Optigene Genie II User manual

®
Genie II
USER MANUAL
(Instrument Software Version v1.18)

Unit 5, latchford Road
Horsham
West Sussex
RH13 5QR
Tel: [phone]
Fax: [phone]
www.optigene.co.uk
[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® II and its design is a registered trademark of OptiGene Ltd. or its subsidiaries in the UK and other countries.

Table of Contents
TA LE OF CONTENTS .......................... I
SAFETY NOTICES ................................ 3
SUPPORT ............................................ 5
How to obtain support....................... 5
Supported consumables .................... 5
OX CONTENTS .................................. 6
SITE PREPARATION ............................ 7
How to set up Genie® II ..................... 7
CONNECTIONS ................................... 8
Opening & Closing the Lids ................ 8
Inserting Tubes .................................. 9
attery ............................................... 9
attery monitor ............................... 10
Screen rightness Control ............... 11
EM EDDED SOFTWARE ................... 12
Genie®II Welcome Screen................ 12
Main Menu ...................................... 13
Initial set up ..................................... 13
Utilities ............................................. 14
Touchscreen calibration .............. 14
Set Time and Date ........................ 15
Turn off ........................................ 15
Run ................................................... 16
Profile Screen ............................... 16
To create a new profile ................ 16
To load a saved profile ................ 17
ACTIVE ............................................. 20
Profile .......................................... 20
Temperature ................................ 20
Amplification ............................... 21
Anneal .......................................... 21
Results ......................................... 22
A/ ................................................... 22
NOTES .............................................. 23
VIEW ................................................ 23
CONNECTING TO A COMPUTER ....... 27
Genie® II Software updates ............. 31
Via PC ........................................... 32
Via Instrument (v1.17 & Later) .... 34
PC SOFTWARE .................................. 36
Welcome Screen .............................. 36
Quick start buttons .......................... 36
Setting up a run ............................... 37
Profile Screen ............................... 37
Notes ........................................... 37
Assays .......................................... 38
Wells ............................................ 38
Profile .......................................... 38
Graphs ......................................... 40
Peak Classification ....................... 40
Genotype ..................................... 41
Run ............................................... 41

Observing a run ................................ 42
Profile ........................................... 42
Isothermal .................................... 42
Isothermal Ratio .......................... 42
Anneal .......................................... 43
Anneal Derivative......................... 43
Peaks ............................................ 44
Results .......................................... 44
Analysis and Graph Options ............. 45
Genie® II Graph Options .............. 45
Opening previous run files ............... 47
Additional features .......................... 47
TECHNICAL SPECIFICATION .............. 50

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SAFETY NOTICES
Please read the following notices carefully before
using Genie® II.
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 as 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.
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 cause harm.
The instrument should never be lifted by its covers. Always ensure that the base
or sides are used as the lifting point.
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.
Chapter
1

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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.
While every effort has been made to protect the inside of the instrument
against splashes, the instrument carries no IP rating. If fluids are spilt on the
instrument 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® II 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 blocks and heated lid are hot, so allow to cool before
touching the surfaces.
Safe removal of fluids from Genie® II 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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SUPPORT
HOW TO O TAIN 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® II instrument.
IMPORTANT! If a Genie® II instrument is kept in a very cold environment, the battery
will not begin charging until the internal temperature has reached 15°C.
SUPPORTED CONSUMA LES
IMPORTANT! Genie® II 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.
Catalogue number Description
ISO-001 Isothermal Master Mix
OP-0008-50 Genie® II tubes pack size 50 strips
OP-0008-500 Genie® II tubes pack size 500 strips
Chapter
2

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OX CONTENTS
The following is a list of contents in the box for Genie® II:
• Genie® II instrument
• Power supply
• Power lead
• US connection lead
• US memory stick containing Genie® II software and this manual as a ‘.PDF’ file
• 20 x Genie® II tubes (optional)
• Sample preparation/cooling blocks (optional)
Chapter
2
Chapter
3

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SITE PREPARATION
HOW TO SET UP GENIE® II
The laboratory bench should be level and stable. The instrument should be placed centrally on
the lab bench 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 front of the instrument and 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.
It is recommended that the instrument is kept away from sinks and other wet areas. Genie® II
is an electrical instrument and care should be taken not to operate if there is a risk of water
damage.
Chapter
1
Cha
pter
4

