AttuneTM Acoustic Focusing Cytometer Training Manik Punj Attune Training
Attune Training Agenda Section 1
An Introduction to Flow Cytometry
Section 2
An Introduction to Acoustic Focusing Hydrodynamic Focusing vs. Acoustic Focusing
Section 3
Instrument Systems Optics, Fluidics, Electronics
Break Section 4
Performance Tracking
Section 5
Software Overview Ribbons and Menus
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What is Flow Cytometry? CYTOMETRY is the measurement of physical or chemical characteristics of cells or particles FLOW CYTOMETRY measurements are made as cells or particles in suspension pass individually through a flow cytometer instrument •
Performed on single cell suspensions
•
Provides discrete measurements from each cell in the sample
•
Provides a distribution of the measured characteristics in the sample
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Flow Cytometry: What Can I do? • Flow cytometric measurement records data from single cells • Rapid statistical analysis on large numbers of cells are obtained • Identifying subpopulations within a heterogeneous population • Ability to identify cell populations on multiple characteristics • Ideally suited for blood and other cells in suspension • Ability to archive data • Data format allows post acquisition analysis
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Flow Cytometry Basics 1. Cells in a single profile pass through the flow cell 2. Laser hits individual cell Passing through the narrow tube called flow cell. 3. Deflected light hits a series of detectors (PMTs) 4. The signal from detectors are interpreted by a computer
Flow cell figure taken from http://www.med.umich.edu/flowcytometry/training/lessons/lesson1/index.htm 5 | Life Technologies Proprietary & Confidential | 11/7/2011
Particle Delivery: Hydrodynamic Focusing Hydrodynamic core
Laser Cross Sectional Area
particle focus = narrow distribution
−sheath
−sheath
−Count
−narrow
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−Intensity
Particle Delivery: Hydrodynamic Focusing Low Flow Rate
High Flow Rate
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−sheath
−sheath
−sheath
−sheath
Laser Cross Sectional Area
Particle Delivery: Hydrodynamic Focusing broad particle focus = broad distribution −Count
Laser Cross Sectional Area
Increase sample input volume = increase flow rate = decrease in pressure difference = increase core diameter
•
Particle distributions broadened
•
Instrument resolution decreased
Volumetric sample rates = 25 ul/min – 150 ul/min 8 | Life Technologies Proprietary & Confidential | 11/7/2011 •
−sheath
•
−sheath
−Intensity
Acoustic Focusing: How does Attune™ Cytometer Differ from Conventional Flow Cytometers?
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What is Acoustic Focusing? A century old phenomenon
No acoustic force
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With acoustic force
Acoustic Focusing Capillary ~20cm
Piezo-electric device Capillary
acoustic waves – similar to ultrasound used to visualize a fetus in utero.
Focused Particles/cells
~ ~ ~ ~ ~ ~ ~ ~ ~ ~ Flow
•Sheath is not required to focus cells •Flow rate can also be increased while maintaining resolution •Flow rate past laser can be precisely controlled to very slow rates, allowing more fluorescence and scatter signal per particle 11 | Life Technologies Proprietary & Confidential | 11/7/2011
Laser (~10µm high)
Acoustic Focusing Low Flow Rate
High Flow Rate
Laser Cross Section
Acoustically focused
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−sheath
−sheath
−sheath
−sheath
Piezoelectric Transducer
Acoustic Focusing Cytometry: Practical Considerations Capillary
Cells
Piezoelectric ultrasonic device
Laser (~10µm high)
Detector
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•
Acoustic forces cause cells to line up in the center of the capillary. No sheath flow is necessary for particle alignment.
