Imaging Cores - Optical

RRID:SCR_023355

Doug Cromey gives virtual Digital Image Ethics presentation for the Rockefeller Institute

Date of publication

On February 10, 2021 Mr. Doug Cromey was an invited seminar speaker for The Rockefeller Institute in New York, NY. His presentation was entitled “Everyone Is Entitled to His Own Opinion, but Not His Own Facts: Avoiding Fake Views in Digital Imaging”. https://www.rockefeller.edu/events-and-lectures/49389-everyone-is-entitled-to-his-own-opinion-but-not-his-own-facts-avoiding-fake-views-in-digital-imaging/

Mr. Cromey is the co-manager of the RII Imaging Cores - Optical.

Contact
Doug Cromey, M.S.
Related Facility
opticalimaging

Imaging Cores - Optical receives 2021 EEF funds from RII to upgrade computer workstations

Date of publication

In May and June of 2021 the computer workstations in the RII Imaging Cores - Optical were upgraded to new HP hardware and are now running Microsoft Windows 10. The computers for the two Zeiss LSM880 instruments in Marley also received new real-time controllers, essentially a computer on a board that controls all the microscope hardware. The Zeiss Elyra S.1 received both a new instrument and post-processing computer. Other computers in Marley (LSM880 offline workstation, Stereo microscope computer) were given operating system software updates to bring them up to Windows 10.

The leftover computers have been put to good use. The image analysis workstation in LSN received a long overdue update, and the Imaging Cores - Electron facility will use one of the workstations to begin offering image analysis services. An additional Zeiss ZEN installation has been set up in the Marley location.

Our thanks to Drs Zarnescu and Eggers for submitting the LSN upgrade proposal. We also appreciate Dr. Helena Morrison for submitting the upgrade proposal for the Marley location.

The RII Equipment Enhancement Fund is designed to add or augment research capacity through the acquisition of equipment for use by multiple investigators in shared facilities or approved university core facilities.

Related Resource
Zeiss LSM880 Inverted Confocal Microscope
Zeiss LSM880 NLO Upright Multiphoton/Confocal Microscope with Fast Airyscan
Zeiss Elyra S.1 structured illumination microscope
Contact
Patty Jansma, M.S.
Doug Cromey, M.S.
Related Facility
opticalimaging

RII Core Facilities - Imaging Cores - Optical - Scheduling & cancellation policy

Effective date: June 1, 2021 (revised January 21, 2025)
Applies to: RII Imaging Cores - Optical
Brief Description: Failure to cancel a scheduled reservation more than 24hrs before the reservation begins will lead to the customer being charged for the reserved time. If the available time happens to be used by a different customer, the original customer is only liable for the remainder. See policy PDF below for specifics.

Policy
Attachments
RII-Core-Facilities-Imaging-Cores-Policy-original-2021-05-25-update-2025-01-21.pdf

TPI 1000 vibratome

The TPI 1000 is available at the Marley location. A vibratome is useful for sectioning fresh or fixed tissues into thicker slices, such as 100-200um in thickness. It features an adjustable sectioning window, a bath drain, stroke pause switch, and an anti-corrosion surface. It has a total vertical specimen stroke of 15mm.

Users will need to receive training before they can access the vibratome, as the vibrating razor blade has the potential to be very hazardous.

TPI 1000 plus
Equipment
Contact
Patty Jansma, M.S.
Location
Marley

Post-processing workstations

Post-processing of image data includes:

  • Exporting from propriety formats (e.g., Zeiss CZI or Leica LIF) to TIF images
  • stitching of tile scans (montage creation)
  • spectral un-mixing of data collected using the Quasar detector on either of the Zeiss LSM880 microscopes
  • Airyscan post processing (Zeiss LSM800 confocal/multiphoton - due to software licensing issues, this is only available on the microscope computer)
  • SIM post-processing and channel alignment (Zeiss Elyra S.1)
  • Deconvolution of Apotome data (Zeiss Axio Observer 7 with Apotome III Microscope)

If users need these post-processing techniques, they are typically covered in the user's training on the specific instrument. The workstations are available for scheduling on iLab to approved users. If you need training or assistance, please feel free to contact us.

Tags

Service
Contact
Patty Jansma, M.S.
Doug Cromey, M.S.
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