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Zeiss LSM 880 with AiryScan FAST User Manual

Zeiss LSM 880 with AiryScan FAST
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Training Guide for Carl Zeiss LSM 880 with AiryScan FAST
ZEN 2.3
Optical Imaging & Vital Microscopy Core
Baylor College of Medicine (2018)
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Zeiss LSM 880 with AiryScan FAST Specifications

General IconGeneral
BrandZeiss
ModelLSM 880 with AiryScan FAST
CategoryMicroscope
LanguageEnglish

Summary

Power ON Routine

System Power On Steps

Steps 1-3 for powering on the microscope system and components.

PC and Software Startup

Steps 4-6 for booting the PC, logging in, and launching the ZEN software.

Getting Started with ZEN 2.3

ZEN 2.3 Interface Areas

Overview of the three distinct areas within the ZEN 2.3 software interface.

Powering ON Lasers

Laser Warm-up and Activation

Procedure for powering on the Argon laser and activating other lasers.

Mounting Sample on the Microscope

Sample Placement and Visualization

Steps 1-3: Placing the sample and using shortcut buttons for visualization.

Focus and Stage Adjustment

Steps 4-5: Adjusting focus and stage position for sample visualization.

Initiating Imaging

Step 6: Selecting the 'Acquisition' tab to begin the imaging process.

Light Path Configuration

Fluorophore Collection Modes

Choices for collecting fluorophores: Simultaneous, Sequential, and Spectral.

Track Modes (Line vs. Frame)

Explanation of Line and Frame track switching for sequential imaging.

Setting Up Acquisition Tracks

Steps for configuring Track 1 with laser and filter settings.

Detector and Filter Settings

Steps for choosing detectors and defining emission band thresholds.

Acquisition Setup

Acquisition Mode Parameters

Configuring objective, frame size, scan speed, and averaging.

Channel Settings

Adjusting laser power, pinhole, gain, offset, and digital gain.

Scanning an Image

Pinhole and Exposure Adjustment

Setting the pinhole and using automatic exposure for initial scans.

Fine Tuning Image Quality

Range Indicator for Thresholds

Activating and using the Range Indicator to identify over/underexposed areas.

Adjusting Gain and Offset

Fine-tuning digital offset and master gain for optimal image intensity.

Interpreting Exposure Levels

Visualizing and achieving balanced exposure without red or blue pixels.

Understanding Image Quality

Key Image Quality Factors

Overview of Pinhole, Laser Intensity, and Detector Sensitivity.

Pinhole Aperture Effects

How pinhole size impacts resolution and signal level.

Laser Intensity Effects

Impact of laser power on signal, sample health, and potential artifacts.

Detector Sensitivity Effects

How detector gain affects signal, noise, and image quality.

Using Averaging for Noise Reduction

Applying averaging functions to reduce image noise.

Collecting Specific Data Types

Collecting a Z-Stack

Procedure for acquiring serial optical sections to create a Z-stack.

Collecting a Time Series

Steps for acquiring images over time to create a time-lapse series.

Collecting a Tile Scan

Procedure for acquiring tiled images to cover a larger field of view.

Saving Images

Image Saving Procedure

Steps to select, name, and save acquired images in CZI format.

Shutting Down the System

System Shutdown Steps

Procedure for safely powering down the microscope and software.

Using AiryScan

AiryScan Imaging Setup

Configuring basic settings for AiryScan imaging, including tracks and lasers.

Emission Filter Selection

Choosing appropriate emission filters for fluorophores in AiryScan.

Adding Tracks for AiryScan

Adding additional tracks and notes on line vs. frame switching for AiryScan.

AiryScan Sensitivity Settings

Setting display histogram and master gain for AiryScan sensitivity.

Optimizing AiryScan Scan Parameters

Using 'Optimal' for frame size and setting scan speed for AiryScan.

Aligning AiryScan

AiryScan Alignment Procedure

Checking and performing initial alignment for AiryScan each time the sample changes.

Continuous Scan Alignment

Using continuous scan mode for automatic AiryScan alignment optimization.

Achieving Good Alignment Status

Monitoring alignment status and stopping the scan once optimization is complete.

Processing AiryScan Data

AiryScan Processing Steps

Applying AiryScan processing for RAW data to generate the final image.

Using AiryScan FAST

AiryScan FAST Imaging Setup

Configuring basic settings for AiryScan FAST, including mode and tracks.

Emission Filter Selection for FAST

Selecting emission filters for fluorophores in AiryScan FAST.

Adding Tracks for FAST Mode

Adding additional tracks for AiryScan FAST and notes on frame switching.

Preparing AiryScan FAST for Scanning

Sampling Rate and Speed Optimization

Choosing sampling rate and setting max speed for AiryScan FAST.

Setting AiryScan FAST Sensitivity

Channel Settings and Gain Adjustment

Setting laser power, display, and master gain for AiryScan FAST sensitivity.

AiryScan FAST Alignment

Aligning AiryScan FAST if not previously done for the sample.

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