Logos Celena X User manual

USER MANUAL
LBSM-MD-ML-CLX-001
VC1812-01
www.logosbio.com

DISCLAIMER
The contents of this document are subject to change without notice.
The CELENA®X High Content Imaging System is a set of electrical laboratory instruments for scientific research use only.
It is not a medical, therapeutic, or in vitro diagnostics device.
Do not disassemble the device on any occasion as this will invalidate your warranty.
TRADEMARKS
The trademarks used in this document are the property of Logos Biosystems, Inc. unless otherwise specified.
LED Filter Cubes are LTC Licensed Products provided under an intellectual property license from Life Technologies Corporation.
CellProfiler is provided under the BSD 3-Clause License.
© 2018 Logos Biosystems, Inc. All rights reserved.

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Table of Contents
1. Getting Started...................................................................................................................................................................................................4
1.1 Product contents 4
1.2 Product description 5
CELENA® X High Content Imaging System 5
CELENA® X Controller 5
Software 5
1.3 Setting up 6
Unpacking 6
Connections 6
Shipping guard/restraints 7
Turn on the CELENA® X 7
Install filter cubes and objectives 7
Shut down the CELENA® X 7
2. CELENA® X Explorer .......................................................................................................................................................................................8
2.1 User interface 8
Channels 9
Vessel 12
Z-stack 13
Time lapse 14
Project 15
Toolbar 16
Messages 16
Settings 17
2.2 Workflow 19
Create a project protocol 19
Save a project protocol 21
Load a project protocol 21
Run a project protocol 21
Pause/stop a project protocol 21
View project results 21
3. CELENA® X Cell Analyzer............................................................................................................................................................................ 22
3.1 Overview 22
Project 22
View 23
Image control 24
Analysis 25
Toolbar 25
Messages 26
3.2 Workflow 27
Set up project analysis 27
Load previously analyzed images 28
Annotate images and make simple measurements 28
Edit images 29
3.3 Pipeline module reference 30
Overview 30
Image processing 30
Object identification 33
Measurements 35

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4. Maintenance .................................................................................................................................................................................................... 37
4.1 General care 37
4.2 Change filter cubes 37
4.3 Change objectives 38
4.4 Adjust objective correction collars 39
Appendix A: Troubleshooting ................................................................................................................................................................................ 40
Image quality 40
Explorer 40
Mechanical 40
Appendix B: Specifications ...................................................................................................................................................................................... 41
CELENA® X High Content Imaging System 41
Appendix C: Safety Information............................................................................................................................................................................. 42
Instrument safety 42
Personal safety 43
Instrument symbols 43
Safety standards 43
Appendix D: Ordering Information...................................................................................................................................................................... 44
Instruments 44
Objectives 44
LED filter cubes 45
Accessories 45
Appendix E: Purchaser Notification..................................................................................................................................................................... 46
Limited use label license 46
LTC licensed products 46
BSD licensed products 46
Instrument warranty 47

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1. Getting Started
1.1 Product contents
Your CELENA® X is shipped with the following components:
CELENA® X High Content Imaging System
Camera module (installed as ordered)
Condenser (installed as ordered)
Laser autofocus module (installed as ordered)
Filter cubes (installed as ordered)
Objectives (installed as ordered)
CELENA® X Controller
PC
CELENA® X Explorer (installed)
CELENA® X Cell Analyzer (installed)
Accessories
Universal Vessel Holder
Microplate Holder
Single Slide Holder
Power Cord
Cable PS-1
Cable PS-2
Cable SIG
Cable USB 2.0
Cable USB 3.0
(Optional) Cable Laser AF (included with the Laser autofocus module)
Flathead Screwdriver
CELENA® X Cell Analyzer Verification Key
USB drive, 64 GB (includes the user manual and installation guide)
Keyboard
Mouse
Inspect the product package upon delivery to ensure that all components have been
included. If anything is missing, contact your local sales representative. Damage that may
occur during shipping and handling is not covered by warranty and must be filed with the
carrier.

