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IISER Pune Training Course 2024

Microscopy and Image Analysis

Dates-20th to 24th May  2024 

Venue: IISER Pune

Overview of the course:

This course will cover the fundamentals of light microscopy (Different light paths, contrast techniques, principles of fluorescence, different capabilities, confocal microscopy) followed by hands-on training (PSF measurement, multi-dimensional image acquisition, 3D reconstruction, etc.) on different advanced imaging modalities such as widefield and confocal microscopes. The hands-on sessions will be followed by individual hands-on exercises, assignment submissions, and panel discussions to clarify doubts. The course also includes an image analysis component where participants will be introduced to the basics of digital image analysis and data handling. In addition, the research talks of eminent scientists will help in understanding the applications of light microscopy and how the knowledge gained during the course can be used to infer the scientific outcome from the digital captures leading to meaningful scientific discovery.

     This training course is intensive in nature. All the lectures will be combined with practical demonstrations, hands-on,   and discussions. Hence full-time participation is mandatory.

Confirmed speakers:


Dr. Richa Rikhy, Professor and Chair, Biology, IISER Pune

Dr. Chaitanya Athale,Professor, Biology, IISER Pune

Dr. Kundan Sengupta, Professor, Biology and Associate Dean IRO, IISER Pune

Dr. Chinmoy Patra, Scientist-E, ARI, Pune

Course instructors:

Dr. Santosh Podder, Senior Technical Officer, IISER Pune

Vijay Vittal, Assistant Technical Officer IISER Pune

Who can Attend:

M.Sc final year, I-PhD/PhD students/ PDF/ faculty members from colleges and universities who are aiming to take imaging experiments to address their research questions or R&D careers. Almost 70% of participants will be selected from non-tier 1 cities of India who have no access to advanced imaging modalities.

Practical Information:

The course is limited to 20 participants. For selection purposes, please note that your application will not be considered without a letter of motivation.



Registration fees  for selected candidates:  

M.Sc: Rs. 9500.00

PhD/PDF: Rs.12000.00

Faculty/Staff:    Rs.14500.00


The registration fee includes course materials, breakfasts, meals, coffee breaks, and accommodation. Stay will be arranged in double sharing rooms at IISER Pune guest house. Participants are expected to book and pay their travel expenses. Limited travel support will be available (Max 5 nos.).

How to apply:

Please scan or click the QR code. Enter the required details, and upload your motivation letter and a recommendation letter from HOD (for M.Sc students) or PI (for PhD students and postdocs). The letters should be in pdf format and below 1MB. The application deadline is 25th March 2024. Selected candidates will be informed via e-mail and asked for the registration. 

Instructions for motivation letter:

  1. Include your relevant skills, experience, and qualifications showing why you would be suitable for the course.

  2. Explain why you would like to attend, including what you can contribute and how you think you will be benefitted from the course.

Prerequisites for application:

  • Little experience with microscopy.

  • Basic knowledge of ImageJ or Fiji is preferred but not mandatory.

  • Successful applicants will have to bring in their laptops for the course.


Learning Outcome:

  • This course will help the participants to be confident enough to correctly handle advanced microscopes such as laser scanning confocal microscopes, optimize image quality, and set up microscope parameters as per the requirement. These are crucial to obtain the best scientific results.

  • This course will help to develop skills to analyze imaging data and rational thinking about image quality and data reproducibility. 


How to reach IISER Pune:

     From Pune airport:

     From Pune railway station:



For further queries:

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