle.9 °C. touch + to change it to −.Chapter 3 Performing a Run 2. The AutoDelta symbol appears on the step with the AutoDelta step. the button should show +. To enter a time that increases. Also. the button should show +. then enter the cycle at which the AutoDelta step begins. 4. then enter the number of degrees that the temperature changes for each cycle. In this example. touch + to change it to −. To enter a temperature that decreases with every cycle. 5. In the Options menu. Select the parameter(s) to increment: • Touch Delta Temperature. touch AutoDelta. Touch OK to save the step and return to the screen that displays the run method. The Create an AutoDelta Step screen is displayed: 3. the Delta Time must be less than the total time for the stage.

1. • The frequency of the pause. • The duration of the pause. Deleting a Stage or Step 1. In the Edit Run Method screen. in mm:ss. 5. The stage or step is deleted from the run method. In the Edit Run Method screen. 2. touch a step in a cycling stage to select it. 2. In the Options Menu. then touch Options. touch the stage or step to select it. Veriti™ Thermal Cycler User Guide 3-15 . Enter: • The first cycle in which the run will pause. Touch Done to save the pause and return to editing the method.Chapter 3 Performing a Run Adding a Pause You can add a pause before any step in any cycling stage. 4. touch Pause to display the Add a Pause Before a Step dialog box: 3. then OK. Touch Delete. The step preceded by the pause is indicated by the below): (see Step 3 in Stage 3.

A step that has different temperatures for different VeriFlex™ blocks is called a “VeriFlex™ step. Touch a step. You can specify temperatures for each VeriFlex™ block.” This feature is useful for quickly optimizing new run methods. touch VeriFlex step. then Options. The VeriFlex™ blocks can be used to provide up to six different temperature zones for the 96 wells. The options menu appears: 2. In the Options menu. The Create a VeriFlex Step screen is displayed: z 3-16 Veriti™ Thermal Cycler User Guide . or treat each VeriFlex™ block the same (the default). To create a step with different temperatures for the VeriFlex™ blocks: 1.Chapter 3 Performing a Run Creating a VeriFlex™ Step Note: This function is only available for the 96-well versions of the Veriti Thermal Cycler. The Veriti 96-Well Thermal Cyclers have six VeriFlex™ blocks.

4. then touch Apply Selected to All. Temperatures for neighboring VeriFlex™ blocks can be the same. The maximum temperature is 99.9 °C. then touch Done. or • Touch Ramp Rate.Chapter 3 Performing a Run 3. Repeat step 3 for each of the six VeriFlex™ blocks. enter either a duration or a ramp rate. The VeriFlex Step appears in the Edit Run Method screen.0 °C apart. Note: To set each block to the same temperature. 5. then enter the desired temperature. they must be at least 0.1 °C apart but no more than 5. Veriti™ Thermal Cycler User Guide 3-17 . Touch a temperature field. Depending on your instrument configuration. but if they are not the same. • Touch Time. then touch Done. with the text “Zones” in the temperature field. then touch Done. touch the desired temperature field. enter the duration (in minutes and seconds). enter the ramp rate (as a percentage value).

Close the cover. then touch the run method to select it. The default Run ID is YYYYMMDDHHMM. 4. 7. Touch Browse/New Methods. Reaction volumes are specific to the type of instrument: • Veriti 96-Well Fast Thermal Cycler: 5 to 40 µL • Veriti 96-Well Thermal Cycler: 10 to 100 µL • Veriti 384-Well Thermal Cycler: 5 to 30 µL • Veriti 60-Well Thermal Cycler: 10 to 100 µL 6. By default. To start a run from the Main Menu screen: 1. IMPORTANT! You can start a run on multiple instruments at the same time if your instruments are on a network. the reaction volume you entered when you saved the method is displayed. and/or Notes. 2. where “YYYYMMDD” is the date and “HHMM” is the current time. Locate the run method you want to use (see “Viewing a Run Method” on page 1-9). Touch Run ID. 3. Touch Start Run.Chapter 3 Performing a Run Performing a Run Before You Begin Prepare your samples and load the sample block(s) as described in “Loading Samples into the Instrument” on page 3-5. Touch Reaction Volume to edit the reaction volume. then enter the applicable information. The Run Parameters screen is displayed: 5. 3-18 Veriti™ Thermal Cycler User Guide . or • Do Not Heat Cover. Set the cover temperature: • Cover Temperature to enter the temperature for the heated cover.

Only instruments that are compatible with the run method are available. After the run begins. If you want to perform the run on this instrument. Veriti™ Thermal Cycler User Guide 3-19 . the Run Report is displayed. you must interact with any remote instruments directly if you want to make changes to the run method. If you are making runs on: • Only this instrument – Touch Start Run Now. then OK. or stop the run. Incompatible instruments are indicated by . or • Multiple instruments – Touch Start Multiple Runs. Touch the check box corresponding to each instrument on which you want to perform the run. then the run begins. Touch Start Run Now. b. The cover is heated to the required temperature. the Run Reports are displayed on each instrument. pause. When the runs are complete. and. then OK.Chapter 3 Performing a Run 8. The run method is sent to each selected instrument. The Select Instrument screen is displayed: 9. if no problems are encountered. be sure to touch the check box in the upper left corner of the screen. the run begins. In the Select Instrument screen: a. When the run is complete.

3-20 Veriti™ Thermal Cycler User Guide . the Cover Heating dialog box appears in the Run Monitor screen: If you want to: • Start the run immediately. • Stop the run – Touch (Stop). While the cover heats. before the cover reaches the specified temperature – Touch (Skip).Chapter 3 Performing a Run 10.

Indicates the step that the Veriti™ System is performing. the estimated time remaining in the run. Indicates the temperature for the step. Veriti™ Thermal Cycler User Guide 3-21 . Indicates the stage that the Veriti™ System is performing and the current cycle in that stage. When this is the current step. B C D E F G H Arrow Button See “Actions in the Run Monitor Screen During a Run” on page 3-22 for information about what you can do during a run. this field counts down. the temperature of the heated cover. and the current stage. Touch the triangle to view the entire report.Chapter 3 Performing a Run Monitoring a Run The Run Monitor Screen You can follow the status of a run using the Run Monitor screen (below): A B C D E F H G Table 4 Elements of the Run Monitor screen Location in Figure A Element Run Monitor Button and Status Bar Hot Icon Stage Indicator Step Temperature Hold Time Step Indicator Status Report Description Displays the estimated temperature of the sample. Displays the run status and any errors that occur during the run. Touch this to see the additional steps in the run method. Indicates the time for the step. Indicates that the heated cover has achieved a temperature sufficient to burn skin.

