Beckman Coulter CEQ 8000 User manual

TM
718295-AB
April 2004
Beckman Coulter, Inc.
4300 North Harbor Boulevard, Fullerton, CA 92834-3100
Copyright 2004 Beckman Coulter, Inc.
CEQ™ 8000
Genetic
Analysis System
Pre-Installation Guide

Copyright, Licenses and Trademarks
 Beckman Coulter, Inc., 2004. All rights reserved. No part of this publication may be
reproduced, transcribed, transmitted, or translated into any language in any form by
any means without the written permission of Beckman Coulter, Inc.
The software is copyrighted and may not be altered or given to a third party without
the written authorization from Beckman Coulter, Inc.

Table of Contents
Pre-Installation Guide iii
Table of Contents
Table of Contents .................................................................................................................... iii
Overview....................................................................................................................................1
Pre-Installation Check List......................................................................................................1
Requirements ............................................................................................................................2
Tabletop Space ..............................................................................................................2
Ventilation .....................................................................................................................2
System Specifications................................................................................................................4
Consumable Materials Required ............................................................................................7
Sequence Analysis.........................................................................................................7
Fragment Analysis.........................................................................................................8
Materials Required but not Supplied ...................................................................................10
Optional Materials.......................................................................................................10
Training Plan...........................................................................................................................10
Technical Support...................................................................................................................11
Notes............................................................................................................................12

iv CEQ™ 8000 Genetic Analysis System

CEQ™ 8000 Genetic Analysis System Pre-Installation Guide
718295-AB
1
Overview
This guide provides the information necessary to prepare a laboratory for the
installation of the CEQ 8000 DNA Analysis System (CEQ System) prior to its
delivery to the laboratory. It also provides information concerning the post-installation
training of users of the system.
Pre-Installation Check List
The following is a summarized list of the items that must be addressed prior to
installation. Mark each item as it is completed. When these prerequisites have been
met, contact your local Beckman Coulter representative to schedule the installation.
Appropriate table or bench (see “Tabletop Space” below)
Suitable laboratory environment (see “Table 1 on page 4)
Suitable power source (see “Table 1 on page 4)
Consumable items (see “Table 2 on page 7)
Customer supplied equipment and materials (“Table 2 on page 7)
Training prerequisites met (“Training Plan” on page 10)
Instrument Serial Number:
Software Version:
Firmware Version:
Dealer Name:
Dealer Phone Number:

Requirements CEQ™ 8000 Genetic Analysis System
2
Requirements
Tabletop Space
The CEQ System is comprised of the DNA analysis instrument, an IBM PC (tower), a
monitor, keyboard, mouse and an optional printer. Figure 1 shows the overall system.
Figure 2 shows the footprint and dimensions of the DNA analysis instrument. Use this
information along with the “weight” entry in Table 1 to select an appropriate table or
bench for the system.
Ensure that the system is placed on a surface that is level and
strong enough to support in excess of 200 lbs.
Ventilation
To provide adequate ventilation and convenient access to cabling, allow for ten inches
on the left side (facing instrument) of the instrument as well as at the rear of the IBM
PC and the printer. All other sides of the equipment should have a six inch clear space
to ensure proper ventilation (see Figure 2 for the system dimensions).
Figure 1: CEQ System Components
CAUTION
60”
900466L.AI
XL
TM
152½cm

Pre-Installation Guide Requirements
3
Figure 2: System Footprint and Dimensions
271/8"
68.90cm
241/8"
61.28cm
223/8"
56.83cm
900467.AI
361/2"
92.70cm
HVLASERPWR

System Specifications CEQ™ 8000 Genetic Analysis System
4
System Specifications
Table 1 lists the specifications of the CEQ System. Use this information to prepare the
environment where the system will be located.
The CEQ System is designed for indoor use only.
Table 1: System Specifications
Item Description
Weight (CEQ) 70.5Kg (155lbs)
Power Requirements The supply voltage must not exceed 10% of
nominal.
CEQ 100-240VAC, 5.0A, 50/60Hz
PC (typical) 6.0A, 50/60Hz
Monitor (17” typical) 1.8A, 50/60Hz
Fuses (CEQ) 6.3A Time Delay; 20mm (2 ea.); 200-240VAC
Maximum Heat Dissipation
(to room)
CEQ 400W (1365 BTUs/Hour)
PC and Monitor 936W (3194 BTUs/Hour)
Ambient Operating
Temperature Range
15-30°C (59-86°F)
Humidity Restrictions <85% (non-condensing) @ 30°C (86°F)
Altitude Restrictions up to 2000m (6,562ft)
PC (Tower)
Minimum Specifications
Beckman certified controller. For specific features, contact your local
Beckman Coulter, Inc. Sales and Service office.
Installation Category Category II
Pollution Degree 2
Laser Category Class 1
This instrument uses a “Class 3B” laser. The
laser is housed in a sealed container. During
normal operation of the system, laser light is not
accessible to the user. Therefore, overall laser
classification of the sequencer is “Class 1.”
CAUTION
CAUTION
WARNING

