We’ve created a simple user guide for using the OMERO figure application. If you have your data in OMERO, it dramatically streamlines the process of creating figures from the raw data. You can download it here.
We now have a brand new SMZ800 dissecting scope in the center. It has 1x and 2x zoom lenses and will allow users to do dissections of Drosophila and C. elegans and mount specimens within the center. This scope is sitting in room 470, but can be moved to 471 if needed.
After some hardware and computer issues, Sterling, our combination Yokogawa CSU-X1 spinning disk, TIRF + STORM system is now up and running. If you are interested in this system, get in touch with us through the Contact Us page and we will be happy to discuss the system with you and book training sessions.
Users are frequently frustrated by trying to balance obtaining the right signal to noise ratio with photobleaching and phototoxicity when doing timelapse imaging. The introduction of singly-tagged fluorophores into endogenous loci increases this challenge. One solution for overcoming this challenge is to acquire images that are on the edge of usability (i.e. using the lowest possible laser power and short camera exposures) and then use post-processing steps to enhance the contrast and bring out the structural information that is detectable. In the image below from our spinning disk confocal, I have some neurons expressing a CRISPR GFP-tagged protein at endogenous levels that were imaged for two minutes with low laser power. These cells were also four weeks old at the time of imaging and not terribly healthy, adding to the degree of difficulty. To improve the original image (left), I first applied a local contrast filter before subtracting the background (middle image). Finally, I ran a 20 iteration blind deconvolution with the noise level set to “Grainy” to produce the image on the right. The resulting image, although non-quantitavive, has significantly higher contrast and moving particles are easy to detect during the timelapse. With NIS Elements it’s easy to write these steps into a GA3 recipe that can be applied in batch to all of the images from a given session.
We were happy to host Dr. Chieko Nakada and Ms. Chika Sakamoto from the Technology Solutions Sector of Nikon’s Yokohama Plant, and Dr. Jeff Bylund, Stem Cells and Regenerative Medicine Applications Manager at Nikon Instruments. Dr Nakada was eager to see our Center and to hear how our users are utilizing their instruments, the challenges that they face, and what they might like to see in future imaging systems.
On September 13th, the NIC had our official opening with talks from members of the UC San Diego administration and Nikon executives, a ribbon cutting, a reception and tours of the facility.