You cannot: • Edit a stage that is already complete. Touch the cycles field (below the Stage Name) for a cycling stage. If needed. Touch (Status). Skip works only when the instrument is holding. Touch the Cycle field then change the number of cycles (see “Changing the Number of Cycles” on page 3-22). • Enter a number that is smaller than the number of cycles that have already been completed. View run method information Display the time for the run Touch Display Method Time. The run continues.Chapter 3 Performing a Run Actions in the Run Monitor Screen During a Run During a run. you can access most of the Veriti Thermal Cycler functions while the run continues. then enter the new value. Table 1 Actions in the Run Monitor Screen Allowed During a Run To. 3-22 Veriti™ Thermal Cycler User Guide . using the new number of cycles. Pause the run Touch Pause Run (see “Pausing a Run” on page 3-23). 2.. click the orange run monitor button to return to the run monitor screen.. Skip to the next step Touch SKIP. Change the number of cycles for a cycling stage Go to the Main Menu screen View the Status Report Changing the Number of Cycles You can change the number of cycles for a cycling stage while a run is in progress. Touch Send to return to the Run Monitor screen. 1. 3. Touch (Home). Stop the run Touch STOP (see “Stopping a Run” on page 3-23). Touch View Method Information. The elapsed time and time remaining for the run are shown. allowing you to perform the actions indicated in the table. View other stages Do This Touch the scroll right and scroll left buttons. The information you entered in the Run Parameters dialog box is shown. the touchscreen is active. From the Main Menu Screen.

• Pause for a specific amount of time – Touch Edit Time. touch Pause Run. then touch Done. enter the duration of the pause. 2. The run stops and the Run Report opens. If you want to: • Pause until the default pause has elapsed – Do nothing. In the Run Monitor screen. In the Pause Run dialog box: • Remaining Time shows the remaining time for the pause. Veriti™ Thermal Cycler User Guide 3-23 . The Pause Run dialog box is displayed: The run pauses for the duration set in the Set Time-Outs screen (see page 2-15). The run resumes when the pause is complete. Stopping a Run In the Run Monitor screen. • Elapsed Time is continually updated to show the time the run has been in process. touch Stop. • Resume the run immediately – Touch Resume Run (to the left of the dialog box). then OK.Chapter 3 Performing a Run Pausing a Run 1.

the instrument attempts to continue the run when the power returns. Note: If the time between the initial power failure and the time the power returns is more than 18 hours. 3-24 Veriti™ Thermal Cycler User Guide . For example. in the middle of the button. The run begins at the first step of the stage where the power failed. Figure 3-1 The Run Monitor button You can touch the Run Monitor button to return to the Run Monitor screen at any time. the area showing the current stage. the power fails during step 2 of the tenth cycle for a stage with three steps and 20 cycles. this button also appears at the top of all menu screens. shown in the Run Monitor button when an error occurs If the Power Fails If a power failure occurs during a run. If you leave the Run Monitor screen during a run. the run starts at step 1 of the tenth cycle and continues for 11 more cycles. After the power returns.Chapter 3 Performing a Run Using the Run Monitor Button The Run Monitor button (Figure 3-1) is displayed at the top of the Run Monitor screen. If an error occurs during the run. the run is not continued. is replaced by an alert icon: Figure 3-2 Alert icon.

• To save the run report to the USB drive. If the last stage of the run method is an infinite hold. in the Run Report screen. then OK in the message box before the Run Report is displayed. Removing the Samples from the Instrument Grasp the sample tray/retainer assembly or reaction plate firmly with both hands and gently rock it back and forth until the tubes (or plate) are free.Chapter 3 Performing a Run Viewing and Printing the Run Report At the end of a run. the Run Report screen is displayed (below). touch Print. you must touch Stop. touch Save. the error information is also printed. You can also see the Run Report by touching View Last Run in the Tools Menu: Note: The run report is saved only until the next run is finished. If any errors occurred during the run. • To print the run report. Sample caps may pop off if the cover is opened when the sample block(s) temperature is above 27 °C. Veriti™ Thermal Cycler User Guide 3-25 .

Chapter 3 Performing a Run 3-26 Veriti™ Thermal Cycler User Guide .

. . . . . . . . . 4-2 Returning an Instrument for Service . . . . . . . . . . . . . .Troubleshooting This chapter covers: 4 4 Troubleshooting. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 4-3 Veriti™ Thermal Cycler User Guide 4-1 . . . .

change Allow Remote Runs to Yes. platen. Problem Cooling rate too slow Temperature does not match specified temperature Heating rate too slow Printing fails Possible Causes • Peltier assembly failure • Instrument may require calibration • Peltier failure • Printer incorrectly configured on instrument • Printer not connected to network • Instrument not connected to network • Ethernet cable bad Check and/or Remedy • Run the Cycle Performance Test. or cover assembly malfunctioning • Heated cover failure • Request service • Run the Heated Cover Verification Test. • Run the Cycle Performance Test. • Run the Temperature Verification Test. Cycling time too long When running on multiple instruments. • Check fuses.Chapter 4 Troubleshooting Troubleshooting Use the following table to help troubleshoot problems with your Veriti™ Thermal Cycler. • Use recommended consumables (see Appendix B. 4-2 Veriti™ Thermal Cycler User Guide . • Run the Heated Cover Verification Test. • Blown fuse • Not connected to power source No screen display No response when you power on the instrument Screen display is missing characters or is illegible Sample tubes melt during run • LCD screen failure • Incompatible consumables used • Heated cover too hot • Sample block(s) too hot Heated cover stuck Heated cover not responsive • Cam. • Change the IP addresses on the instruments. • Is power switch on? • Is power cord connected? • Request service. cannot see instruments in “Select Instruments” screen • Peltier assembly failure • Instrument(s) not connected to network • Switch powered off • Ethernet cable bad • IP address conflict • Allow Remote Runs setting in Instrument Name screen set to No. • Is Ethernet cable connected to the printer? • Is Ethernet cable connected to the instrument? • Is network functioning? • Try a different Ethernet cable. • Run the Cycle Performance Test. • Make sure the printer IP address on the instrument matches the IP address from the system administrator. • In Instrument Name screen. Disposables). • Are all Ethernet cables connected to the instruments? • Are all Ethernet cables connected to the network switch? • Try a different Ethernet cable.

This practice ensures that if the service center sends you a replacement instrument. use a commercially available decontaminant to remove the contamination. To return an instrument for service: 1. 4. Include a hard copy of the Certificate of Instrument Decontamination in the box. you can restore the run methods and other settings. if required. packaging. Contact your local customer care center or technical support group to obtain a copy of the Certificate of Instrument Decontamination. Returning an Instrument for Service Before returning an instrument for service. 3. then ship the instrument to the designated facility. Veriti™ Thermal Cycler User Guide 4-3 . Decontaminate the instrument. IMPORTANT! If the sample block(s) become contaminated with radioactivity. 6. back up the run methods and instrument settings. without any accessories or power cords. Complete and sign a copy of the Certificate of Instrument Decontamination. 2.Chapter 4 Troubleshooting Problem Cannot see Manage Users button in Admin Menu screen Possible Causes • Manage Users button is not shown when instrument is monitored by VeritiLink™ Remote Management Software Check and/or Remedy • Use VeritiLink Software to manage user accounts or • Change Allow VeritiLink Software Control to No in the Security screen on the instrument. and. the instrument cannot be returned to Applied Biosystems for service. a service notification. Fax the Certificate of Instrument Decontamination to the customer care center. Affix the provided postage to the box. a service call number. The repair process requires 2 to 3 weeks. Pack the instrument in the provided packaging. Note: Repairs for instruments without the Certificate of Instrument Decontamination are delayed. as described in “Backing Up Run Methods and Other Settings” on page 1-13. 5. If the block(s) cannot be decontaminated.

