Resources
This page contains the operating procedures for the AOMC equipment. Follow these procedures while working with the equipment to ensure optimal performance and durability. If you have any questions regarding these procedures or want to request a specific procedure, please contact AOMC staff.
Additionally, you can find a selection of interesting microscopy resources (articles, tutorials, tools, ...), and a list of publications in collaboration with AOMC.
Operating procedures, guides and manuals
Zeiss LSM880 NLO Airyscan
Zeiss LSM880 NLO Airyscan
Basic instructions: Download the SOP here.
- switching the system ON
- switching the system OFF
- cleaning procedures
Confocal experimental setup: Download the SOP here.
- mounting a sample
- locating a sample
- multi-color experiment
- z-stack experiment (3D)
- time series experiment (movies, timelapse)
- tilescan experiment (larger sample areas)
- data storage principles
Airyscan experimental setup: Download the SOP here.
- Airyscan setup
- Airyscan FAST setup
Zeiss LSM900 AiryScan 2
Zeiss LSM900 AiryScan 2
Basic instructions: Download the SOP here.
- switching the system ON
- switching the system OFF
- cleaning procedures
Confocal experimental setup: Download the SOP here.
- mounting a sample
- locating a sample
- multi-color experiment
- z-stack experiment (3D)
- time series experiment (movies, timelapse)
- tilescan experiment (larger sample areas)
- data storage principles
Zeiss Lightsheet 7
Zeiss Lightsheet 7
Information coming soon.
Zeiss Elyra PS.1
Zeiss Elyra PS.1
Basic instructions: Download the SOP here.
- switching the system ON
- switching the system OFF
- cleaning procedures
Nikon Eclipse Ti2-E
Nikon Eclipse Ti2-E
Basic instructions: Download the SOP here.
- switching the system ON
- switching the system OFF
- cleaning procedures
Peripherals
Peripherals
Thorlabs S175C powermeter (high power):
Setting up the S175C high intensity powermeter sensor to measure the power of the pulsed lasers (e.g. MaiTai).
Download the S175C powermeter instructions here.
Thorlabs S170C powermeter (low power):
Setting up the S170C low intensity powermeter sensor to measure the output power of the continuous lasers (e.g. Argon or HeNe).
Interesting resources
Publications using AOMC equipment:
- The AOMC Publications spreadsheet lists (almost) all of the recent publications that made use of AOMC equipment.
Performing microscopy experiments and analysis:
- Jonkman, J., Brown, C. M., Wright, G. D., Anderson, K. I. & North, A. J. Tutorial: guidance for quantitative confocal microscopy. Nat Protoc (2020). doi:10.1038/s41596-020-0313-9.
- Jimenez, A., Friedl, K. & Leterrier, C. About samples, giving examples: Optimized Single Molecule Localization Microscopy. Methods 174, 100–114 (2020). doi:10.1016/j.ymeth.2019.05.008.
- North, A. J. Seeing is believing? A beginners’ guide to practical pitfalls in image acquisition. J Cell Biol 172, 9–18 (2006). doi:10.1083/jcb.200507103.
Reporting microscopy data acquisition and analysis:
- Montero Llopis, P. et al. Best practices and tools for reporting reproducible fluorescence microscopy methods. Nat Methods 1–14 (2021) doi:10.1038/s41592-021-01156-w.
- Aaron, J. & Chew, T.-L. A guide to accurate reporting in digital image processing – can anyone reproduce your quantitative analysis? J Cell Sci 134, (2021). doi: 10.1242/jcs.254151.
- Heddleston, J. M., Aaron, J. S., Khuon, S. & Chew, T.-L. A guide to accurate reporting in digital image acquisition – can anyone replicate your microscopy data? J Cell Sci 134, (2021). doi: 10.1242/jcs.254144.
Basics of microscopy:
- Microlist: a searchable database for light microscopy resources.
- Molecular Expressions: educative microscopy website.
- Nikon MicroscopyU: educative microscopy website.
- ZEISS Campus: educative microscopy website.
- Olympus microscopy resource center: educative microscopy website.
Video resources and tutorials:
- Microcourses: short videos on light microscopy topics.
- iBiology techniques: a light microscopy lectures series (also covers other topics).
- ZEN knowledge base: a collection of instruction videos on how to use Zeiss equipment and software.
Fluorophore and filter databases:
- FPbase: an extensive fluorescent protein database.
- Semrock Searchlight: view fluorophore and filter spectra.
- Chroma spectra-viewer: view fluorophore and filter spectra.
- ThermoFisher spectra-viewer: view fluorophore and filter spectra.