Journal: STAR Protocols

Article Title: MATISSE: An analysis protocol for combining imaging mass cytometry with fluorescence microscopy to generate single-cell data

doi: 10.1016/j.xpro.2021.101034

Figure Lengend Snippet: Tile-region scanning settings Zeiss Z1 imager

Article Snippet: Z1 imager , Zeiss , Cat# 423900-9901-000.

Techniques:

Journal: STAR Protocols

Article Title: MATISSE: An analysis protocol for combining imaging mass cytometry with fluorescence microscopy to generate single-cell data

doi: 10.1016/j.xpro.2021.101034

Figure Lengend Snippet: Generating tile-region scan Tile settings used on the Zeiss Z1 imager for scanning tile-regions. (1) Starting position of the cursor after X/Y position calibration. (2) Selection of a region on the glass slide for preview scanning. (3) Selection of a region of interest for 20× scanning on the preview scan.

Article Snippet: Z1 imager , Zeiss , Cat# 423900-9901-000.

Techniques: Selection

Journal: STAR Protocols

Article Title: MATISSE: An analysis protocol for combining imaging mass cytometry with fluorescence microscopy to generate single-cell data

doi: 10.1016/j.xpro.2021.101034

Figure Lengend Snippet: Setting focus points (A and B) Settings used on the Zeiss Z1 imager for (A) adding focus points to tile scans, and (B) setting Z-stacks. (C) Representative image of a selected region of interest for 20× scanning projected on the preview scan. The yellow circles indicate the set focus points. (D) Pop-up window for verification of tile regions/positions.

Article Snippet: Z1 imager , Zeiss , Cat# 423900-9901-000.

Techniques:

Journal: STAR Protocols

Article Title: MATISSE: An analysis protocol for combining imaging mass cytometry with fluorescence microscopy to generate single-cell data

doi: 10.1016/j.xpro.2021.101034

Figure Lengend Snippet: Export settings Zeiss Z1 imager

Article Snippet: Z1 imager , Zeiss , Cat# 423900-9901-000.

Techniques:

Journal: STAR Protocols

Article Title: MATISSE: An analysis protocol for combining imaging mass cytometry with fluorescence microscopy to generate single-cell data

doi: 10.1016/j.xpro.2021.101034

Figure Lengend Snippet:

Article Snippet: Z1 imager , Zeiss , Cat# 423900-9901-000.

Techniques: Recombinant, Blocking Assay, Labeling, Immunostaining, Software, Microscopy, Modification, Adhesive, Staining, Imaging

Journal: bioRxiv

Article Title: Automated 3D multi-color single-molecule localization microscopy

doi: 10.1101/2023.10.23.563122

Figure Lengend Snippet: The system features a custom microscope body (magenta), emission path with 3D and synchronous multi-channel/color imaging capabilities (yellow) and focus lock path (red). Multiple illumination sources are available: single-mode illumination path with fiber-coupled laser engine source (cyan) ii) single-mode booster laser (blue), multi-mode illumination path (green). The configuration shown includes all optional modules. For scale, the underlying optical breadboard measures 1.5 × 0.9 m.

Article Snippet: Others may have other preferences, for example, the maximum illumination field is a relatively modest 77 μm in line with comparable commercial systems (e.g., Nikon N-STORM, ONI NanoImager, Bruker Vutara, Zeiss Elyra), whereas several reports have described SMLMs, with larger fields [ , , ].

Techniques: Microscopy, Imaging

Journal: bioRxiv

Article Title: Automated 3D multi-color single-molecule localization microscopy

doi: 10.1101/2023.10.23.563122

Figure Lengend Snippet: A) Single-mode illumination path(s) (blue): The single-mode laser(s) are spatially filtered, expanded and homogenized. The resulting flat-top intensity profile is further expanded by exchangeable telescopes to control the size of the illumination field. Setting the angle for TIRF/HILO illumination is accomplished by positioning of a motorized mirror. The laser power is monitored in real time by measuring the <1% transmission of the laser lines at the illumination dichroic mirror. Emission path (green): A primary image is produced by a tube lens, restricted in spatial extent by a slit and relayed in a 4f configuration via a spectrally discriminative image splitter to form two secondary images on an sCMOS camera. A variable astigmatic lens (cylindrical lens pair) can be removed/inserted for 2D/3D imaging, while a Bertrand lens allows viewing of the objective back focal plane. Focus lock path (red): The focus lock laser is separated from emitted fluorescence by the emission dichroic mirror, focused to the objective back focal plane and launched obliquely to return under the TIRF condition allowing axial drift of the coverslip relative to the objective lens to be measured via a quadrant photodiode and corrected via the control loop of the piezo flexure stage mounting the objective. B) For clarity the multi-mode laser illumination path (orange) has been shown separately but all modules are co-compatible. A magnified image of the tip of a square core multimode fiber (coupled to a multi-mode laser engine) is produced and re-imaged onto the sample via a tube lens in a retrofocus arrangement and the objective lens. The multi-mode laser is coupled into the microscope by translation of the motorized mirror (HILO/TIRF) fully out of the beam path

Article Snippet: Others may have other preferences, for example, the maximum illumination field is a relatively modest 77 μm in line with comparable commercial systems (e.g., Nikon N-STORM, ONI NanoImager, Bruker Vutara, Zeiss Elyra), whereas several reports have described SMLMs, with larger fields [ , , ].

Techniques: Control, Transmission Assay, Produced, Imaging, Fluorescence, Microscopy