GBI-ABiS International Training Course for Bioimage Analysis

This course will focus on computational methods for analysing cellular images and extracting quantitative data from them. The aim of this course is to familiarise the participants with computational image analysis methodologies, and to provide hands-on training in running quantitative analysis pipelines. Young investigators, such as Ph.D. students and postdoc, as well as assistant professors and imaging facilities technical staff are encouraged to apply. A limited number of travel grants will be awarded to applicants selected on the basis of their qualifications and fitness to the purpose of the course.

Wednesday, Oct. 31 – Sunday, Nov. 4, 2018
(Oct. 31, ABiS-GBI-OIST-ResonanceBio Joint Symposium “Frontiers in Bioimaging” )

Okinawa Institute Of Science And Technology Graduate University (OIST)
(1919-1 Tancha, Onna-son, Kunigami-gun, Okinawa, Japan 904-0495)


Okinawa Kariyushi Beach Resort Ocean Spa
(2591-1 Nakama Yashibaru, Onna-son, Okinawa, Japan 904-0401)
(*Shuttle bus will be provided between the hotel and the venue during the training course.)
The hotel is in a resort area which is about 20 min from OIST and we charter a bus from the morning of Nov. 1 to Nov. 4. Available rooms are limited and the rate including a breakfast buffet (tax is not included) for the season is rather high and varies on date.

  Oct. 31 & Nov. 1)Single use in Twin room: 14,000 yen, Twin room for 1 person: 7,000 yen
  Nov. 2)Single: 15,000 yen, Twin: 7,500 yen
  Nov. 3)Single: 17,000 yen, Twin: 9,000 yen

In the afternoon of Nov. 4, we arrange a bus from OIST to the Naha International Airport for your return.
*You will be asked to make a reservation by email. Please fill the inquiries for the hotel, etc. and return it by the end of July. We ask you to book accommodations before and/or after the joint symposium/course by yourself.

 Oct. 31 (Wed) 10:30-15:35
 ABiS-GBI-OIST-ResonanceBio Joint Symposium “Frontiers in Bioimaging”
  Opening remarks
  10:30-10:40   Mizuki SHIMANUKI
  Session 1 (Chair: Naoto UENO)  
  10:40-11:05   Shin YOSHIZAWA (RIKEN)
Fast and accurate edge-aware image filters
  11:05-11:30   Hiroshi KOYAMA (NIBB)
Tissue elongation and pattern formation of cells on isotropically expanding field
  11:30-11:55   Jason SWEDLOW (University of Dundee)
OME’s Bio-Formats, OMERO & IDR: Open tools for accessing, Integrating , mining & publishing image data @ scale
  11:55-12:10   Break
  Session 2 (Chair: Jason SWEDLOW)
  12:10-12:35   Yusuke MORIMOTO (Kyushu Institute of Technology)
Visualization of signal transductions during development of Dictyostelium
  12:35-13:00   Akihiro KUSUMI (OIST)
Signal transduction enabled by very transient molecular complexes: findings by single-molecule tracking
  13:00-13:50   Lunch
  Session 3 (Chair: Kohei OTOMO)
  13:50-14:15   Mako KAMIYA (The University of Tokyo)
Rapid cancer imaging by rationally designed fluorescence probes
  14:15-14:40   Minh DOAN (Broad Institute)
Beyond the conventional information in images
  14:40-15:05   Peilin CHEN (Academia Sinica)
Towards rapid, large-scale, and three-dimensional superresolution imaging via lightsheet localization microscopy
  15:05-15:30   Keiko KONO (OIST)
Mechanisms and consequences of plasma membrane repair
  Closing remarks
  15:30-15:35   Naoto UENO

 Nov. 1 – 4
 GBI-ABiS International Training Course
  Nov. 1 (Thr)
  Speaker:Christian Tischer
   9:30-10:00   Introduction to image analysis
  10:00-11:00   Image inspection and image handling using Fiji
  11:00-11:30   Tea/Coffee Break
  11:30-13:00   Simple image analysis using Fiji
  13:00-14:00   Lunch
  14:00-15:45   Image analysis workflows (with scripting) using Fiji, part 1
  15:45-16:15   Tea/Coffee Break
  16:15-17:30   Image analysis workflows (with scripting) using Fiji, part 2
  17:30-19:30   Summary and discussion (Welcome Party)
  19:50   Shuttle bus departing
  Nov. 2 (Fri)
  Speaker:Minh Doan
   9:30- 9:45   Introduction to CellProfiler
   9:45-11:00   CellProfiler tutorial- Translocation, part 1
  11:00-11:30   Tea/Coffee Break
  11:30-13:00   CellProfiler tutorial- Translocation, part 2
  13:00-14:00   Lunchon (Discussion)
  14:00-15:00   CellProfiler tutorial- Utilizing pixel classification
  15:00-15:30   Tea/Coffee Break
  15:30-17:30   CellProfiler tutorial- Cell Painting
  17:30-   Summary and discussion
  18:30   Shuttle bus departing
  Nov. 3 (Sat)
  Speaker:Minh Doan
   9:30-10:00   Introduction to CellProfiler Analyst
  10:00-11:00   CellProfiler Analyst tutorial- Translocation, part 3
  11:00-11:30   Tea/Coffee Break
  11:30-12:30   CellProfiler/CellProfiler Analyst tutorial- Quality control
  12:30-13:30   Lunch
  13:30-15:00   CellProfiler – new directions
  15:00-15:30   Tea/Coffee Break
  Speakers:Petr Walczysko /Jason Swedlow
  15:30-17:30   Data management with OMERO
  17:30   Summary and discussion
  18:30   Shuttle bus departing
  Nov. 4 (Sun)
  9:30-12:30   Data clinic
  13:00   Shuttle bus departing for Naha Airport


Application deadline : May 31, 2018 The deadline has been extended to June 15th.
Entry has been closed. Thank you for your application.

Grant-in-Aid for Scientific Research on Innovative Areas ― Platforms for Advanced Technologies and Research Resources “Advanced Bioimaging Support”(ABiS)
Grant-in-Aid for Scientific Research on Innovative Areas ― Platforms for Advanced Technologies and Research Resources “Committee on Promoting Collaboration in Life Sciences”
Grant-in-Aid for Scientific Research on Innovative Areas- “Resonance Bio”
Contact ( GBI-ABiS Joint Training Course )