•
Flow rate past laser can be precisely controlled to very slow rates, allowing more fluorescence and scatter signal per particle (better sensitivity)
•
Faster sample flow rates and speedy analysis of dilute samples facilitates rare event analysis
Acoustic Focusing
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Acoustically Focused Sample
Laser Cross Section
particle focus = narrow distribution −Count
−narrow
Acoustic focusing
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−sheath
−sheath
−Intensity
Focus Cells Long Before They Get There
Variable Laser Interrogation Times
Laser Interrogation Point
Laser Interrogation Point
Variable flow speeds
Sensitivity HighHigh sensitivity mode/High sample rate Transit Time = 40 usec Total Volume = 600ul/min Velocity = ~0.5m/s 16 | Life Technologies Proprietary & Confidential | 11/7/2011
LowStandard sensitivitySensitivity mode/High sample rate mode Standard
Transit Time = 10 usec Total Volume = 2400 ul/min Velocity =~2m/s
Controlling Cell Speed Without Hydrodynamic Focus High sensitivity 100 ul/min 0.5 meters/sec
Standard sensitivity 100 ul/min 2 meters/sec
Detector Laser
Focusing Solution Manifold Piezoelectric ultrasonic device
Cells
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Transit Modes and Times • Standard (2400 ul/min total volume) Pre-set Sample Input Rate (in ul/min)*
Focusing Fluid Input Rate (in ul/min)
Focusing Fluid to Sample Ratio
25
2375
95:1
100
2300
23:1
200
2200
11:1
500
1900
3.8:1
1000
1400
1.4:1
*note that the particle velocity and interrogation time remains constant regardless of the sample input rate since the total volume (sample and focusing fluid) is constant at this transit mode
• High Sensitivity (600 ul/min total volume) Pre-set Sample Input Rate (in ul/min)
Focusing Fluid Input Rate (in ul/min)
Focusing Fluid to Sample Ratio
25
575
23:1
100
500
5:1
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Questions ?
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Section 2 - Instrument Systems • Flow Cytometer is comprised of 3 subsystems: • Fluidics - To introduce and focus the cells for interrogation • Optics - To generate and collect the light signals • Electronics - To convert the optical signals to proportional electronic signals for computer analysis
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Fluidics The purpose of a fluidics system is to transport particles in a fluid stream to the laser beam for interrogation. Three conditions needed for optimal interrogation: •
The stream transporting the particles should pass through the focal point of the laser beam.
•
Optimally one particle should move through the laser beam at one time.
•
Fluidics system needs to be free of air bubbles & debris.
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Fluidics
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Fluids Attune Focusing Fluid– is an isotonic, buffered, azide-free support/carrier reagent for transporting particles through the capillary assembly to the flow cell for laser interrogation. It contains a preservative and detergent designed to minimize bubble formation. Prevents sample from coming into contact with the walls of the flow cell (optical cuvette). Attune™ Wash Solution – is a ready-to-use solution for removing cellular debris and dyes from the fluidics system of the instrument. Attune™ Shutdown Solution – is a 10X solution that prevents bubble formation in the fluidics system of the instrument. Prepare a 1:10 dilution of the shutdown solution in deionized water. 10% Household Bleach Solution in deionized water (0.5% Sodium hypochlorite) – decontaminates the fluidics lines. Prepare this solution fresh daily and use during the shutdown procedure. Deionized water – used for diluting Attune™ Shutdown Solution and bleach, as well as for long-term storage of the instrument.
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Collection Panel
Run Status indicated the event rate as events per second and the progression of sample collection Collection criteria allows users to define the endpoint of collection Collection controls allows users to run, record, stop sample or clear data Collection mode allows users to run in high sensitivity mode or standard mode as well as choose sample input rate
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Fluidics Functions •
De-bubble is a user-initiated function for clearing bubbles in the fluidics lines of the cytometer.
•
Wash is a user-initiated system cleaning between sticky samples. This function requires user supplied 10% bleach solution.
•
Unclog function is a user-initiated back flush operation to remove clogs from the sample probe and flow cell.
•
Rinse flushes system between samples to minimize carryover. This function is run automatically between samples, but it can also be user initiated.
•
Shutdown is an automated function that decontaminates, cleans, rinses and powers off the cytometer. This mode requires user supplied bleach, Attune™ Wash Solution, and Attune™ Shutdown Fluid.
•
Startup primes the instrument fluidics with Attune™ Focusing Fluid.
•
Stop is used to end any running script.
•
Clear Error is used to erase any error prompts.
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Status Lights
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Routine Maintenance Procedure
Frequency
• Shutdown
Daily
• Visual inspection of sample injection port
Daily
• Visual inspection of fluidics tanks and connections
Daily
• Visual inspection of syringe pumps
Daily
• Computer maintenance
Weekly
• Optical filter cleaning
Monthly
• Fluidics maintenance
As needed*
• Replacing syringes
As needed*
• Changing focusing fluid filter
As needed*
* The frequency of maintenance depends on how often you run the cytometer. If the Attune is to be unused for a period of time exceeding two weeks, perform the shutdown function using distilled water.
