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Christine has scheduled more sessions of her popular ImageJ classes: Basics, Intermediate and the Macro Writing Workshop.
Here is the Fall 2014 schedule and a description of each class.
Our room size is limited, so please register through Christine to participate.
Bruker Nano Surfaces will bring it's new Opterra Multipoint Scanning Confocal for a two week demo in KCBD 1250.
Bruker, known for their atomic force microscopy (AFM) products, entered the world of fluorescence microscopy with its acquisition of Wisconsin-based Prairie Technologies in September 2013. The Opterra was introduced by Bruker at ASCB 2013.
The Opterra provides high-speed confocal imaging of live samples over a range of wavelengths, and is suitable for projects where a Yokogawa or Nipkow spinning disk system would be used. For more information check out this Burker webinar. Contact Vytas Bindokas to schedule a time to bring down your samples for viewing on this exciting new instrument.
Sometime last night our scheduler crashed, forcing IT to upgrade us to a newer version, now called Booked. Links from all Microscopy Core website pages should now direct to the new scheduler. If not, refresh your browser and look for a "last modified" date of 4/29 or later.
As far as we know, all 1300+ user accounts are still there, but all sign-up permissions were lost. We're working to restore everything, but there are a LOT of you. If you can't sign up for a microscope and you have been trained, contact your favorite Technical Director and we'll restore permissions. We apologize for any added stress this may cause.
We have added a second Pannoramic whole slide scanner thanks to funds from the Research Resources Oversight Committee (RROC).
This scanner will run as a drop-off service in parallel with our Pannoramic SCAN whole slide scanner.
Like the SCAN, the MIDI is capable of full color histology AND 4-color fluorescence scanning. The MIDI may only hold 12 slides per tray, but it scans at a faster rate than the SCAN, dramatically increasing our scanning output.
Contact Shirley Bond with questions, or just stop by KCBD 1250 and have a look!
We are pleased to announce that a second superresolution microscope is available for imaging in the Core. The Leica GSDIM was provided by the Institute for Genomics & Systems Biology (IGSB) and the Institute for Molecular Engineering. It is currently housed in KCBD 1250B.
This is the same microscope we had on demo in November 2013. Thanks to all the investigators who brought samples then, it was a great demo!
This superresolution system uses a single molecule localization or "pointilist" technique. GSD, PALM and STORM are known for their super high resolution results, achieving lateral (xy) resolution down to 20nm and axial (z) resolution down to 50nm. This represents an 8-10x improvement over confocal microscopy!
For this technique to work, proper sample preparation is critical!
We cannot generate images without proper sample preparation. Contact Vytas or Christine for information on sample prep and for scheduling your first session. For more information about this microscope, visit the Leica website.
Christine has scheduled more sessions of her popular ImageJ Basics Class, Intermediate ImageJ Class and ImageJ Macro Writing Workshops. Hooray!
Here is the Spring 2014 schedule and a description of each class.
Our room size is limited, so please register through Christine to participate.
Core Director Dr. Vytas Bindokas made a significant contribution to Live-Cell Imaging Evolves to Find New Niches by Marie Freebody in the Novemeber 2013 issue of BioPhotonics. Beautiful images collected by several Core users are featured.
Colors: Cyan (CFP, mCerulean); Green (GFP, YFP); Red (mCherry, DsRed).
Magnifcations: 5x, 20x and 40x objectives with 0.4x-2.5x zoom factor.
Environmental controls: Peltier block heating / cooling system for holding specimens at temperatures from 25-37C. Specimen chamber can be filled with PBS, nutrient buffer, or cell medium during imaging.
Leica Microsystems is bringing it's new 3D Ground State Depletion superresolution microscope to campus for three days only, November 4-6, 2013.
This superresolution system uses a single molecule localization or "pointilist" technique. GSD, PALM and STORM techniques are known for their super high resolution results, achieving lateral (xy) resolution down to 20nm and axial (z) resolution down to 50nm. This represents an 8-10x improvement over confocal microscopy!
For this technique to work, proper sample preparation is critical!
We cannot generate images without proper sample preparation. Contact Vytas or Christine for information on sample prep and for scheduling your demo session. For more information about this microscope, visit the Leica website.
