Available Services
In this section, you may browse through all services available across all National Facilities. Use the filter function to filter services by National Facility, Infrastructural Unit or category of service. In addition, you may use the text search function to search across services using key words. Please note the system will search your chosen key word either in the service title or description.
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Zeiss Axioscan Z.1 automated slide scanner
The Zeiss Axioscan Z.1 is an automated slide scanner designed to capture whole slide images in both brightfield and epifluorescence modes, accommodating up to 100 slides per session.
Configuration:
- Cameras:
- Hamamatsu Orca-Flash 4.0 v3 sCMOS mono camera
- Hitachi HV-F203SCL 3CCD color camera
- Light sources:
- Colibri 7 for epifluorescence (385 nm, 430 nm, 475 nm, 555 nm, 590 nm, 630 nm,
735 nm)
- White led lamp for transmitted light
- Filter sets optimised for:
- DAPI (Zeiss BP 450/40)
- GFP / Alexa Fluor 488 / FITC (Zeiss BP 525/50)
- Cy3 / Alexa Fluor 555 / TRITC (Zeiss BP 605/70)
- Cy5 / Alexa Fluor 647 / APC (Zeiss BP 690/50)
- DAPI/GFP/Cy3/Cy5/Cy7 (Zeiss PBP 425/30+514/31+592/25+681/45+785/38)
- 6 objectives:
- 2,5x / 12 NA Fluar M27
- 5x / 25 NA Fluar M27
- 10x / 45 NA Plan-Apochromat M27
- 20x / 45 NA N-Achroplan Pol M27
- 20x / 8 NA Plan-Apochromat M27
- 40x / 95 NA Plan-Apochromat M27
- Slide racks:
- Standard microscope slides 75 x 25 mm
- Macro sections slides 75 x 50 mm
- File formats:
- “.czi” native lossless or lossy file format with JpegXR compression
- “BigTiff” after post processing
- “OME.TIFF” after post processing
Details:
Image Analysis can be provided as a combined service by the National Facility for Data Handling and Analysis. Please select: SID: NF61.01.01 – Light Microscopy Analysis.
Links:
RNAscope™ 2.5 LS/Multiomic LS Assay on FFPE sections up to 3 plex
The RNAscope 2.5 LS Assay/RNAscope™ Multiomic LS Assay enables highly sensitive and specific detection of both RNA and protein targets within the same tissue section, with single-cell resolution.
Applications: This integrated pipeline supports quantitative spatial analysis of gene expression, making it ideal for applications in spatial biology:
- Validation of new biomarkers on patient cohorts
- Gene expression analysis for targets lacking validated antibodies (e.g. non-human samples)
- Pathogen detection, including viral RNA
- Co-expression studies of proteins and transcripts.
The staining process is fully automated on the Leica Bond RX platform, ensuring high reproducibility and consistent assay performance.
For image acquisition (optional, to be requested in the application), the workflow can be further streamlined through automation on the Zeiss Axioscan Z.1, allowing high-throughput digital scanning of stained slides. The image analysis can be done autonomously or provided as coupled service thanks to our Image Analysis unit of the National Facility for Data Handling and Analysis.
Details:
Image acquisition can be provided as a combined service. Please select: SID NF52.07.07 – Zeiss Axioscan Z.1 automated slide scanner
If image acquisition is performed by HT, Image Analysis can be provided as additional combined service by the National Facility for Data Handling and Analysis. Please select: SID: NF61.01.01 – Light Microscopy Analysis.