Cell Exploration with ML at the Allen Institute w/ Jianxu Chen

Today we’re joined by Jianxu Chen, a scientist in the Assay Development group at the Allen Institute for Cell Science.

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At the latest GTC conference, Jianxu presented his work on the Allen Cell Explorer Toolkit, an open-source project that allows users to do 3D segmentation of intracellular structures in fluorescence microscope images at high resolutions, making the images more accessible for data analysis. In our conversation, we discuss three of the major components of the toolkit: the cell image analyzer, the image generator, and the image visualizer. We also explore Jianxu’s transition from computer science into computational biology. More broadly, we cover how the use of GPUs has fundamentally changed this research, and the goals his team had in mind when they began the project.

Connect with Jianxu!

• Twitter
• LinkedIn
• Personal Page

Resources

• Allen Cell Explorer
• Allen Cell Structure Segmenter
• Presentation: Animation, Segmentation, and Statistical Modeling of biological cells using microscopy imaging and GPU compute

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“More On That Later” by Lee Rosevere licensed under CC By 4.0