ZEISS LSM 980 and Axioscan 7 Workshop
Microscopy Solutions for Spatial Omics
Microscopy Solutions for Spatial Omics – High throughput screening, high-resolution 3D imaging, and data analysis
In this workshop, you will learn:
- How to apply our 3D spectral multiplexing confocal technology to a wide range of spatial omics applications
- How you can increase your throughput for 2D spatial omics applications without compromising image quality with the Axioscan 7
- New tools such as LSM Plus to further increase resolution and sensitivity and acquire the signature of 10 or more markers in a single scan
- Connect your high throughput and high-resolution spatial omics workflows with ease using ZEN Connect on the Axioscan 7 and the LSM 980
- A number of our ZEISS analysis software solutions relevant to this application space
There will be two hybrid presentations during this workshop, both hosted at the La Jolla Institute for Immunology at the Core Microscopy Facility, Room 1213 and virtually on GoToWebinar for those who cannot attend in person. Webinar details will be provided via email after you register below. Presentation details are listed to the right.
Coffee and refreshments provided.
Presented by ZEISS: Experience the Complete Spatial Omics Workflow – From High Throughput Scanning to High-resolution 3D Imaging and Analysis
Presented by Zbigniew Mikulski, La Jolla Institute for Immunology: From Samples to Slides - Sample Preparation for Multiplex Imaging
In-Person Product Demonstrations with ZEISS Tissue Samples
We will be hosting 2 hour demo time slots available at the La Jolla Institute for Immunology November 7-11, 2022. To sign-up for a demonstration, use the form below. We look forward to your participation.
LSM 980 Demonstrations:
Core Microscopy Facility, Room 2207
November 7-11, 2022 | 10am-12pm PDT, 1-3pm PDT, 3-5pm PDT
Axioscan 7 Demonstrations:
*If you would like a demonstration on your own samples, slides and details must be dropped off by 11/2 LJI Front Desk
Core Microscopy Facility, Room 2207
November 7, 2022 | 1-3pm PDT, 3-5pm PDT
November 8-10, 2022 | 10am-12pm PDT, 1-3pm PDT, 3-5pm PDT
November 11, 2022 | 10am-12pm PDT
Zbigniew Mikulski, Ph.D.
La Jolla Institute for Immunology
Zbigniew Mikulski, Ph.D. studied biotechnology at Nicolas Copernicus University, Torun, Poland, and obtained his Ph.D. in human biology/immunology at Justus Liebig University in Giessen, Germany. He completed his post-doctoral fellowship at La Jolla Institute for Immunology, USA, where he now serves as a Director of the Microscopy and Histology Core Facility. He promotes honesty and openness as the best long-term research strategy. His greatest satisfaction is when his trainees return with improved protocols, better images, wiser analyses, and bolder ideas.
Your Local Account Manager
Prior to joining ZEISS I was a Staff Research Associate at UCSD where I managed a flow cytometry core facility as well as an undergraduate neurobiology lab course featuring everything from fluorescence microscopy to electrophysiology . I hold a B.S. in Neuroscience from the University of California, Riverside where I worked as a Research Assistant using confocal microscopy to investigate neural development in the cerebellum. I live locally in San Diego and I am on-site often. When I am not on-site you might find me enjoying the breeze at the Torrey Pines Gliderport or tossing a frisbee in Mission Bay Park.
Torey Arnold, Ph.D.
Local Biotech/Pharma Account Manager
My name is Torey and I go by all gender pronouns. I am a biologist at heart and studied cell-cell interactions and mechanics for my Ph.D. work at the University of Michigan and Post-Docs at University of Michigan and Boston College. I love using advanced microscopy techniques to understand how cells function and impact our daily lives. It would be my honor to learn more about your science goals and to provide information and microscopy solutions.
Sebastian Barreto Ortiz, Ph.D.