Acknowledging the Facility or the Technical Directors and listing the Core equipment you used in the Materials and Methods section helps us demonstrate how much our Core contributes to the University community and track the impact of each piece of equipment on research infrastructure.
If you send us a .pdf copy of an accepted manuscript which acknowledges the Facility or states that you used equipment from the Facility, we will credit you ONE HOUR of FREE microscope / software time on the equipment of your choice on your next invoice. Only manuscripts accepted for publication AFTER July 2013 qualify.
Here are sample sentences that anyone using the Facility can add to the Acknowledgements or Materials and Methods sections of appropriate manuscripts (link goes to a downloadable Word document).
BioTek Instruments Inc. is bringing the new Cytation3 to KCBD 1250 for a two-day demo.
Seminar: "A New Look at Cell-Based Assays: Combining PMT-based Cell Population data with Imaging-based Sub-population Analysis"
June 18, 2013 10:00am - 11:00am in KCBD 1103
Demos of the Cytation during the afternoon of June 18th and morning of June 19th
We are pleased to announce valuable additions to two of our microscopes. The Leica SP5 2-photon in Abbott now boasts a 25x NA 0.95 objective for sharper, higher resolution images of large fields of view and a custom-fit, full incubation chamber for greater thermal stability during live cell imaging. The TIRF/widefield Olympus microscope in KCBD 1250 now images with a top-of-the-line Hamamatsu Orca Flash 4.0 sCMOS camera. This camera has 4.0 megapixels with a 6.5um pixel size, giving a 2.5x larger viewing area with the same pixel size / same resolution as the previous CCD camera on that system, with added speed and increased sensitivity.
The Olympus VS120 Virtual Slide System is a microscope-based whole slide scanning system capable of capturing a whole slide (with or without label) in four color fluorescence and/or full color histology.
Tiling can be done with 2x, 10x, 20x or 40x dry objectives and then viewed digitally at virtually any magnification.
Viewing and annotation through the free, downloadable OlyVIA software package.
For more information, visit the Olympus product webpage.
Contact Shirley Bond or Christine Labno (information at right) to set up an imaging session with your slides!
The Light Microscopy Core will host a web-based demo of the SR-200 from the Salt Lake City-based Vutara company. This 2-color, 3-dimensional super-resolution light microscope uses point-fitting technology to achieve lateral resolution down to 20nm and axial resolution down to 50nm.
The Leica TCS SP8 STED super-resolution microscope is HERE for a demo until Thursday, January 31, 2013. The SP8 features:
More information and sample images are available on the Leica website. Contact Vytas Bindokas or Christine Labno (information at right) to set up an imaging session.
The Leica SCN400F whole slide scanner with SL801 autoloader is in KCBD 1250F for a month-long demo.
Please note that this scanner is in addition to, NOT a replacement for, our current whole slide scanner drop off service.
This high throughput whole slide scanner will create digital images of histology or fluorescence on either standard 1" x 3" slides or larger format 2" x 3" and certain 3" x 4" slides.
Scans can be done at 5x, 10x, 20x or 40x with up to 0.25um/pixel spatial resolution (at 40x). We are taking slides on a drop-off basis for test scans, or you can make an appointment to view the scanner in action. For more information or to schedule a demo, contact Christine Labno or one of the other Facility Directors.
The demonstration will be between 10:00am and 2pm in the KCBD building in room 1250 in the Microscopy Facility. Feel free to bring your cells to image! For more information please contact Deb Norton at email@example.com or call the Microscopy Facility at 773-834-2639.
The system is an inverted widefield fluorescence microscope built into an incubator box. The incubator keeps optimal temperature, humidity and CO2 during long experiments and decreases the effects of thermal drift and evaporation.
Allows for imaging of multiple areas in up to eight dishes, kept at 37C, 5% CO2.
Brightfield, blue (DAPI), green (GFP) and near red (mCherry, DsRed) imaging available. For more information or to schedule a demo/training session, contact Shirley Bond or one of the other Facility Directors.
