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Advanced Light Microscopy Facility

This facility offers a collection of state-of-the-art light microscopy equipment and image processing tools.

Booking and Equipment

Confocal Microscopes

MicroscopeSupported byFeaturesRoom
Leica SP8 STED 3X
book details
Marko Lampe
Stefan Terjung
Confocal laser scanning microscope with white-light laser (470-670 nm) and gated detection on two HyD detectors, stimulated emission depletion (STED) 3D super-resolution (592, 660 and 775 nm STED lasers), environment box, motorized xy-stage13-516B
Leica SP8 DLS
book details
Sabine Reither
Stefan Terjung
Confocal laser scanning microscope with light sheet option (SPIM). available laser wavelengths: 405, 488, 552, 640 nm, motorized xy-stage13-509C
Nikon A1R HD25
book details
Lucas Schuetz
Beate Neumann
Confocal laser scanning microscope with galvano and resonant scanner and large field of view scanning also in resonant mode. Water immersion dispenser. Laser unit with 405, 488, 561 and 640 nm lasers.13-515B
Olympus FV1200
book details
Stefan Terjung
Sabine Reither
Confocal laser scanning microscope with two scanners, second scanner with pulsed lasers (355, 375, 532 nm) for nano-surgery and photo-uncagingFRAPFRET, photo-activation, environment box, hardware autofocus (ZDC3)13-516E
Olympus FV3000
book details
Stefan Terjung
Aliaksandr
Halavatyi
Confocal laser scanning microscope with 4 GaAsP spectral detectors, FRAPFRET,  lasers: 405, 445, 488, 514, 561, 594, 640 nm, environment box, hardware autofocus (ZDC), motorized xy-stage13-514E
Zeiss LSM 780
book details
Manuel Gunkel
Aliaksandr
Halavatyi
Confocal laser scanning microscope with GaAsP spectral detector, FCSFRAPFRET,  lasers: 405, 458, 488, 514, 561, 633 nm, environment box, hardware autofocus (definite focus), motorized xy-stage13-516C
Zeiss LSM 780 NLO
book details
Manuel Gunkel
Aliaksandr
Halavatyi
2-photon (can be used for nano-surgery and photo-uncaging) and confocal laser scanning microscope, FCSFRAPFRET,  GaAsP external detectors, spectral GaAsP detection, lasers: 405, 458, 488, 514, 561, 594, 633 nm, 690-1064 nm(2-photon laser), environment box, hardware autofocus (definite focus), motorized xy-stage13-516D
Zeiss LSM 880 AIRY fast
book details
Manuel Gunkel
Aliaksandr
Halavatyi
Confocal laser scanning microscope with AIRY fast module. The AIRY fast module allows faster acquisition even with increased resolution compared to normal confocal scanning.13-514B

High-throughput Microscopes

MicroscopeSupported byFeaturesRoom
Leica SP5 MSA (A)
book
 details
Alikasandr Halavatyi
Sabine Reither
Confocal laser scanning microscope, environment box, MSA, adaptive feedback microscopy, EMBL dispenser13-508F
Molecular Devices IXM
book details
Beate Neumann
Sabine Reither
Widefield epifluorescence and transmission microscope, sCMOS camera, Environment box, automated pipetting13-508B
Nikon Ti-E PLateloader
book details
Beate Neumann
Sabine Reither
Widefield epifluorescence and transmission microscope, hardware autofocus (PFS) and plateloader to autmatically load 96- and 384-well plates13-508B
Olympus ScanR (cube4)
book details
Beate Neumann
Sabine Reither
Widefield epifluorescence and transmission microscope, environment box13-508B
Olympus ScanR (cube5)
book details
Beate Neumann
Sabine Reither
Widefield epifluorescence and transmission microscope, environment box, hardware autofocus13-508B
Zeiss LSM 900 AIRY
book details
Aliaksandr
Halavatyi

Manuel Gunkel
Confocal laser scanning microscope, AIRY scan, widefield camera, environment box, adaptive feedback microscopy13-515A

Lightsheet Microscopes (SPIM)