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CONNECTIONS
Genie® II is ready to use straight out of the box without any connections as it can be used as a
standalone instrument and has an internal battery. However to charge the battery or to use
Genie® II 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 to the rear of the instrument is an on/off power button, switch to on and Genie® II will
power up and progress through its checks.
OPENING & CLOSING THE LIDS
Gently lift the lid and it should open upwards. Close the lid by lowering gently.
Care must be taken to ensure that objects are not obstructing the lid when trying
to close it and under no circumstances should the lids be forced open or closed.
POWER IN
US

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INSERTING TU ES
Each of the heating blocks has locating pins.
Genie® II strips have holes that locate on these pins. The strips will only fit in one orientation.
IMPORTANT! Genie® II uses a proprietary tube strip that maximises optical and
thermal efficiencies. Other tubes and strips will not fit.
ATTERY
Genie® II has an internal rechargeable battery. When Genie® II is delivered the battery should
be fully charged and ready for use.
The battery monitor is on the status bar next to the date and time.
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.
attery monitor pop-up
IMPORTANT! Genie® II’s internal battery will only charge when the instrument is
plugged into mains electricity and the instrument is switched on. Genie® II can then be shut
down using the ‘Turn Off’ button within the ‘Utilities’ menu. The LED above the display will
glow brightly until the battery is fully charged. At this point Genie® II can be switched off using
the switch on the rear.

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ATTERY MONITOR
The battery status can be seen but there
is no pop-up.
Here the pop-up shows that the battery
is currently charging and is at 97%.
Here the pop-up shows that the battery
is fully charged.
The pop-up shows that the instrument is
in use and the battery is at 99%.

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SCREEN RIGHTNESS CONTROL
Next to the battery icon is the brightness control.
To utilise, 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.

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EM EDDED SOFTWARE
Genie® II 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.
IMPORTANT! Do not use a pen or any other sharp implements on the screen
otherwise damage could occur.
GENIE®II 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.
Chapter
1
Chapter
5

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MAIN MENU
To begin a new run touch ‘Run’.
To view profiles or data from previous runs
touch ‘View’.
To access the utilities touch ‘Utilities’.
INITIAL SET UP
IMPORTANT! When running for the first time check the time and date on the status
bar. If either are incorrect then proceed to change them from the ‘Utilities' screen.

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UTILITIES
TOUCHSCREEN CALIBRATION
Touching anywhere on the screen with
the exception of Test or Skip will invoke
the touchscreen calibration
Here the user is required to touch the
target points shown on the screen, this
will calibrate the touchscreen
To check the sensitivity of the screen
press ‘Test’.
Any point now pressed on the screen will
be displayed.

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SET TIME AND DATE
Click in the white box for date and
enter the date. The date should be in
the format DD/MM/YY.
Click in the white box to enter the
time. The format should be
HH:MM:SS
TURN OFF
Pressing ‘Turn Off’ will place Genie® II into standby. Genie® II can be placed into standby mode
by pressing and holding the power symbol on the status bar.
Note: If this button is pressed during a run, Genie® II will not enter standby.
Normal operation can be resumed by pressing anywhere on the screen.

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RUN
PROFILE SCREEN
Pressing ‘Run’ will take the user to the
profile screen. Here the user can
choose to create a new profile, load an
existing profile or cancel and return to
the main menu.
TO CREATE A NEW PROFILE
Press the ‘New’ button on the profile
screen. Adjust the profile by touching
the appropriate temperature or time
box. Inputs are made using the on-
screen keyboard, which will appear as
a pop-up, as in the example below.
Once the required changes have been
made, pressing ‘Enter’ will cause the
on-screen keyboard to disappear and
the profile can now be saved.

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Pressing ‘Save’ will save the profile.
Name the profile, press ‘Okay’ and it
will be saved within the ‘Profiles’
directory in the on-board memory
allowing it to be loaded for future
runs.
To set a gradient across a block, enter a range of temperatures in the ‘Amplification’
temperature box. The range of temperatures should be entered separated by a hyphen, as
shown below.
TO LOAD A SAVED PROFILE
From the profile screen choose the
profile to be loaded and press the
‘Load’ key.
The profile will be loaded and details
will be displayed on the next screen.

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Changes can be made if desired. To
begin the run press ‘Start’.
A prompt will ask whether the
experiment is to be run on block A,
block , or both. Only the block or
blocks that are available (i.e. not
already running) will be offered.
CALCEIN DETECTION
This option is if the user is running experiments with Calcein.
Press on the tick box when using Calcein.