Nathan Claxon, Senior Biosystems Applications Manager for Nikon Instruments, Inc will give a seminar titled "Super Resolution Microscopy: Imaging Beyond the Abbe Diffraction Limit"
Lunch will be provided
Nikon will bring it's multi-color, 3D capable superresolution microscope to campus for 2-3 weeks beginning Monday, March 12, 2012. STORM, or Stochastic Optical Reconstruction Microscopy, is a method for creating sub-diffraction limited images (resolution below 200nm) using fixed samples stained with dual-labeled antibodies. This technique was first described by Xiaowei Zhuang's group at Harvard University in Jones et al 2011. For more information on how to prepare your samples to use this product or to set up a time to see the microscope in action, contact Vytas or Christine as soon as possible, as sample preparation involves some lead time for troubleshooting.
Olympus is demonstrating its FV1000MPE-M (multiphoton exclusive system) in 1250 KCBD for 2 weeks! This system has laser light stimulation and in-depth observation from in vivo to live cell imaging. The simple optics, which are optimized for multiphoton microscopy, allow for smaller size and deeper imaging within the specimen. The M scanner multiphoton exclusive system uses a gold-coated galvanometer scanning mirror. Brighter and deeper imaging with better resolution!
March 2011 -- Nuhsbaum Presents the Leica M205FA Automated Fluorescence StereoMicroscope as a Demo in KCBD 1250
We are currently running a months-long demo of the Leica M205FA automated fluorescence stereo microscope in KCBD 1250.
This microscope features true stereomicroscopy. We have 1x and 2x objectives with 20.5:1 zoom and a real-time readout of total magnification. Filters are available for DAPI, GFP/FITC and DsRed/Cy3 fluorescence plus brightfield or Rotterman contrast imaging. The Leica DFC425C color camera and real-time, software based shading correction make full color histology imaging possible as well.
March 2011 -- Nikon BioStation IM Live Cell Recorder IM Demo in KCBD -- HURRY! This demo is scheduled to leave at the end of March
In conjunction with the March 16th lecture on live cell imaging, Nikon is allowing us a long term demo of their BioStation IM Live Cell Recorder. The BioStation allows for temperature, humidity and CO2 control of one 35mm dish during a long-term timelapse.
Images are taken in widefield fluorescence (green and near red only) and/or phase contrast at 20x, 40x or 80x magnifications. The Nikon Perfect Focus system reduces thermal drift while you image. The machine is housed in KCBD 1250 and is available for use with training.
March 16, 2011 -- Nikon Live Cell Imaging Lecture in KCBD
February 25 -- The whole slide scanner is now available
CRi Pannoramic Scan is back and ready for samples! This machine provides automated scanning of either full color histology or fluorescently labeled slides (blue, green, and near red with far red coming soon) with amazing resolution (down to 0.12um per pixel). Create a digital archive of your slides, then use the free-to-download 3DHistoquant software to create individual images at virtual magnifications from 1x-100x.
We are running this machine as a drop-off service for $5 per slide. Drop off your slides, fill out a short form and we'll contact you when your scans are done!
January 2011 -- Happy New Year!
January 3, 2011 -- Announcing three major new systems!
We are pleased to announce the addition of three major new systems to the Core:
1) The Leica SP2 has been replaced with a new Leica SP5-II-STED-CW system. This is our second SP5 system, and the only system on campus to offer Stimulated Emission Depletion (STED) superresolution light microscopy (down to 50nm FWHM). The STED-SP5 is located in the KCBD site and is available now for booking and training. Contact Christine Labno for more information or to set up a training session.
2) The 3I Marianas Nipkow system has been installed in the Abbott site and should be fully functional soon. Contact Vytas Bindokas for more information on this system.
3) The CRi Pannoramic Scan is coming back! We demoed this system for whole slide scanning of fluorescence and histology-labeled slides for a couple of days back in September and it will now be a permanent part of the Core. Watch this space, we hope to announce its arrival soon!
November 22, 2010 -- Live sample optimized spinning disk confocal (live DSU) moved to KCBD 1250
The live sample DSU has moved from Abbott 129 to the new faciltiy in KCBD 1250. The microscope has not changed, just the location.
All trained users still have scheduler access for this confocal as well as the fixed sample optimized confocal also in KCBD 1250. For directions to the new facility, see the link above. For after hours access, please contact Christine or Shirley and have your University ID handy.
October 5, 2010 -- Seeing Biology in High Definition Presentation
Ian Clements from Applied Precision will lecture on the DeltaVision OMX imaging system. This superresolution platform is designed for super high resolution imaging with very fast (<1 frame/sec) multi-dimentional capability. This includes 3D timeplapse, multi-color 3D timelapse and multi-position timelapse of live samples with minimal photobleaching.
