Bio-Rad ZE5 Manuals

Bio-Rad ZE5 Manuals

Manuals and User Guides for Bio-Rad ZE5. We have 1 Bio-Rad ZE5 manual available for free PDF download: User Manual

Bio-Rad ZE5 User Manual

Bio-Rad ZE5 User Manual (398 pages)

Cell Analyzer and Everest Software

Brand: Bio-Rad | Category: Laboratory Equipment | Size: 123.11 MB

Table of Contents

Table of Contents
5
Safety and Regulatory Compliance
15
- Safety Warning Labels
  15
- Safe Use Specifications and Compliance
  17
  - Laser Product Hazard Classification
    17
  - Electrical Safety Information and Classification
    17
- Regulatory Compliance
  18
- Hazards
  18
  - Biohazards
    19
  - Chemical Hazards
    19
  - Explosive or Flammability Hazards
    20
  - Electrical Hazards
    20
- Transport
  20
- Operating Conditions
  20
- Disposal
  20
- Warranty
  20
Chapter 1 Introduction

21
Chapter 2 Hardware Description

27
- System Overview
  27
  - Power and Communication Connections
    28
- Fluidics System
  29
  - Sheath Bottles
    30
  - Sheath Additive Bottle
    30
  - System Cleaner Bottle
    31
  - Fluidics Filters
    31
  - Waste Bottles
    32
  - Fluidics Connections
    32
  - Sample Loader
    33
  - Flow Cell
    35
- Optics
  37
  - Lasers
    37
  - Beam-Shaping Optics
    38
  - Interrogation
    38
  - Light Collection
    38
  - Forward Scatter
    39
  - Side Scatter
    39
  - Optical Filters and Mirrors
    40
  - The ZE5-EYE
    47
  - Optical Filter Access Door
    48
  - Photomultiplier Tubes
    48
- Electronics
  49
  - Pre-Amplifiers
    49
  - Analog-To-Digital Converters
    49
Chapter 3 ZE5 Loader

51
- Loader Components
  52
- Media Types
  53
- Probe Cleaning
  55
- Loader Movement
  55
Chapter 4 Everest Software

57
- Login Window
  58
- Home Window
  59
  - Experiment Buttons
    60
  - Help and Information Menu
    61
  - Home Window Tools
    62
  - Resetting Your Password
    63
  - Recent Experiment Sessions
    64
  - Quick Actions
    65
- Experiment Builder
  66
  - Name Screen
    66
  - Fluorophores Screen
    67
  - Samples Screen
    71
  - Settings Screen
    85
- Acquisition Workspace
  91
  - Instrument Control Panel
    91
- The Toolbar
  95
  - Details
    95
  - Tools
    95
  - Batch Tools
    97
  - Quick Action and System Action Tools
    97
  - System Tools
    98
  - Other Toolbar Buttons
    100
- Status Bar
  101
  - Notifications and System Logs
    102
Chapter 5 Configuring the System

105
- Managing Users
  105
  - Creating a New User
    105
  - Editing User Information
    110
  - Managing User Accounts
    112
- Setting Global Preferences
  112
  - Setting Plot Display Defaults and Stopping Acquisition
    114
- Editing QC Criteria
  116
  - Specifying Logged out Settings
    116
  - Setting File Save Parameters
    117
  - Specifying UI Preferences
    118
  - Setting up Vacation Mode
    118
  - Specifying Statistics Preferences
    121
- Working with Optical Filter Configurations
  122
Chapter 6 Daily Routine

143
- System Power
  143
- Starting Everest Software
  144
  - Checking Fluidics Status
    144
- Refilling Bulk Fluidics
  145
- Logging in
  153
- Starting up the System
  154
- Running Quality Control
  158
- Accessing the Loader
  161
- Running Experimental Samples
  162
- Pausing the System
  162
- Shutting down
  163
  - Scheduling Automatic Startups
    167
- Exiting Everest Software
  168
Chapter 7 Creating Experiments and Workspaces

