Operator’s Manual
Software Version 2.1 for cobas® 4800
CT/NG Test
4800 System
cobas® 4800 System
CUS
®
CT/NG Test
Document information
Manual versionRevision datesMain changes
1.1May 2014Change to error messages and reagent loading positions.
Table 1Revision history
Edition notice Every effort has been made to ensure that the information contained in this manual is
accurate at the time of printing. Not all functionality described in this manual may be
available to all users. Roche reserves the right to make any further required changes
to software without prior notice. Such changes may not immediately be reflected in
this document.
The screenshots in this publication have been added exclusively for the purpose of
illustration. Configurable and variable data such as parameters, results, path names
etc. visible therein must not be used for laboratory purposes.
Intended use
This manual is for users of the cobas® 4800 CT/NG Test on the cobas
Before using the test, it is important that the operator reads the cobas
System Manual and this manual thoroughly.
U
For additional information, refer to the test-specific package insert.
Trademarks The following trademarks are acknowledged:
COBAS, COBAS X, COBAS Z, and LIFE NEEDS ANSWERS are trademarks of
Roche.
All other trademarks are the property of their respective owners.
Feedback Every effort has been made to ensure that this manual fulfils the intended purpose as
mentioned above. All feedback on any aspect of this manual is welcome and will be
considered during updates. Please contact your Roche representative, should you
have any such feedback.
Instrument approvals This manual meets the European Standard EN ISO 18113-3.
Compliance is demonstrated by the following marks:
Complies with the IVD directive 98/79/EC.
®
4800 System.
®
4800 System
Roche Diagnostics
2cobas® 4800 System, Operator’s Manual · Version 1.1
Issued by Underwriters Laboratories, Inc. (UL) for Canada and the US.
Abbreviations The following abbreviations are used:
AbbreviationDefinition
PC
Table 2Abbreviations
PreservCyt
®
cobas® 4800 System
CT/NG Test
Contact addresses
What is new in version 2.1
Workflow Recovery workflow run can be generated from a previously performed run within 24
hours. The PCR Only workflow has been renamed and improved to recovery
workflow.
Roche Molecular Systems, Inc.
1080 US Highway 202 South
Branchburg, NJ 08876
USA
Made in Switzerland
6cobas® 4800 System, Operator’s Manual · Version 1.1
cobas® 4800 SystemOverview
CT/NG TestGeneral safety information
Overview
General safety information
Test-specific safety information is contained in this manual. For general safety
®
4800
Overview of the test
information (e.g. safety classifications, safety precautions), read the cobas
System System Manual.
The cobas® 4800 CT/NG Test is an in vitro nucleic acid amplification test for the
qualitative detection of Chlamydia trachomatis (CT) and/or Neisseria gonorrhoeae (NG) in patient specimens.
The following sample carrier can be used for CT/NG testing:
oPreservCyt® carrier with PreservCyt
®
primary containers
o24-position sample carrier with primary cobas® PCR Media tubes or secondary
tubes
U
For more information about the test (e.g. minimum sample volumes), refer to the testspecific package insert.
About specimen types
WARNING
The following specimen types are supported:
Test typeSpecimen typeAbbreviationCarrier used
CT/NGSwab-24-position sample carrier
Urine-24-position sample carrier
PreservCyt®PC
oPreservCyt® carrier
(primary tubes)
o24-position sample
carrier (secondary
tubes)
Table 3Specimen types
Incorrect results due to use of non-approved specimen types
Supported specimen types may vary by region. Refer to the test-specific package insert for
your region for supported specimen types.
r Use only specimen types that are approved by Roche.
U For details about the types of secondary tubes you can use, refer to the test-specific
package insert.
Roche Diagnostics
cobas® 4800 System, Operator’s Manual · Version 1.17
Overviewcobas® 4800 System
About workflow typesCT/NG Test
About workflow types
Two workflow types are supported. The workflow type has to be selected at the start
of a new run.
Full workflow The full workflow covers sample preparation on the cobas x 480 instrument and
amplification and detection on the cobas z 480 analyzer.
Recovery workflow The recovery workflow allows you to recover aborted runs which were pipetted
correctly into the deepwell plate or microwell plate. For example, you drop the
microwell plate while transferring it to the analyzer.
