Cleaver Scientific omniDOC User manual

OmniDOC Gel Documentation System
Instruction Manual
Catalog No.
OMNIDOCi (PC Version)

Packing list
Standard Package
OmniDOC Gel Documentation system
-1 x 5.0MP CMOS scientific grade camera and lens
-1 x EtBr filter or SYBR Green filter
-1 x 312nm UV transilluminator
-1 x White light lamps module
-1 x viewing window amber filter
-1 x Power Cord
-1 x OmniDOC Gel Documentation System Software CD
-1 x USB wireless adapter
-1 x Instruction Manual
Optional Package
Blue Light Module
-2 x Blue lights (left and right)
-2 x M7 nuts
White Light Table Module
-1 x White light table
-2 x M7 nuts
Cleaver Scientific is liable for all missing or damaged parts /
accessories within 7 days after customer received this instrument
package. Please contact Cleaver Scientific immediately regarding this
issue. If no response within such time period from consignee party that
will be consignee party’s whole responsibility.

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Table of Contents
Packing list...........................................................................................................1
Warning.................................................................................................................4
Section 1 Introduction ..................................................................................10
1.1 Overview ....................................................................................................10
1.2 Feature.......................................................................................................10
1.3 Components guide .....................................................................................11
Section 2 Technical Specification ...............................................................12
Section 3 Installation Instructions...............................................................13
3.1Installing Blue Light Module (Optional) ......................................................13
3.2Installing White Light Table Module (Optional) ..........................................17
3.3 Installing USB wireless adapter .................................................................21
3.4 Installing the OmniDOC Gel Documentation System Software .................21
Section 4 Operation Instructions.................................................................26
4.1 Capture/Analysis Control Interface ............................................................26
4.1.1 Capture Screen Interface ...............................................................26
4.1.2 Analysis: Image Process Interface .................................................29
4.1.3 Analysis: Image Editor Interface.....................................................31
4.1.4 Analysis: Image Analyze Interface .................................................32
4.1.5 Analysis: Image summary Interface ...............................................34
4.2 Start the Operation.....................................................................................35
4.2.1 Positioning your gel ........................................................................35
4.2.2 Select the appropriate filter.............................................................35
4.2.3 Turn on the power and connect the system with PC ......................36
4.2.4 Adjust the setting for best imaging .................................................37
4.2.5 Select the light source ....................................................................37
4.2.6 Adjust the lens Iris ..........................................................................38
4.2.7 Default setting.................................................................................39
4.2.8 Freeze Image .................................................................................40
4.2.9 Acquire and save the image ...........................................................41
4.2.10 Print the image .............................................................................41

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4.3 Image Analysis: Using “Gel Positive/Gel Negative” to analyze the
sample 42
4.3.1 Load the image...............................................................................42
4.3.2 Processing the Image File ..............................................................43
4.3.3 Selecting the Image Lane...............................................................53
4.3.4 Lane Analysis .................................................................................54
4.3.5 Image Summarization.....................................................................60
4.4 Image Analysis: Using “Dot blot positive/ Dot blot negative” to analyze
the sample........................................................................................................66
4.4.1 Load the image...............................................................................66
4.4.2 Processing the Image File ..............................................................67
4.4.3 Selecting the Image Dot .................................................................76
4.4.4 Calculating the density ...................................................................78
Section 5 Troubleshooting Guide................................................................80
Section 6 Maintenance..................................................................................81
6.1 Replacing the Fuse ....................................................................................81
6.2Adjust the scientific grade camera for clearer image .................................82
6.3 Replacing Amber Filter onto Viewing Window ...........................................85
6.4 Adjust the scientific camera when out of focus ..........................................88
Section 7 Warranty........................................................................................90

