Agilent Technologies MX3000P Safety guide

Mx3000P and Mx3005P QPCR Systems
Setup and User’s Guide

Mx3000P and Mx3005P
QPCR Systems
SETUP AND USER’S GUIDE
IN #70225 J.1
For Research Use Only. Not for Use in Diagnostic Procedures.

LIMITED PRODUCT WARRANTY
Agilent warrants to the original purchaser that this product is free from defects in workmanship or
materials for a period of one (1) year from the date of purchase, as indicated on the original invoice,
under normal use.
The sole and exclusive remedy under this limited warranty is repair or replacement of defective
products or parts thereof. Repair or replacement products or parts thereof will be furnished solely on
an exchange basis and are obtainable only by the original purchaser. The original purchaser shall
return the defective product, or part thereof, properly packaged, postage or shipping costs prepaid to
Agilent. Loss or damage during shipment shall be at the risk of the purchaser.
This limited warranty does not include repair or replacement necessitated by accident, neglect,
misuse, relocation, unauthorized repair or modification of the product.
THE ABOVE LIMITED WARRANTY IS THE SOLE WARRANTY PROVIDED BY
AGILENT. NO OTHER WARRANTIES, EXPRESS OR IMPLIED, INCLUDING
WARRANTIES OF MERCHANTABILITY OR FITNESS FOR A PARTICULAR PURPOSE,
ARE PROVIDED WHATSOEVER. NO AGILENT AGENT OR EMPLOYEE MAY
MODIFY, EXTEND OR ADD TO THE ABOVE LIMITED WARRANTY.
In no event will Agilent be liable for any direct, indirect, consequential or incidental damages,
including lost profits, or for any claim by any third party, arising out of the use, the results of use or
the inability to use this product.

Mx3000P and Mx3005P QPCR Systems
Setup and User’s Guide
Mx3000P and Mx3005P QPCR Systems Components Provided...................................................1
Setting Up the System.........................................................................................................................2
Locating the Instrument......................................................................................................... 2
Environmental Conditions for Use........................................................................................2
Unpacking the Instrument .....................................................................................................3
Installing the Fuse..................................................................................................................4
Connecting the Instrument to the PC.....................................................................................6
Configuring the PC and Installing the MxPro QPCR Software............................................7
Performing the Instrument Qualification Test Run.............................................................15
Hardware Information and Specifications .....................................................................................20
Hardware Specifications......................................................................................................20
Cautions and Warnings/Précautions et Avertissements ......................................................20
Instrument Status Indicator LED’s...................................................................................... 22
Sample Loading.................................................................................................................................23
Thermal Block Hardware....................................................................................................23
Consumables .......................................................................................................................24
Use of the Perfect Fit Frame with Single Tubes and Strip Tubes .......................................24
Application of Caps.............................................................................................................26
Maintaining the Instrument.............................................................................................................27
Replacement Parts............................................................................................................... 27
Changing the Lamp ............................................................................................................. 27
Replacing the Fuse ..............................................................................................................28
Cleaning the Instrument ......................................................................................................28
Troubleshooting ................................................................................................................................29
Software License and Notices...........................................................................................................34
MxPro QPCR Software License Agreement.......................................................................34
Trademarks..........................................................................................................................36
Mx3000P and Mx3005P QPCR Systems Support..........................................................................37

MX3000P AND MX3005P QPCR SYSTEMS
COMPONENTS PROVIDED
Components Quantity
Mx3000P or Mx3005P QPCR system 1
Power cord 1
Fuse holder kit 1
Notebook or desktop computer with Windows®Vista (or equivalent) and
Office 2007 (or equivalent)a
1
Serial-to-USB adapter 1
USB driver installation CD 1
Mouse 1
RS-232 serial null modem cable (part #22316) 1
Perfect Fit frame (catalog #401421) 1
Mx3000P/Mx3005P 96-well non-skirted PCR plates (catalog #410088) 5
Mx3000P/Mx3005P optical strip caps (catalog #401425) 60 strips of 8 caps
MxPro QPCR software installation CD 1
Installation qualification test plateband plate setup instructions 1
Setup and User’s Guide 1
Installation wall chart 1
Introduction to Quantitative PCR: Methods and Application Guide 1
Warranty card 1
aThe MxPro QPCR software is compatible with Windows®XP and Windows®Vista operating systems.
bStore the qualification test plate at –20°C upon receipt.
IN #70225 J.1 Copyright © 2015 by Agilent.
Mx3000P and Mx3005P QPCR Systems Setup and User’s Guide 1