This technology was developed at the Keck Center at UCSF, was recently published in PNAS and is exclusively licensed to Applied Precision.
September 28-29, 2010 -- CRi Whole Slide Scanner demo in KCBD 1250
CRi (Cambridge Research and Instrumentation Inc) will be bringing their Panoramic Scan whole slide scanner in for a company-lead demo. This scanner can batch process up to 150 slides in either brightfield (histology) or fluorescence mode. The imaging software has some interesting quantitation features as well. For more information about this product, visit CRi's website.
September 21, 2010 -- NanoZoomer is LEAVING!!
The NanoZoomer HT 2.0 whole slide scanner on demo since late June will be leaving on Tuesday September 21, 2010. (The NanoZoomer might be returning in November). We will keep you posted!
August 12, 2010 -- NanoZoomer now with three color fluorescence
Olympus has added three color widefield fluorescence to the NanoZoomer HT 2.0 whole slide scanner. Now whole slides can be scanned for blue (DAPI), green (GFP, FITC) and/or red (TexasRed).
We are running the NanoZoomer as a drop-off service, just drop off your slides, fill out a short form and leave the rest to us. $5 per slide, the first 10 slides are free.
Existing users can download the offline data viewer software NDPview v1.2.25 from Olympus.
August 10, 2010 -- Manual IX70 TIRF microscope UPGRADED to automated IX81 TIRF
We have upgraded our Olympus widefield fluorescence microscope (model IX70) back to an automated widefield fluorescence (model IX81) platform. The functions of the microscope remain the same: there are still DAPI, FITC, Cy3 and Cy5, CFP and YFP fluorescence filters, still TIRF at 488nm, and all of the objectives, MetaMorph software and camera are the same.
BUT. . .No more changing objectives or filters by hand! The microsope is now fully automated and all functions are controlled through the software!
Plus. . .coming soon, we will install the Olympus ZDC Zero Drift system for automated focal plane drift correction during time lapse acquisition.
June 22, 2010 -- NanoZoomer 2.0 HT demo is available now in KCBD 1250C
If you like the FSX-100 microscope in a box, you'll LOVE this new machine.
The NanoZoomer is a high resolution, high throughput, WHOLE SLIDE scanner available for use in KCBD 1250C. Brightfield (histology) imaging only for now. We hope to add fluorescence imaging soon!
Existing users can download the offline data viewer software NDPview v1.2.25 from Olympus.
The NanoZoomer 2.0-HT uses a three chip TDI camera (Hamamatsu) to autmatically focus, scan and tile your whole slide, creating a full-color, 1.9 billion+ pixel image of your sample. This image can then be zoomed for an amazing amount of information and detail. Images are collected with a pixel size of 0.23 microns or 0.46 microns (depending on your choice of 20x or 40x objectives) so the resolution is high enough to allow viewing at magnifications from 1x to 100x anywhere on the slide. Click here to view the product on the Hamamatsu website.
Using the cassettes, the NanoZoomer can be set to automatically scan up to 210 slides during a single session. Once the machine is set, it will run though all the slides without any additional human input. Or use the manual mode to scan and examine a handful of slides in a short session.
Contact a technical director (at right) to see the NanoZoomer today!
June 20, 2010 -- Zeiss on Your Campus show a success!
The Light Microscopy Core Facility hosted a very successful Zeiss on Your Campus workshop on live cell imaging in June 2010. Approximately 150 people came from the greater Chicagoland area for three days of lectures and live microscope demonstrations.
Secial thanks to Shirley Bond and Zeiss sales consultant Terry Glaab for coordinating the three day event and to specialists Michael Hakans, Benjamin Ng and Joesph Huff for all their hard work on the lectures and demonstrations.
Zeiss on Your Campus (ZOYC) - Week of June 14th!!.
Onsite training couses were designed to help all microscope users fully exploit the capabillities of their current systems and to aid in the selection of new technologies to best address developing applications.These workshops will focus on the special needs of live cell imaging applications. Optimizing an experiment under the competing contraints of resolution, speed and sensitivity presents various challenges for systems and users alike. ZOYC 2010 will provide theoretical and practical information together with hands-on sessions organized in small groups. Representative live cell samples will be imaged using the latest microscope systems from Carl Zeiss.