Chapter 4

Troubleshooting

4-4

Veriti™ Thermal Cycler User Guide

Utilities
This chapter covers:

5

5

Using GeneAmp® PCR System 9700 Run Methods. . . . . . . . . . . . . . . . . . . . . . . . 5-2 Upgrading System Firmware. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 5-5 Calculating Melting Temperatures . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 5-7 Viewing Instrument Statistics . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 5-8 Restoring the Factory Settings. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 5-8 Running the Cycle Performance Test . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 5-10 Tests Using the Temperature Verification Kit . . . . . . . . . . . . . . . . . . . . . . . . . . . . 5-11

Veriti™ Thermal Cycler User Guide

5-1

Chapter 5

Utilities

Using GeneAmp® PCR System 9700 Run Methods
Note: This function is only available on Veriti 96-Well Thermal Cyclers.

The Veriti™ Thermal Cycler has a Convert Method tool to guide you through importing existing run methods from a GeneAmp® PCR System 9700 thermal cycler. The tool is designed to create a method for the Veriti Thermal Cycler with ramp rates that simulate those on the 9700 thermal cycler. Although the ramp rates may be similar in the two methods, the results on the Veriti Thermal Cycler may differ from those from the GeneAmp PCR System 9700 and, therefore, additional optimization may be needed. The available conversions are specific to the type of instrument: • Veriti 96-Well Fast Thermal Cycler – Only 9700 Max Mode run methods can be converted. • Veriti 96-Well Thermal Cycler – Run methods in 9600 Emulation Mode or 9700 Max Mode can be converted.
Note: Only users who can save run methods (all users except Limited Users) have access to this function. To use a run method from a GeneAmp® PCR System 9700 thermal cycler:

1. Obtain a copy of the original method you want to convert, either by printing it from the instrument or copying it manually to a piece of paper. 2. In the Main Menu screen, touch Tools Menu. 3. In the Tools Menu screen, touch Convert a Method to open the Convert Method wizard:

4. Touch the check box next to the run method’s original format (9700 Max Mode or 9600 Emulation Mode) then touch (Next).

5-2

Veriti™ Thermal Cycler User Guide

The Tools Menu is displayed. Veriti™ Thermal Cycler User Guide 5-3 . Names are limited to 16 characters. In the second page. In the Save Run Method page (below). the name begins with “9700-Max-Mode-” or “9600-Mode-”. You can include AutoDelta steps. touch Save & Exit. depending on the format selected in step 4. enter the original run method. When you finish. 6. and VeriFlex™ steps. Also enter the reaction volume.Chapter 5 Utilities 5. the temperature for the heated cover (if any). enter a name and select a folder for the run method. By default. pauses. and you can edit the ramp rates: Touch (Next). when you are done. and any notes for this method.

showing “9700M” as the ramp rate 5-4 Veriti™ Thermal Cycler User Guide . This is indicated by “9600” or “9700M” in the Time field.Chapter 5 Utilities Note: You cannot edit the ramp rates in the method created by the Convert Method wizard. Figure 5-1 Converted run method. when you choose to view ramp rates rather than time (see Figure 5-1).

Record the version number of the firmware. follow the steps below to download and upgrade the firmware.com. then touch Done. go to www. Click Support. Determine the version number of the existing firmware from the About the Instrument screen. then click Updates & Patches. You will need a USB drive and. Select Veriti Thermal Cycler in the list. 2. Veriti™ Thermal Cycler User Guide 5-5 . a.Chapter 5 Utilities Upgrading System Firmware About the Upgrade If Applied Biosystems provides a new version of the firmware for the Veriti Thermal Cycler. The About the Instrument screen opens: b. Open the About the Instrument screen: • Touch Log Off to return to the Login Options screen.appliedbiosystems. a. c. b. if your instrument requires login. IMPORTANT! You cannot upgrade the firmware while a run is in progress. or • In the Main Menu screen. then Software Downloads. Determine the version number of the new firmware. then About the Instrument. On a computer connected to the Internet. • Different from the current version (from step 1). If the version number is: • The same as the current version (from step 1). Administrator access to upgrade the firmware. you do not need to upgrade the firmware. touch Settings Menu. d. then touch About the Instrument. Upgrading the Veriti Thermal Cycler Firmware 1. Find the appropriate file. you may be required to load the new firmware on the instrument.

5-6 Veriti™ Thermal Cycler User Guide . To upgrade the instrument with the new firmware: 1. 2. 4. In the Settings Menu screen. Select the USB drive as the location for the saved file. Veriti™ system firmware files end with “. Download the new firmware to a USB drive: a. Insert the USB drive into the USB port on the computer. Click the link in the Software column to download the file. then Yes. Insert the USB drive with the new firmware in the USB port on the front of the Veriti Thermal Cycler. touch Settings Menu. Restart the instrument. touch Upgrade Firmware. Remove the USB drive from the computer when the download is complete. When the upgrade process is complete. touch Admin Menu. The Firmware Upgrade screen opens: 7. In the Admin Menu screen. 6. 9. Follow the instructions in “Backing Up Run Methods and Other Settings” on page 1-13 to save your run methods and settings from the Veriti Thermal Cycler. a message box opens. b. In the Main Menu screen. Touch Upgrade. Touch the name of the file with the new firmware. then touch Select. 8. 3. 10.Chapter 5 Utilities 3. Touch Source File to display a list of the files on the USB drive. 5. Log in as a user with Administrator access.update”. c.

Chapter 5 Utilities Calculating Melting Temperatures To calculate the melting temperatures for a DNA primer pair: 1. b. Touch Calculate. Touch Primer Concentration. In the Tools Menu screen. Enter each primer sequence. In the Main Menu screen. c. touch Tools Menu. Enter the required information. 2. Touch Salt Concentration. touch Calculate Tm to open the Tm Calculator screen: 3. a. The melting temperature for each primer is displayed: Veriti™ Thermal Cycler User Guide 5-7 . then enter the DNA concentration in µM. 4. then enter the salt concentration in mM.

