Equipment – Microscopes & Workstations

Our equipment falls into six general categories:

For brief descriptions of each instrument (along with videos) see links below. For a detailed table with instrument specifications, including usage fees (please note the rate for External Users is 2x the UC rate), look here: Spreadsheet table view of all MIC equipment. Please contact us with any questions or specific imaging needs.

For instrument scheduling: MIC iLabs page

Note: we highly recommend that most users start by learning to use the Echo Revolve, a widefield microscope we call Bender.  There is no charge for its use, and users can train themselves, as it’s controlled by an iPad and has a simple user interface.  It’s a great microscope to check that your samples came out with the correct stains or fluorescent proteins in the manner you intended, before spending money imaging on chargeable microscopes.


Zeiss LSM 980 NLO with Airyscan and Becker-Hickl TCSPC FLIM (K)

– Ultra-sensitive, inverted laser scanning confocal with 1-photon and 2-photon imaging, with GaAsP detectors
– Airyscan-2 super-resolution technology with Multiplex Mode
– Becker-Hickl Time-correlated single photon counting fluorescence lifetime imaging
– FCS (coming soon)
– full incubation (heating & CO2)


Zeiss LSM 880 NLO AxioExaminer with Airyscan and Coherent Chameleon Vision (Trinity)

– Ultra-sensitive, upright laser scanning confocal with 1-photon and 2-photon imaging, GaAsP detectors, 34-channel spectral imaging
– Airyscan super-resolution technology, up to 1.7-fold better resolution than standard scanning confocal microscopes
– Large motorized stage for combined electrophysiology and imaging
– 20X CLARITY objective in addition to standard objectives

NeoZeiss LSM 880 NLO AxioExaminer with Coherent Chameleon MPX OPO (Neo)

– Ultra-sensitive, upright confocal imaging with large motorized fixed stage
– 2-photon imaging from 700-1300 nm
– Visible lasers: 405, 458, 488, 514, 561, 591, 633nm

Rachel copyZeiss LSM 780 AxioExaminer with Spectra-Physics Maitai (Rachel)

– Ultra-sensitive, upright confocal featuring 2-photon imaging with GaAsP detectors
– 34-channel spectral system with imaging in the visible range from 400-700nm; visible lasers: 405, 488, 514, 561, 633nm
– Large fixed stage for combined electrophysiology and imaging

Optimus copyZeiss LSM 710 AxioObserver (Optimus Prime)

– Inverted laser scanning confocal with 34-channel spectral detection
– Motorized XY-stage for tile scan and multi-position experiments
– Live cell imaging capabilities: full incubation chamber with temperature, CO2 control and heated stage
– Lasers: 405, 458, 488, 514, 561, 591, 633nm

MF3i/Sutter In Vivo 2p Movable Objective Microscope with 2p Phasor SLM(Millenium Falcon)

– Dual-multiphoton Movable Objective Microscope (MOM) system uniquely designed for in vivo optogenetic studies using a Spatial Light Modulator (SLM) for stimulation at 1040nm with high-power femtoTrain laser
Special training required. 




BayMax copy

Zeiss Axio Scan.Z1 Slide Scanner(Baymax)

– 100-slide automated slide scanner for fluorescence or IHC
– Filter cubes for: DAPI, eGFP, Cy3, mPlum, Cy5
– Slide scanning service available

Stay Puft copy

Zeiss Axio Scan 7 Slide Scanner(Stay Puft)

-100-slide automated slide scanner for fluorescence or IHC
-Filter cubes for:  
-Slide scanner service available

Echo Revolve (Bender)

Brightfield and fluorescence microscope which can revolve to become either an upright microscope or an inverted microscope. It has 4x, 10x and 20x air objectives.  It’s super easy to use, runs on an iPad, and can be used for checking your brightfield stains or fluorescence signals prior to slide scanning or confocal imaging!


Herzmark copyNikon Widefield Epifluorescent Microscope (The Herzmark)

– Inverted compound microscope with DIC optics
– Incubation chamber, motorized stage, and Nikon PerfectFocus
– Filters: DAPI, eGFP, Rhodamine, Cy5 (?)


Zoom copyZeiss AxioZoom v16 FL (Zoom)

– Macro scope with 16x motorized zoom, fluorescence, BF transmitted or reflected light
– Motorized XY-stage, ideal for multi-position or tiling
– Fluorescent illumination with the following filter cubes: DAPI, eCFP, eGFP, eYFP,  and mCherry

Johnny5 copyLeica M205 Fluorescent Stereoscope (Johnny-5)

– Fluorescent stereoscope ideal for screening and dissections
– Filter cubes: CFP, GFP, YFP, and DS-Red
Not equipped with a camera – for screening only.



Nikon Spinning Disk Confocal (Wall-E)

– Inverted Yokogawa spinning disk confocal microscope for live cell imaging
– Nikon PerfectFocus
– Lasers: 405, 488, 561, and 637nm
– Full incubation enclosure with CO2, humidity, and heating
– Motorized XY stage


Enterprise copy3i Spinning Disc Confocal with SLM (Enterprise)

– Upright spinning disk confocal microscope with spatial light modulator (SLM)
– Large platform, Sutter-motorized XY-stage for electrophysiology
– Ideal for zebrafish, Drosophila, and brain slice work with 1-photon or 2-photon holographic stimulation

Max copyNikon/Andor Spinning Disk Confocal (Max)

– Inverted spinning disk confocal with a motorized XY-stage and Nikon PerfectFocus
– Full enclosure incubation chamber for humidity, CO2 and temperature control for live cell imaging.
– Andor Clara and Andor iXon cameras



Morpheus copy
Zeiss LightSheet.Z1 CLEARING (Morpheus)

– Selective Plane Illumination Microscopy (SPIM)
– Setup for cleared tissue imaging – CLARITY, CUBIC


Zeiss LightSheet.Z1 (Serenity)

– Selective Plane Illumination Microscopy (SPIM)
– Water-based samples only – e.g., zebrafish, tadpoles, Drosophila




DeepThought & Threadripper

– Windows workstations with GPU processor and SSD hard drives for fast processing and rendering
– Software: Bitplane Imaris, Zeiss Zen, FIJI, Matlab, Adobe Suite


Morpheus Processing Workstation

– Windows workstation with GPU processor for faster processing and rendering
– Software: arivis Vision4D, Zeiss Zen, FIJI

Serenity Processing Workstation

– Windows workstation processing lightsheet data
– Software: Zeiss Zen, FIJI