These instruments are available to all Brandeis users; interested outside academic and for-profit users are welcome to contact us to request access. Each instrument title is a link to more detailed specifications and policies, and can be accessed with a Brandeis login.

Reservation Calendars

Facility Usage Policies

Puff the Magic Microscope

Leica M165FC "Puff"

Leica M165FC stereoscope with 1x and 2x Plan-Apo objectives with 0.73x-12x magnifier. DAPI, GFP, and mCherry fluorescent channels with a CoolLED p300 light source. BrightField, Darkfield and Rottermann contrast base along with gooseneck LEDs and a modular ring light for optimum white-light illumination of the sample. Leica K7 camera enables excellent true-color reproduction as well as fluorescence detection via the LASX software. Located in the Bassine Light Microscopy imaging suite.
Nikon confocal

Nikon AX Confocal System "Dagahra"

Nikon Ti2E inverted microscope with PFS2 perfect focus system, piezo stage, plate holder, and OKO CO2 enclosure. 405/488/561/640 lasers and Nikon AX-R resonant scanning confocal head with large field of view (up to 25mm, up to 8192 x 8192 pixels) and rapid scan speeds (up to 720 fps @ 2048 x 16). Running Nikon Elements software with 3D and 2D deconvolution modules. Located in the Bassine Imaging Suite Rm 95-125 (132)

Abberior 3D STED equipment

Abberior 3D STED

Abberior facility line 3D STED system, mounted on an Olympus IX83 microscope and equipped with 405, 485, 561 and 640nm excitation lasers and a 775nm depletion laser.  High quantum efficiency avalanche photodiodes for photon counting and spectral detection as well as a matrix detector for improved signal-to-noise. Adaptive illumination, adaptive optics and TIMEBOW fluorescence lifetime capabilities allow for highly tailored data acquisition parameters. Funded by NIH S10 OD034223
Tirf Microscope

TIRF and widefield Nikon scope "Smaug "

Nikon Eclipse Ti-E inverted motorized microscope with perfect focus system, DIC optics, XY encoded stage, and manual TIRF Arm. Equipped with 405nm, 488nm, 561nm, 640nm lasers and Andor Zyla sCMOS camera. Widefield imaging via 6-color Spectra X LED. Running Nikon Elements Software. Located in the Bassine Imaging Suite Rm 95-127

Nikon Tirf

Andor Spinning Disk confocal Microscope "Jabberwocky"

Spinning Disk Confocal Microscope on an upright Ni-E microscope stand. Equipped with 6 lasers and a Mosaic 3 digital micromirror photobleaching /photoactivation device. The system can be used either one or two EMCCD cameras to maximize speed for sequential or simultaneous detection of multple fluorophores. Located in Room 502 of the Rosenstiel Basic Medical Sciences Research Center.

 Trogdor - Andor Inverted Spinning Disk

Andor Inverted Spinning Disk "Trogdor"

Two-camera spinning disk confocal microscope: Leica DMI6000B inverted microscope, XY stage ASI MS2000, 488 and 561 lasers, CSU-W1 spinning disk head and two Andor Neo sCMOS cameras, running Andor IQ3.5 Software. Located in the Bassine imaging suite Rm 95-125  (131)

Zeiss LSM 880 equipment

Zeiss LSM 880

LSM880 2+1Ch: confocal microscope with 7 laser lines(405/458/488/514/561/594/633nm) and 3 detectors of which one is a high-sensitivity GaAsP detector. Located in Bassine Imaging Suite Rm 95-127

Zeiss 880 FAS equipment

Zeiss LSM880 Airy Scan Fast Confocal System

Zeiss LSM880 confocal microscope: Axio Observer 7 stand with 405, 488, 561 and 633 lasers, 32-channel spectral GaAsP PMT detector, two additional MA-PMT detectors, and a Fast Airyscan super-resolution module (~150nm XY resolution). Also equipped with a Zen FRAP software module. Located on the 5th floor of Rosenstiel Rm 518

Leica SP5 equipment

Leica SP5 Spectral Confocal Microscope

Leica SP5 Spectral Confocal Microscope / Resonant Scanner. Fixed stage upright research microscope (Leica DM6000 CFS) with DIC. Translation stage with motorized x-y movement and separate scanning stage. Super Z Galvo stage and transmitted light detector. Located in Bassine Imaging Suite Rm 95-127

bcn 2 photon

BNC 2-Photon

In Bassine 308. Neurolabware in vivo 2-photon resonant scanning microscope. Has an Insight X3 tunable infrared laser and a second galvo-controlled laser line at 1040nm for imaging or activation of optogenetic channels. Requires laser safety training and in person training by Dr. Van Hooser or a qualified designee. In vivo experiments in some species require that the user is on an IACUC protocol and is trained in animal procedures before using the microscope. Generously provided by a donation from the Brandeis National Committee.
s10 2photon

S-10 2-Photon

In Bassine 316. Neurolabware in vivo 2-photon resonant scanning microscope. Has an Insight X3 tunable infrared laser. Requires laser safety training and in person training by Dr. Van Hooser or a qualified designee. In vivo experiments in some species require that the user is on an IACUC protocol and is trained in animal procedures before using the microscope. Provided by an S10 instrumentation grant.
Spinning disk in Rosenstiel building

3i Marianas Spinning Disk

3i Marianas Spinning Disk Confocal Microscope. Includes a motorized inverted research microscope (Zeiss AxioObserver), Yokogawa CSU-X1 Confocal Head System, QuantEM SC 512 camera, 488, 561, and 640 laser lines, and SlideBook™ software. System also Photoablation Micropoint system. Located in the Rosenstiel 4th floor core Rm 436  (437)

Keyence Microscope

Keyence Microscope

Keyence BX-Z 710 is a Fluorescence Microscope that supports brightfield, phase contrast, oblique illumination, and fluorescence observation all within a single compact unit. The system can can automatically scan an entire slide or well and quickly stitch together an overall image.

Automatically maps out the viewing area for slides, dishes, and multi-well plates for easy navigation. All operations are easily controlled through the mouse by simply clicking the area on the map.

Located in the Bassine Science building, Light Microscopy Core Facility Room 95-122


Analysis Suite

Includes the following modules:
Core (3D/4D imaging rendering)
MeasurementPro (measurements of detected objects)
Coloc (colocalized regions)
Vantage (1D-4D plotting and group comparison)
TrackLineage (motion tracking)
FilamentTracer (e.g. dendrites or blood vessels, spine detection)
Imaris XT (customer-made extensions now included in the package)
Located Bassine Imaging Suite Rm 95-103

Additional Equipment


OKO Labs Stage Top Incubator

Temperature and CO2 control OKO labs CO2, temperature and humidity enclosure and control unit.

Stage Top Gas Chamber 1"x3" Single Chamber Slides and 35mm Petri Dish (2 Position) Holder for Prior Piezo Stage.  Multi-Well Plate insert for H201 Incubation System for Prior SP450 Piezostage.  Air pump connects to air input of Okolab gas mixers/controllers. Maximum outlet pressure 300 mbar.


Leica SM 2010R

The SM2010 R sliding microtome produces high-quality sections for paraffin sectioning applications.  The stable sliding microtome has a totally enclosed micrometer feeding system with an ergonomically positioned object head close to the user. The sledge can be locked in 11 positions by using the easily accessible sledge brake.

 Located Bassine Imaging Suite Rm 95-121


Swiftcam 16 Megapixel Camera

The 16 megapixel Swiftcam mounts to the microscope's trinocular port or regular eye-tube to record full-color pictures and videos. Reduction lens ensures that the camera displays an accurate field of view to the microscope's magnifications.