Optigene Genie III User manual

User Manual
(Instrument Software Version v3.18.2)

Unit 5, Blatchford Road
Horsham
West Sussex
RH13 5QR
United Kingdom
Tel: [phone]
Fax: [phone]
www.optigene.co.uk
[email protected]
If you have any feedback or comments about the instrument please email:
feedbac[email protected]
Information in this document is subject to change without notice.
OptiGene Ltd. assumes no responsibility for any errors that may appear in this document. This document is believed
to be complete and accurate at the time of publication.
In no event shall OptiGene Ltd. be liable for incidental, multiple, or consequential damages in connection with or
arising from use of this document.
Genie® III and its design is a registered trademark of OptiGene Ltd. or its subsidiaries in the UK and other countries.

SAFETY NOTICES ................................ 3
SUPPORT ............................................ 6
How to obtain support....................... 6
Supported consumables .................... 6
BOX CONTENTS .................................. 7
SITE PREPARATION ............................ 8
How to set up Genie® III .................... 8
Connections ....................................... 9
Opening & Closing the Lid.................. 9
Inserting Tubes .................................. 9
Battery ............................................. 10
Battery monitor ............................... 11
Screen Brightness Control ............... 12
USER INTERFACE .............................. 13
Genie® III Welcome Screen .............. 13
Main Menu ...................................... 14
Toolbox ............................................ 14
Buttons......................................... 14
Power ........................................... 15
Colours ......................................... 15
Wireless ....................................... 16
Utilities ......................................... 16
Touchscreen calibration .............. 17
Lid Sensors ................................... 18
Date and Time .............................. 19
Admin ........................................... 19
Copy & Paste ................................ 21
Run ................................................... 23
Quick Start ................................... 23
Profile Screen ............................... 23
To create a new profile ................ 24
To load a saved profile ................ 25
Active ............................................... 28
Profile .......................................... 28
Temperature ................................ 28
Amplification ............................... 29
Anneal .......................................... 29
Results ......................................... 30
Additional Options ....................... 33
View ................................................. 36
GENIE RESULT CALLING ................... 39
Overview .......................................... 39
Result Calling Interface .................... 39
Target parameters ....................... 40
Regions of interest ....................... 42
Result Definitions ........................ 48
Overall Result .............................. 49
CONNECTING TO EXTERNAL DEVICES
......................................................... 52
Pendrive ........................................... 52
Wired Connection ............................ 52
Wireless Connection ........................ 54
Genie® III Software updates ............ 62
GENIE® III TECHNICAL SPECIFICATION
......................................................... 65
Table of Contents

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SAFETY NOTICES
Please read the following notices carefully before
using Genie® III.
The Genie® III is specifically designed to run any isothermal amplification method that employs
target detection by fluorescence measurement. Genie® III will detect all dyes that can be
excited from a blue light source and with an emission between 510 and 560 nm and all dyes
excited by a yellow light source with an emission above 620 nm. Further uses include enzyme
kinetic analysis and protein denaturation analysis using fluorescent dyes.
The equipment supplied has been designed to be completely safe to use. However to avoid any
risk to the safety of the equipment, operator, or anybody in the vicinity of the equipment,
please read this chapter before unpacking and using the instrument. If there is any doubt as to
the correct use of the equipment contact the vendor.
Notices
Using the instrument in a manner not specified by OptiGene may result in
personal injury or damage to the instrument and the protection provided by the
equipment may be impaired.
Always ensure that the surface on which the instrument is placed is level and
stable and will not cause the instrument to topple over. Ensure that the surface
is suitable for the weight and size of the instrument. If the instrument is
dropped it may be damaged.
The instrument should never be lifted by its covers. Always ensure that the base
or sides are used as the lifting point.
Chapter

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The instrument is electrically powered. Please ensure that the correct voltage
settings have been applied before applying power to the instrument. If in doubt
consult a qualified electrician. The instrument has a rating label affixed to the rear.
Please consult this if needed.
Always disconnect the equipment before moving or removing any guards or
covers. Switch off at the mains, remove the mains plug from the wall socket and
remove the cable from the inlet socket on the rear.
The instrument carries an IP60 rating. This means it is protected from total dust
ingress. This only applies when the lid on the top and the lip on the back are
closed. If fluids are spilt on the instrument when the lid is open they may cause
damage and cause an electrical hazard.
If a spill occurs, remove power from the instrument. Do not touch the
instrument or any fluid flowing from it while it is connected to the mains supply.
Always follow local health and safety guidelines.
Normal safe local operating standards should be applied at all times. The warnings above are
for guidance only. Please consult the instrument supplier if there is any doubt.
Disconnection Method
Genie® III is disconnected by removal of incoming mains power source to the
unit. Following disconnection the unit should be left for a period of at least 5
minutes before any internal assemblies are removed or examined.
When in use the heating block and heated lid are hot, so allow to cool before
touching the surfaces.
Safe removal of fluids from Genie® III will depend on the chemistry used. This will
also require knowledge of the fluids used in the system to adhere with local health
and safety and COSHH regulations. If in doubt, consult the person responsible for the
equipment in the laboratory.

