Advanced Imaging - Deep learning in Imaging & Cell Biology
You are about to enter the application round for Croucher Summer Course: Advanced Imaging - Deep learning in Imaging & Cell Biology
Sunday 25 August 2019
Li Ka Shing Faculty of Medicine 21 Sassoon Road
Welcome & introduction of the Course
Roberto
Bruzzone, Musa Mhlanga, George Tsao
Students’ self-introduction
Lecture 1: Introduction to deep learning
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Christophe Zimmer
Institut Pasteur, France
Tutorial
Microscope Operation Training & Hands-on Practice
Introduction of Fiji
Monday 26 August 2019
Li Ka Shing Faculty of Medicine 21 Sassoon Road
Lecture 2: Deep Learning in Systems Biology: High Content Screening
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Musa Mhlanga
University of Cape Town
Lecture 3: Content-Aware Image Restoration for Light and Electron Microscopy Facilitates Quantitative Data Analysis
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Florian Jug
Max Planck Institute of Molecular Cell Biology and Genetics
Practical session
Acquiring image data and training set data on microscopes from provided samples
CARE
- Denoising, Isotropic; NoiseToVoid
Tuesday 27 August 2019
Li Ka Shing Faculty of Medicine 21 Sassoon Road
Lecture 4: Towards a mechanistic understanding of cellular processes by cryo-EM
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Gaia Pigino
Max Planck Institute of Molecular Cell Biology and Genetics, Germany
Lecture 5: A new force awakens: comparative approach to tissue morphogenesis in insects
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Pavel Tomancak
Max Planck Institute of Molecular Cell Biology and Genetics
Practical session
Processing of the data acquired the previous day on provided virtual Paperspace computers in the cloud
CARE
- Denoising, Isotropic; NoiseToVoid
Wednesday 28 August 2019
Li Ka Shing Faculty of Medicine 21 Sassoon Road
Lecture 6: Multi-scale analysis of cell and tissue organization
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Marino Zerial
Max Planck Institute of Molecular Cell Biology and Genetics
Lecture 7: Image restoration and segmentation with machine learning
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Martin Weigert
Max Planck Institute of Molecular Cell Biology and Genetics
Practical session
Second round of microscopy and processing to demonstrate CARE and NoiseToVoid
Practical
session on StarDist
Lecture 8: DataViz with 3DScript in Fiji
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Florian Jug
Max Planck Institute of Molecular Cell Biology and Genetics
Thursday 29 August 2019
Li Ka Shing Faculty of Medicine 21 Sassoon Road
Lecture 9: Deep learning for massive imaging in microscopy and pathology, deep learning for the masses
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Christophe Zimmer
Institut Pasteur, France
Lecture 10: Open source analytics for super-resolution microscopy
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Sian Culley
University College London
MRC Laboratory for Molecular Cell Biology, University College London, UK
Practical session
SRRF, SQUIRREL/UNICORN and ANA-PALM
Friday 30 August 2019
Li Ka Shing Faculty of Medicine 21 Sassoon Road
Data analysis
Data analysis
Presentation of the results of the practical workshops and general discussion
Speakers
- Sian Culley University College London MRC Laboratory for Molecular Cell Biology, University College London, UK
- Florian Jug Max Planck Institute of Molecular Cell Biology and Genetics
- Musa Mhlanga University of Cape Town
- Gaia Pigino Max Planck Institute of Molecular Cell Biology and Genetics, Germany
- Pavel Tomancak Max Planck Institute of Molecular Cell Biology and Genetics
- Martin Weigert Max Planck Institute of Molecular Cell Biology and Genetics
- Marino Zerial Max Planck Institute of Molecular Cell Biology and Genetics
- Christophe Zimmer Institut Pasteur, France
Information
Directors:
Roberto Bruzzone
HKU-Pasteur Research Pole, The University of Hong Kong, HKSAR
Musa Mhlanga
University of Cape Town, South Africa
George Tsao
School of Biomedical Sciences, The University of Hong Kong, HKSAR