SETTING UP THE SYSTEM
Important Retain the shipping container and all packaging materials, including the wooden
pallet. In the event that the instrument needs to be returned for service, the instrument
must be shipped in the original container to maintain warranty protection.
Locating the Instrument
Select a location for the Mx3000P or Mx3005P instrument according to the
following guidelines:
•Select a flat, level surface
•Ensure that the workbench is capable of supporting at least 45 lbs
(20.4 kg)
•Allow 4 inches (10.2 cm) airflow on the front and rear of the instrument
•Position the instrument to allow easy access to the instrument power
entry module (containing the instrument power switch)
•The instrument should be installed in a location where it will not be
exposed to direct sunlight or vibration during use
Environmental Conditions for Use
•Maximum altitude: 2000 m (6562 ft)
•Ambient temperature and relative humidity range for operation:
18–35°C (65–95°F); up to 85% non-condensing humidity
•Installation Category II
Installation Category ratings establish standardized voltage levels
that may occur in the electrical distribution system. Category II is
for measurements performed on circuits directly connected to the
electrical distribution system (i.e. a wall outlet on normal single-
phase supply [115/230 VAC]).
•Pollution Degree 2
Pollution Degree ratings define the type of environment the
equipment is typically installed in. Pollution Degree 2 refers to an
office environment with occasional condensation.
•For Indoor Use Only
2 Mx3000P and Mx3005P QPCR Systems Setup and User’s Guide

Unpacking the Instrument
Note To ensure safety, we recommend that the lifting and unpacking of
the system be performed by two people.
1. Remove the instrument from the shipping container. Do not apply force
to any part of the instrument directly; instead apply force to the plastic
bag or foam supports surrounding the instrument.
Important Retain the shipping container and all packaging
materials, including the wooden pallet. In the event that
the instrument needs to be returned for service, the
instrument must be shipped in the original container to
maintain warranty protection.
2. Remove the foam and cardboard supports and the plastic bag, then
place the instrument in an appropriate location (see Locating the
Instrument).
3. Remove the tape securing the instrument door from the instrument
front.
4. Open the instrument door by pushing up on the door handle. Remove
and retain the foam used to immobilize the scanning-head on the track.
5. Move the scan arm to the left of the thermal block top.
6. To access the thermal block, unlatch the heated lid by pulling forward
on the handle and then rotating the lid up and away from the thermal
block. Gently push down on the handle to lock the lid into the open
position. To close the lid on the thermal block, gently pull up on the
handle to release. After rotating the lid back to the closed position,
gently push the handle toward the back of the instrument to lock it into
the closed position.
7. Surrounding the 96-well thermal block is a plastic Perfect Fit frame.
Remove and retain the Perfect Fit frame for later use. See the Sample
Loading section for more information about the Perfect Fit frame.
Note Par mesure de sécurité, nous recommandons
d’être deux
personnes pour soulever et pour déballer l’instrument.
Mx3000P and Mx3005P QPCR Systems Setup and User’s Guide 3

Installing the Fuse
Important Do not turn on the instrument until you have installed the
fuse holder. The fuse is required for proper instrument
operation.
1. Remove the label located over the power entry module on the back of
the instrument just above the power switch.
2. Use a small flathead screwdriver or similar tool to open the fuse box.
3. Unpack the fuse holder from its shipping container.
4 Mx3000P and Mx3005P QPCR Systems Setup and User’s Guide

4. The flat edge of the fuse holder has two different voltage labels (115V
and 230V) printed in opposite orientation to each other. With the voltage
labels facing out, insert the fuse holder into the fuse box so that the label
for the desired voltage is in the proper orientation. (If your instrument is
100-120 volts, insert the fuse holder such that the 115V label is right-
side-up. If your instrument is 200-240 volts, insert the fuse holder such
that the 230V label is right-side-up.)
5. Replace the cover on the fuse box. Verify that the correct voltage label
is visible through the cover.
Voltage label
Mx3000P and Mx3005P QPCR Systems Setup and User’s Guide 5

