Cleaver Scientific gelLITE User Manual
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gelLITE manual
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Contents
Chapter One- Introduction....................................................................................
1.1 Applications supported.....................................................................
1.2 Hardware..........................................................................................
1.2.1 Specifications...................................................................................
1.2.2 System Components..................................................................................
1.2.2.1 Darkroom..........................................................................................
1.2.2.2 UV transilluminator...........................................................................
1.2.2.3 Filter Draw........................................................................................
1.2.3 Accessories......................................................................................
1.2.3.1 Blue and Visible Light Converters....................................................
1.2.3.2 proBLUEVIEW LED transilluminator................................................
1.2.3.3 Thermal Printer................................................................................
1.2.3.4 Analysis Software......................................................................................
1.2.4 Set-up..............................................................................................
1.2.4.1 Installing genePIX Image Capture Software..................................
1.2.4.2 Minimum system requirements.......................................................
1.2.4.3 Software Installation........................................................................
1.2.4.4 Installation of hardware information................................................
1.2.4.5 Select Destination Location.............................................................
1.2.4.6 Select Start Menu folder..................................................................
1.2.4.7 Device Driver Installation wizard.....................................................
1.3 Enabling secure user accounts.......................................................
1.4 Setting up hardware........................................................................
Chapter Two- Auto Capture and Manual Image Acquisition.............................
2.0 Auto Capture..................................................................................
2.0.1 Sample Selection............................................................................
2.0.2 Dye Selection..................................................................................
2.0.3 Protocol Selection...........................................................................
2.0.4 Sample Positioning..........................................................................
2.0.5 Capture Screen...............................................................................
2.1 Capturing an image of an agarose EtBr or similar gel.....................
2.2 Capturing an image of protein gel (Coomassie, sliver stained) or
other white light image (colony plate, Microtitre plate
etc.).................................................................................................
2.3 Manual Capture..............................................................................
Chapter Three-Exporting, Saving and Printing Images....................................
3.1 Saving Images................................................................................
3.1.1 Saving Annotations.........................................................................
3.2 Printing Images...............................................................................
3.3 Exporting images to geneQUANT analysis software.....................
Chapter Four- Browse, Edit and View Screens..................................................
4.1 Edit Screen.....................................................................................
4.2 Annotation Tools.............................................................................
4.3 Image Rotation..............................................................................
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4.4 Image Source................................................................................
4.5 Saturation Button..........................................................................
4.6 Enhancement Tools......................................................................
4.7 3D view.........................................................................................
4.8 View Images screen......................................................................
4.9 Load Images screen.....................................................................
Chapter Five- Configurations.............................................................................
5.1 Saving Configurations...................................................................
5.1.1 Saving Configurations in Autocapture mode................................
5.1.2 Saving Configurations in Manual mode.......................................
5.1.3 Opening Configurations................................................................
Chapter Six- Troubleshooting and General Information................................
6.1 Technical Information....................................................................
6.2 Technical Assistance....................................................................
6.3 Troubleshooting............................................................................
Glossary..............................................................................................................
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Chapter One- Introduction
The gelLITE system supports multiple applications including DNA/RNA gel
imaging such as EtBr, SYBR Gold, UltraSafe Blue, RunSAFE and visible stained
gels i.e. Coomassie blue and silver stain.
The gelLITE gel imaging system is a dedicated UV transilluminator-based system
with a small footprint. The gelLITE image capture software genePIX has been
designed for ease of use and is application driven.
gelLITE is the perfect choice for a low budget gel documentation system. It
features a compact darkroom which has a sliding front door and an internal white
light.
1.1 Applications supported
Transilluminator
UV
White Light Pad
Blue LED
Transilluminator
Ethidium Bromide
RunSAFE
SYBR Green
SYBR Gold
SYBR Safe
Gel Green
Gel Red
RubyPRO
SYPRO Ruby
UltraSafe Blue
Coomassie blue stain
Copper stain
Zinc stain
Silver stain
RunSAFE
GelGreen
SYBR Gold
SYBR Green
SYBR Safe
UltraSafe Blue
1.2 Hardware
1.2.1 Specification
Camera
3.0MP, 12/16 bit
Filter holder
Yes (UV filter as standard)
Max gel size
20x20cm
Data types
SGD, BMP, TIFF and JPEG
CMOS resolution
3.0M pixels
Image storage
USB, hard disk and network capabilities
Image enhancements
Annotation, rotation, inversion and many
more
Illumination
Slide in and out UV transilluminator, Epi
white LED light. Blue LED transilluminator
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1.2.2 System components
1.2.2.1 Darkroom
The darkroom has a sliding door. The darkroom features:
• Slide out mid wave 302nm UV transilluminator
• Internal LED white light
• Safety switch to protect from accidental UV exposure
LENS
Superior zoom lens for
exceptional image quality
CAMERA
CMOS Digital camera
• USB2 connection
FILTER DRAWER
Use a range of filters for
extensive choice of
fluorescent applications
SAFETY SWITCH
Protects from accidental
UV exposure when opening
the door
INTERNAL WHITE LIGHT
For sample positioning and
focusing
TRANSILLUMINATOR (option)
For UV, visible light and blue light
• UV transilluminator slides in
and out of darkroom
• Blue LED light (Ultraslim LED)
‒ sits on a slide in and
out tray
SLIDING DOOR
Space saving sliding door
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1.2.2.2 UV transilluminator
The UV transilluminator will excite many fluorescent stains such as Ethidium
bromide, RunSAFE, SYBR™ stains, Gel Red™. The standard wavelength is
302nm. The transilluminator can be slid easily in and out of the cabinet.
1.2.2.3 Filter Draw
Interchange a range of filters for extensive choice of fluorescent applications.