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Warning
This device complies with Part 15 of the FCC Rules. Operation is subject to
the following two conditions: (1) this device may not cause harmful
interference, and (2) this device must accept any interference received,
including interference that may cause undesired operation.
NOTE: This equipment has been tested and found to comply with the
limits for a Class B digital device, pursuant to Part 15 of the FCC
Rules. These limits are designed to provide reasonable protection
against harmful interference in a residential installation. This
equipment generates uses and can radiate radio frequency energy
and, if not installed and used in accordance with the instructions,
may cause harmful interference to radio communications. However,
there is no guarantee that interference will not occur in a particular
installation. If this equipment does cause harmful interference to
radio or television reception, which can be determined by turning the
equipment off and on, the user is encouraged to try to correct the
interference by one or more of the following measures:
-- Reorient or relocate the receiving antenna.
-- Increase the separation between the equipment and receiver.
-- Connect the equipment into an outlet on a circuit different from that to
which the receiver is connected.
-- Consult the dealer or an experienced radio/TV technician for help.
Notice:(1) Changes or modifications not expressly approved by the
party responsible for could void the use is authority to operate the
equipment.
Cleaver Scientific OmniDOC Gel Documentation System has been tested

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and found to comply with the limits for the CE regulation. Also, OmniDOC Gel
Documentation System is RoHS compliant to deliver confident product which
meets the environmental directive. These limits are designed to provide
reasonable protection against harmful interference when the instrument is
operated in a commercial environment. This instrument used together with
power supply unit generates, uses, and can radiate radio frequency energy,
and if not installed and used in accordance with the instruction manual, may
cause harmful interference to radio communications. Operation of this
instrument in a residential area is likely to cause harmful interference in which
case the user will be required to correct the interference at their expense.
Changes or modifications not expressly approved by the party responsible for
compliance could void the user’s authority to operate the equipment. It is
strongly recommended for the user to read the following points carefully
before operating this equipment.
1. Read and follow the manual instructions carefully.
2. Do not alter the equipment. Failure to follow these directions could result
in personal and/or laboratory hazards, as well as invalidate equipment
warranty.
3. Use a properly grounded electrical outlet with correct voltage and current
handling capacity.
4. Disconnect from power supply before maintenance and servicing. Refer
servicing to qualified personnel.
5. Never use this instrument without having the safety cover correctly in
position.
6. Do not use the unit if there is any sign of damage to the external tank or
cover. Replace damaged parts.
7. Do not use in the presence of flammable or combustible material; fire or
explosion may result. This device contains components which may ignite
such materials.
8. Refer maintenance and servicing to qualified personnel.
9. Ensure that the system is connected to electrical service according to
local and national electrical codes. Failure to make a proper connection
may create fire or shock hazard.
10. Use appropriate materials and operate correctly to avoid possible hazards
of explosion, implosion or release of toxic or flammable gases arising from
overheated materials.
11. The unit shall be operated only by qualified personnel.
Safety Information

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Use high level of precaution against any electrical device. Before connecting
the electrical supply, check to see if the supply voltage is within the range
stated at the rating label, and see to it that the device be seated firmly. Place
the unit in a safe and dry location; it must NOT touch the surrounding. Follow
the safety precautions for chemicals / dangerous materials. If needed, please
contact qualified service representative.
Environmental Conditions
Ensure the instrument is installed and operated strictly in the following
conditions:
1. Indoor use only
2. ≤95% RH (non-condensing)
3. 75 kPa – 106 kPa
4. Altitude must not exceed 2000 meters
5. Ambient to 40°C operating temperature
6. Pollution degree: 2
7. Mains supply voltage fluctuations up to ±10% of the normal voltage
Avoiding Electrical Shock
Follow the guidelines below to ensure safe operation of the unit.
OmniDOC Pro Gel Documentation System has been designed to use with
shielded wires thus minimizing any potential shock hazard to the user.
Cleaver Scientific recommends against the use of unshielded wires.
To avoid electrical shock:
1. In the event of solution accidentally spilling into the instrument, it must be
dried out for a period of time (at least 2 hours) and restored to NORMAL
CONDITION before each operation.
2. Never connect or disconnect wires loading from the power jacks when
the red indicator light of power switch is on.
3. WAIT at least 5 seconds after stopping a run before handling output
leads or any connected apparatus.
4. ALWAYS make sure that your hands, work area, and instruments are
clean and dry before making any connections or operating the power
supply.
5. ONLY connect the power cord to a properly grounded AC outlet.
Avoiding Damage to the Instrument