MicroscopeSupported byFeaturesRoom
Leica SP8 DLS
book details
Sabine Reither
Stefan Terjung
Confocal laser scanning microscope with light sheet option.  „Inverted“ light sheet microscope with two independent opposing light sheets and one detection objective. The system is equipped with an EMBL incubation box. Available magnifications and Laser lines are the following: 16x; 40x; 405nm; 488nm; 552nm; 638nm. The system is best for imaging thicker samples which can’t be mounted in a FEP tube or capillary and need environmental control.13-509C
Luxendo MuVi SPIM
book details
Sabine Reither
Stefan Terjung
Light sheet microscope with parallel illumination from two sides and parallel detection from two sides perpendicular to the illumination. Possibility of sample rotation offers the opportunity to improve axial resolution and imaging quality after image. Available magnifications and Laser lines are the following: 33.3x; 22.2x;445nm; 488nm; 515nm; 561nm; 642nm. The system is best for imaging Drosophila, Zebrafish and thicker samples, which do not need CO2 control and can be mounted in a capillary or FEP tube.13-509B
Luxendo InVi SPIM
book
details
Sabine Reither
Stefan Terjung
„Inverted“ light sheet microscope with 2 cameras for simultaneous dual color acquisition. The system is equipped with temperature- and humidity control and a gas mixer to control COand O2 levels. Available magnifications and Laser lines are the following: 31.25x; 62.5x; 445nm; 488nm; 515nm; 561nm; 594nm; 642nm. The system has one detection and one illumination objective and is best for small transparent samples, which are sensitive, difficult to mount and need environmental control.13-509A

Super-Resolution Microscopes

MicroscopeSupported byFeaturesRoom
Abbelight Olympus Safe360Marko Lampe
Stefan Terjung
coming soon…13-509A
Abberior RESOLFT
book
details
Marko Lampe
Stefan Terjung
Combination of RESOLFT (super-resolution with switchable FPs) and STED (775 nm depletion laser) microscope. Motorized xy/stage.13-516A
Leica GSDIM
book
details
Marko Lampe
Stefan Terjung
Localization based super-resolution in 3D by ground state depletion by individual return microscopy (GSDIM, also called dSTORM)13-509D
Leica SP8 STED 3X
book
details
Marko Lampe
Stefan Terjung
3D stimulated emission depletion (STED) microscopy with gated detection, environment box, motorized xy-stage, lasers: 405 nm, Ar-laser (458, 476, 488, 496, 514 nm), white-light laser (470-670 nm), STED laser (592, 660 + 775 nm)13-516B
Zeiss Elyra 7 with Lattice SIM book detailsMarko Lampe
Stefan Terjung
The Elyra 7 is optimized for fast imaging with simultaneous dual camera (PCO Edge 4.2 sCMOS) acquisitions. It offers SMLM in TIRF, HiLo and Epi mode with optional 3D localization as well as Lattice SIM illumination. Motorized xy-stage, environment box. Lasers: 405, 488, 561, 642 nm13-514C

Widefield Microscopes

MicroscopeSupported byFeaturesRoom
Nanolive 3D Cell Explorer Fluo
book details
Beate Neumann
Sabine Reither
3D Holo-Tomographic Live Cell Imaging Microscope with Fluorescence Module DAPI-FITC-TRITC/Cy5 with stage top incubator13-515D
Nikon Ti-2
book details
Beate Neumann
Sabine Reither
Motorized xy-stage, perfect focus system (PFS) hardware autofocus, LUMENCOR SPECTRA III, Penta filters in filter wheel EM: (432/36, 515/30, 596/30, 682/42, 809/89), Orca Fusion CMOS13-508E
Nikon Ti-E
book details
Beate Neumann
Sabine Reither
Motorized xy-stage, perfect focus system (PFS) hardware autofocus, Lumencore spectraX, emission filter wheel, sCMOS PCO edge 4.2 CL13-514A
Olympus Cell^R TIRF
book details
Marko Lampe
Stefan Terjung
EMCCD, multi-color TIRF (405, 488, 561, 640 nm laser), Environment box (cellVivo), filterwheels, motorized xy-stage, hardware autofocus (ZDC3)13-515E
Zeiss Cellobserver
book details
Sabine Reither
Marko Lampe
Environment box, metal halide fluorescence lamp, motorized xy-stage13-515D
Zeiss MicroBeam
book details
Stefan Terjung Manuel GunkelLaser microdissection microscope system, collection of samples by laser catapulting.13-508D