1.2.3 Accessories
1.2.3.1 Blue and Visible light converters
Cleaver Scientific offer blue and visible light converters that
can be placed on top of the UV transilluminator for imaging
DNA gels stained with fluorescent stains such as RunSAFE,
SYBR Safe, Gold and Green, GelGreen and UltraSafe blue
as well as protein gels stained with colorimetric stains such
as Coomassie and Silver stains
1.2.3.2 proBLUEVIEW transilluminator
The proBLUEVIEW transilluminator is ideal for safely
imaging DNA gels stained with fluorescent stains such as
RunSAFE, SYBR Safe, Gold and Green, GelGreen and
UltraSafe blue as well as protein gels stained with
Coomassie, Silver stains.
1.2.3.3 Thermal printer
You may connect a thermal printer CSL-PRINTUSB Mitsubishi USB Thermal
Printer P95DW directly to the PC/laptop and install the software following
manufacturer recommendation to print straight after image acquisition.
1.2.3.4 Analysis software
The gelLITE system is supplied with a copy of geneQUANT analysis software
from Cleaver Scientific. This may be loaded on a PC of your choice from the USB
memory stick supplied with the system.
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1.2.4 Set-up
Please refer to the Installation quick guide on how to set up the camera and
darkroom.
1.2.4.1 Installing genePIX image capture software
1.2.4.2 Minimum system requirements
genePIX can operate on the following Operating Systems Windows XP
Professional SP3 (32 bit version only) or Windows 7 Professional, Window 8
Professional and Window 10 Professional.
Please note that Home versions of Windows operating systems are not
supported.
1.2.4.3 Software Installation
This section provides information regarding the installation of genePIX image
capture software.
You will need to install the software from an account that has Administrator
rights.
Installation is performed in the following sequence
1. Hardware Information
2. Select destination location
3. Select Start Menu Folder
4. Device Driver Installation Wizard
1.2.4.4 Installation of Hardware Information
Insert the USB memory stick supplied with the system and install and run the
genePIX set-up program on a PC/laptop.
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Click ‘Next’
Select from the list the hardware that you have then click ‘Next’
Specify CFR settings you would like to enable. If you are not working within a
CFR compliant environment leave all boxes unchecked. Click ‘Next’
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1.2.4.5 Select Destination Location
Please select the folder in which you would like genePIX to be installed. Select
Browse to explore more folder options. Click ‘Next’
1.2.4.6 Select Start Menu Folder
Please select where you would like to create the shortcuts for the program. To
select a different folder click the browse button. Click ‘Next’.
The software is now ready to install. Click ‘Install’ to continue the Installation
process. Click ‘Finish’ to complete the software set up.
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1.2.4.7 Device Driver Installation Wizard
This wizard will now install the software drivers that some computer devices need
in order to complete the installation. Click ‘Next’.
Click ’Finish’ to complete the Device Driver Installation Wizard.
1.3 Enabling secure user accounts
To enable a secure user account you must use your Microsoft Windows account
log in. Secure user accounts provide you with the full functionality of the software
but will only show the configurations set up by you or the configurations which
have been made public.
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1.4 Setting up hardware
When using genePIX software for the first time or when you have purchased
additional accessories such as converter screens you need to tell genePIX
software this information.
To enter this information click on the ‘View available hardware’ icon
from the home page. Once this information has been entered by
selecting the appropriate buttons the selected items will turn purple.
Ensure that you click Save.
Figure 1- Hardware page
You can select your preferences on the type of report settings that you would
like. You can select to view or print the full report (Image, File description and
capture properties) or the basic report (image and capture settings).
To change the settings of the printer use this icon.
genePIX software default setting for captured images is to save them as a .sgd
file type. If you prefer you can select from the drop down list to change the saving
default to any of the following file types Tif, Tif-compressed, bmp and jpg.
You can also select to remove screen prompts for converter screens,
automatically hide light and filter messages, reset dynamic field data and select
your regional power frequency.
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Figure 2- User Preferences page
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Chapter Two- Auto Capture and Manual Image
Acquisition
2.0 Auto Capture
Once the genePIX software has started up the home screen will appear. At first
start up the genePIX software defaults to standard view. The display can be
changed from Standard View to Classic View on the user Preferences screen.
Standard Screen
The basis of auto capture mode is a series of steps that form a structured
workflow. The workflow is very easy to navigate through by using the green
bouncing arrow present in the bottom right hand corner of the screen to move
forward to the next screen (Figure 3). The grey status bar shows the progress of
the workflow, select any of the icons to move between any of the stages that
make up the workflow (Figure 4).
Figure 3- Navigation arrow Figure 4- Workflow status bar
The first step of the workflow is Sample Selection followed by Dye Selection,
Protocol Selection and Sample Positioning. The final stage is the Capture
screen.
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2.0.1 Sample Selection
Select from Gels, blots or manual capture from the home screen.
2.0.2 Dye Selection
genePIX software has an extensive database containing a vast list of dyes
covering a variety of applications from fluorescence, chemiluminescence,
chemifluorescence and visible stains (N.B. gelLITE cannot capture
chemiluminescence or chemifluorescence).
2.0.3 Protocol selection
genePIX software has an extensive database which calculates the optimal
imaging conditions for your sample based on the excitation and emission curves
of the majority of dyes currently commercially available.
2.0.4 Sample Positioning
The sample positioning screen shows a live image of your sample.
2.0.5 Capture screen
The capture screen offers a wide range of functions including the ability to save,
print, edit images and analyse the captured image (geneQUANT is required).
The captured image appears in the main window with the summary of the
protocol used present on the right hand side.
2.1 Capturing an image of an agarose EtBr or similar gel
(For rapid capture see Quick Guide-Capture)
Step One
Select Auto Capture from the home screen.
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