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1. Do not attempt to operate the device if damage is suspected.
2. Protect this unit from physical damage, corrosive agents and extreme
temperatures (direct sunlight, etc.).
3. For proper ventilation and safety concerns, keep at least 10 cm of space
behind the instrument, and at least 5 cm of space on each side.
4. Use high level of precaution against the damages on the unit.
5. Do not operate the unit out of environmental conditions addressed above.
6. Prior to applying any cleaning or decontamination methods other than
manufacturer’s recommendation, users should check with the
manufacturer’s instruction to see if the proposed method will damage the
equipment.
Equipment Operation
Follow the guidelines below to ensure safe operation of the unit:
1. Check the displayed figures to see if the unit is functioning correctly before
using this unit.
2. NEVER access dangerous chemicals or other materials to prevent possible
hazard of explosion and damage.
3. A temporary conductivity caused by condensation might occur even though
this series is rated Pollution Degree 2 in accordance with IEC 664.
To Disposal UV tubes
The UV tubes contain mercury; please dispose of the tubes in accordance
with local laws. It is important to handle the waste tubes with care to ensure
public health and the environment. For further information about recycle
waste tubes, please see www.lamprecycle.org.
Equipment Handling
Follow the guidelines below to ensure safe move of the device:
1. Carry the device at least two people.
2. Do not over than knuckle height when you moving the device.
3. Move the device by cart and assist the device do not drop.
Symbols

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The symbols used on OmniDOC Gel Documentation System are explained
below.
Indicates an area where a potential shock hazard may exist.
Consult the manual to avoid possible personal injury or instrument
damage.
Indicate a warning of UV radiation.
While using the UV Transilluminator, be sure the operating
personnel is properly protected.
Indicates disposal instruction.
DO NOT throw this unit into a municipal trash bin when this unit
has reached the end of its lifetime. To ensure utmost protection of
the global environment and minimize pollution, please recycle this
unit.
Potential Risk and Preventive Measure
1. Risk assessment table
Potential
Risk
Frequency
Frequent
Likely
Possible
Rare
Unlikely
Bruise
!
Pinch
!
Slash
!
UV radiation
dangerous
!
Power cord plug
wrong
!
2. Preventative measures of risk

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Potential Risk
Preventive measures
Bruise
Do not put the machine near the table edge.
Move the machine by cart.
Pinch
Do not put your hands on the open door.
Slash
Prevent hard impact on the acrylic panel.
UV radiation
dangerous
Do not open the darkroom door while you turn on
the UV light.
Power cord plug
wrong
Observe correct adapter plug.

Section 1
10
Section 1 Introduction
1.1 Overview
OmniDOC Pro Gel Documentation System is the next generation of gel
documentation instrument. It is specifically designed for ease of use for any
lab experiment with gel imaging. OmniDOC Pro Gel Documentation System is
packed with 5.0 megapixels high sensitivity and resolution scientific grade
camera for outstanding imaging quality. The system provides you
convenience such as 312nm pull out UV transilluminator for easy gel cutting,
pre-focused lens for one touch image capture, user friendly software interface,
and the innovative iPad/PC remote control. The expendable accessories such
as epi-blue module and white light table are also available for environment
safe nucleic acid stains or western blot analysis.
1.2 Feature
- Wi-Fi connected
- 5.0 megapixels CMOS scientific grade camera
- 3.5” 64K color TFT display
- Maximum field of view 21 x 26 cm (8.3 x 10.3 inch)
- Compact configuration and size
- Inner 6 x 1Wwhite light LED for uniform white light illumination
- Safety door switch
- Two light sources for optional (safety blue light and white light table)
- High camera resolution
- Easy to use software for image analysis

