Programme

Course info Speaker bios

25 August — 30 August, 2019

1st Day

09:30 — 10:00

Welcome & introduction of the Course

Roberto Bruzzone, Musa Mhlanga, George Tsao

10:00 — 12:30

Students’ self-introduction

12:30 — 13:30

Lunch

13:30 — 15:00

Lecture 1: Introduction to deep learning

15:00 — 17:00

Tutorial

Microscope Operation Training & Hands-on Practice

17:00 — 18:00

Introduction of Fiji

18:30 — 20:30

Welcome reception

2nd Day

09:00 — 10:30

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

10:30 — 11:00

Break

11:00 — 12:30

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

12:30 — 13:30

Lunch

13:30 — 18:00

Practical session

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

CARE - Denoising, Isotropic; NoiseToVoid

3rd Day

09:00 — 10:30

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

10:30 — 11:00

Break

11:00 — 12:30

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

12:30 — 13:30

Lunch

13:30 — 18:00

Practical session

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

CARE - Denoising, Isotropic; NoiseToVoid

4th Day

09:00 — 10:30

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

10:30 — 11:00

Break

11:00 — 12:30

Lecture 7: Image restoration and segmentation with machine learning

12:30 — 13:30

Lunch

13:30 — 18:00

Practical session

Second round of microscopy and processing to demonstrate CARE and NoiseToVoid

Practical session on StarDist

18:30 — 19:00

Lecture 8: DataViz with 3DScript in Fiji

5th Day

09:00 — 10:30

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

10:30 — 11:00

Break

11:00 — 12:30

Lecture 10: Open source analytics for super-resolution microscopy

12:30 — 13:30

Lunch

13:30 — 18:00

Practical session

SRRF, SQUIRREL/UNICORN and ANA-PALM

6th Day

09:00 — 10:30

Data analysis

10:30 — 11:00

Break

11:00 — 12:30

Data analysis

12:30 — 13:30

Lunch

13:30 — 18:30

Presentation of the results of the practical workshops and general discussion

18:30 — 20:30

Celebration Dinner

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