At the University of Chicago, 900 E. 57th Street, Zeiss will offer an overview talk, followed by two more specialized talks explaining photo-manipulation and the application of single molecule techniques. The hands-on sessions will be available for the demonstration of both basic and advanced experimental techniques.
Tuesday June 15th (Room 1103 KCBD)
Basic Hands-On Sessions:
Wednesday & Thursday June 16-17 (Room 1250 KCBD) 9:00am to evening
The hands-on session will offer an opportunity to better understand the optimization of imaging parameters for live cells. Groups of a maximum of six participants will have the opportunity to see the following systems imaging live cells expressing mEmerald and mApple:
All systems will be equipped with incubation and Definite Focus.
Thursday, June 17th (Room 1250 KCBD) 1:00pm to evening
The advanced demonstrations will give an insight into higher speed acquisitions and photo-manipulation techniques:
For more detailed information and for free ZOYC Workshop Registration:
or email firstname.lastname@example.org for questions.
Participation is free and educational workshop materials will be provided.
Leica has brought in their Stimulated Emission Depletion Continuous Wave (STED CW super-resolution) microscope for a DEMO from May 17-24th and their Multicolor Total Internal Reflection Fluorescence (TIRF) microscope from May 12-21st to room 1250 KCBD.
Stimulated Emission Depletion Continuous Wave: TCS STED CW
The imaging resolution for the STED CW is 2-3x higher than conventional, which means an accuracy far below 100nm resolution range. This is the first commercially available light microscope that enables investigation of structural details below the 80 nm resolution range.
The Leica TCS STED CW is a stunningly simple solution – easy to use, highly affordable and available as an upgrade for already installed systems: The Leica TCS STED CW combines the high-end confocal Leica TCS SP5 with purely optical and patented superresolution technology and is characterized by its capability of high speed scanning on the nanoscale – in real time! The Leica TCS STED CW allows the usage of numerous fluorescent dyes and fluorescent proteins, which significantly extends the range of possible applications.
The basic concept of the STED CW system is based on the STED technology, which received several awards and scales down the scanning spot to sub-diffraction size by switching off fluorescence in the periphery of the excited area. Stimulated emission is based on a well-thought-out interplay of fine optics and photo physical processes and delivers superresolution in a purely optical way – on a confocal platform.
Continuous wave lasers for depletion increase the STED recording speed up to three times without any loss of superresolution performance. Researchers can now follow dynamic processes with less than 80nm spatial resolution!
Leica Microsystems’ superresolution microscope Leica TCS STED CW is made for daily research and also provides a wealth of tailored solutions for specific application tasks and research environments. The workflow, which was designed in cooperation with leading scientists, and the easy operation of the system make superresolution accessible to a broad field of research.
True MultiColor Laser TIRF: Leica AM TIRF MC
Leica AM TIRF MC provides the highest transmission of all optical TIRF components for maximum TIRF imaging speed and image brilliance.
Visualize previously unseen information about a specimen and improve scientific research with MultiColor TIRF (Total Internal Reflection Fluorescence) from Leica Microsystems.
This system offers four integrated solid-state lasers for excitation of fluorophores in all of the important wavelengths.
The short switching times, fully automated alignment automatically-constant TIRF penetration depth when switching from one wavelength to another, and high synchronized image recording rate open up completely new horizons for researching dynamic processes in live cells. The system integrates four wavelengths; 405nm, 488nm, 561nm, and 635nm; with fast AOTF control.
High image quality
Combines TIRF and fast FRET analysis for applications such as cell membrane or single molecule analysis; vesicle tracking; fluorescence, live cell or time-lapse imaging; and more – high image quality improves scientific results.
Unique TIRF functions
Unique TIRF functions like an intelligent compensation of the penetration depth shift with wavelength change during multicolour experiments, fully automated alignment and the selection of the evanescent field direction help to get highest TIRF image quality and reliable experimental data.
The dynamic scanner precisely positions the laser beam and determines the exact penetration depth of the evanescent field.
Less training time
Powerful Leica AF7000 fluorescence software offers full control of the TIRF system including alignment and all microscope functions – less training time and more time spent on science.