Section 1
11
1.3 Components guide
Front View
Rear View Side View
Scientific grade camera and lens
Darkroom door with UV safety
switch
3.5” TFT display
Viewing window
Power socket & Fuse holder
Main power
A-type USB port
(For service use
only)
Internet port
(For service use
only)
USB wireless adapter

Section 2
12
Section 2 Technical Specification
CMOS scientific grade camera
Camera Type
CMOS scientific grade camera
Sensor
5.0M Pixels Monochrome sensor
Max. CMOS Resolution
2592 x 1944 pixels
Pixel Density
RAW 8 bit/10bit/12bit
Power
DC5V / 250mA
Lens
Focal Length
6mm
Aperture
F1.2 – Close
Filter
Type
EtBr filter or SYBR Green filter
Computer/laptop recommended specification
Processor
1.8GHz Pentium® IV or equivalent AMD Athlon®
processor
Memory
1GB
Storage
1GB available HD space
Media
CD-ROM drive
Connectivity
Wi-Fi
Display
1280x800 resolutions
Operating System
Windows® 7 SP1/ Windows® Vista SP1 /
Windows® XP SP3/ Windows® 8
Darkroom
Inner White Light
White light lamps module (6 x 1W)
Safety Device
Automatic UV light shut-off when door open
Unit Dimension
410 x 405 x 570mm (W x D x H)
(16.1 x 15.9 x 22.4 inch)
Rated Voltages
100V- 230 V AC, 50/60 Hz , 2A
Unit Weight
Approx. 24.5kg (54 lbs.)
Transilluminator
UV Transilluminator
312 nm (Single wavelength)
Filter Size
21 x 26 cm
(8.3 x 10.3 inch)
Light Source
6 x 8W UV tubes

Section 3
3.1Installing Blue Light Module (Optional)
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Section 3 Installation Instructions
OmniDOC Pro Gel Documentation System comes with epi white light and
trans-UV as standard. Optional blue light module or white light table is offered
for expansion to offer higher flexibility. There are few procedures to install the
optional devices:place the unit on a sturdy, level safe and dry place, then
follow the instruction below for installation.
Note: Please skip ahead to section 3.3 if no optional lighting modules
are included with your purchase.
Tool Required: 7M/M Socket wrench (not provided)
3.1  Installing Blue Light Module (Optional)
Step1 Get the blue light module ready. There are two blue lights (left and right)
and 2 pieces of M7 nuts in the package.
M7 nuts

Section 3
3.1Installing Blue Light Module (Optional)
14
Step2 Open the darkroom door and hold the left blue light on left inner wall.
Step3 Connect the blue light quick connector with darkroom inner socket.

Section 3
3.1Installing Blue Light Module (Optional)
15
Step4 Insert the blue light into the inner lining of darkroom.
Step5 Put the other side of blue light into the stud of darkroom inner wall.

Section 3
3.1Installing Blue Light Module (Optional)
16
Step6 Take a nut from parts kit. Use 7M/M socket wrench to tighten the nut on
the stud.
Step7 The blue light is fixed as shown below. Please repeat steps 2~6 for
right side blue light to install it in the darkroom.

Section 3
3.2Installing White Light Table Module (Optional)
17
3.2  Installing White Light Table Module (Optional)
Step1 Get the white light table module ready. There are one white light table
and 2 pieces of M7 nuts in the package.
Step2 Open the darkroom door and place the white light table on the UV
transilluminator. There are two studs and a socket on the back wall.
M7 nuts
Before assembling, please check to make sure the
screw studs on both sides of the white light table are in
the upright position.

Section 3
3.2Installing White Light Table Module (Optional)
18
Step3 Connect the white light table quick connector with darkroom inner
socket
Step4 Make sure the stud holders on the white light table align with the studs
of darkroom.

Section 3
3.2Installing White Light Table Module (Optional)
19
Step5 To take nuts from parts kit. Use 7M/M socket wrench to tighten nuts on
the studs.
Step6 The white light table is fixed as shown below.
Left
Right
Left
Right