Equipment

• Leica SPE Confocal

  This spectral confocal features four laser lines (405 nm, 488 nm, 532 nm, and 635 nm) and tunable emission filters, with scan speeds ranging from 400 to 800 Hz. Brightfield and DIC modes are also available. We offer four ACS APO objectives on this system: 10x/0.3 dry, 20x/0.6 mixed immersion, 40x/1.15 oil, and 63x/1.3 oil. Software features include tile scan for stitching large sample areas or mark and find for choosing multiple areas of interest for imaging. Leica’s 3D viewer software allows users to save images as a volume view, a shadow view, or a maximum intensity projection. Individual snapshots or all images from a Z-stack may also be exported.

  

• Leica SP8X MP Confocal with Hyvolution

  This high-speed multiphoton imaging system is equipped with a Ti-Sapphire laser, a tunable whitelight laser for maximum flexibility in stain choices, and high sensitivity GaAsP detectors for increased signal to noise ratio. Multiphoton imaging is less phototoxic to live cells, since infrared wavelengths are utilized. In addition, Leica’s Light Gate technology allows for flexible and adjustable time windows for collecting signals on the HyD detectors. The SP8 system also offers users access to HyVolution; this software option uses a combination of the HyD detectors and a deconvolution algorithm to achieve resolution limits of 140 nm with no changes to the sample preparation protocol.

  
• Leica GSD/TIRF Widefield

  This widefield scope allows for live cell imaging in X, Y, Z, T with multiple channels available for various fluorescent and transmitted light modes. With the addition of the Total Internal Reflection Fluorescence (TIRF) module, users can access four channels of TIRF imaging with one-click calibration, which provides highly repeatable penetration depths relative to the specimen’s refractive index. With the same four lasers and Leica’s Laser Scanner, users can also utilize the TIRF system for photo-activation, photoconversion, optogenetics, and more. In addition, this system offers ground state depletion (GSD) super resolution. GSD can achieve XY resolution down to 20 nm. Users can take an existing staining protocol and make minimal adaptations in secondary antibody choice and mounting media in order to prepare the samples for GSD imaging.

• Leica THUNDER Model Organism Imager

  This stereoscope is part of the recently launched line of Leica Microsystems THUNDER imagers. The model organism imager uses real-time or post-acquisition THUNDER computational clearing to reduce background and view details deep within thick, 3D specimens such as model organisms, plants, and organoids. Our system includes a FluoCombi system that allows users to seamlessly switch between PlanApo 1X and PlanApo 5X LWD objectives, and image in brightfield or fluorescence (available filter sets include BFP, GFP, or mCherry). A zoom feature allows for additional magnification from 0.78 to 16X the objective power. The XY scanning stage and motorized Z, combined with Leica LAS X Navigator software, allows users to easily collect stitched images with automatic Z-stacking. Users can collect brightfield images with a DMC4500 color camera or use the DMC9000GT for fluorescence mode.

• Leica Laser Microdissection

  The Leica LMD uses gravity powered specimen collection to catch user specified pieces of tissue to aid in downstream analysis work. Lasers are used in conjunction with a stylus and a touchscreen to draw the laser’s path. Most importantly, the system is contact and contamination free, and can capture homogeneous samples from heterogeneous starting samples. Users can select regions as small as a single cell, and can use living cells from cell culture. The system features objectives ranging from 1.25X to 150X, and is equipped with a Leica DFC7000T camera. Those who use the system primarily for microdissection pay a fee based on consumables, which must be purchased from CLIF. Those who wish to use the system primarily for widefield imaging must pay an hourly rate.

  

• Leica M125 Stereoscope

  This ergonomic and modular routine stereoscope features a large field of view and a 10:1 zoom range. The standard configuration allows users to image with a 1.0X Plan Apo objective. A 2.0X Plan Apo lens can be installed as a custom configuration for a nominal fee. In addition to the transmitted light base, a LED ring light and LED gooseneck lights are available for optimum specimen illumination. The lighting modes include brightfield, darkfield, and Rotterman contrast. Images can be collected using a Leica DFC290HD 3 MP color camera. A third party software package, Helicon Focus, is installed on the computer and is available for generating extended depth of focus images.

  

• Leica DM750P Polarized Light
  This polarized light microscope allows users to investigate crystalline structures in a variety of applications. Its LED illumination lights samples homogenously and at a constant color temperature. The polarizers allow users to observe birefringence, while its strain-free optics ensure that only the sample is observed.

  
• Olympus LEXT Optical Profiler

  The LEXT 3D laser measuring microscope performs non-contact roughness measurements, 3D measurements, and measurements of acute-angled specimens (slopes up to 85°). Images larger than the field of view can be connected using the stitching program. The Z-drive moves in steps less than 1nm, accuracy and repeatability guaranteed by Olympus. The system includes 5 objectives: 5x/0.15, 10x/0.30, 20x/0.60, 50x/0.95, and 100x/0.95.