When you do this. touch Tools Menu. 2. 3. 1. the following are lost: • • • • All run methods except the predefined methods listed in Appendix C Any users and their custom folders The instrument name and IP address Any changes to time-outs. if the sample block(s) were heated from 10 degrees to 30 degrees. printer settings. and any shortcuts to methods or functions 1. [3 × (30 − 10) = 60]. for 3 cycles. When you finish. Restoring the Factory Settings You can reset the instrument to the default values for all instrument settings. In the Tools Menu screen. 5-8 Veriti™ Thermal Cycler User Guide . touch Done to return to the Tools Menu screen. touch Admin Menu. • Total Degrees for Block(s) – The total degrees the blocks) have climbed over their lifetime. In the Settings Menu screen. In the Main Menu screen. You can view this information. touch Settings Menu. The following statistics are shown: • Total Cycles for Block(s) – The total number of cycles the instrument has performed over its lifetime. security settings. 3. touch Show Statistics.Chapter 5 Utilities Viewing Instrument Statistics The instrument records information about how it has been used. block idle temperatures. 2. the total degrees would be 60. For example. Log in as a user with Administrator access. In the Main Menu screen.

• No to restore the default settings. In the Admin Menu screen. Remove the USB drive. then toggle the switch on the back of the instrument to power off. Before the restore operation begins. a message box stating “Factory settings have been restored. 6. The Restore Factory Settings dialog box is displayed. 8. • Cancel to cancel the restore operation. Toggle the switch again to power on the instrument and restart with the factory default settings. IMPORTANT! Touching No erases all run methods. Insert a USB drive for the backup. touch Restore Factory Settings to open the Restore Factory Settings screen: 5. Veriti™ Thermal Cycler User Guide 5-9 . touch Restore. touch: • Yes to back up run methods and other settings before restoring the default settings to the instrument. 7. When the restore process is complete. In the dialog box. if present. user accounts and other settings from the instrument. without first performing a back up.” opens.Chapter 5 Utilities 4. In the Restore screen. you are prompted to confirm the restore with a second dialog box.

If the test fails again. repeat the procedure. The results are displayed at the end of the test. In the Main Menu screen. Follow the instructions on the screen to perform the test. 4. 3. Ensure that the heated cover is closed. Required Materials The appropriate equipment for your instrument: • Veriti 96-Well Fast Thermal Cycler: MicroAmp™Fast Optical 96-Well Reaction Plate with Barcode (PN 4346906) • Veriti 96-Well Thermal Cycler: MicroAmp™ Optical 96-Well Reaction Plate (PN N8010560) • Veriti 384-Well Thermal Cycler: MicroAmp™ Optical 384-Well Reaction Plate (PN 4309849) • Veriti 60-Well Thermal Cycler: GeneAmp® Thermal Isolation Frame (PN 4308927) This test takes 10 minutes to complete. Procedure 5-10 Veriti™ Thermal Cycler User Guide . The results are saved to the file CyclePEvents. At the end of the test. If the test fails. 2.txt. • Save to save the results to the USB drive.Chapter 5 Utilities Running the Cycle Performance Test Use this test to verify that the sample block(s) are heating and cooling properly and that the PCR cycling function operates properly. 5. touch Tools Menu. contact Applied Biosystems Technical Support. 6. 7. touch Run Cycle Performance Test. 1. In the Tools Menu screen. Place the reaction plate or thermal isolation frame in the instrument. touch: • Print to print the results.

with 0. Veriti Thermal Cycler Model Veriti 96-Well Fast Thermal Cycler (PN 4375305).Chapter 5 Utilities Tests Using the Temperature Verification Kit You need the Temperature Verification Kit to perform the: • Heated Cover Verification • Temperature Verification • Temperature Nonuniformity Test About the Temperature Verification Kit The Temperature Verification Kit consists of: • A probe – The appropriate size for the sample wells in your instrument. Hot Surface. with 0. Required Materials Procedure The appropriate Temperature Verification Kit for your Veriti Thermal Cycler model (see table above). This test takes 10 to 15 minutes to complete.1-mL Temperature Verification Kit Part Number 4373997 0. with 0.2-mL Temperature Verification Kit 4377669 0.5-mL Temperature Verification Kit 4309924 For More Information See the Multiprobe Temperature Verification Kit User Guide (PN 4376864).1-mL sample wells Veriti 96-Well Thermal Cycler (PN 4375786).) • Digital thermometer – Model 4690 Digital thermometer with 9 V battery • Light mineral oil • Cotton swabs You need the appropriate model of the Temperature Verification Kit for your Veriti Thermal Cycler. Running the Heated Cover Verification Use this test to verify that the heated cover is within ±3 °C of the 105 °C set point. with 0.02-mL Temperature Verification Kit 4385338 0. The probe can be ordered separately or a part of a kit.5-mL sample wells Temperature Verification Kit 0. PHYSICAL INJURY HAZARD. Veriti™ Thermal Cycler User Guide 5-11 . Use care when working around the heated cover and sample block(s) to avoid being burned.2-mL sample wells Veriti 384-Well Thermal Cycler (PN 4388444). (See page 6-6 for part numbers for the probes.02-mL sample wells Veriti 60-Well Thermal Cycler (PN 4384638). as shown below.

3. If the test fails again. touch Run Temperature Verification.25 °C of the set point temperature. but you can cancel before it is complete. If the test fails. • Save to save the results to the USB drive. 3.txt. 6. Ensure the: • Probe is placed in the correct wells during the test. 6. • Results are saved or printed. touch: • Print to print the results. cuts or crimps) and are securely seated in the digital thermometer and in the instrument. 5. If the test fails. Probe 1 should be in well A5 during this test. Follow the instructions on the screen to perform the test. In the Tools Menu screen.txt. touch: • Print to print the results. contact Applied Biosystems Technical Support. Required Materials Procedure The appropriate Temperature Verification Kit for your Veriti Thermal Cycler model (see table above). Ensure the: • Probe plate is in the correct location. In the Main Menu screen. 1. Use care when working around the heated cover and sample block(s) to avoid being burned. This test takes 25 to 30 minutes to complete. 2. • Cables are not damaged (no nicks. 5. At the end of the test. 4. • Cables are not damaged (no nicks. In the Main Menu screen. The results are saved to the file heatedCover. Follow the instructions on the screen to perform the test. Running the Temperature Verification Use this test to verify that the average temperature for the sample block(s) is within ±0. • Heated cover is closed. repeat the procedure. At the end of the test. touch Tools Menu. The results are saved to the file bcalevents. repeat the procedure. 2. In the Tools Menu screen. 5-12 Veriti™ Thermal Cycler User Guide . • Save to save the results to the USB drive. PHYSICAL INJURY HAZARD. Hot Surface. cuts or crimps) and are securely seated in the digital thermometer and in the instrument. • Results are saved or printed. touch Run Heated Cover Verification. 4. contact Applied Biosystems Technical Support.Chapter 5 Utilities 1. If the test fails again. touch Tools Menu. • A drop of mineral oil is in each of the test wells.