169
- Creating a New Experiment
  169
- Selecting Fluorophores
  170
- Setting up the Run List
  172
  - Selecting the Media Type
    172
  - Creating a Custom Media Type
    175
  - Plate Settings Controls
    181
  - Setting the Run List Order
    182
  - Activating Temperature Control
    182
  - Specifying Shutdown Upon Completion
    183
  - Setting up Compensation Controls
    184
  - Labeling Positions Manually
    185
  - Labeling Positions Automatically
    186
  - Importing Names from a Spreadsheet
    189
  - Setting up Keywords
    192
  - Position Settings Controls
    195
  - Assigning Position Types
    199
  - Selecting Standard or High-Throughput Acquisition
    201
  - Pausing after a Tube or Well
    202
  - Setting Volumetric Counting on Samples
    202
  - Returning Sample to a Tube or Well
    203
  - Setting Stop Conditions
    204
  - Configuring Wash Settings
    204
  - Activating Agitation
    205
  - Specifying Flow Rate or Event Rate
    205
  - Adding Experimental Reagents
    206
  - Reviewing the Run List
    209
- Creating Plots and Histograms
  211
  - Plots Created by the Compensation Template
    211
  - Creating Density Plots
    213
  - Creating Histograms
    214
  - Creating Time Plots
    215
  - Creating Histograms for All Channels
    216
- Using Plot and Histogram Tools
  219
  - Modifying Plot Parameters
    221
  - Managing Plot Statistics
    223
  - Viewing and Rearranging Plot Statistics
    224
  - Comparing Statistics
    225
  - Adding Regions to Density Plots and Time Plots
    227
  - Adding Bar Regions to Histograms
    236
  - Renaming Regions
    237
  - Applying Filters (Gates)
    238
  - Applying Filters (Gates) Using Multiple Regions
    240
  - Applying Gate Limits
    243
  - Assigning Data Track Regions
    244
  - Applying Heat Maps
    246
  - Configuring Hit Detection
    249
  - Adding Diagonal Separators to Plots
    251
  - Applying a Region to All Plots
    252
  - Adding Annotations to Plots
    253
  - Using Plot Ratios
    255
  - Exporting Plots and Histograms
    258
- Configuring Instrument Settings
  259
  - PMT and Laser Controls
    260
- Setting up Multiple Panels
  264
- Running or Saving the Experiment
  267
- Running a Quick (Stat) Sample
  268
  - Adding a Stat Tube to a Plate or Rack
    269
- Running an Existing Experiment
  272
- Importing Settings
  274
Chapter 8 Acquiring Samples

277
- Loading Sample Media
  277
  - Setup Mode Controls
    278
  - Acquiring Initial Sample in Setup Mode
    280
  - Acquisition Mode Controls
    284
  - Running Samples in Acquisition Mode
    285
  - Using High-Throughput Mode
    287
- Pausing, Stopping, and Resuming Samples and Experiments
  288
  - Pausing Sample Acquisition
    288
  - Stopping Sample Acquisition
    288
  - Using Pause after in an Experiment
    288
  - Stopping and Resuming an Experiment
    289
- Exporting FCS and RLST Data Files
  290
  - Exporting the FCS Data File for a Single Position
    290
  - Exporting FCS and RLST Data Files
    292
Chapter 9 Applying Fluorescence Compensation

293
- Setting up the Experiment
  293
- Adjusting Compensation Automatically
  297
- Adjusting Compensation Manually
  300
  - Dragging Populations
    300
  - Editing the Compensation Matrix
    301
Chapter 10 Analyzing, Saving, and Printing Data

303
- File Types in Everest Software
  303
- File Structure of Saved Data
  303
- Analyzing Data
  304
- Publishing Data
  311
  - Publish Toolbar
    312
  - Preparing Reports
    312
  - Printing a Report for the Selected Position
    313
  - Printing a Report for All Positions
    314
Chapter 11 Reports

315
- Quality Control and ZE5-EYE Reports
  315
  - Reports Tools
    315
  - Generating Daily QC Reports
    315
  - Generating QC Trending Reports
    318
  - Generating ZE5-EYE Trending Reports
    319
- Generating User Reports
  320
Chapter 12 Maintenance

321
- Recommended Maintenance Schedule
  321
  - Daily
    321
  - Weekly
    321
  - Monthly
    322
  - Yearly
    322
- Cleaning Solutions
  323
- Unclogging the Sample Line and Probe
  324
- Cleaning the Sample Line and Probe
  326
- Decontaminating the System
  327
  - Required Materials
    328
  - Preparing for the Decontamination Process
    328
  - Decontaminating the System
    330
- Cleaning the Optical Filters
  336
- Replacing the QC Beads
  337
- Maintaining the System When Not in Use
  340
Appendix A Troubleshooting

341
- Exporting and Viewing Log Files
  341
- Deleting Acquired Data Files
  342
- Viewing Everest Software 2.0 FCS Files in Flowjo Software
  344
- Fluidics Issues
  345
- Software Issues
  345
- Acquisition/Event Issues
  346
- Hardware/Electronics/Laser Issues
  360
Appendix B Example 9-Color Immunophenotyping Experiment

361
- Preparing Controls and Samples
  361
- Setting up Fluorophores and Controls
  362
- Setting up the Sample and Sampling Parameters
  364
- Creating Plots for the Experimental Sample
  368
- Acquiring Initial Data
  370
- Performing Initial Data Analysis
  373
- Performing Automatic Compensation
  375
- Resuming Acquisition
  377
- Analyzing or Exporting Final Data
  378
Appendix C Optional External DI Water and Waste Ports

381
- Connecting External DI Water
  381
- Connecting External Waste
  383
  - Specifying External Port Use
    383
Appendix D ZE5 Cell Analyzer Specifications

386
Appendix E Ordering Information

389
Appendix F References

392
- Glossary
  393

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