Automated Product Application Sales Specialist
Sebastian Barreto Ortiz is currently an Automated Product Application Sales Specialist focused on the ZEISS Celldiscoverer 7 and the Axioscan 7 systems. Sebastian earned his Ph.D. from the Johns Hopkins University in Chemical and Biomolecular engineering, where he worked in vascular tissue engineering fabricating small artificial blood vessels in vitro. Here he developed his love for microscopy, which was the main analysis technique to study the organization of the microvessels he generated
Geert Vreede, Ph.D.
3D Product Application Sales Specialist
Prior to joining ZEISS, Geert did his Ph.D. work at the University of California Berkeley in the Molecular and Cell Biology department. He completed his thesis research in the lab of Dr. David Bilder, using extensive confocal and widefield microscopy techniques to study novel mechanisms of epithelial ligand-receptor interactions and tumor suppressor genes in Drosophila. His enthusiasm for microscopy started during undergrad in the lab of Prof. Sander Van Den Heuvel at Utrecht University in The Netherlands, performing live imaging of cell division in C. elegans.
Geert welcomes the opportunity to speak with you to learn more about your current research requirements, imaging projects and challenges, and share with you some of the recent, unique enhancements to ZEISS Microscopy solutions.
Senior Software Sales Biotech Pharma
Prior to joining ZEISS Kevin O’Keefe completed his Ph.D. at the University at Albany, SUNY, where he gained extensive experience in widefield, confocal microscopy and image analysis with a focus on tissue multiplexing following injury in the mouse submandibular salivary gland. After graduating Kevin started his career at ZEISS as a Product Application Sales Specialist and covered NY, NJ and PA working with ZEISS hardware including advanced 3D imaging systems. Recently, Kevin has joined the software sales team as the Senior Software Sales Representative with a concentration in biotech and pharma. He focuses on using the ZEISS toolkit for image analysis including ZEN, APEER and Arivis to help translate images into actionable data.
Experience the Complete Spatial Omics Workflow – From High Throughput Scanning to High-resolution
In the past 5 years, the life sciences community has witnessed the progression of the genomics and proteomics world into the spatial domain. This was in large part due to a strong desire to not only know which genes were being turned on and which proteins were being expressed, but also precisely where in a much larger context. This concept, often referred to as actionable biology, is leading to a much deeper understanding of diseases and genetic disorders and is transforming the developments of treatments, cures, and drug discoveries. Certainly, the spatial concept easily lends itself to microscopy methods, and we have seen the release of many powerful instruments on the market dedicated to spatial omics applications.
Initially, this work was almost exclusively being done on very thin tissue sections or monolayers of cells, and therefore utilized only 2D imaging and widefield microscopy. However, biology is inherently 3D, and the desire to resolve information in all three dimensions is increasing. Furthermore, we see researchers pushing these methods into even thicker tissue samples, obviating the need for an optical sectioning microscopy method to accomplish the imaging goals. Advances in the detection range of the LSM 980, coupled with new tools such as LSM Plus, further increase resolution and sensitivity and allow acquisition of 10 or more markers in a single scan. Combining the LSM 980 with high throughput whole slide imaging on the Axioscan, allows for high-resolution imaging in 3D without losing context. These tools provide the spectral and application flexibility needed to meet the demands of the growing number of biomarkers pushing out into the NIR wavelength range including smFISH and RNAscope®. Uncover the details of cell-to-cell interactions, cellular phenotyping and transcriptomics, without compromising context. Take it to the next level with our suite of software analysis utilizing AI and deep learning to segment and quantify the spatial relationships within your data.
From Samples to Slides - Sample Preparation for Multiplex Imaging
Sample preparation is a critical foundation of a successful spatial multiplexing experiment. We will discuss important steps in preparing samples and processing them into slides, with a special focus on formalin-fixed paraffin-embedded tissues. We will learn how to recognize and troubleshoot artifacts, select detection reagents, and validate multiplex staining. As image analysis is a key part of quantitative microscopy, we will discuss how to incorporate it in the early stages of protocol development to improve the outcomes. We will also talk about how to make your research more reproducible, and about the changing standards in reporting for microscopy experiments.