Logos Quantom Tx User manual

USER MANUAL
LBSM-MD-ML-QTX-001
VQ1812-01
www.logosbio.com

DISCLAIMER
The contents of this document are subject to change without notice.
The QUANTOM Tx™Microbial Cell Counter is an electrical laboratory instrument 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.
FileZilla is free open-source software provided under the GNU General Public License (GPL).
© 2018 Logos Biosystems, Inc. All rights reserved.
The WEEE (Waste Electrical and Electronic Equipment) symbol indicates that users of this instrument have the
responsibility of returning and disposing of WEEE in an environmentally friendly manner.
Follow the waste ordinances of your region for proper disposal provisions.
The CE mark indicates that this instrument conforms to all applicable European Community provisions for which
this marking is required. Users must be aware of and follow the conditions described in this manual for
operating the instrument. The protection provided by the instrument may be impaired if the instrument is used
in a manner not specified by this manual.
Protective earth (Ground)
FCC Compliance This device complies with Part 18 of the FCC Rules

2
Table of Contents
Safety Precautions .................................................................................................................................................... 4
1. Product Introduction............................................................................................................................................. 5
Product Contents.............................................................................................................................................................. 5
Product Description .......................................................................................................................................................... 5
QUANTOM Tx™Microbial Cell Counter........................................................................................................................... 5
QUANTOM™Centrifuge................................................................................................................................................. 6
QUANTOM™M50 Cell Counting Slides ........................................................................................................................... 6
2. Getting Started...................................................................................................................................................... 7
Installation....................................................................................................................................................................... 7
Setup............................................................................................................................................................................... 7
QUANTOM™Centrifuge settings .................................................................................................................................... 7
QUANTOM Tx™startup................................................................................................................................................. 7
3. Counting Cells ....................................................................................................................................................... 8
Sample Preparation .......................................................................................................................................................... 8
Sample staining ........................................................................................................................................................... 8
Sample loading ............................................................................................................................................................ 8
Slide centrifugation ...................................................................................................................................................... 8
Counting with the QUANTOM Tx™..................................................................................................................................... 8
Slide insertion/removal................................................................................................................................................. 8
Viewing images............................................................................................................................................................ 8
Cell counting................................................................................................................................................................ 9
Next steps ................................................................................................................................................................... 9
Results........................................................................................................................................................................... 10
Image view................................................................................................................................................................ 10
Histograms ................................................................................................................................................................ 10
Dilution calculator ...................................................................................................................................................... 11
Save.......................................................................................................................................................................... 11
Print .......................................................................................................................................................................... 12
Quick save................................................................................................................................................................. 12
4. Reviewing/Exporting Data.................................................................................................................................. 13
Review/Export Data on the QUANTOM Tx™...................................................................................................................... 13
Review images........................................................................................................................................................... 13
Previous counts ......................................................................................................................................................... 13
Reanalyze.................................................................................................................................................................. 13
WiFi Data Transfer.......................................................................................................................................................... 14
QUANTOM™Utility...................................................................................................................................................... 14
FTP freeware ............................................................................................................................................................. 15
5. Protocols.............................................................................................................................................................. 16
Protocol Parameters ....................................................................................................................................................... 16
Counting parameters.................................................................................................................................................. 16
Dilution factor............................................................................................................................................................ 16
Fluorescent object size ............................................................................................................................................... 16

3
Roundness................................................................................................................................................................. 16
Declustering level....................................................................................................................................................... 16
Protocol Selection ........................................................................................................................................................... 17
Create/edit protocol ................................................................................................................................................... 17
Load protocol............................................................................................................................................................. 17
6. Settings ............................................................................................................................................................... 18
QUANTOM Tx™Settings .................................................................................................................................................. 18
Settings screen .......................................................................................................................................................... 18
Counting options........................................................................................................................................................ 18
Save options.............................................................................................................................................................. 19
WiFi options............................................................................................................................................................... 19
Security options ......................................................................................................................................................... 20
Background calibration............................................................................................................................................... 20
Software update ........................................................................................................................................................ 20
Date/time .................................................................................................................................................................. 20
7. Maintenance and Troubleshooting...................................................................................................................... 21
Maintenance................................................................................................................................................................... 21
Powering on/off ......................................................................................................................................................... 21
Cleaning .................................................................................................................................................................... 21
Troubleshooting ............................................................................................................................................................. 22
8. Product Specifications......................................................................................................................................... 23
9. Ordering Information.......................................................................................................................................... 24
10. Purchaser Notification....................................................................................................................................... 25