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Daily maintenance
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Daily operation - visual inspections • Fluidics compartment: make sure there is no fluid or salt residue on the floor of the compartment, around the connectors, or tube junctions. • Check the fluid levels. Fill/empty as needed focusing fluid wash solution shutdown solution waste • Syringe compartment - make sure there is no fluid or salt residue on the floor of the compartment focusing fluid filter – change if there are any signs of debris/dirt or if the focusing pump stays on for too long. If working correctly, the pump should only be on seconds/less than a minute. syringes – change if they leak or have salt residue build-up
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Daily operation – startup / shutdown • Startup Function Starts the fluidics, optics and electronics • Warms up the lasers (give 15 minutes before running samples) • Initializes the syringe pumps • Primes the instrument fluidics •
• Shutdown Function • Turns off lasers • Cleans and rinses the fluid lines • Refills fluid lines with shutdown solution
• Ensures that: all fluidic lines are clean • Syringe pumps are filled with fresh focusing fluid • Lasers are warmed up to operating temperature •
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• Ensures that: • Fluid lines are filled with a solution that prevents crystal formation and bubbles
Regular Computer Maintenance Procedures
• Back up your experiments on a regular basis to a secondary storage device • Defragment the hard drive of the computer weekly • Minimize memory usage: -When planning the experiments remember to delete parameters that you do not need i.e. only collect the parameters needed
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Questions?
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Optics
Dichroic Mirrors
Band Pass Filters
50mW 405nm Violet Laser 20mW 488 Blue Laser
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Laser Light Scatter Forward Scattered light (FS) is proportional to cell-surface area or size. Side-scattered light (SS) is proportional to cell granularity/internal complexity of the cell. SS is usually collected at 90 degrees to the laser beam.
. Laser
.
. .
.
. . .. .
.
SS detector
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FS detector
Fluorescence- Common Definitions Fluorescence - is the result of a three stage process in certain molecules called fluorophores, or fluorescent dyes.
Absorption spectrum - The wavelength range over which a fluorescent compound can be excited.
Emission spectrum - The range of emitted wavelengths of a fluorescent compound, it is a longer wavelength than the absorption wavelength.
Auto-Fluorescence - Otherwise know as background fluorescence that originates from endogenous sample constituents or from unbound or nonspecifically bound probes.
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This Box is to cover up the word summary and arrow
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Optical Filters
There are five types of optical filters used in flow cytometry: • Bandpass filter (BP) • Longpass filter (LP) • Shortpass filter (SP) • Dichroic mirror (DM) • Neutral density filter (ND) 38 | Life Technologies Proprietary & Confidential | 11/7/2011
Long Pass
Band Pass Filters
Short Pass
Dichroic Mirror
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Product Overview: Attune® Laser Configuration Laser
488 nm Blue 20 mW laser
638 nm Red 50 mW laser
Laser
488 nm Blue 20 mW laser
405 nm Violet 50 mW laser
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Channel BL1 BL2 BL3 BL4 FSC RL1 RL2 SSC
Filter 530/30 574/26 690/50 780/60 488/10 660/20 780/60 638/10
Wavelength Range 551-545 (FITC) 561-587 (PE) 665-715 750-810 483-493 650-670 750-810 633-643
Channel BL1 BL2 BL3 VL1 VL2 VL3 FSC SSC
Filter 530/30 574/26 640LP 450/40 522/31 603/48 405/10 405/10
Wavelength Range 515-545 561-588 >640 430-470 507-537 579-627 400-410 400-410
Compensation •Compensation is the process by which we correct for "spillover“ •Every fluorescent molecule emits light with a particular spectrum unique to that molecule •These emission spectra overlap, in some cases very significantly
530/30 46.8% FITC 0.4% R-PE 0% PerCP 575/26 10.1% FITC 53.9% R-PE 0% PerCP 648 LP 0.1% FITC 8.8% R-PE 99.7% PerCP
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Uncompensated vs. Compensated Data
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Questions?
