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National Institutes of Natural Sciences

National Institute for Basic Biology

International Cooperation

Princeton University - Collaboration

NIBB-Princeton Joint Proteomics Training Course

Organizers Naoto Ueno(NIBB)
Shuji Shigenobu (NIBB)
Ileana Cristea (Princeton Univ.)
Venue National Institute for Basic Biology
Date July 19-21, 2017
Link Trainingcourse Website (http://www.nibb.ac.jp/proteomics_course/)

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As part of international collaboration and cooperation with Princeton University, we held a proteomics training course "NIBB - Princeton Joint Proteomics Training Course 2017 - Protein identification, quantification and characterization -" from July 19 to 21, 2017. Over the three-day course, we conducted lectures and hands-on training to master principles and measurement techniques on protein identification and quantification by mass spectrometry. From Princeton University, Professor Ileana Cristea, who is a head instructor of the summer Proteomics Course at the Cold Spring Harbor Laboratory and a prominent virus researcher using proteomic approaches, was invited as one of the organizers. Dr. Todd Greco, who is a researcher at Cristea’s Laboratory, participated in the course as a lecturer. Participants were selected based on their applications. From 26 domestic and overseas applicants, 17 people, including four NIBB members, participated in the course. There was a wide range of participants including graduate students, postdoctoral researchers, and faculty members and staff of various universities and institutes. Three of them were graduate students and postdoctoral researchers belonging to universities in Japan from foreign countries.

Professor Cristea was mainly responsible for lectures on proteomics from theoretical background to applied research. The hands-on training was supported by the NIBB faculty and staff, and the participants themselves prepared and analyzed protein samples extracted from Xenopus embryos. The lectures and hands-on training for bioinformatics of proteomics analysis was handled by Dr. Greco, and the participants conducted data analysis exercises based on the results obtained from the hands-on training using a computer deployed for each group. Due to being divided among four groups, participants deeply interacted with their partners, and lectures and hands-on training were held with active discussion.

Through the preparation and conduction of the course, I believe that the connection between Princeton University and NIBB researchers has deepened. It was also a good opportunity for us to learn the cutting edge analytical techniques used by Princeton University. We gained a lot of hints that I believe will be useful for the Collaborative Research Projects for Integrative Genomics utilizing mass spectrometers.

Shuji Shigenobu (On behalf of the Organizer)

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 Proteomic analysis is becoming one of the essential techniques in life sciences. However, there are few occasions for scientists to learn from the basics of mass-spectrometry to bioinformatics, in addition to a series of molecular biology experiments, in an integrated manner. Therefore, we NIBB and Princeton University co-organized an intensive course aiming to teach those in three-days. In responding to our call for 16 trainees, we had 28 applicants from both abroad and Japan. After our careful selection, 17 successful trainees who are graduate student, research scientist, technical staff, or faculty member participated in the course. NIBB contributed to the planning of the course and the experimental training for the preparation of protein samples and the acquisition of data by MS instruments. We were very happy that all four groups of trainees successfully obtained their own data.

 

 In addition, Professor Ileana Cristea at Princeton Univ. delivered excellent lectures in which from the basic to up-to-date knowledge on MS as well as practical approaches to address various biological problems were introduced. Her scientific staff Dr. Todd Greco gave useful lectures and hands-on training as to how we read the data obtained from MS instruments and how we can handle such mass-data by bioinformatics and also taught about several soft wares available.

 

 By the end of the course, many of trainees started to express their wishes to use “Collaborative Research” program of NIBB and pursue their researches using proteomics, after they go back to their own universities/institutes. We believe this is because each trainee had a concrete image of how proteomics is employed for his/her research.

 

 Finally, we hope that through the wonderful cooperation with Princeton University, this course would increase the presence and visibility of NIBB.

 

Kensuke Kawade

 

 

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Program

July 19th
Proteomics Lecture I: Practice data analysis with bioinformatics software, Preparation of experimental samples

 

July 20th
Proteomics Lecture II: Scientific lectures on applications of proteomics, LC-MS/MS analysis

 

July 21st
Proteomics Lecture III: Analysis, visualization and interpretation of acquired data.