Pre-Installation Guide System Specifications
5
EMI Effect on CEQ™ (2000 Series / 8000 Series) Performance and Recommended
Mitigations
Under the test conditions specified by the European normative electromagnetic
compatibility standard EN 61326-1, the CEQ instrument may exhibit temporary
degradations in performance in accordance with the table below.
Because the environmental circumstances contributing to the problem can vary,
several different mitigation techniques have been provided that should help eliminate
or reduce the interference.
The CEQ system requires four grounded electrical
receptacles. The power line to the laboratory should be
connected directly from a main power line transformer of a
power source that is known to be clear of erratic power loads,
spikes and electromagnetic interference.
Power lines used with this system must have an adequate
reserve capacity to allow for start-up loads and the additional
equipment of this system. Beckman Coulter recommends that
the normal loading not exceed 50% of the nominal capacity of
the power lines.
Test Condition Effect on Performance Mitigation
Radio Frequency
Field
Interference(RFI)
System exposed
to electromagnetic
field strengths of
greater than or
equal to 3 V / m at
multiple frequency
bands.
May cause temporary degradation
of base calling accuracy. In some
cases, significant noise will appear
in the measured results. Will
return to normal performance
once exposure is removed.
• Re-run sample.
• Move location of the product
by several meters.
• Change the orientation of the
equipment by 90 degrees.
• Avoid using transmitters or
cellular phones within 1 meter
of the equipment.
• Review the temperatures in
the run log for any anomalies
and re-run as necessary.
May cause temporary loss of
capillary temperature control
resulting in lower than expected
capillary temperature. Affect will
be documented in the run log. Will
return to normal performance
once exposure is removed.
May cause temporary loss of
capillary temperature control
resulting in run not being initiated
because temperature cannot
reach desired level.
• Apply mitigation techniques
above.
• Disabling the temperature
limit feature in the Method Edit
screen (Capillary
Temperature box) will allow
the run to be performed
without desired temperature
being reached.
CAUTION

System Specifications CEQ™ 8000 Genetic Analysis System
6
Installation of the CEQ 8000 PC controller onto a local network is
not required for the system to operate. Installation, support and
administration of local networks or internet connections are the
responsibility of the user. Network and internet connections can
expose the system to security risks, potential loss of data and possible
system damage caused by hackers, software viruses or other external
factors. It is the users responsibility to ensure that appropriate secu-
rity measures, anti-virus software, firewalls and procedures have
been implemented.

Pre-Installation Guide Consumable Materials Required
7
Consumable Materials Required
Sequence Analysis
Table 2 provides a list of the required consumable items for performing sequence
analysis using the CEQ 8000.
Table 2: Required Consumable Materials for Sequence Analysis
Item P/N QTYaDescription
DTCS Kit (DNA
Sequencing RXN Kit)
or
608000 1 Dye Terminator Cycle Sequencing Kit for 96 reactions.
Includes:
•DNApolymerase
• CEQ Dye Terminators (ddUTP, ddGTP, ddCTP,
ddATP)
• dNTP Mix Solution
• Sequencing Reaction Buffer
• pUC18 Control Template
• -47 Sequencing Primer
•Glycogen
•MineralOil
• Sample Loading Solution (SLS)
DTCS Quick Start Kit 608120 1 Dye Terminator Cycle Sequencing Kit for 96 reactions
in a single tube containing:
•DNApolymerase
• CEQ Dye Terminators (ddUTP, ddGTP, ddCTP,
ddATP)
• dNTP Mix Solution
• Sequencing Reaction Buffer
• pUC18 Control Template
• -47 Sequencing Primer
•Glycogen
•MineralOil
• Sample Loading Solution (SLS)
CEQ Separation Gel
LPA 1
608010 1 11.5 mL of gel in CEQ 8000 compatible container.
Sufficient for 12 fills of the Capillary Array (96
sequencing runs).
CEQ Separation Buffer 608012 1 Each container has a screw top and pour tip. The
container has enough buffer (30 mL) to fill a CEQ
System 96-well, flat bottom Buffer Plate. (Each well
being ¾ full.) 4/Pack
DNA Separation
Capillary Array 33-75B
608087 1 Eight capillaries, 75 µm i.d., 33 cm long, 200 o.d.
complete with electrode block and detector array fitting.
Ready for installation into CEQ 8000.
Microtiter Plates 373660 Box Package of 100 flat-bottom polystyrene plates,
nonsterile, without lids. Required for use as the CEQ
8000 Separation Buffer Plate.