4
Safety Precautions
Instrument Safety
General safety
Operate the instrument in the conditions described in the Operating Conditions.
Install the instrument on a level and sturdy surface. Avoid vibrations from other devices.
Do not touch components with wet hands.
Use components provided or authorized by Logos Biosystems. If the proper combination
of components is not used, product safety cannot be guaranteed.
Use only the power cord and AC adapter provided by Logos Biosystems. If the proper
power cord and AC adapter are not used, electrical safety of the product cannot be
guaranteed.
Ensure that the input voltage is compatible with the power supply voltage of the product.
Connect the grounding terminal of the instrument and electrical outlet properly. If the
instrument is not grounded, electrical safety of the product cannot be guaranteed.
Turn on the instrument only after connecting the power cord and AC adapter to both the
power source and the instrument. Turn off the instrument before disconnecting the power
cord and/or moving the instrument.
Disconnect the power cord in the case of abnormalities.
Do not hold the slide slot while it is in motion.
Protect USB drives from being infected with viruses and malware.
Operating conditions
Operating Power
100 - 240 VAC, 1.2 A
Electrical Input
12 VDC, 3.3 A
Frequency
50/60 Hz
Installation Site
Indoor use only
Operating Temperature
10 - 35°C
Maximum Relative Humidity
10 - 80%
Altitude
≤ 2,000 m
Pollution Degree
2
Instrument disposal
Follow the rules and regulations of your local government.
Instrument disassembly
Do not disassemble the instrument in any event as this will invalidate your warranty.
If the instrument is damaged or malfunctioning, contact your local distributor or Logos
Biosystems.
Personal Safety
Safety guidelines
Read all user manuals thoroughly before using the instrument.
Keep all user manuals in a safe and accessible place for future reference.
Read all safety data sheets before storing, handling, or working with any reagents.
Wear appropriate personal protective equipment (PPE) when handling reagents and cell
samples to avoid exposure.
When using toxic agents, radioactive materials, or pathogenic microorganisms belonging
to WHO Risk Groups 2-4, follow national laws and regulations for biosafety level
requirements.
Waste disposal
Do not reuse QUANTOM™ M50 Cell Counting Slides. Used slides must be disposed as
biohazardous waste according to the rules and regulations of your local government.

5
1. Product Introduction
Product Contents
Product contents
The QUANTOM Tx™ Microbial Cell Counter is shipped with the following components.
*The QUANTOM™ Centrifuge is packed separately.
Inspect the product package upon delivery to ensure that all components have been
included. Contact your local distributor or Logos Biosystems if anything is missing.
Damage that may occur during shipping and handling is not covered by warranty and must
be filed with the carrier.
Component
Quantity
QUANTOM Tx™Microbial Cell Counter
1
Power Cord with AC Adapter
1
QUANTOM™M50 Cell Counting Slides, 50 Slides
1 box
QUANTOM™Total Cell Staining Kit
1 kit
QUANTOM™Calibration Beads
1
WiFi Dongle
1
USB Drive, 16 GB
1
Quick Start Guide
1
Product Description
QUANTOM Tx™
Microbial Cell Counter
The QUANTOM Tx™ Microbial Cell Counter is an image-based, automated cell counter
that can quantify individual bacterial cells. The QUANTOM™ cell counting algorithm is
the first of its kind, capable of detecting individual bacterial cells regardless of their
diverse morphologies and arrangements. Multiple images of fluorescence-stained cells are
captured and analyzed automatically for rapid and accurate bacterial cell counts.
Touchscreen
The 10” capacitive touchscreen is located in the front of the instrument and is the user
interface for the QUANTOM Tx™.
Slide port
The slide port is used to insert QUANTOM™ M50 Cell Counting Slides.
Power button
The power button is the main power control.
Slide port
Power button
Touchscreen
Front

