Author: Aiko Sekiguchi

Dr Onami in Experimental Medicine.

A contribution by Dr Onami, “Development of data format standards and data sharing systems for bioimaging” has been published in a magazine, Experimental Medicine.

Dr Onami in RIKEN NEWS

Our TL Dr Onami and his research on data sharing in life sciences were featured in RIKEN NEWS which covers researchers at the forefront of their research fields.

You can read the article on RIKEN’s website. (Only in Japanese.)

Seeking Data Annotator

We are currently looking for a data annotator as either a full time or part-time worker.

This position’s main role is data annotation in SSBD, such as selecting data from papers in life science research, extracting their metadata, requesting other laboratories inside/ outside the RIKEN to provide their research data, and registering them into SSBD.

The successful candidate must be able to understand papers in English as well as have excellent writing skills in Japanese.

Job Descriptions are posted on the RIKEN’s official website. (In Japanese only)

Technical Staff: テクニカルスタッフ募集（DD2101）

Research Part-timer: 研究パートタイマー募集（DD2102）

If you are interested in the position, please contact Dr Onami in advance of your application.

We look forward to your application!

Improvement in image quality via the pseudo confocal effect in multidirectional digital scanned laser light-sheet microscopy

Our TL Onami and DR Kaneshiro (Laboratory for Comprehensive Bioimaging, RIKEN BDR) et al. proposed a new pseudo confocal system that combines multiline scanning for light-sheet illumination combined and simple image construction.  By further combining our method with multidirectional digital scanned laser light-sheet microscopy (mDSLM), we demonstrated improvement of image quality in biological samples.

https://doi.org/10.1364/OE.423783

Texture-Based Screening to Identify Genes Involved in Reproductive Aging in C. elegans

Dr Momoko Imakubo et al.’s study on analysis of genes involved in reproductive aging in C. elegans oocytes by using an image database of RNAi embryos and image processing has been published online at https://doi.org/10.17706/ijbbb.2021.11.3.40-49.

Congratulations to our former student trainee Momoko Imakubo who earned her PhD from Kobe University in March 2021 on her achievement. We wish you all the best in your future endeavour!

[For Students] Join BDR Lecture Program.

Our TL is going to hold a talk session in the BDR Lecture Programs in August. Graduate students outside the joined graduate universities of BDR can join and have a chance to talk with PIs directly.

If you are interested in the program, register at the BDR website by June 12.

Details and lectures will be given in Japanese but English is available in the talk session.

[Press Release] Launch of “NeuroGT Database”, a brain atlas of neurogenic tagging CreER mouse drivers

Drs. Yukako Tohsato and Hiroya Itoga in our SSBD team, together with Prof. Tatsumi Hirata (NIG) and colleagues, developed the “NeuroGT database,” which contains whole-brain image data of tagged neurons based on time of neurogenesis. Through NeuroGT, researchers can find suitable neurogenic tagging driver lines for their research.

Learn more about Neuro GT on the National Institute of Genetics Press Release.

Reference

Hirata, T., Tohsato, Y., Itoga, H. et al. NeuroGT: A brain atlas of neurogenic tagging CreER drivers for birthdate-based classification and manipulation of mouse neurons. Cell Rep. Methods 1, 100012 (2021). https://doi.org/10.1016/j.crmeth.2021.100012

REMBI: Recommended Metadata for Biological Images

Our TL Dr Onami joined discussions on metadata standards in biological image data sharing with an international bioimaging community lead by EMBL-EBI. They propose global metadata guidelines, REMBI: Recommended Metadata for Biological Images.

https://doi.org/10.1038/s41592-021-01166-8