Consumable Materials Required CEQ™ 8000 Genetic Analysis System
8
Fragment Analysis
Table 3 provides a list of the required consumable items for the performing fragment
analysis using the CEQ 8000.
96-Well Sample Plate 609801 Box Package of 25 V-bottom thermal cycler-compatible
polypropylene plates with 200 µL volume capacity.
Required for use as the CEQ 8000 sample plate. 25
Plates/Box
a. Contact your local Beckman Coulter representative for specific consumable material requirements based on your
application and frequency of use.
Table 3: Required Consumable Materials for Fragment Analysis
Item P/N QTYaDescription
DNA Separation
Capillary Array 33-75B
608087 1 Eight capillaries, 75 µm i.d., 33 cm long, 200 o.d.
complete with electrode block and detector array
fitting. Ready for installation into CEQ 8000.
CEQ Separation Gel
LPA 1
608010 1 11.5 mL of gel in CEQ 8000 compatible container.
Sufficient for 12 fills of the Capillary Array (96
sequencing runs).
CEQ Separation Buffer 608012 1 Each container has a screw top and pour tip. The
container has enough buffer (30 mL) to fill a CEQ
System 96-well, flat bottom Buffer Plate. (Each well
being ¾ full.) 4/Pack
CEQ DNA Size Standard
Kit - 80
608395 1 Contains fragments of 13 and 80 nucleotides designed
to accomodate a wide range of sizes for multiplexed
and poolplexed SNP fragments.
CEQ DNA Size Standard
Kit - 400
608098 1 DNA size standard for analysis of fragments up to 400
nucleotides. Includes:
• Mineral Oil
• DNA fragments of the following sizes labeled with
CEQ WellRED fluorescent dye: 60, 70, 80, 90, 100,
120, 140, 160, 180, 190, 200, 220, 240, 260, 280,
300, 320, 340, 360, 380, 400, and 420 nucleotides
Sufficient for 96 fragment analysis separations.
Table 2: Required Consumable Materials for Sequence Analysis
Item P/N QTYaDescription

Pre-Installation Guide Consumable Materials Required
9
CEQ DNA Size Standard
Kit - 600
608095 1 DNA size standard for analysis of fragments up to 600
nucleotides. Includes:
•MineralOil
• DNA fragments of the following sizes labeled with
CEQ WellRED fluorescent dye: 60, 70, 80, 90, 100,
120, 140, 160, 180, 190, 200, 220, 240, 260, 280,
300, 320, 340, 360, 380, 400, 420, 440, 460, 480,
500, 520, 540, 560, 580, 600, 620, and 640
nucleotides
Sufficient for 96 fragment analysis separations.
CEQ SNP-Primer
Extension Kit.
390280 1 Includes:
• DNA Polymerase
• CEQ dye-labeled terminators (ddUTP, ddGTP,
ddCTP, ddATP)
• Reaction buffer
•Mineraloil
Sufficient for 96 reactions.
CEQ Sample Loading
Solution (SLS)
608082 1 Sample Loading Solution (SLS), 6.0 mL
Microtiter Plates 373660 Box Package of 100 flat-bottom polystyrene plates,
nonsterile, without lids. Required for use as the CEQ
8000 Separation Buffer Plate.
96-Well Sample Plate 609801 Box Package of 25 V-bottom thermal cycler-compatible
polypropylene plates with 200 µL volume capacity.
Required for use as the CEQ 8000 sample plate. 25
Plates/Box
a. Contact your local Beckman Coulter representative for specific consumable material requirements based on your
application and frequency of use.
Table 3: Required Consumable Materials for Fragment Analysis
Item P/N QTYaDescription

Materials Required but not Supplied CEQ™ 8000 Genetic Analysis System
10
Materials Required but not Supplied
Optional Materials
• Aluminum Foil Seal and Sample, P/N 538619
• Thermowell™ Cap Strips - Corning Cat. # 6556 (not supplied by Beckman,
Coulter, Inc.)
Training Plan
Basic training should take place immediately following the installation of the system.
The Beckman Coulter Field Engineer will train two users in basic instrument
operation, use of the software program and routine maintenance. (Advanced training
sessions may be scheduled for an additional fee. Contact your local Beckman Coulter
representative for more information.)
To optimize the training session, the following prerequisites have been established for
users:
• Experience in the handling of biological samples
• Working knowledge of the Windows® Operating System
• Familiarity with DNA sequencing and/or fragment analysis
Beckman Coulter Field Engineers do not provide Windows training.
Sequence
Analysis
Fragment
Analysis
Refrigerated microfuge ✔✔
Molecular Biology Grade: sterile dH2O, 95% (v/v) ethanol/dH2O, 70%
(v/v) ethanol/ dH2O✔✔
Sterile tubes - 0.5 mL microfuge, 0.2 mL thin wall thermal cycling tubes or
plates ✔✔
Thermal cycler with heated lid ✔✔
CEQ Sample Loading Solution (SLS) —✔
Microduster III AccTech, P/N: 58019-538 (VWR) ✔✔
Mini Alpha Swab from Texwipe, P/N: TX754B (VWR) ✔✔
20 mg/mL Glycogen - Boehringer Mannheim Cat. # 901 393 —✔
3M Sodium Acetate pH5.2 - Sigma, Cat. # S7899 ✔✔
100mM Na2-EDTA pH8.0 (500 mM Sigma Cat. # 7889) ✔—
PCR enzyme and buffer —✔
Labeled primers (available from Research Genetics) —✔

Pre-Installation Guide Technical Support
11
Technical Support
If you have any questions concerning this document or you need additional
information prior to installation, contact your local Beckman Coulter representative.

Technical Support CEQ™ 8000 Genetic Analysis System
12
Notes