4. In the Tools Menu screen. Calibrating the thermometer and probe of the Temperature Verification Kit requires that you: • Decontaminate the probe assembly as described below. 6. • Save to save the results to the USB drive. See “TVK Support” on page ix. • Send the equipment and the completed Certificate of Instrument Decontamination to the manufacturer. Decontaminating the Probe Assembly 1. touch Tools Menu. In the Main Menu screen. The results are saved to the file tnuEvents. touch: • Print to print the results. Contact your local customer care center or technical support group to obtain a copy of the Certificate of Instrument Decontamination. Gently wipe the probe cones with a cotton swab that has been moistened with with a 1:10 v/v solution of 5. If the test fails. Complete the Certificate of Instrument Decontamination. Use care when working around the heated cover and sample block(s) to avoid being burned.txt. At the end of the test. 2. 3. Veriti™ Thermal Cycler User Guide 5-13 . IMPORTANT! Do not submerge the probe in bleach solution. Required Materials Procedure The appropriate Temperature Verification Kit for your Veriti Thermal Cycler model (see table above). • Results are saved or printed. 1. Do not disassemble the probe assembly. repeat the procedure. touch Run TNU Test. 3. This test takes 10 to 15 minutes to complete. PHYSICAL INJURY HAZARD. cuts or crimps) and are securely seated in the digital thermometer and in the instrument.25% sodium hypochlorite (Chlorox bleach). • Heated cover is closed. but you can cancel before it is complete. TVK Recalibration Applied Biosystems recommends that your Temperature Verification Kit be recalibrated once a year. If the test fails again.Chapter 5 Utilities Running the Temperature Nonuniformity Test Use this test to verify that the sample well temperatures are within the threshold temperature range. 5. contact Applied Biosystems Technical Support. Hot Surface. Ensure the: • Cables are not damaged (no nicks. Follow the instructions on the screen to perform the test. 2.

Chapter 5 Utilities 5-14 Veriti™ Thermal Cycler User Guide .

. . . . . . 6-2 Parts List . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .Maintenance This chapter covers: 6 6 Scheduled Maintenance. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 6-2 As-Needed Maintenance . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 6-6 Veriti™ Thermal Cycler User Guide 6-1 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .

During instrument operation. Clean the sample wells once a month or as needed. If you use any cleaning or decontamination method. 6-2 Veriti™ Thermal Cycler User Guide . Allow the instrument to cool until the heated cover and sample block(s) reach room temperature. Also. Always wear protective glasses and gloves when servicing the instrument. except those recommended in the manual. Power off the Veriti™ Thermal Cycler. 2. Before performing the procedure. Cleaning the Instrument Preparation Before cleaning the instrument: 1. Be careful not to scratch the screen. make sure you disconnect the instrument from AC line power before you begin any service procedure. keep hands away until the heated cover and sample block(s) reach room temperature To clean the sample wells: 1. 4. Use a cotton swab soaked in pure isopropanol to clean the sample wells thoroughly. Remove the sample tray from the sample block(s) and set it aside. above. and the temperature of the sample block(s) can be as high as 100 °C. 3. Make certain that the isopropanol has evaporated completely before reloading a sample tray. the temperature of the heated cover can be as high as 108 °C. Follow the steps in Preparation.Chapter 6 Maintenance Scheduled Maintenance Run the following tests annually: • Cycle Performance Test – page 5-10 • Heated Cover Verification – page 5-11 • Temperature Verification – page 5-12 As-Needed Maintenance Tests Run the Temperature Nonuniformity Test (see page 5-13). then remove the power cord. you risk damaging the equipment. 2. Open the heated cover. Cleaning the Touchscreen Cleaning the Sample Wells Clean the touchscreen with any commercially available LCD cleaning product.

During instrument operation. If the sample block(s) become contaminated with radioactivity. then raise the heated cover to the cleaning position. and upper respiratory tract irritation. Before performing the procedure. Open the heated cover. Exposure may cause central nervous system effects such as drowsiness. excessive use of the solution. 4. To clean the heated cover: 1.Chapter 6 Maintenance Decontaminating the Sample Wells If the sample wells become contaminated with any biological agents. use a commercially available decontaminant to remove the contamination. dizziness. Note: If the platen becomes contaminated with amplified DNA. Cleaning the Heated Cover Clean the heated cover once a month or as needed. If possible. wipe the platen with a cloth or cotton swab soaked in bleach. Remove any remaining isopropanol from the cover. Isopropanol is a flammable liquid and vapor. Veriti™ Thermal Cycler User Guide 6-3 . skin. Note: Removing residual bleach from the surfaces of the Veriti™ instrument using water minimizes the long-term effects of bleach treatments. Applied Biosystems recommends the use of 10% bleach solution for removing contamination from the Veriti™ instrument sample block(s). keep hands away until the heated cover and sample block(s) reach room temperature. To prevent damage to the sample block(s): • Avoid applying excessive amounts of bleach solution. and follow the handling instructions. clean the wells thoroughly with a cotton swab soaked in 1:10 v/v dilution of 5. Use bleach solution in moderation. rinse the sample block(s) thoroughly using deionized water. can corrode the sample block(s) material.25% sodium hypochlorite (Chlorox bleach). CHEMICAL HAZARD. Soak a cotton swab or piece of clean cloth with pure isopropanol and gently wipe the heated platen. instead of using a squeeze bottle or soaked cloth. Clean the heated platen once a month or as needed. Read the MSDS. and headache. the instrument cannot be returned to Applied Biosystems for service. Follow the steps in “Preparation” on page 6-2. • After treating with bleach solution. 3. Exposure may cause eye. the temperature of the heated cover can be as high as 108 °C. however. If the block(s) cannot be decontaminated. use an atomizer to deliver the solution to the wells of the block(s). then rinse with water. Prolonged or repeated contact may dry skin and cause irritation. and the temperature of the sample block(s) can be as high as 100 °C. 2.

To protect yourself against shock hazards. disconnect the power supply to the instrument. which could cause physical injury or death. Severe electrical shock. Do not use an adapter to a twoterminal outlet since this does not provide positive ground protection.Chapter 6 Maintenance Decontaminating the Heated Cover If the heated cover become contaminated with amplified DNA. use a properly wired three-terminal outlet. and wait at least 1 minute before working on the instrument. then wipe the cover with a damp cloth.25% sodium hypochlorite (Chlorox bleach). Replacing Fuses Fuse Overview The instrument has two 10 A Type M 250 V 5 × 20 mm fuses (PN 4377690). To avoid electrical shock. ELECTRICAL SHOCK HAZARD. ELECTRICAL HAZARD. 120. raise the heated cover to the cleaning position and wipe the cover with a cloth or cotton swab soaked in 1:10 v/v dilution of 5. Instrument Configuration* All configurations Main Fuse Rating 10 A Part Number 4377690 Acceptable AC line voltage tolerances: 100. 50/60 Hz ± 1% Required Materials Procedure • Two 10 A Type M 250 V 5 × 20 mm fuses • Fine flat-tip screwdriver 1. FIRE HAZARD. replace fuses only with Listed and Certified fuses of the same type and rating as those currently in the instrument. can result from working on an instrument when the high voltage power supply is operating. 230 ±10%. unplug the power cord. For continued protection against the risk of fire. 220. Turn off the instrument and disconnect the power cord from the back of the instrument. 6-4 Veriti™ Thermal Cycler User Guide . 240 VAC +6%/–10%.