6
USB ports
USB ports allow the user to transfer or print cell count data. Connect the supplied USB
drive or the provided WiFi dongle to export data. A LUNA™ Printer (P10001) may be
connected to print numerical data.
Power inlet
Connect the power inlet of the instrument to an electrical outlet with the supplied AC
adapter and power cord.
QUANTOM™Centrifuge
The QUANTOM™ Centrifuge is a benchtop centrifuge that can hold up to eight
QUANTOM™ M50 Cell Counting Slides. The QUANTOM™ Centrifuge immobilizes
bacterial cells along one focal plane for accurate counting with the QUANTOM Tx™
Microbial Cell Counter. For detailed instructions, refer to the QUANTOM™ Centrifuge
user manual.
QUANTOM™
M50 Cell Counting Slides
QUANTOM™ M50 Cell Counting Slides are disposable slides designed for use with the
QUANTOM Tx™. QUANTOM™ M50 Cell Counting Slides have two sample chambers,
labeled A and B. The QUANTOM Tx™ captures high-resolution images of up to 20 fields-
of view of the counting chamber, the equivalent of approximately 0.2 μL.
Hold QUANTOM™ M50 Cell Counting Slides by the edges to avoid touching the optical
surface.
Right
Back
USB ports
USB ports
Power inlet
Rotor & rotor lid
Control panel
Door
Power switch

7
2. Getting Started
Installation
Installation
Unpack the QUANTOM Tx™ and QUANTOM™ Centrifuge. Place them on a clean, level,
and sturdy surface.
Avoid vibrations from other devices.
Leave sufficient space around the instruments to allow proper ventilation and
prevent overheating.
Do not expose the instruments to intense ultraviolet light.
Connect the instruments to electrical outlets using the supplied power cords and AC
adapters.
Make sure the power cords are appropriate for your region.
Always use power cords and AC adapters provided or approved by Logos
Biosystems. If appropriate cords are not used, the electrical safety of the
instruments cannot be guaranteed.
(Optional) Connect the supplied WiFi dongle to a USB port.
(Optional) Connect a LUNA™ Printer (P10001) to a USB port.
Setup
Centrifuge settings
Turn on the centrifuge.
Press RPM/RCF once for RPM and twice for RCF. Use the < > arrows to adjust the RCF
to 300 RCF. The RCF may need to be adjusted according to microbe size.
Press TIME once for minutes and twice for seconds. Use the < > arrows to adjust the time
to 10 minutes.
For detailed instructions, refer to the QUANTOM™ Centrifuge user manual.
QUANTOM Tx™startup
Push the QUANTOM Tx™ power button for at least three seconds.
The instrument will turn on, the COUNT screen will appear, and the slide port will eject.
From this screen, you can begin counting immediately by inserting a slide or select the
following options from the menu bar.
REVIEW Select to review/export count results (pg. 13).
PROTOCOL Select to adjust the counting protocol (pg. 15).
SETTINGS Select to adjust instrument settings (pg. 17).