You manually pipette residual eluate from the deepwell plate into the new microwell
plate and add new master mix reagent and Mn reagent.
To recover a run, the following criteria must be fulfilled:
oInstrument and analyzer are turned on and maintenance has been performed.
oA full workflow run has been performed and the samples successfully prepared.
oA full workflow run has been performed in the last 24 hours.
oA full workflow run has been aborted by a user (M2 flag) or the analyzer (Z1 flag).
About the test concept
The recovery workflow run is only validated to work with extract from an
instrument.
U
For stability of eluates, refer to the test-specific package insert.
Figure 1Workflow and test type selection at the start of a new run
Tests are run in batches.
For more details about batch sizes, throughput, or mixed batch runs, refer to the test-
U
specific package insert.
About subtests
The analyzer can simultaneously detect signal from one or more detection channels,
which makes it possible to obtain more information from a single reaction. This
provides multiple subtests for each test type.
Subtests can be ordered for each sample individually using the sample editor.
U
For information about the sample editor, see Sample editor (p. 51)
Roche Diagnostics
8cobas® 4800 System, Operator’s Manual · Version 1.1
cobas® 4800 SystemOverview
CT/NG TestAbout reagents
The following subtests are available:
Main test typeSubtestsResults
CT/NGCT and NG in combinationCT/NG
CT onlyCT
NG onlyNG
Table 4Subtests
About reagents
Reagent kit sizes Individual reagent kits are available for the following run sizes:
o10 runs with 24 samples (up to 22 patient specimens plus 2 controls)
o10 runs with 96 samples (up to 94 patient specimens plus 2 controls)
NOTICE
Kit size
oMake sure that the kit size corresponds to the intended run size. Although not an
optimal use of reagents, a 96 kit size can be used for a 24 run.
oFor the most efficient reagent utilization, it is advisable to maximize the number of
patient specimens processed within a run. Remaining reagents cannot be used later
for another run.
Reagent handling Some reagents are poured into reagent reservoirs and then placed onto their
dedicated positions on the reagent reservoir carriers.
Other reagents are ready to use. They are decapped and then placed onto their
dedicated positions on the reagent carrier.
Reagent expiry time zone offset
The reagent expiry date is based on the Coordinated Universal Time (UTC). The local time
CAUTION
for reagent expiry could be offset by plus or minus 12 hours, depending on the local time
zone relative to UTC.
r Check the reagent expiry date and consider that it is based on UTC.
U For instructions on handling and storage of reagents, refer to the test-specific package
insert.
Controls Two external controls (positive control and negative control) are provided in a
control kit. Controls are always processed on position A1 and B1 respectively of the
deepwell and microwell plates.
All controls are homogeneous and do not require vortexing or shaking prior to
loading on the instrument.
U
For instructions on handling and storage of controls, refer to the test-specific package
insert.
Controls are loaded on the reagent carrier not the sample carrier.
Q
Roche Diagnostics
cobas® 4800 System, Operator’s Manual · Version 1.19
Workflowcobas® 4800 System
About workflowsCT/NG Test
Workflow
In this chapter the different workflows are described.
About workflows
The following workflow types are available.
WorkflowDescriptionOrdering
Full workflow
(with or without LIS)
Recovery workflow
(with or without LIS)
Table 5Workflow types
Sample preparation and
amplification and detection
Manual PCR setup and
amplification and detection
LIS or work order file
-
Roche Diagnostics
10cobas® 4800 System, Operator’s Manual · Version 1.1
The full workflow with and without LIS is shown below.
Figure 2Full workflow (with and without LIS)
Roche Diagnostics
cobas® 4800 System, Operator’s Manual · Version 1.111
Workflowcobas® 4800 System
Overview of full workflowCT/NG Test
Infection by samples and associated materials due to inappropriate laboratory
practices
WARNING
Follow Good Laboratory Practices, especially when working with biohazardous material. If
Good Laboratory Practices are not followed, contact with biohazardous material may
occur, resulting in infection.
r Do not eat, drink, or smoke in laboratory work areas.
r Wear lab gloves and lab coats whenever preparing consumables, reagents, samples, or
when cleaning.
r Wear eye protection when handling samples. Wash hands thoroughly afterwards.