Place the fuse compartment back into the power entry module (there is only one orientation) and close the door. and open the door. 7. Insert a small flat-tip screwdriver into the slot in the upper portion of the power entry module.Chapter 6 Maintenance The fuses are in the power entry module: Power entry module Fuse compartment 2. Pull out the fuse compartment to inspect the two fuses in the fuse compartment: 4. Veriti™ Thermal Cycler User Guide GR0961 6-5 . Connect the instrument power cord. Pull out the blown fuse(s) from the fuse compartment and replace with new 10 A Type M 250 V 5 × 20 mm fuses. 3. 6. 5. Press the door until it locks in place.

Temperature Verification Kit (0. Right Probe. Temperature Verification Kit (0. Rear (Heated Cover) Panel. Left Side Cam.Chapter 6 Maintenance Parts List Table 6-1 Kits and Spares Part Kits Temperature Verification Kit (0.2-mL) Probe.02-mL) Temperature Verification Kit (0.5-mL) Spares Cable. Plastic Handle.1-mL) Probe.2-mL) Temperature Verification Kit (0.02-mL) Probe. Plastic Mold Handle. Temperature Verification Kit (0.1-mL) Temperature Verification Kit (0. Temperature Verification Kit (0. Rubber (Package of 4) Fuse 10A Slo-Blo Grill. Right Side Foot. AC Power Supply Cam. Left Panel.5-mL) 4374647 4374274 4374275 4375246 4377690 4374178 4374277 4374181 4374276 4374176 4374280 4374175 4375938 4377670 4308757 4309925 4373997 4377669 4385338 4309924 PN 6-6 Veriti™ Thermal Cycler User Guide . Rubber Grip Heated Cover Panel.

. . . . . . A-3 Veriti™ Thermal Cycler User Guide A-1 . . . . . . . . . . . . . . . . . . . . . A-2 Printer Specifications . . . . . . . . . . .Instrument Specifications This appendix covers: A A System Specifications . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .

Chapter A Instrument Specifications System Specifications Physical Dimensions and Electrical Specifications Physical Dimensions Width Height Depth Weight Electrical Input Voltage Max Power AC Line Voltage Tolerances 100 to 240 VAC 50/60 Hz 10 A 100.3 in) 24.5 lbs) Power and Communication Connections Table 1 Power and Communication Port Description 800 VA power cable 10/100 fast Ethernet port for a network connection USB v1.7 cm (9. 230 ±10% 240 VAC +6%/–10%. 120. 50/60 Hz ± 1% 23.5 cm (9.1 in) 10. 220.5 cm (19.0 port for a connection to an external USB drive RS232 serial communication port for connecting the probe for the Temperature Verification Kit Figure A-1 Connections for power and communications on the Veriti™ Thermal Cycler A-2 Veriti™ Thermal Cycler User Guide .6 in) 48.2 kg (22.

2 mL 0.9 °C • Temperature calibration accuracy: Traceable to National Institute of Standards and Technology (NIST) 640 × 480 pixel LCD color display with full VGA resolution.02 mL 0. Instrument Model Veriti™ 96-Well Fast Thermal Cycler (PN 4375305) Veriti 96-Well Thermal Cycler (PN 4375786) Veriti 384-Well Thermal Cycler (PN 4388444) Veriti 60-Well Thermal Cycler (PN 4384638) No. of Wells 96 96 384 60 Volume/Well 0.1 mL 0.5 mL Printer Specifications The Veriti Thermal Cycler requires a printer that: • Has an Ethernet port • Supports the LPD/LPR protocol (often called a “TCP/IP printer”) Veriti™ Thermal Cycler User Guide A-3 .Chapter A Instrument Specifications Sample Temperature Range Touchscreen Specifications Sample Well Specifications • Sample temperature range: +4 to +99.

Chapter A Instrument Specifications A-4 Veriti™ Thermal Cycler User Guide .

. . . .B-2 Other Supplies for Sample Handling. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .Disposables This appendix covers: B B Disposables . . . . . . .B-4 Veriti™ Thermal Cycler User Guide B-1 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .

02-mL) 60-Well (0. Assorted Colors (0. Assorted Colors 8-Well Strips MicroAmp™ Fast 8-Tube Strip (0.5-mL) Part Number B-2 Veriti™ Thermal Cycler User Guide .1 mL) MicroAmp™ Fast Optical 96-Well Reaction Plate with Barcode (0.1 mL) MicroAmp™ Optical 96-Well Reaction Plate x x x x x MicroAmp™ Optical 96-Well Reaction Plate with Barcode MicroAmp™ Optical 96-Well Reaction Plate with Barcode and Optical Caps MicroAmp™ Optical 96-Well Reaction Plate with Barcode and Optical Adhesive Films MicroAmp™ Optical 384-Well Reaction Plate MicroAmp™ Optical 384-Well Reaction Plate with Barcode x x x x x x x x 12-Well Strips MicroAmp™ 12-Cap Strip x x MicroAmp™ 12-Cap Strip.1 mL) MicroAmp™ 8-Tube Strip (0.1-mL) 96-Well (0.Chapter B Disposables Disposables Table B-1 Disposables for the Veriti™ Thermal Cycler Part Description 96-Well Plates MicroAmp™ Fast 96-Well Reaction Plate (0.2 mL) x x x x 4358293 N8010580 N8010838 4316567 x x x x N8010534 N8011534 N8010834 4346907 4346906 4366932 N8010560 4316813 4306737 4326659 403012 4314320 4309849 4309849 4326270 4343814 96-Well (0.2 mL) MicroAmp™ 8-Tube Strip.2 mL) MicroAmp™ Optical 8-Tube Strip (0.2-mL) 384-Well (0.

Assorted Colors (0.1-mL) x x MicroAmp™ 8-Cap Strip.5-mL) Part Number N8010535 N8011535 N8010835 4323032 Veriti™ Thermal Cycler User Guide B-3 .5 mL) Seals & Covers MicroAmp™ Clear Adhesive Film MicroAmp™ Optical Adhesive Film x x x MicroAmp™ Optical Adhesive Film Kit Reaction Trays MicroAmp™ 96-Well Tray for VeriFlex™ Blocks MicroAmp™ 96-Well Tray/Retainer Set for Veriti™ Systems x x x 4379983 4381850 x x x x x x x x 4306311 4360954 4311971 4313663 x x x x x 4358297 N8010540 N8011540 N8010840 N8010612 N8010533 N8011533 N8010833 N8010933 N8010737 N801537 N8010611 x x 96-Well (0.2 mL) MicroAmp® Reaction Tube without Cap (0.2 mL) GeneAmp® Thin-Walled Reaction Tube with Flat Cap (0. Assorted Colors (0.2 mL) MicroAmp® Optical Tube without Cap (0.2 mL) MicroAmp® Reaction Tube with Cap. Assorted Colors MicroAmp™ Optical 8-Cap Strip Single Tubes MicroAmp® Fast Reaction Tube with Cap (0.2 mL) x x x MicroAmp® Reaction Tube with Cap.2-mL) x x x x 384-Well (0.5 mL) GeneAmp® Thin-Walled Reaction Tube with Domed Cap. Autoclaved (0.Chapter B Disposables Table B-1 Disposables for the Veriti™ Thermal Cycler (continued) Part Description MicroAmp™ 8-Cap Strip 96-Well (0.1 mL) MicroAmp® Reaction Tube with Cap (0.2 mL) x x x x MicroAmp® Reaction Tube without Cap.5 mL) GeneAmp® Thin-Walled Reaction Tube with Domed Cap (0.02-mL) 60-Well (0. Autoclaved (0.