Workstations

EquipmentInformationRoom
ALMF VM Gold 01 (EMBL 3D cloud)
book   details
Hardware: Windows-10, 8 CPU, 128 GB RAM, 8 GB vGPU, 100 GB temporary HDD
Software: Imaris common modules, Huygens, FIJI can be run from your network share
IT center
ALMF VM Gold 02 (EMBL 3D cloud)
book   details
Hardware: Windows-10, 8 CPU, 128 GB RAM, 8 GB vGPU, 100 GB temporary HDD
Software: 
Imaris common modules, Huygens, FIJI can be run from your network share
IT center
ALMF VM ZEN (EMBL 3D cloud)
book   details
Hardware: Windows-10, 8 CPU, 128 GB RAM, 8 GB vGPU, 100 GB temporary HDD
Software: Zeiss ZEN blue and black (mainly for AIRY data processing), Imaris including Batch+Cell+Vantage+Colloc+Filament+XT, Huygens, Matlab, FIJI can be run from your network share
IT center
ALMF VM Linux 01 (EMBL 3D cloud)
book   details
Hardware: Windows-10, 8 CPU, 128 GB RAM, 8 GB vGPU, 100 GB temporary HDD
Software: 
Linux
IT center
ALMF Remote WS1
book details
Hardware: Windows-10, 16 Cores, Nvidia Quadro RTX 6000 (24 GB GDDR6),768 GB RAM, temporary HDD
Software: Huygens Deconvolution and Multiview-Image registration, Imaris 3D visualization and analysis
IT center
ALMF VM Silver 01 (EMBL 3D cloud)
book   details
Hardware: Windows-10, 4 CPU, 32 GB RAM, 2 GB vGPU, 100 GB temporary HDD
Software: 
Python, Ilastik, FIJI can be run from your network share
IT center
ALMF VM Silver 02 (EMBL 3D cloud)
book   details
Hardware: Windows-10, 4 CPU, 32 GB RAM, 2 GB vGPU, 100 GB temporary HDD
Software: 
Python, Ilastik, FIJI can be run from your network share
IT center
ALMF VM Silver 03 (EMBL 3D cloud)
book   details
Hardware: Windows-10, 4 CPU, 32 GB RAM, 2 GB vGPU, 100 GB temporary HDD
Software: 
Python, Ilastik, FIJI can be run from your network share
IT center

Additional Equipment

EquipmentSupported byFeaturesRoom
Cell culture hood
book
Sabine Reither
Beate Neumann
For splitting cells and general cell culture work13-505
Cell seeding device
book
Sabine Reither
Beate Neumann
Automated cell seeding – 96 and 384 well plates13-505
Integra 96/384 pipette
book
Sabine Reither
Beate Neumann
automated pipetting device for 96 and 384well plates13-507
Liquidator
book
Beate Neumann
Sabine Reither
Manual 96 channel pipetting system – for cell staining / media change13-508A
PLATEMASTER (lab)
book
Beate Neumann
Sabine Reither
Manual 96 channel pipetting system – for siRNA coating only13-507
Speed Vac (MiVac A)
book
Beate Neumann
Sabine Reither
Vacuum concentrator for 96 and 384 well plates13-507
Speed Vac (MiVac B)
book
Beate Neumann
Sabine Reither
Vacuum concentrator for 96 and 384 well plates13-507
Tecan plate washer
book
Beate Neumann
Sabine Reither
High-throughput plate washer13-508A

Special Objectives

CompanyMagnification and NAImmersion type
Leica
book
63x 1.2 (for SP5)water
Zeiss
book
40x 1.1water
Zeiss
book
40x 1.2water
Zeiss
book
63x 1.2water

Rooms

RoomLabelPhone number
13-509cherry8608
13-514orange8646
13-515banana8647
13-516plum8649
13-501visitor office8629
13-502ALMF office8467, 8884
13-503ALMF office8853, 8856
13-504ALMF office8308
13-505ALMF cell culture
13-506ALMF office8404
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