Advanced fluorescence workstation
TIRF is fully integrated as an option with Leica Microsystems’ advanced fluorescence workstation - in multi-user laboratories the system meets a variety of imaging needs.
Come visit room 1250C in the KCBD building (900 E. 57th Street) to view, test, and use the following new DEMO Olympus Microscopes in the Microscopy Facility:
1) Olympus LCV110U (Timelapse Microscope and Incubator)
The Vivaview is designed for long-term time-lapse observation while culturing cells. This system is incredibly stable, accurate and efficient and is set up for investigators who need multidimensional time-lapse (X,Y, Z, wavelength, time, and position). The Vivaview eliminates thermal drift and can parallel time-lapse observation for up to 8 dishes. Multicolor fluorescence, Z-stack, and transmitted light images can be obtained at multiple locations within the sample dishes.
2) Olympus FSX100 (Microscope in a Box)
The FSX 100 is great system for histology slides. You can take single snapshots or stitched images. You'll get high resolution images with no distortion. Magnification is from 4x to 80x.
The FSX100 can also be used for phase and fluorescence (red, green, blue filters).
The software is easy to learn and use!
3) Olympus Fluoview FV10i (Confocal in a Box)
The Fluoview FV10i is the world's first self-contained confocal laser scanning microscope. This system is designed for time-lapses; z-stacks; and multi-area time-lapses and z-stacks. This is the Water-Based model which uses a water-immersion objective.
4) Olympus MVX10 (Macroscope)
This Macroscope MVX10 produces great images. It has 3 fluorescent filters, a color camera, as well as oblique and transmitted lighting.
If you've had trouble imaging your entire sample with other microscopes and stereomicroscopes, try the MVX10. There are 2 objectives that swing into place: 0.63x and 2x. There is also zoom with a factor of 31x and a long working distance.The software is easy to learn and use.
Bring in your samples to have a test run on these new microscopes and give us your feedback.
01-11 - 02-04-10 Leica LSI (Large Scale Imaging) Confocal Demo in KCBD 1250
The Leica TCS LSI is a laser scanning confocal microscope with a HUGE 16mm field of view and the ability to capture thick (up to 150mm) volumes. Objective magnifications range from 0.8x - 5.0x plus additive optical and confocal zoom down to single cell detail. Four lasers available (405nm, 488nm, 532nm, 635nm) for multi-color imaging. This easy to use, fully automated, microscope is here for a two-week demo. Contact a technical director for an appointment and see your large samples like you've never seen them before!
Beginning 12-14-09 Olympus Microscope Demo in KCBD 1250
The Olympus FSX100 widefield microscope "in a box" is available for a LIMITED time in KCBD 1250. This easy to use, fully automated system offers true color histology, brightfield and multi-color (blue, green and near red only) fluorescence imaging across a range of magnifications (17x - 80x). Fixed samples only please. Come in for a hands-on session and give us your feedback!
11-06-09 Nuance Multispectral Imaging System Demo in KCBD 1250
CRI's Nuance multispectral imaging system will be demonstrated in KCBD, 900 E. 57th Street. The system enables users to quantitate molecular markers even when they are co-localized in a single tissue section. Ruba Sarris will give a presentation from Noon to 1PM in the Conference Room 1280, and she will demonstrate the system from 1 to 3PM in the Microscopy Facility, Room 1250. If you have samples, please contact her at email@example.com.
08-10-2009 Introducing Bitplane Imaris
01-26-2009 Upgrades to existing microscopesThe Integrated Microscopy Facility recently completed upgrades to two of our existing microscopes. The Olympus Fluoview laser scanning confocal was upgraded to a DSU spinning disk confocal running SlideBook software. This microscope can now image all fluorophores from DAPI (blue) to Cy5 (far red) plus DIC in either widefield or confocal mode. With the 1.37 mega pixel Hamamatsu CCD digital camera and high NA, oil immersion objectives, this microscope is optimized for high-resolution imaging of fixed samples.
The Olympus live
cell / total internal reflection (TIRF) microscope is now housed on the
IX70 microscope platform. It uses automated excitation and emission
filter changers, an emission image splitter, and has a manual
4-position fluorescence filter turret and DIC optics. This
microscope runs user-friendly MetaMorph software controlling a Retiga
EXi digital chilled CCD camera for high resolution images of fixed or