Product MicroAmp™ 96-Well Base MicroAmp™ Splash Free 96-Well Base GeneAmp® Thermal Isolation Frame MicroAmp™ Cap Installing Tool (Handle) MicroAmp™ Multi-Removal Tool MicroAmp™ Adhesive Film Applicator MicroAmp™ Centrifuge Adapter Part Number N8010531 4312063 4308927 4330015 4313950 4333183 N8013822 B-4 Veriti™ Thermal Cycler User Guide .Chapter B Disposables Other Supplies for Sample Handling The following parts can simplify working with your samples and the Veriti™ Thermal Cycler.

. . . . . . . . . . . . . . .Predefined Run Methods This appendix covers: C C Predefined Run Methods. . . . . . .C-2 Veriti™ Thermal Cycler User Guide C-1 . . . . . . . . . . . . . . . . . . . . . . . .

Your results may vary between instrument models. C-2 Veriti™ Thermal Cycler User Guide .Chapter C Predefined Run Methods Predefined Run Methods The following run methods are supplied with the Veriti™ Thermal Cycler and are stored in the Shared folder. Please note that the ramp rates of these methods are 100%. • • • • • • • • • • • AmpliCycle® Seq Run Method AmpliTaq Gold® DNA Polymerase Run Method AmpliTaq Gold® Fast PCR Run Method BigDye® Kit Fast Run Method BigDye® Kit Standard Run Method Fast PCR Run Method General PCR Run Method LMS2 Run Method Time Release Run Method Touchdown PCR Run Method XL PCR Run Method These run methods cannot be edited or deleted. CS. AmpliCycle® Seq Run Method Use this run method to achieve clean sequence ladders from femtomole quantities of template. are described in the product insert for the AmpliCycle® Sequencing Kit (PN N8080175). The cycle sequencing process and the benefits of AmpliTaq® DNA Polymerase. so some optimization may be needed. These run methods are based on recommended protocols from Applied Biosystems and should be considered as starting points for the different applications. you can edit them. but if you save them with a different name or to a different folder.

Replace this temperature with the melting temperature of the primer (see “Calculating Melting Temperatures” on page 5-7). This run method specifies a pre-PCR heat step for activation of AmpliTaq Gold® DNA Polymerase. Veriti™ Thermal Cycler User Guide C-3 . thereby increasing specificity and sensitivity of PCR. the annealing temperature is set at 62 °C. This run method is optimized to generate template for DNA sequencing reactions and is only available on Veriti™ 96-Well Thermal Cyclers. Note: By default. The hot-start technique helps to minimize the formation of primer-dimers or nonspecific products.Chapter C Predefined Run Methods AmpliTaq Gold® DNA Polymerase Run Method Use this run method for hot-start PCR in place of labor-intensive methods such as manual hot-start or wax-bead-mediated hot-start techniques. AmpliTaq Gold® Fast PCR Run Method Use this run method for PCR with AmpliTaq Gold® Fast PCR Master Mix. UP to produce optimal yield and specificity for a 500 bp amplicon.

The pre-coded conditions in this run method are optimized for AmpliTaq® DNA Polymerase. with ABI PRISM® BigDye® Terminator Cycle Sequencing Ready Reaction Kits.Chapter C Predefined Run Methods BigDye® Kit Fast Run Method Use this run method for cycle sequencing of dideoxy (Sanger) terminator sequencing using ABI PRISM® BigDye® Terminator Cycle Sequence Ready Reaction Kits. BigDye® Kit Standard Run Method Use this run method. . FS and the cycle sequencing reagents supplied with the BigDye® Terminator kits. which consists of cycle-sequencing parameters for dideoxy (Sanger) terminator sequencing. C-4 Veriti™ Thermal Cycler User Guide .

This method is set as the default run method for the Veriti Thermal Cycler. For more information on how to convert your standard methods to Fast methods. General PCR Run Method Use this run method for standard PCR use.appliedbioystems.com. refer to the product literature for Fast PCR Master Mix available from www.Chapter C Predefined Run Methods Fast PCR Run Method Use this run method for use with the GeneAmp® Fast PCR Master Mix. Veriti™ Thermal Cycler User Guide C-5 .

allowing for slow activation of the enzyme during cycling. C-6 Veriti™ Thermal Cycler User Guide . This method minimizes the pre-PCR activation step and adds a minimum of 10 additional cycles. This provides a simple method where polymerase activity increases more slowly as product accumulates. Time Release Run Method Use this run method for use with AmpliTaq Gold® DNA Polymerase.5 (LMS2) thermal cycling. Linkage Mapping Set Version 2 uses over 400 fluorescently labeled PCR primer pairs for analysis of select microsatellite loci from the Généthon human linkage map. improving specificity.Chapter C Predefined Run Methods LMS2 Run Method Use this run method for ABI PRISM ® Linkage Mapping Set Version 2.

This method incrementally decreases the annealing temperature in early cycles to maximize the yield of specific products. long-range PCR. More complete genes can be amplified in one reaction from known expressed sequences. You can use XL PCR to amplify the control target (a 20.Chapter C Predefined Run Methods Touchdown PCR Run Method Use this run method if the optimal annealing temperature is not known. Veriti™ Thermal Cycler User Guide C-7 . By providing longer templates.8-kb product from Lambda DNA) supplied in the kit. XL PCR Run Method Use this run method for amplification of 5 to 40 kb PCR products using rTth DNA Polymerase. XL and unique reaction conditions. allowing more introns to be spanned. XL PCR complements technologies for rapid.