Full workflow short guide
The following short guide is a summary of the workflow without details.
For a complete and detailed description of the workflow, see Performing a full workflow
U
run (p. 18)
StepUser action
1
Start up the system.Switch on the analyzer, heater/shaker unit, and
instrument
1. Switch on the analyzer.
2. Switch on heater/shaker unit.
3. Switch on the instrument.
Start up and log on to the software
1. Switch on the monitor and control unit.
2. Log on to the software.
2
Perform instrument
maintenance.
1. Choose Overview > System > cobas x 480 tab
and check maintenance status of the
instrument.
oIf weekly maintenance is due, choose the
Perform weekly maintenance button.
oIf daily maintenance is due, choose the Perform
daily maintenance button.
Follow the instructions displayed on the monitor.
3
Remove samples and reagents
from storage.
4
Start new run.1. Choose (New run).
Table 6Full workflow short guide (with or without LIS)
Roche Diagnostics
12cobas® 4800 System, Operator’s Manual · Version 1.1
U For instructions on storage and handling of
reagents, samples and controls, refer to testspecific package insert.
2. Select the Full option.
3. Select the CT/NG check box.
4. Optionally, type a run name.
5. Choose the OK button.
cobas® 4800 SystemWorkflow
CT/NG TestOverview of full workflow
StepUser action
5
Load samples.1. Decap samples.
2. Place samples on corresponding carrier.
3. Insert sample carriers on autoload tray.
4. Choose the Load specimen button.
6
With LIS, confirm the work order
or
Without LIS, create the work
order.
7
Load consumables.1. Place listed consumables on appropriate
With LIS:
1. Confirm the work order and choose the Next
button.
or
Without LIS:
1. Define the type of specimen.
2. Define the requested result.
3. Choose the Next button.
carriers.
2. Insert carriers on autoload tray.
3. Choose the Load consumables button.
8
Load reagents.200 mL reagent reservoir carrier
1. Load wash buffer reagent 200 mL on reagent
reservoir carrier as indicated in the wizard
(scan-scan-pour-place principle).
2. Insert carrier on autoload tray.
3. Choose the Load reagents button.
50 mL reagent reservoir carrier
1. Load reagents on 50 mL reagent reservoir
carrier as indicated in the wizard (scan-scanpour-place principle).
2. Insert carrier on autoload tray.
3. Choose the Load reagents button.
Reagent carrier
1. Open reagent vials and load them on reagent
carrier as indicated in the wizard.
2. Insert carrier on autoload tray.
3. Choose the Load reagents button.
9
Start sample preparation run.1. Choose the Start run button.
The sample preparation starts.
2. Check the timer in the wizard.
Table 6Full workflow short guide (with or without LIS)
Roche Diagnostics
cobas® 4800 System, Operator’s Manual · Version 1.113
Workflowcobas® 4800 System
Overview of recovery workflowCT/NG Test
StepUser action
10
Unload and seal microwell plate.1. To review the results of the sample preparation,
choose the Sample Preparation results button.
2. Choose the Unload button.
3. Seal the microwell plate as indicated on screen.
4. Choose the Next button.
11
Remove used reagents, samples,
and deepwell plate.
12
Load microwell plate on to the
analyzer.
1. Remove used reagents, samples, and deepwell
plate from the instrument.
1. Press the load button on the analyzer.
2. Place the sealed microwell plate into the
microwell plate loader.
3. Press the load button again.
The amplification and detection run starts
automatically.
4. Check the timer in the wizard.
13
Review result and accept results.1. Choose the Show result button.
2. Review and accept results in Results work area.
3. Select results and choose (Print) to print
the results report, if required.
14
With LIS, send the results to LIS.Consider that depending on the configuration, all
results are transferred to LIS or only accepted
results are transferred to LIS. Control results are
always uploaded to LIS.
1. Select a result or group of results and choose the
Send results to LIS button.
15
Unload the microwell plate from
the analyzer.
Table 6Full workflow short guide (with or without LIS)
1. Unload the microwell plate from the analyzer as
soon as is practical after the run has finished.
2. Discard the microwell plate according to the
appropriate local regulations.
Overview of recovery workflow
The recovery workflow allows you to recover failed runs where the sample has been
successfully prepared. A run can only be recovered one time.