  

• Cytoviva Hyperspectral

  The CytoViva uses patented illumination technology to collect high signal-to-noise, transmitted darkfield images of scattered light from nanoparticles. The hyperspectral imaging system captures the visible and near infrared spectrum within each pixel of the field of view. This allows for detailed spectral analysis of the scattered light from scanned materials. This “spectral library” for specific nanomaterials can be used to confirm the presence of the nanomaterials in cells, tissues, or composites.

  

• GE IN Cell Analyzer 2500 HS

  This fully automated widefield imaging system serves as a platform for high-throughput screening, high-content analysis, and large-scale live cell imaging through the included IN Carta software. Featuring objectives ranging from 4X to 60X, filter sets for four color imaging, an incubator with CO2 regulation, software equipped with time-lapse capabilities, and specimen holders for a variety of plates and/or slides; the GE InCell is well-equipped to analyze a range of sample types.

  GE IN Cell Filter and Polychroic Specifications
  Channel	Band (nm)	Center Wavelength (nm)	Bandwidth (nm)
  Single band pass excitation filters
  Blue	379-401	390	22
  Cyan	424-450	437	26
  Green	459-487	473	28
  Yellow	503-521	512	18
  Orange	527-557	542	30
  Red	560-590	575	30
  Far Red	617-645	631	28
  Single band pass emission filters
  Blue	411-459	435	48
  Cyan* (Optional)	463-487	475	24
  Green_1	500-523	511.5	23
  Green_2	501-549	525	48
  Yellow* (Optional)	537-559	548	22
  Orange	574.5-619.5	597	45
  Red	611-635	623	24
  Far Red	672-696	684	24
  Quad band emission filter suitable for use with Blue, Green_1, Orange, and Far Red (BG1OFR)
  Blue	416-456	431	30
  Green_1	502-517	509.5	15
  Orange	578-607	592.5	29
  Far Red	662-700	681	38
  Polychroic beam splitter suitable for use with Blue, Green_1, Orange, and Far Red (BG1OFR)
  Blue EX	381-399	390	18
  Blue EM	409-456	432.5	47
  Green_1 EX	461-489	475	28
  Green_1 EM	500-523	511.5	23
  Orange EX	528.5-555.5	542	27
  Orange EM	564-611	587.5	47
  Far Red EX	621-643	632	22
  Far Red EM	652-700	676	48
  Polychroic beam splitter suitable for use with Blue, Green_2, Red, and Far Red (BG2RFR)
  Blue EX	381-399	390	18
  Blue EM	409-456	432.5	47
  Green_2 EX	461-489	475	28
  Green_2 EM	500-552	526	52
  Red EX	562.5-587.5	575	25
  Red EM	598-617	607.5	19
  Far Red EX	621-643	632	22
  Far Red EM	652-700	676	48

  

• Nikon Eclipse Ti-E

  This motorized inverted microscope can be used in widefield or confocal mode. The system is equipped with a stage-top incubator with CO2, temperature and humidity control designed for imaging live cultured cells and is suitable for routine imaging and time-lapse experiments. The Perfect Focus System corrects for drift and aids stability during long term imaging. In addition to image acquisition, Nikon's NIS-Elements software can also be used for image analysis.

  

• Nikon LV-UDM

  This universal design upright microscope allows users to image both traditional and biological samples, such as thin tissue sections prepared on a slide and sealed under a coverslip, as well as larger specimens that do not fit on a slide. This feature is facilitated by the stage, which can be moved in the Z-direction, and the objectives, some of which are extra-long working distance lenses. Observation modes include transmitted and reflected light, darkfield, and fluorescence. Extended depth of focus images can be prepared using either the integrated NIS-Elements software package or by using the 3rd party software package, Helicon Focus.

  

• Biorad S3E Cell Sorter

  The S3e is an automated sorter with real-time technology. Features include hands-free alignment and automated drop delay calculations. The system is equipped with 2 laser lines (488 nm and 561 nm) and detectors for forward scatter, side scatter, and fluorescence. Users may perform 2-way cell sorting or may use the equipment as a flow cytometer. Generated data can be analyzed and prepared for professional presentations using our FlowJo workstation.

  

• Invitrogen Tali Image-Based Cytometer

  The Tali is an imaged based cell cytometer and features three channels: brightfield, green fluorescence, and red fluorescence. The Tali has the capability to asses viability, apoptosis, oxidative stress, and cell cycle. It is compatible with a wide variety of eukaryotic cells and requires only 25 μL of sample volume, and only takes 10 seconds to 2 minutes to run a typical assay.

  

• Invitrogen Countess Cell Counter

  The Countess is a cell counter that allows the option for a reusable hemocytometer. While the Countess only features one imaging channel - brightfield - live/dead counts and average cell size can be measured in approximately 30 seconds.

  

Software

• FlowJo Software

  

  To further analyze Flow Cytometry Data, the CLIF has a FlowJo software license. Flowjo is an analysis software capable of visualizing .fcs data from the BioRad S3e and other cytometers. Gating procedures, cell cycle analysis, and histogram overlays are a few of the advanced features available using FlowJo. For more information and software tutorials, visit the FlowJo website.