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

Li Ka Shing Faculty of Medicine 21 Sassoon Road

17:30

Welcome & introduction of the Course

Roberto Bruzzone, Musa Mhlanga, George Tsao

18:00

Students’ self-introduction

20:30
Lunch
21:30

Lecture 1: Introduction to deep learning

23:00

Tutorial

Microscope Operation Training & Hands-on Practice

01:00

Introduction of Fiji

02:00
Wrap up session
02:30
Welcome reception

Monday 26 August

Li Ka Shing Faculty of Medicine 21 Sassoon Road

17:00

Lecture 2: Deep Learning in Systems Biology: High Content Screening

18:30
Break
19:00

Lecture 3: Content-Aware Image Restoration for Light and Electron Microscopy Facilitates Quantitative Data Analysis

  • Florian Jug Max Planck Institute of Molecular Cell Biology and Genetics
20:30
Lunch
21:30

Practical session

Acquiring image data and training set data on microscopes from provided samples

CARE - Denoising, Isotropic; NoiseToVoid

02:00
Wrap up session

Tuesday 27 August

Li Ka Shing Faculty of Medicine 21 Sassoon Road

17:00

Lecture 4: Towards a mechanistic understanding of cellular processes by cryo-EM

  • Gaia Pigino Max Planck Institute of Molecular Cell Biology and Genetics, Germany
18:30
Break
19:00

Lecture 5: A new force awakens: comparative approach to tissue morphogenesis in insects

  • Pavel Tomancak Max Planck Institute of Molecular Cell Biology and Genetics
20:30
Lunch
21:30

Practical session

Processing of the data acquired the previous day on provided virtual Paperspace computers in the cloud

CARE - Denoising, Isotropic; NoiseToVoid

02:00
Wrap up session

Wednesday 28 August

Li Ka Shing Faculty of Medicine 21 Sassoon Road

17:00

Lecture 6: Multi-scale analysis of cell and tissue organization

  • Marino Zerial Max Planck Institute of Molecular Cell Biology and Genetics
18:30
Break
19:00

Lecture 7: Image restoration and segmentation with machine learning

  • Martin Weigert Max Planck Institute of Molecular Cell Biology and Genetics
20:30
Lunch
21:30

Practical session

Second round of microscopy and processing to demonstrate CARE and NoiseToVoid

Practical session on StarDist 

02:00
Wrap up session
02:30

Lecture 8: DataViz with 3DScript in Fiji

  • Florian Jug Max Planck Institute of Molecular Cell Biology and Genetics

Thursday 29 August

Li Ka Shing Faculty of Medicine 21 Sassoon Road

17:00

Lecture 9: Deep learning for massive imaging in microscopy and pathology, deep learning for the masses

18:30
Break
19:00

Lecture 10: Open source analytics for super-resolution microscopy

  • Sian Culley University College London

    MRC Laboratory for Molecular Cell Biology, University College London, UK


20:30
Lunch
21:30

Practical session

SRRF, SQUIRREL/UNICORN and ANA-PALM

02:00
Wrap up session

Friday 30 August

Li Ka Shing Faculty of Medicine 21 Sassoon Road

17:00

Data analysis

18:30
Break
19:00

Data analysis

20:30
Lunch
21:30

Presentation of the results of the practical workshops and general discussion

02:30
Celebration Dinner

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