Join Dr. Alexandra Lubin and Dr. Jason Otterstrom as they discuss the use of deep learning-powered automated microscopy and image analysis for fast, in vivo zebrafish screening.

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Zebrafish are rapidly becoming a popular model organism for in vivo studies, particularly for drug screening and toxicology studies. Their benefits include fast development, economical husbandry, and direct amenability to microscopy since embryos are transparent. While imaging is fairly straightforward, in many cases, a substantial bottleneck to automated workflows is image analysis.

In this webinar, Dr. Jason Otterstrom and Dr. Alexandra Lubin describe an AI-powered analysis platform developed to enable true high-content screening of zebrafish, and highlight a range of applications where they have validated its performance. In brief, the easy-to-use software automatically identifies the fish outline, and internal anatomy & body regions with no required user inputs. They demonstrate the platform’s applicability in the context of counting GFP-labeled hematopoietic stem cells specifically in the tail region, along with measurement of x-ray induced apoptosis and dual-color analysis.

Key Topics Include:

  • What is high-content imaging and how does it apply to Zebrafish
  • How Deep-Learning can make analysis of zebrafish images truly high-content by extracting the fish’s anatomy
  • Learn example assays where automated microscopy can facilitate use of zebrafish for screening studies
  • One solution to orient zebrafish embryos without manual manipulation through specialized plates and software

Who Should Attend?

  • Researchers using zebrafish and microscopy in their work
  • Researchers looking for a model organism to do in vivo toxicology or drug screening
  • People interested in automated screening of whole organisms


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Application Scientist
IDEA Bio-Medical

Dr. Otterstrom is an application scientist for IDEA Bio-Medical. He has a diverse background in biophysics including microscopy, optical design, image analysis and sample labeling. His expertise is adapting biological assays to benefit from utilization of automated microscopy methods.

Post-Doctoral Research Associate
UCL Cancer Institute

Dr. Lubin is a post-doc at the UCL Cancer Institute where she uses zebrafish to study myelodysplastic syndrome (MDS) and acute myeloid leukaemia (AML), aiming to develop novel therapeutic treatments. Previously, she obtained her PhD in Chemical Biology from Imperial College London after studying Chemistry at the University of Cambridge.

Production Partner

IDEA Bio-Medical Ltd.

IDEA Bio-Medical was founded in 2007 through a partnership between YEDA (the Weizmann Institute’s commercialization arm) and IDEA Machine Development (an innovation hub). We specialize in automated imaging systems and image analysis software, offering a broad range of biological applications based on the company’s unique algorithms library. The company is developing novel image-based screening platforms for the pharmaceutical industry and medical centers, dedicated to broadening the scope of personalized medicine. Our WiScan Hermes system incorporates the most advanced technologies currently available in the machine vision field, integrated with engineering methodologies of high reliability and quality at the level of semi-conductors and digital printing industries, which are the specialty of our mother company, IDEA Machine Development Design and Production Ltd.

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