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Cleaning Method
The Genie® III can be disinfected using the following procedure which can be used as a safety
measure if this equipment is routinely exposed to bio-hazardous materials.
1. Wipe all outside surfaces of the Genie® III with a 10% bleach solution.
2. After 10 minutes wipe all the same surfaces with a 70% ethanol solution.
CAUTION: Do not allow any of the liquid solutions to enter the wells as this can cause damage.

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SUPPORT
HOW TO OBTAIN SUPPORT
For the latest services and support information go to http://www.optigene.co.uk/support.htm
IMPORTANT! When directed to do so, contact OptiGene Ltd. to schedule maintenance
or calibration of a Genie® III instrument.
IMPORTANT! If a Genie® III instrument is kept in a very cold environment, the battery
will not begin charging until the internal temperature has reached 15°C.
SUPPORTED CONSUMABLES
IMPORTANT! Genie® III uses a proprietary tube strip that maximises optical and
thermal efficiencies. Other tubes and strips will not fit.
IMPORTANT! Forcing non-supported consumables will cause damage to the
instrument and invalidate the warranty.
IMPORTANT! The shape of the tubes is such that they will only fit in one way round.
The locating pins on the block have corresponding holes in the strips.
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BOX CONTENTS
The following is a list of contents in the box for Genie® III:
 Genie® III instrument
 Power supply
 Power lead
 USB connection lead
 Stylus
 USB memory stick containing Genie® Explorer and this manual as a ‘.PDF’ file
Chapter
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SITE PREPARATION
HOW TO SET UP GENIE® III
Genie® III has been designed to be used at point-of-care, and so not necessarily in a laboratory.
When it is being used, the instrument should be placed on a level and stable surface and the
surfaces surrounding the instrument must be clear of obstructions at all times.
Care must be taken not to unduly restrict the air at the outlet vents at the rear. Restricting
airflow may impede operation and could affect performance.
Electrical points should be close to the instrument to avoid injury from trailing wires.
Genie® III is rated to IP60 which means that the internal electronics and optical block is
protected from dust, but only when the lid on top and the lip on the back are closed. It is
recommended that the instrument is kept away from sinks and other wet areas when running.
Chapter
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CONNECTIONS
Genie® III is ready to use straight out of the box without any external connections. It can be
operated standalone, taking power from its internal battery. In order to charge the battery or
to use Genie® III with a computer, some connections must be made.
Connect the power supply plug into the back of the instrument and then attach the power
cable to the supply.
Located at the rear of the instrument is an on/off power switch. When in the on position
Genie® III will power up and progress through its checks.
OPENING & CLOSING THE LID
Press the button on the front of the unit and the lid should open upwards. Close the lid by
lowering and pressing down firmly.
Care must be taken to ensure that objects are not obstructing the lid when trying
to close it and under no circumstances should the lid be forced open or closed.
INSERTING TUBES
IMPORTANT! Genie® III uses a proprietary tube strip that maximises optical and
thermal efficiencies. Other tubes and strips will not fit.
IMPORTANT! The shape of the tubes is such that they will only fit in one way round.
The locating pins on the block have corresponding holes in the strips.
POWER INLET
USB (TO PC) POWER SWITCH
USB (FOR EXTERNAL
DEVICES)

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BATTERY
Genie® III has an internal rechargeable battery. When Genie® III is delivered the battery should
be fully charged by the user.
The battery monitor is on the status bar next to the block temperature reading.
To see more details on the battery, press the battery icon and the monitor will appear as a pop-
up in the bottom right hand corner of the screen. To remove the pop-up press on the status bar
indicator again.
Battery monitor pop-up
IMPORTANT! Genie® III’s internal battery will only charge when the instrument is
plugged into mains electricity and the instrument is switched on. Genie® III can be shut down
using the power button in the bottom left corner. At this point Genie® III can be switched off
using the switch on the rear.
Note: If this button is pressed during a run, Genie® III will not enter standby.
When in standby, normal operation can be resumed by pressing anywhere on the screen.

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BATTERY MONITOR
The battery status can be seen but
there is no pop-up.
Here the pop-up shows that the
battery is currently charging.
Here the pop-up shows that the
battery is fully charged.
Here the pop-up shows that the
instrument is discharging.

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SCREEN BRIGHTNESS CONTROL
Next to the battery icon is the brightness control.
Touch the icon and a slider will appear on the right hand side of the screen. Move the slider to
the desired position. Press the icon again to remove the slider.
It is not recommended to set the
brightness at 100% for long periods
of time, as this will significantly
decrease battery life.