The recovery workflow is shown below.
Roche Diagnostics
14cobas® 4800 System, Operator’s Manual · Version 1.1
cobas® 4800 SystemWorkflow
Sample preparation cobas
x 480 instrument
Sample and reagent handling
area
cobas 4800 software
$PSOLÀFDWLRQ'HWHFWLRQ
cobas z 480 analyzer
1
Start recovery run
5
Remove deepewell plate
6
Load microwell plate into analyzer
2
6HOHFWUXQDQGDGG,'V
3
Print plate layout report
4
Get deepwell plate
5
Set up microwell plate
7
Review results
9
Unload analyzer
8
With LIS: send results
to LIS
CT/NG TestOverview of recovery workflow
Figure 3Recovery workflow
Recovery workflow short guide
CAUTION
Infection by samples and associated materials due to inappropriate laboratory
practices
Follow Good Laboratory Practices, especially when working with biohazardous material. If
Good Laboratory Practices are not followed, contact with biohazardous material may
occur, resulting in infection.
r Do not eat, drink, or smoke in laboratory work areas.
r Wear lab gloves and lab coats whenever preparing consumables, reagents, samples, or
when cleaning.
r Wear eye protection when handling samples. Wash hands thoroughly afterwards.
The following short guide is a summary of the workflow without details.
For a complete and detailed description of the workflow, see Performing a recovery
U
workflow run (p. 42)
Roche Diagnostics
cobas® 4800 System, Operator’s Manual · Version 1.115
Workflowcobas® 4800 System
Overview of recovery workflowCT/NG Test
StepUser action
1
Start a recovery workflow run.1. Choose (New run).
2. Select the Recovery option.
3. Select the CT/NG check box.
4. Optionally, type a run name.
5. Choose the OK button.
2
Select the run to recover and add
new IDs
3
Print the microwell plate layout.1. To print the work order file for microwell plate
1. Choose the run to recover.
2. In the Microwell plate ID field, scan the
microwell plate barcode.
3. In the Master Mix ID field, scan the master mix
reagent barcode.
4. In the Mn Reagent ID field, scan the Mn
reagent barcode.
setup, choose(Print) from the global
navigation bar.
2. In the software, choose the Next button.
4
Get the deepwell plate.
1. Do one of the following:
oIf the deepwell plate has been unloaded by
the instrument, remove it from the plate
carrier, or
oIf the deepwell plate has been stored, get it
from storage, or
oIf the deepwell plate has not been unloaded
by the instrument, unload the deepwell
plate manually.
U For details how to unload the instrument
manually, refer to the cobas
System Manual.
5
Set up the new microwell plate.1. Pipette the reagents and prepared specimens
into the microwell plate in accordance with the
microwell plate layout and the description in
the test-specific package insert.
2. Seal the microwell plate.
3. If necessary, log back on to the software.
4. In the software, choose the Next button.
6
Load microwell plate into the
analyzer.
1. Press the load button on the analyzer.
2. Place the sealed microwell plate into the
microwell plate loader.
3. Press the load button again.
The amplification and detection run starts
automatically.
4. Check the timer in the wizard.
®
4800 System
Table 7Recovery workflow short guide
Roche Diagnostics
16cobas® 4800 System, Operator’s Manual · Version 1.1
cobas® 4800 SystemWorkflow
CT/NG Test
StepUser action
7
Review and accept results.1. Choose the Show result button.
2. Review and accept results in Results work area.
3. Select results and choose (Print) to print
the results report, if required.
8
With LIS, send the results to LIS.Consider that depending on the configuration, all
results are transferred to LIS or only accepted
results are transferred to LIS. Control results are
always uploaded to LIS.
1. Select a result or group of results and choose the
Send results to LIS button.
9
Unload the microwell plate from
the analyzer.
Table 7Recovery workflow short guide
1. Unload the microwell plate from the analyzer as
soon as is practical after the run has finished.
2. Discard the microwell plate according to the
appropriate local regulations.
Roche Diagnostics
cobas® 4800 System, Operator’s Manual · Version 1.117
Operationcobas® 4800 System
Safety informationCT/NG Test
Operation
In this chapter the operation of the system is described.