Connecting the Instrument to the PC
1. Verify that the power switch located at the rear of the instrument is
toggled off (the segment of the switch marked with an O symbol is
depressed). Attach the power cord to the power entry module, just
below the power switch. Plug the instrument into any properly
grounded outlet. The Mx3000P or Mx3005P system must be connected
to a power supply with the following specifications: 100–120 volts AC,
50/60 Hz, 10 A or 200–240 volts AC, 50/60 Hz, 5 A.
Note The power supply connected to the instrument should not
have any other equipment connected to it which could cause
the power available to the instrument to fall below the
requirements listed here.
2. Connect either end of the provided serial cable to the RS-232 serial port
at the rear of the instrument. If your PC has a serial port, connect the
free end of the cable to the serial port on the back or side of the
computer.
If your PC does not have a serial port, or if you are connecting an
additional instrument to the PC using the USB port, connect the free
end of the cable to the provided serial-to-USB adapter, and then plug
the adapter into the USB port on the back or side of the computer (see
Figure 1).
Figure 1 Appearance of the serial port, serial cable and USB adapter used to connect the instrument to the PC.
Note that this cable configuration is only required when using a PC that does not have a serial port or when using
the PC’s USB port to allow Multiple Instrument Control from a single PC.
3. Turn on the PC.
4. Perform any computer setup tasks required by the PC manufacturer.
6 Mx3000P and Mx3005P QPCR Systems Setup and User’s Guide

Configuring the PC and Installing the MxPro QPCR Software
1. Insert the supplied USB driver CD into the CD-ROM drive. The
software installation program will start automatically and guide you
through the installation process. Complete the hardware setup steps,
accepting all defaults. Click Finish at the end of the installation
program and remove the USB driver CD from the CD drive.
2. Click on the Windows®Start menu in the bottom left corner of the
screen to expand the menu. Select Programs or All Programs. Select
the Microsoft®Excel®icon to open the Microsoft Excel software. If the
Microsoft Excel icon is not visible, select Microsoft Office.
3. An activation Wizard will guide you through the process of activating
the Microsoft Office software. Among other items, the activation
Wizard will request acceptance of the license agreement, entry of the
product key (found on the back of the Microsoft Office installation CD
sleeve), and activation of the software either through an encrypted
transfer over the Internet or by telephone. Activation is required for
exporting the Mx3000P/Mx3005P instrument qualification test data
into a Microsoft Excel template, as described in Performing the
Instrument Qualification Test Run. Following Microsoft Office
activation, select the default choices presented by the Wizard. Close
Microsoft Excel.
Note The activation Wizard will not be displayed if the information
has been previously entered.
4. Turn on the Mx3000P or Mx3005P instrument, using the power switch
located at the rear of the instrument, and wait for both front status
indicator lights to turn on and stop blinking.
5. Insert the supplied MxPro QPCR software CD into the CD-ROM drive.
In rare cases when the installation process does not start automatically
upon insertion of the CD into the drive, select Run from the Windows
Start menu and open the Setup.exe file from the disk drive.
Mx3000P and Mx3005P QPCR Systems Setup and User’s Guide 7

6. The MxPro QPCR software installation program will start
automatically. Following the file extraction process, an installation
Wizard will guide you through the MxPro QPCR software setup
process. Click Next to continue with installation.
7. A window will open with a copy of the MxPro QPCR software license
agreement. If you accept the terms of this agreement, click the
Yes button to continue loading the software.
8 Mx3000P and Mx3005P QPCR Systems Setup and User’s Guide

8. When prompted to select an installation type, select Instrument-
Connected System and then click Next.
9. When asked to continue in the following dialog box, click Yes.
Important If a .NET Framework Initialization Error dialog box
appears, please contact Technical Services for
assistance before proceeding.
Mx3000P and Mx3005P QPCR Systems Setup and User’s Guide 9

10. When prompted to select additional MxPro installation options, select
or deselect the appropriate checkboxes and then click Next.
11. If you have purchased the optional 21 CFR Part 11-compatible features
which include user authentication, database data storage, and audit trail
support, select 21 CFR Part 11 Features in the installation window
below. A sales order number indicating purchase of these features is
required to obtain an activation key. If you do not require 21 CFR
Part 11-compatible features, click Non-21 CFR Part 11 Features.
Click Next to continue with installation.
If the 21 CFR Part 11 Features setup type is selected, continue with
step 12. If the Non-21 CFR Part 11 Features setup type is selected,
proceed to step 15.
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12. If 21 CFR Part 11 Features was selected, the next installation screen
requires that an alphanumeric activation key be entered for 21 CFR
Part 11-compatible feature purchase verification and feature activation.
The activation key can be obtained by contacting the technical services
department by phone, E-mail, or via the Agilent website. The system-
generated ID, sales order number, instrument serial number, and
purchaser and institution names are required to request and obtain an
activation key. After inputting the activation key, click Next.
Mx3000P and Mx3005P QPCR Systems Setup and User’s Guide 11