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USER INTERFACE
Genie® III uses a touchscreen for viewing and inputting data.
Touch the screen gently and press the appropriate keys when required. The touch screen can
be operated while wearing protective gloves or by using the stylus included with the
instrument.
IMPORTANT! Do not use a pen or any other sharp implements to touch the screen.
GENIE® III WELCOME SCREEN
When switching on, the LED above the screen will be amber in colour. Wait for the light to
change to green, then touch the screen to access the main menu.
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MAIN MENU
To start a predefined run, touch the name of
the assay and it will begin. Alternatively,
touch ‘Other…’ to create a new profile, or
open a saved profile.
To view profiles or data from previous runs
touch the folder icon on the status bar.
To access the toolbox touch the spanner icon
on the status bar.
IMPORTANT! When running for the first time check that the time and date on the
status bar are correct. These can be changed from the ‘Utilities’ screen in the toolbox.
TOOLBOX
Pressing the spanner icon in the taskbar will load the toolbox.
BUTTONS
Set up the quick start buttons on the
main screen.
Touching ‘…’ will allow the user to
browse the saved profiles on the
instrument and assign that profile to the
corresponding quick start button on the
main screen.
To remove the buttons, untick the box
next to the profile name.

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POWER
These settings only apply when battery
powered.
Display dim time: how long the
instrument waits without input before
dimming the display.
Display dim level: the brightness level
the instrument will use after the
specified idle time.
Standby time: how long the instrument
waits before turning off the display.
Peltier Enable: Enable active cooling of
the block during a run. Turning this off
will save power when running on
battery.
Autocool Enable: Enable active cooling
of the block after a run has finished.
Turning this off will save power when
running on battery.
COLOURS
The background colour and the default
colours of the lines on graphs can be
changed here.
Click the background button or a graph
number and then drag the cursor on the
colour chart to select a colour.
The small table of coloured boxes on
the right show the colour that is
currently set, the default colour and the
previous colours that have been used.
Pressing on any of them will set the
colour.

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WIRELESS
GPS, WiFi & Bluetooth: Ticking the
corresponding box will turn this feature
on.*
Click the View button next to GPS and
the status will be shown, giving
universal identities of time, latitude,
longitude and the current satellites
being used.
How to use the WiFi is explained in
chapter 7.
* Bluetooth features are currently in development.
UTILITIES
Date & Time: Set the time and date
within the instrument.
Screenshot: A small yellow, moveable
icon will appear on the screen, which,
when pressed, will take a screenshot of
the current screen. This will be saved
into the CAPTURE directory on the
instrument’s internal memory.
Touchscreen: This will start the
touchscreen calibration (see next
section).
Lid Sensors: Allows the user to
recalibrate the lid sensors.
Self Test: This will run a diagnostics on
the instrument to see if there are any
problems and report back if there is.

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Please contact OptiGene Ltd. if so on
what to do next.
Replay: This will replay a run file as if it
were running in real-time
Update: Allows updating of the
instrument software (See Chapter 7).
Admin: This allows Administrators to set
up different levels of user access as well
as language.
TOUCHSCREEN CALIBRATION
Touching anywhere on the screen with
the exception of ‘Test’ or ‘Skip’ will
invoke the touchscreen calibration.
To check the accuracy of the screen
calibation press ‘Test’. Any point
pressed on the screen will then be
marked.
Calibrate the touchscreen by touching
the target points shown on the screen
(the stylus should be used for this).
It is also possible to run the touchscreen calibration when the instrument first starts. Press and
hold down on the welcome screen for 5 seconds to initiate.

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LID SENSORS
Touching ‘Start’ on the screen will start
the calibration.
Follow the instructions at the top of the
screen.
Place Genie on a flat, level table, close
the lid and press ‘continue’.
Follow the instructions at the top of the
screen.
Tilt the whole Genie back, keeping the
rear feet on the table and press
‘continue’

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The calibration is complete. The
calibration can be tested by tilting the
Genie in different directions. If done
correctly, the green circle should remain
inside the red circle as it moves around.
Press ‘Okay’ to save the calibration or
Cancel to disregard changes.
DATE AND TIME
Date: click in the white box for date and
enter in the format DD/MM/YY.
Time: click in the white box for time and
enter in the format HH:MM:SS.
Press ‘Set’ to save or click the cross to
cancel.
ADMIN
Default language: This sets the default
language of the instrument.
Default access: This sets the default
access when the instrument is turned
on. By default the instrument will be in
Admin mode. In this mode all features
are fully available. When Login Required
is selected, the instrument will not be
able to be used until a user has logged
in.
If any level is selected and the
instrument is restarted. This is the level
that the instrument will default to on
startup.