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1.2 Product description
CELENA® X High Content Imaging System
Your CELENA® X High Content Imaging System is an integrated imaging system designed for
rapid, high content image acquisition and analysis. Customizable imaging protocols, image-
based and laser autofocusing modules, and a motorized XYZ stage simplify well plate
imaging and slide scanning. The integrated CELENA® X Cell Analyzer software processes
images and data for quantitative analysis. Analysis pipelines can be created and used to
identify cellular or subcellular objects, process images for optimal data collection, and make
various measurements.
①Door
②Condenser
③Motorized X/Y stage
④Power button
CELENA® X High Content Imaging System
CAUTION! This instrument uses Class 3B ultraviolet LEDs that are in accordance with
IEC/EN 60825-1. Make the CELENA® X door is closed when imaging to protect
your eyes. Direct exposure to and diffuse reflections of the laser can be
hazardous to the eye.
CELENA® X Controller
The CELENA® X Controller controls the power supply to and mechanical stages of the
CELENA® X.
Software
CELENA® X Explorer
The CELENA® X is controlled by the integrated CELENA® X Explorer software. CELENA® X
Explorer is pre-installed to the computer supplied with the instrument.
CELENA® X Explorer
CELENA® X Cell Analyzer
CELENA® X Cell Analyzer is used to process and analyze images to quantify numerous
cellular phenotypes simultaneously. CELENA® X Cell Analyzer also provides tools to edit
and annotate images as well as create videos.
CELENA® X Cell Analyzer
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1.3 Setting up
Unpacking
Move the unpacked boxes to the site of operation.
CELENA® X
CAUTION! When moving the CELENA® X, do not attempt to lift or move the instrument
without assistance. It is recommended that two or more people lift the
instrument together while taking the proper safety measures to avoid injury.
IMPORTANT! Do not subject the CELENA® X to sudden impact or excessive vibration.
Handle the instrument with care to prevent damage.
IMPORTANT! Wiping the computer supplied with the CELENA® X (i.e., erasing the hard
drive to remove programs, etc.) voids the product warranty.
Open the CELENA® X box and remove the Styrofoam top and sides. Lift the CELENA® X out
of its box by grasping its base firmly.
Place the CELENA® X on a flat, level surface that is free of vibration. Anti-vibration tables are
recommended for optimal use. Leave sufficient space around the instrument for proper
ventilation and to prevent overheating.
IMPORTANT! Do not expose the instrument to intense ultraviolet light.
CELENA® X Controller
Place the Controller near the CELENA® X. A separate surface is recommended for optimal
use but is not necessary.
Connections
Unpack the cables from the accessories box and attach as specified below:
CELENA® X & Controller
CELENA® X & PC
Cable PS-1 (I10331)
USB 2.0 (I10335)**
Cable PS-2 (I10332)
USB 3.0 (I10336)**
Cable SIG (I10333)
Cable AF (I10334)*
*Included if the laser AF module was purchased and installed
**Make sure to plug into the blue USB 3.0 ports at the back of the PC, not the front
Back of the CELENA® X
The CELENA® X is compatible with 4K Ultra HD (UHD) monitors. Use a DisplayPort (DP)
cable to connect a 4K UHD monitor to the provided PC.
The CELENA® X Cell Analyzer Verification Key is a parallel or USB port hardware dongle
that unlocks Cell Analyzer functionality. Attach to the provided PC.
Controller
PC

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Shipping guard/restraints
Your CELENA® X is shipped with two shipping restraints installed (X/Y stage, LED filter
cube stage) to prevent damage to the instrument from shock and vibration during transport.
IMPORTANT! The shipping restraints must be removed before the CELENA® X is turned on.
Remove shipping restraints
1. Unscrew screw A and pull it up to remove it from the LED filter cube stage cover.
2. Unscrew screw B and pull it up to remove it from the X/Y stage.
Note: Store the screws in the accessories box for future use. Make sure they are accessible in
case you need to pack up for maintenance and servicing purposes.
Turn on the CELENA® X
IMPORTANT! The shipping restraints must be removed before the CELENA® X is turned on.
Turn on in this order:
CELENA® X Controller
CELENA® X
Run CELENA® X Explorer
IMPORTANT! Using both Explorer & Cell Analyzer at the same time can affect both imaging
and analysis time. Use just one program at a time.
Install filter cubes and objectives
IMPORTANT! CELENA® X Explorer must be on to install filter cubes and objectives.
For detailed instructions on how to install filter cubes, go to 4.2 Change filter cubes.
For detailed instructions on how to install objectives, go to 4.3 Change objectives.
Make sure the installed filter cubes and objectives match what is set in the CHANNELS panel.
Shut down the CELENA® X
IMPORTANT! Explorer must be shut down before the instrument to allow the stages to dock
for safety.
Turn off in this order:
CELENA® X Explorer
CELENA® X
CELENA® X Controller

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2. CELENA® X Explorer
2.1 User interface
The CELENA® X Explorer is the graphical user interface for the CELENA® X High Content
Imaging System.
CELENA® X Explorer
①CHANNELS: Gives control over light, camera, and focus settings.
②VESSEL: Allows you to select the appropriate vessel, wells, and fields to capture.
③Z-STACK: Allows you to capture multiple planes along the Z-axis.
④TIME LAPSE: Allows you to set up time lapse sequences.
⑤PROJECT: Allows you to run, load, save, and edit automated imaging projects.
⑥Toolbar: Has tools for capturing and visualizing the current field of view.
⑦Viewing area: Shows the current field of view.
⑧System messages: Displays system messages.
⑨Settings: Allows you to set system options and perform calibration procedures.
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Channels
This panel is used to set light, camera, and focus parameters for a project.
①Add: Adds the CHANNELS settings to the project protocol.
②Objectives: Allows you to select from the currently installed objectives.
③Channels: Allows you to select from the currently installed filter cubes and adjust
light and camera settings.
④Focus: Allows you to find focus and set up autofocusing.
Objectives
This panel is used to select from the currently installed objectives.
The magnification and label on each objective reflects its profile, which can be modified in
Settings > Objectives.
Click the desired objective to select the corresponding magnification. You can select only one
objective at a time. The selected objective is highlighted in blue.
Channels
This panel is used to set the light and camera settings.
①ON/OFF: Use to turn the light source on and off. When the light is on, the viewing
area shows the sample illuminated with the selected light source.
CAUTION! This instrument uses Class 3B ultraviolet LEDs that are in accordance with
IEC/EN 60825-1. Make the CELENA® X door is closed when imaging to protect
your eyes. Direct exposure to and diffuse reflections of the laser can be
hazardous to the eye.
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