THUNDER Imager 3D Cell Culture

THUNDER Imager is a wide-field microscope that allows high-speed and high-quality 3D exploration of whole organisms, tissues, or cells. It features "Computational Clearing," which eliminates out-of-focus blur and enables shading correction. The microscope offers an environmental enclosure (temperature, humidity, and CO2 control), as well as an auto-focus to maintain samples at the focal plane over time. In addition, the instruments' “Spiral” option offers efficient tile scan imaging.
Applications:

• Widefield imaging up to 8 channels.
• DIC
• Phase Contrast
• Polarizing microscopy
• Live-cell imaging

Objectives:

• Leica N Plan 5x/0.12 PH 0
• HC PL FLUOTAR 10x/0.32
• HC PL APO 20x/0.80
• HCX PL APO 40x/1.10 W CORR
• HC PL APO 63x/1.40-0.60 OIL

Excitation wavelengths:
390 nm, 440 nm, 475 nm, 510 nm, 555 nm, 575 nm, 635 nm, 747 nm.
Detectors: two QUAD cubes

• DFT5 for DAPI/FITC/TRITC/Cy5
• CYR7 for DFP/YFP/Texas Red/Cy7

Slide holder types:

• Universal holding frame K
• 4-Slide insert
• Holding frame KM for Well Plates

Operating software: Leica LAS X Software
Location: Longwood Center Basement Rm 1055D
Contact person: Paul Speliakos

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Zeiss 980 Confocal/Spectral/Airyscan

​The LSM 980 microscope is a fully automated multimodal microscope that can be used for confocal, and spectral imaging. It is equipped with a unique AI Sampler Finder System. The Airyscan detector enables super-resolution and high-speed imaging. The LSM 980 is also equipped with Near-IR detectors that expand imaging spectra from UV to NIR.
Applications:

• Confocal imaging
• Spectral imaging with linear unmixing
• Super-resolution imaging with resolution up to 90 nm using Airyscan
• Forster Resonance Energy Transfer (FRET)
• Fluorescence Recovery After Photobleaching (FRAP)
• Tile scan

Objectives:

• 5x air
• 10x air
• 20x air
• 25x multi-immersion (water, silicone oil, glycerin, oil) objective with 0.57 mm working distance
• 63x 1.4 oil
• Alpha Plan-APO 100x/1.46 Oil DIC VIS

Laser lines:
405 nm, 445 nm, 514nm, 561 nm, 594 nm, 639 nm, 730 nm
Detectors:

• 34 Channel Quasar Detector Array
• Airyscan 2 Detectors
• Near-IR detectors (Filter set 8 deep red 640 +730 nm f/NIR and filer set 9 deep read 730 f/NIR)

Slide holder types:

• Scanning Stage (with Z-piezo)

Operating software: Zen Software
Location: Longwood Center Basement Rm 1055E
Contact person: Dr. Kun Huang

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Akoya PhenoCycler (CODEX) coupled with ZEISS Axio Observer 7

CODEX is a fast, unbiased, and highly-multiplexed imager for protein targets. It allows the phenotyping of millions of cells in complex tissue or environment as a single intact tissue section. Pushing the frontiers of spatial biology, our team offers services from tissue staining, to imaging, to machine-learning based cell segmentation and analysis.
Instrument:

• PhenoCycler (formerly CODEX) perfusion system
• ZEISS Axio Observer with Colibri 7 LED light Source

Objectives:

• 10x air
• 20x air

Excitation wavelength:
385 nm, 469 nm, 555 nm, 631 nm, 750 nm

Sample type: Mouse Fresh Frozen, Mouse FFPE, Human FFPE
 
Operating software: Zen Software, Akoya Software
Location: Longwood Center Basement Rm 1055C
Contact person: Dr. Kun Huang

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Antibody panels are available upon requests. Please email: [email protected]

​Image Analysis HP Workstation

​The HP workstation offers high-computing power for fast 3D reconstruction, image quantification and segmentation. Software installed:

• Zen desk (full version module)
• Fiji (ImageJ)
• CellProfiler (with CellPose and StarDist)
• CODEX processor
• QuPath

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New: 10x Genomics Xenium Analyzer

​Xenium analyzer is a highly-multiplexed and sensitive imaging platform for RNA targets. It allows profiling transcriptome at single-cell and sub-cellular resolution.
Objectives:

• 20x water

Sample type: FFPE or Fresh Frozen of both mouse and human
Available Panels: 10x Genomics Panels with customized add-on options
Operating software: Xenium Ranger, Xenium Analyzer
Location: Longwood Center Basement Rm 1055C
Contact person: Dr. Kun Huang