8
3. Counting Cells
Sample Preparation
Sample staining
Prepare samples for total cell counting or viable cell counting.
Staining for total cell counts
Prepare a bacterial suspension according to standard procedures. Mix gently but
thoroughly to ensure that the suspension is homogenous.
Mix 10 µL sample with 1 µL QUANTOM™ Total Cell Staining Dye and 1 µL
QUANTOM™ Total Cell Staining Enhancer. For most cells, proceed directly to the next
step. For some cells, it may be necessary to increase incubation time from 1-30 minutes.
Longer incubation times can increase staining but also lead to non-specific staining and
cell aggregation.
Staining for viable cell counts
Prepare a bacterial suspension according to standard procedures. Use the QUANTOM™
Viable Cell Dilution Buffer to wash and dilute cell suspensions as necessary. PBS or water
will decrease labeling efficiency. Culture media or sera may have esterase activity and lead
to decreased staining efficiency and high background fluorescence.
Mix 10 µL sample with 2 µL solubilized QUANTOM™ Viable Cell Staining Dye. Incubate
at 37°C for 20 minutes to 3 hours in the dark. 30 minutes is recommended for most
bacterial cells.
Sample loading
Add 8 µL QUANTOM™ Cell Loading Buffer I to a stained cell mixture. Mix gently so as
not to create bubbles, which may affect counting results.
Prepare a new QUANTOM™ M50 Cell Counting Slide. Hold the slide by its edges and the
pipette at a <30° angle to the slide. Load 5-6 µL of the cell sample into a sample chamber.
Due to the viscosity of the loading buffer, it will take 10-30 seconds to completely fill the
sample chamber. Be careful not to over-load or under-load the sample chamber.
Slide centrifugation
Put the slide into the QUANTOM™ Centrifuge with the slide sample port facing the rotor
center. Make sure the centrifuge rotor is balanced symmetrically. Centrifuge at 300 RCF
for 10 minutes. However, make sure to balance the centrifuge.
Important! Handle the slide carefully after centrifugation and proceed to the
next step immediately to prevent sample disruption.
Counting with the QUANTOM Tx™
Slide insertion/removal
To insert the slide into the instrument, push the slide face up and sample-side first into the
slide port of QUANTOM Tx™. The QUANTOM Tx™ can only analyze the inserted
chamber. Press INSERT. The slide port will move into the instrument.
To remove the slide from the instrument, press EJECT in the COUNT screen. The slide
will eject automatically upon completing a count.
Viewing images
The QUANTOM Tx™ will automatically turn on the light and focus in on cells upon slide
insertion. This can be changed in the Settings: Counting Options (pg. 17).

9
Light
When the light is on, a light control bar will appear in the bottom left corner of the screen.
Adjust the light intensity as needed by pressing the light control bar arrows. Take care to
prevent sample photobleaching.
Important! Adjusting intensity levels may affect counting results. For optimal
counting, do not oversaturate with light.
For total cell counting, the recommended level is 5. For viable cell counting, the
recommended level is 9. When counting beads, lower the intensity to the ‘bead’ setting.
Scrolling
The QUANTOM Tx™ can capture up to 20 images. Use the arrows under the COUNT
button to scroll through the different fields of view.
Focusing
The QUANTOM Tx™ has an autofocusing algorithm that works in tandem with the
focusing mechanism. Press Autofocus to bring cells into focus or adjust the focus
manually using the arrows in the Focus control bar.
Zoom
Zoom in or out by moving two fingers farther apart or closer together while touching the
capacitive touchscreen. The boxes in the top left of the image represent the field of view of
the imaging equipment. The inner box is the current view and the outer box is the
superview. The size and location of the inner box will change with the magnification of the
screen.
Cell counting
To start counting, press COUNT. When the counter is set to autofocus during counting, the
instrument will readjust the focus as necessary as the slide is moved to capture multiple
images along the sample chamber.
Counting time will vary depending on cell concentration, the number of images captured,
and the protocol used. With the QUANTOM Tx™ set to autofocus during counting with the
DEFAULT protocol, cell samples with a concentration of ~1 x 107 cell/mL will take
approximately one minute to count when capturing and analyzing 20 images.
When counting is complete, the results will appear and the slide will be ejected
automatically from the instrument.
Next steps
Scroll through cell images and corresponding data (pg. 10).
Press Histogram & Gating to see a graphical representation of the data (pg. 10).
Calculate subsequent dilutions with the Dilution Calculator (pg. 11).
Save results by pressing the Save & Print button (pg. 11).
Count the sample in the second chamber. Remove the slide, reinsert the second chamber
side first, and press the Next Count button. Be careful not to jostle or disturb the sample.