Safety information
Considerations before operation
Make sure that you have read and understood the chapter General safety information in
the cobas®4800 System System Manual. The following safety messages in particular are
relevant:
r Warning messages:
oLoss of sight due to staring into the laser beam
oInfection by samples and associated materials
oInfection and injury due to sharp objects
oInfection by biohazardous waste
oContamination of the environment by liquid waste and solid waste
r Caution messages:
oPersonal injury due to contact with moving parts
oSkin inflammation or injury caused by reagents
oPersonal injury due to hot surface
r Safety precautions:
oOperator qualification
r Observe the illustrated system safety labels from the cobas
Manual
®
4800 System System
Performing a full workflow run
The following procedures guide you through all required steps to perform a full
workflow run with sample preparation on the instrument and amplification and
detection on the analyzer. The procedures cover both working modes: with and
without LIS. Steps that only apply to one working mode are indicated accordingly.
Performing startup procedures
NOTICE
Roche Diagnostics
18cobas® 4800 System, Operator’s Manual · Version 1.1
Instrument damage due to improper handling
To prevent hardware damage, follow the steps in the exact order outlined when starting up
the system.
To start up the system, it is important that you perform the following steps in this
exact order:
1. Switch on the analyzer.
2. Switch on the heater/shaker unit.
3. Switch on the instrument.
4. Start up the software.
cobas® 4800 SystemOperation
A
A
CT/NG TestPerforming a full workflow run
P To switch on the analyzer
1
Switch on the analyzer. The power switch is located at the back of the analyzer.
The analyzer is powered on and initializes.
A Power switch of the analyzer
Figure 4Switching on the analyzer
S
P To switch on the heater/shaker unit
1
Switch on the heater/shaker unit. The switch is located at the front of the
heater/shaker controller box.
A Power switch of heater/shaker controller box
Figure 5Switching on the heater/shaker unit
S
Roche Diagnostics
cobas® 4800 System, Operator’s Manual · Version 1.119
Operationcobas® 4800 System
A
Performing a full workflow runCT/NG Test
P To switch on the instrument
1
Switch on the instrument. The power switch is located at the front of the
instrument.
The instrument is powered on and initializes.
WARNING
A Power switch of the instrument
Figure 6Switching on the instrument
Delay of results due to improper handling
Turning the power of the instrument off during a run can lead to a sample rerun.
r Do not turn off the instrument power during a run.
S
P To start up and log on to the software
1
Switch on the monitor and control unit.
After the Windows operating system starts, double-click the cobas 4800 v2.1
desktop icon to open the software.
The software displays the System overview tab.
2
Choose (Log on) to log on and enter your assigned user ID and password.
3
Choose the OK button.
Q
oThe user ID is not case-sensitive.
oThe password is case-sensitive. The password displays as asterisks when typed to
maintain security.
S
Roche Diagnostics
20cobas® 4800 System, Operator’s Manual · Version 1.1
cobas® 4800 SystemOperation
CT/NG TestPerforming a full workflow run
Performing maintenance
Periodic maintenance needs to be performed in order to ensure safe and reliable
operation of the instrument.
NOTICE
Periodic maintenance
oPerforming daily and weekly maintenance is mandatory. A sample preparation run can
only be started when maintenance is done.
oIf any parts of the instrument or carriers have become contaminated, the weekly
maintenance procedure must be performed.
oCounters are reset to twenty-four hours when daily maintenance is performed. If
weekly maintenance is being performed, daily maintenance is not required on that day.
P To perform daily or weekly maintenance on the instrument
1
To check the maintenance status, choose Overview > System > cobas x 480 tab.
Figure 7Checking the maintenance status
2
Do one of the following:
oIf the weekly maintenance is due, choose the Perform weekly maintenance
button and follow the instructions displayed on the monitor.
U
For more details about weekly maintenance, refer to the cobas®4800 System System
Manual.
oIf the daily maintenance is due, choose the Perform daily maintenance
button and follow the instructions displayed on the monitor.
For more details about daily maintenance, refer to the cobas®4800 System System
U
Manual.
S
Removing the samples and reagents from storage
The reagents that you need to perform the run depends on the run size.
U
For instructions on storage and handling of reagents, samples and controls, refer to testspecific package insert.
Roche Diagnostics
cobas® 4800 System, Operator’s Manual · Version 1.121
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