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Electronics Functions of Electronics: • Converts detected light signals into electronic signals • Electronic signals are process by the computer system • Converts signals from detectors into digital data used for analysis
Electronics and Computers
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Laser
Voltage Pulse in PMT
Voltage
Sample Flow
Laser
Voltage
Time
Time Voltage
Laser
Peak Height Width Area
Time 45 | Life Technologies Proprietary & Confidential | 11/7/2011
Pulse Height
Volts
Electronic Pulse
Pulse Area
Threshold (“trigger”) 0 Pulse Width
Time (µ Seconds)
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SSC
FL2
Electronics: Overview
Time
FL1
FSC
FSC
Time Data Processor
SSC
Time FL1 Time FL2 Time FL3
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Doublet Discrimination
Doublets
Singlets
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Questions?
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Instrument Performance Tracking • Allows you to monitor performance of the instrument • Critical to ensure accuracy and sensitivity of instrument • Includes: •Running the same bead particle set (AttuneTM Performance Beads) •Monitoring changes in the CV •Monitoring changes in mean fluorescent intensity •Tracking linearity of instrument •Evaluating quantum efficiency and background •Sets laser delay •Sets the instrument’s performance baseline • Provides information about all the lasers and detection channels 50 | Life Technologies Proprietary & Confidential | 11/7/2011
Attune Performance Tracking Beads • A mixture of beads of four fluorescence emission intensities in equal concentration − Blank − Dim − Medium − Bright • 3mL vial PN: 4449754
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Running Baseline • Uses performance tracking beads • CSV file obtained from Applied Biosystems® website • Performed any time a new lot of AttuneTM Performance beads are used • Performed after any major maintenance on the instrument • The percent half-peak coefficient of variation (%HPCV) of the brightest bead is recorded • PMT is adjusted to place the brightest bead at target MFI values, and voltage values for each channel are recorded • Relative quantum efficiency (rQ) and relative Background (rB) is calculated for each channel • Linear regression is calculated and recorded • Laser delay setting is also automatically calculated 52 | Life Technologies Proprietary & Confidential | 11/7/2011
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Running Daily Performance Check • Performed after baseline values have been defined • AttuneTM Performance Beads are used to run daily performance measurements to track the performance of the cytometer • Run the performance test at least once per day that the instrument is used • Determines the voltage required to place the brightest bead in the target MFI, and calculates the delta PMT voltages as compared to the baseline. • %HPCV of the bright bead is recorded • Relative quantum efficiency (rQ) and relative Background (rB) is calculated for each channel • Linear regression is calculated and recorded • Laser delay setting is also automatically calculated • Levy-Jennings charts provides a record of %HPCV and PMT voltage to check for shifts and trends
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Daily Performance Check
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Levey-Jennings Reports
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PMT Voltage A calibration curve plot showing limit of detection (LOD), limit of quantification (LOQ), dynamic range, and limit of linearity (LOL).
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What to do if performance check fails 1. 2. 3. 4. 5. 6.
Repeat performance check Check the Performance test troubleshooting section in the users guide. If additional help is required, don’t hesitate to call . Call: 800-831-6844 or 1-800-327-3002, option 4 (5 am-5 pm PST), or email:
[email protected] The AB Call Center will open a call or simply transferring the call to the TAC group if assistance is needed. Provide the serial number and contact information www.appliedbiosystems.com/support
Request instrument repair
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Other maintenance
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Other maintenance - Optics Filter holders
• Check for dust or scratches • Remove any dust from the surface with a blower (compressed gas) or a soft brush. • If necessary, gently clean using a clean lens cloth and lens cleaning solution or MeOH • Frequency – monthly or less
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Other maintenance optics • Important notes: Always allow at least 10 min for the lasers to reach operating temp − Powering the instrument on/off within 30 minutes can decrease the laser lifetime. − The “Shutdown” and “Wash scripts” powers off the lasers automatically, allow at least 10 min for the laser to reach operating temperature − If you cancel shutdown, allow at least 10 min for the lasers to reach operating temperature −
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Other maintenance – Fluidics decontamination • Potential problem - contamination − −
Check for cloudiness or debris Discolored solution or brown marks on sensor
• Cleaning instructions: User bulletin # 4468798 Jun 2011 • Frequency: monthly • Perform ‘system flush’ if the instrument will not be used for ≥ 2 weeks
• Replacement part #s - 1L waste - 1L focusing fluid - 250 ml wash soln - 250 ml shutdown soln
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# 90039272 # 90039273 # 90032053 # 90039274
Other maintenance - focusing fluid filter and syringes
Focusing Fluid Filter
10ml Syringe Syringes/Pumps door
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1ml Syringe
Other maintenance – Focusing fluid filter Focusing fluid filter PN 4456564 Crack
The filters will grow some contamination over time. If you can see brownish red spot, and if the filter is intact, it should still keep this growth out of the bottle. The focusing fluid filter air gap needs to point down ( ) Replacing focusing fluid filter every 6 months reduce the risk of any potential contamination in the lines. Don’t hesitate to replace focusing fluid filter !