13. When prompted to select a database type for experiment storage, you
may connect to a network database, or create and connect to a local
database. If the software detects that a local database is already present,
a third option will be available to connect to the detected local
database. If you choose to create a local database, the Microsoft SQL
server desktop engine database will be installed, providing 2 GB of
storage. If you are unsure which database type to select, consult with
your Information Technology department. Click Next once a database
type is selected.
14. Depending on the database option selected, one of the following
windows will appear. Complete the appropriate fields, either entering
the database user ID and password for the selected network database, or
assigning a database password for the local database. If you are unsure
about database type, alias, user ID, and/or password fields, consult with
your Information Technology department. The database alias field can
be left blank when creating a local database if you do not wish to assign
an alias name. Click Next once the appropriate fields are populated.
12 Mx3000P and Mx3005P QPCR Systems Setup and User’s Guide

15. When prompted to choose a folder location where MxPro QPCR
software files will be stored, either accept the default destination folder
(i.e., C:\Program Files\Stratagene\MxPro) or select a different folder
location using the Browsebutton. Click Next once a folder location is
selected.
16. Once the MxPro QPCR software files and Microsoft SQL database
software files (if applicable), are installed to the designated folder
location, select Yes, I want to restart my computer now. Click Finish
from the final installation Wizard window to restart the PC.
Mx3000P and Mx3005P QPCR Systems Setup and User’s Guide 13

17. Once the PC has restarted, configure the PC Power Options. Click on
the Windows Start menu in the bottom left corner of the screen and
select Control Panel or Settings\Control Panel. Select Performance
and Maintenance/Power Options. Select the Always On Power
Scheme and then click OK.
18. Click on the MxPro desktop icon to start the MxPro QPCR software
application.
19. If the 21 CFR Part 11-compatible features are enabled, a login dialog
box will appear when the MxPro QPCR software application is opened.
In order to start the application, enter the initial case-sensitive default
username Admin and case-sensitive default password password. Click
Login.
20. The first time you log in, you will be prompted to change your
password. Enter the default password password in the field
corresponding to Old password. Enter your new personal password of
6 characters or more, re-type your personal password for verification,
and select OK.
21. The software will automatically prompt you to begin the Instrument
Qualification Test. See the following section for detailed instructions
on setting up and running this test.
14 Mx3000P and Mx3005P QPCR Systems Setup and User’s Guide

Performing the Instrument Qualification Test Run
The Instrument Qualification Test verifies that the biological performance of
an instrument experimental run is within factory specifications. Completing
the run requires approximately 2.5 hours.
The qualification test run uses the installation qualification test plate and a
preconfigured plate setup and thermal profile setup. No additional software
setup steps are required. A validation protocol Wizard will provide
instructions in a series of dialog boxes before, during, and after the run.
Since the Qualification Test is a fixed test, only the actions directed by the
validation protocol Wizard can be completed.
Do not attempt to modify the Qualification Test experiment or to
analyze data during the Qualification Test run.
Note Wear chemical-resistant powder-free gloves whenever handling
the qualification plate or other sample plates. This will ensure that
no finger oils or other debris are transferred to the optical tube
seal.
1. Prepare the installation qualification test plate just prior to starting the
run. Thaw the plate contents at room temperature for 15–30 minutes,
leaving the plate sealed in the foil wrapper while thawing.
After thawing, remove the foil wrapper and then mix the contents of the
wells by completing the following actions five times:
•Invert the plate. Use a sharp, swift, downward motion to move the
liquid to the seal on top of each well. Observe the liquid to verify
that the liquid has moved from the bottoms to the tops of the tubes.
•Re-invert the plate, and use the same motion to return the liquid to
the bottom of each well, again verifying liquid movement before
proceeding.
After completing five mixing cycles, collect the liquid at the bottom of
the wells. Brief centrifugation of the plate at 1000 rpm is highly
recommended, in order to dislodge any bubbles and to collect the
liquid.
If a plate centrifuge is not available, shake the liquid down to the
bottom of the tubes (using the same motion described above for
mixing). Shake-down the plate until the majority of the liquid is at the
bottom of the tubes and only minimal amounts of liquid are retained on
the tube seal or sides. It is important to shake-down any noticeable
liquid on the tube seal (e.g. visible semi-circles or crescent shapes when
viewed from above). Small amounts of liquid spray retained on the tube
sides should not affect test results.
Mx3000P and Mx3005P QPCR Systems Setup and User’s Guide 15