Chapter C Predefined Run Methods C-8 Veriti™ Thermal Cycler User Guide .

description xii date. description xii chapters Getting Started 2-1 Maintenance 6-1 Performing a Run 3-1 System Overview 1-1 Troubleshooting 4-1 Utilities 5-1 chemical safety xvi chemical waste safety xvii Veriti™ Thermal Cycler User Guide Index-1 . restoring 5-8 deleting folders 1-16 run methods 1-12 shortcuts 2-16 steps or stages 3-15 users 2-13 Display Method Time button 3-22 Disposables appendix B-1 documentation. temperature verification kit 5-13 CAUTION. setting current 2-8 decontaminating heated cover 6-4 sample wells 6-3 temperature verification kit 5-13 default administrator user name and password 2-10 default settings.Index A About the Instrument screen 5-5 adding AutoDelta steps 3-13 folders 3-9 pauses in a run method 3-15 stages 3-10 steps 3-11 users 2-10 VeriFlex steps 3-16 Admin Menu screen 1-7 AmpliCycle run method C-2 AmpliTaq run methods C-3 appendices Disposables B-1 Instrument Specifications A-1 Predefined Run Methods C-1 Applied Biosystems contacting viii customer feedback on documentation viii Information Development department viii Technical Support viii assumptions for using this guide vii AutoDelta step 3-13 cleaning heated cover 6-3 sample wells 6-2 touchscreen 6-2 conventions bold text vii for describing menu commands vii IMPORTANTS! vii in this guide vii italic text vii Notes vii safety xii user attention words vii creating folders 3-9 run methods 3-8 shortcuts to instrument functions 2-15 shortcuts to run methods 1-13 users 2-10 customer feedback. related viii C calibrating. on Applied Biosystems documents viii Cycle Performance Test 5-10 cycles changing during a run 3-22 editing in a run method 3-11 B backing up before restoring to factory settings 5-9 run methods and settings 1-13 Big Dye Kit run methods C-4 bold text. when to use vii D DANGER.

calculating 5-7 menu commands. when to use vii L linkage mapping C-6 LMS2 run method C-6 F factory settings. description xii Information Development department. conventions for describing vii moving parts. See Help system overvoltage category (rating) xvii H hazard icons. See EMC standards EMC standards xvii Ethernet port A-2 name 2-8 serial number 2-8 Instrument Specifications appendix A-1 IP address. See safety heated cover cleaning 6-3 decontaminating 6-4 setting temperature for a run 3-18 skipping heating during a run 3-20 temperature when idle 2-14 verification 5-11 Help system. See safety symbols. on instruments hazards. on instruments hazard symbols. accessing viii Hot icon 3-21 P part numbers disposable supplies B-2 Temperature Verification Kits 6-6 thermal cycler parts 6-6 password default administrator 2-10 editing 2-13 logging in without 2-9 Pause Run button 3-22 pausing before a step in run method 3-15 default duration 2-15 during a run 3-23 Performing a Run chapter 3-1 physical hazard safety xvii power failure during a run 3-24 Predefined Run Methods appendix C-1 printing run methods 1-12 run report 3-25 Veriti™ Thermal Cycler User Guide I IMPORTANT. setting 2-7 italic text. safety xvii MSDSs description xvi MSDSs. restoring 5-8 FAST PCR run method C-5 firmware upgrading 5-5 version number 5-5 folders creating 3-9 deleting 1-16 renaming 1-16 fuses changing 6-4 specification 6-4 M Main Menu screen 1-6 Maintenance chapter 6-1 maintenance schedule 6-2 Manage Users button missing 4-3 melting temperatures.Index E elapsed time for run. contacting viii installation category xvii instrument operation. See safety symbols. viewing 3-22 electrical safety xvii electromagnetic compatibility standards. safety xv instrument properties IP address 2-7 Index-2 . obtaining viii G General PCR run method C-5 Getting Started chapter 2-1 guest users 2-9 guidelines chemical safety xvi chemical waste disposal xvii N naming the instrument 2-8 O online Help.

on instruments xiv safety standards xviii safety symbols. 5-12. temperature verification kit 5-13 remaining time for run. 5-12. safety xiii System Overview chapter 1-1 Index-3 . after a power failure 3-24 restoring factory settings 5-8 run methods and settings 1-14 returning an instrument. 5-13 serial number 2-8 serial port A-2 service. xvii Veriti™ Thermal Cycler User Guide instrument operation xv moving and lifting instrument xv moving parts xvii moving/lifting xv physical hazard xvii standards xvii safety labels. viewing 3-22 remote runs enabling 2-8 performing 3-19 troubleshooting 4-2 renaming folders 1-16 instrument 2-8 restarting. 5-13 troubleshooting 4-2 R ramp rates 9600 5-4 9700M 5-4 editing 3-12 in converted methods 5-4 viewing 1-9 recalibrating.Index test results 5-10. instructions 4-3 RS232 serial port A-2 rTth DNA polymerase C-7 run methods backing up 1-13 copying 1-11 creating 3-8 deleting 1-12 predefined C-1 printing 1-12 restoring 1-14 saving 3-9 scrolling to left and right 3-22 shortcuts 1-13 Run Monitor screen 3-21 run parameters entering 3-18 viewing during a run 3-22 run report printing 3-25 saving 3-25 viewing most recent 3-25 S safety before operating the instrument xv chemical xvi chemical waste xvii conventions xii electrical xvii guidelines xvi. instrument 5-8 steps adding 3-11 AutoDelta 3-13 deleting 3-15 pausing before 3-15 skipping during a run 3-22 VeriFlex 3-16 STOP button 3-22 symbols. returning an instrument 4-3 Settings Menu screen 1-7 shortcuts removing 2-16 to instrument functions 2-15 to run methods 1-13 SKIP button 3-22 stages adding 3-10 cycling 3-10 deleting 3-15 holding 3-10 standards EMC xvii safety xvii statistics. on instruments xiii sample block(s) statistics 5-8 temperature when idle 2-14 sample wells cleaning 6-2 decontaminating 6-3 specifications A-3 samples loading 3-5 unloading 3-25 Sanger sequencing C-4 saving run methods 3-9 run report 3-25 test results 5-10.

txt 5-12 tnuEvents. 5-12. editing 3-12 test results files bcalevents.txt 5-12 CyclePEvents.Index T Technical Support.txt 5-13 test results. current 2-8 Time Release run method C-6 Tools Menu screen 1-8 total cycles 5-8 total degrees for block(s) 5-8 Touchdown PCR description 3-13 predefined run method C-7 touchscreen cleaning 6-2 training.txt 5-10 heatedCover. 5-13 tests Cycle Performance 5-10 Heated Cover Verification 5-11 Temperature Nonuniformity 5-13 Temperature Verification 5-12 text conventions vii time editing 3-12 elapsed for run 3-22 remaining for run 3-22 setting. creating 3-16 VeritiLink Software 2-9 version number for firmware 5-5 View Method Information button 3-22 W WARNING. described vii users access levels 2-10 adding 2-10 changing 2-12 default administrator user name and password 2-10 deleting 2-13 Manage Users button missing 4-3 Utilities chapter 5-1 Index-4 Veriti™ Thermal Cycler User Guide . saving 5-10. contacting viii Temperature Nonuniformity Test 5-13 temperature verification kit contents 5-11 decontaminating 5-13 instructions for shipping ix recalibrating 5-13 user guide 5-11 Temperature Verification Test 5-12 temperature. information on viii Troubleshooting chapter 4-1 TVK See temperature verification kit 5-11 V VeriFlex Blocks. description xii X XL PCR run method C-7 U upgrading firmware 5-5 USB port A-2 user attention words. description 1-2 VeriFlex Step.

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