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Other maintenance - Syringes
• Potential problem: Check for leaks − Erratic fluid draws from fluidics tanks or SIP − No fluid draws up from the fluidics tanks or SIP −
• Part numbers: - 1 ml syringe - 10 ml syringe
• Frequency: as needed
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4452079 4452819
Syringe replacement – directions in manual (V 1.2.5) • Run “Shutdown script”. The plunger will be lowered and instrument will turn off • Open the Pump door and remove the plunger lock screw • Unscrew the syringe from the valve by rotating it counter-clockwise • To install a new syringe, pull the plunger down • Align the syringe with valve and syringe plunger holder assembly • Rotate clockwise until the syringe end cap seal hits the bottom of the valve • After bottoming out, rotate clockwise ¼ turn to ensure complete seal • Align the hole in the plunger with the hole in the plunger holder assembly • Insert the plunger lock screw and tighten Notes: • No tools should be used to tighten the syringe to the valve. • Over tightening the syringe beyond the above recommendation could result in damage to the syringe and/or valve. • Proper syringe-to-valve seal is crucial for the operation when fluids are cycling through the system. 66 | Life Technologies Proprietary & Confidential | 11/7/2011
Other maintenace: System flush / long term shutdown • Perform system flush if the Attune will be shutdown for > 2 weeks − 1. Replace all fluidics container (focusing fluid, wash and shutdown tanks) with de-ionized water − 2. Run startup − 3. Run shutdown function using deionized waster on the SIP instead of bleach − 4. When shutdown is complete, empty all fluidics tanks and allow to air dry • This process will prevent crystals from clogging the fluids system.
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Other maintenance: Software • Set up user accounts with operator privileges • Browser − Minimize the number of experiments displayed in the browser − Close all experiments except the one that is currently active (by clicking on the arrow to minimize experiments) − Remove experiments from browser but keep data on hard drive Right click on the experiment name, Click on delete experiment – the following options are displayed > Yes – will delete the experiment and associated files > No – will delete the experiment from the browser and keep the associated files (on the hard drive) > Cancel – will make no changes
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Other maintenance - regular computer maintenance procedures • Back up your experiments on a regular basis to a secondary storage device • Check thumb drives for viruses, run Antivirus software to remove threats • Defragment Hard Drive and run Disk Cleaner (Monthly) • Minimize memory usage: Instrument settings - delete parameters not needed i.e. only collect the parameters needed
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Summary Maintenance Procedure
Frequency
• Start up / Shutdown
Daily
• Visual inspection of sample injection port
Daily
• Visual inspection of fluidics tanks and connections
Daily
• Visual inspection of syringe pumps
Daily
• Computer maintenance
Weekly
• Optical filter cleaning
Monthly
• Fluidics maintenance
Monthly
• Replacing syringes
As needed*
• Changing focusing fluid filter
As needed*
• The frequency of maintenance depends on how often you run the cytometer. • If the Attune is to be un-used for a period of time exceeding two weeks, perform the shutdown function using distilled water.
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Software Overview Main Features: Tracking and Performance Experiment Explorer Collection Panel Ribbons Menus
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For Research Use Only. Not intended for any animal or human therapeutic or diagnostic use. © 2010 Life Technologies Corporation. All rights reserved. The trademarks mentioned herein are the property of Life Technologies Corporation or their respective owners. NOTICE TO PURCHASER: Limited Use Label License The products shown in this presentation may be covered by one or more Limited Use Label License(s). Please refer to the respective product documentation or the Applied Biosystems website under www.appliedbiosystems.com for the comprehensive license information. By use of these products, the purchaser accepts the terms and conditions of all applicable Limited Use Label Licenses. These products are sold for research use only, and are not intended for human or animal diagnostic or therapeutic uses unless otherwise specifically indicated in the applicable product documentation or the respective Limited Use Label License(s).
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