Dr. Yuki Yamagata’s paper on using large language models for annotating biomedical figures in articles about cellular senescence has been published online in Genomics & Informatics.
Survey on large language model annotation of cellular senescence from figures in review articles
https://doi.org/10.1186/s44342-024-00011-6
The collaborative international research paper co-authored by Drs. Takada, Yoshiki (Director of the Experimental Animal Division) and Shiroishi (BRC Director) was published in ZooKeys.
Title: Type specimens, taxonomic history, and genetic analysis of the Japanese dancing mouse or waltzer, Mus wagneri variety rotans Droogleever Fortuyn, 1912 (Mammalia, Muridae)
https://doi.org/10.3897/zookeys.1200.118823
Dr. Yuki Yamagata’s research paper on developing a new ontology for COVID-19 infection processes has been published online in BMC Medical Informatics and Decision Making.
Homeostasis imbalance process ontology: a study on COVID-19 infectious processes
https://doi.org/10.1186/s12911-024-02516-0
Dr. Yuki Yamagata’s research paper on the ontological model that organizes knowledge of cellular senescence has been published online in Scientific Data.
Prototyping an Ontological Framework for Cellular Senescence Mechanisms: A Homeostasis Imbalance Perspective
https://doi.org/10.1038/s41597-024-03331-y
For a concise overview of this research paper, please watch our YouTube video.
Research paper co-authored by Drs. Takada and Shiroishi was published in Genome Research.
Title: Inference of selective forces on house mouse genomes during secondary contact in East Asia
https://doi.org/10.1101/gr.278828.123>
Our staff members will have oral/poster presentations in the 71th Annual Meeting of Japanese Association for Laboratory Animal Science on May 29-31, 2024.
Title： Exploring human disease-related genomic variants in mouse strains (oral)
Authors： Toyoyuki Takada, Nobutaka Mitsuhashi, Yuki Moriya, Hirokazu Chiba, Takeya Kasukawa, Hiroshi Masuya
Date： May 24,2023 05:00 PM – 06:00 PM
Title： Introduction of New Feature in RIKEN BRC BioResource Search: “Advanced Search” (poster)
Authors： Daiki Usuda, Tatsuya Kushida, Hiroshi Masuya
Our staff members will have oral/poster presentations in the 38th Annual Conference of the Japanese Society for Artificial Intelligence from May 28 to 31.
https://www.ai-gakkai.or.jp/jsai2024/en
Date： May 30, 2024 10:20 AM – 10:40 AM
Title： LLM-based Biomedical Article Figure Annotation for Ontology Development
Authors： Yuki Yamagata, Ryota Yamada, Shuichi Onami, Hiroshi Masuya
https://confit.atlas.jp/guide/event/jsai2024/subject/3P1-GS-3-05/advanced
Date： May 31, 2024 10:20 AM – 10:40 AM
Title： Estimation of Disease Model Organisms Based on Phenotypic Data Similarity
Authors： Tatsuya Kushida, Jae-Moon Shin, Daiki Usuda, Yuki Yamagata, Toyoyuki Takada, Norio Kobayashi, Toyofumi Fujisawa, Hiroshi Masuya
https://confit.atlas.jp/guide/event/jsai2024/subject/4F1-GS-3-05/advanced
We are pleased to announce that Dr. Suzuki has received the 28th Miyadi Award from the Ecological Society of Japan (ESJ).
He gave a commemorative lecture in the 71st ESJ annual meeting.
Date： 15:00 March 18, 2024
Awardee: Kenta Suzuki
Lecture title: Ecosystems, Dynamical Systems, and Complex Systems: Toward an Ecology of Predictive Control
Abstract (in Japanese)
https://esj.ne.jp/meeting/abst/71/prize_winners_miyadi_03.html
Drs. Masuya and Takada presented a poster at the Allied Genetics Conference (TAGC2024).
Dates: March 6 to 10, 2024
Place: Washington D.C., USA
Title：Online databases and data integration in the RIKEN BioResource Research Center
Authors: Hiroshi Masuya, Toyoyuki Takada, el al.
Title：Update of MoG+: a database of mouse genomic variations connecting bioresource and biomedical research
Authors: Toyoyuki Takada, Daiki Usuda, et al.
The cis-regulatory element (CRE) data in fanta.bio (Functional genome ANnotations with Transcriptional Activities) was officially released on February 26, 2024. This database collects and integrally visualizes functional annotations of genomes for the study of gene regulation, focusing on CREs such as promoters and enhancers.
fanta.bio
https://fanta.bio/
RIKEN BRC is collaborating with this project by providing data from the mouse genome variation database, MoG+, etc. The relationship between mouse genome variation data and CREs and transcription factor binding regions derived from FANTOM, ChIPAtlas, etc. are now displayed in an easy-to-understand manner. This research is a result of the NBDC Integration Promotion Program “Construction of an integrative data platform for transcriptional regulations”.
