Genetic Materials at the Gene Engineering Division, RIKEN BioResource Center

Yokoyama, Kazunari K.; Murata, Takehide; Pan, Jianzhi; Nakade, Koji; Kishikawa, Shotaro; Ugai, Hideyo; Kimura, Makoto; Kujime, Yukari; Hirose, Megumi; Masuzaki, Satoko; Yamasaki, Takahito; Kurihara, Chitose; Okubo, Masato; Nakano, Yoshikatsu; Kusa, Yuka; Yoshikawa, Akiko; Inabe, Kumiko; Ueno, Kazuko; Obata, Yuichi

doi:10.1538/expanim.59.115

Cited by 8 publications

(2 citation statements)

References 34 publications

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“…The National BioResource Project (NBRP) was launched by MEXT in FY2002, one year after the foundation of the RIKEN BRC (Yamazaki et al 2010;Yokoyama et al 2010;Yoshiki et al 2009). The main program of the NBRP is the Core Facility Upgrading Program which aims to collect, preserve, and provide essential bioresources for life science studies strategically and systematically by the national government.…”

Section: Participation In the National Bioresource Projectmentioning

confidence: 99%

Mouse resources at the RIKEN BioResource Research Center and the National BioResource Project core facility in Japan

et al. 2021

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The RIKEN BioResource Research Center (BRC) was established in 2001 as a comprehensive biological resource center in Japan. The Experimental Animal Division, one of the BRC infrastructure divisions, has been designated as the core facility for mouse resources within the National BioResource Project (NBRP) by the Japanese government since FY2002. Our activities regarding the collection, preservation, quality control, and distribution of mouse resources have been supported by the research community, including evaluations and guidance on advancing social and research needs, as well as the operations and future direction of the BRC. Expenditure for collection, preservation, and quality-control operations of the BRC, as a national core facility, has been funded by the government, while distribution has been separately funded by users’ reimbursement fees. We have collected over 9000 strains created mainly by Japanese scientists including Nobel laureates and researchers in cutting-edge fields and distributed mice to 7000 scientists with 1500 organizations in Japan and globally. Our users have published 1000 outstanding papers and a few dozen patents. The collected mouse resources are accessible via the RIKEN BRC website, with a revised version of the searchable online catalog. In addition, to enhance the visibility of useful strains, we have launched web corners designated as the “Mouse of the Month” and “Today’s Tool and Model.” Only high-demand strains are maintained in live colonies, while other strains are cryopreserved as embryos or sperm to achieve cost-effective management. Since 2007, the RIKEN BRC has built up a back-up facility in the RIKEN Harima branch to protect the deposited strains from disasters. Our mice have been distributed with high quality through the application of strict microbial and genetic quality control programs that cover a globally accepted pathogens list and mutated alleles generated by various methods. Added value features, such as information about users’ publications, standardized phenotyping data, and genome sequences of the collected strains, are important to facilitate the use of our resources. We have added and disseminated such information in collaboration with the NBRP Information Center and the NBRP Genome Information Upgrading Program. The RIKEN BRC has participated in international mouse resource networks such as the International Mouse Strain Resource, International Mouse Phenotyping Consortium, and Asian Mouse Mutagenesis and Resource Association to facilitate the worldwide use of high-quality mouse resources, and as a consequence it contributes to reproducible life science studies and innovation around the globe.

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Section: Participation In the National Bioresource Projectmentioning

confidence: 99%

Mouse resources at the RIKEN BioResource Research Center and the National BioResource Project core facility in Japan

et al. 2021

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“…The original databases are from various research fields, e.g. FANTOM (mammalian (The FANTOM Consortium & the RIKEN PMI & CLST (DGT), ( 2014))), FOX Hunting (plant (Ichikawa et al, 2006)), Heavy-atom Database System (protein (Sugahara et al, 2009)) and Metadata of BioResource Center (BRC) resources (bioresources (Yoshiki et al, 2009), (Nakamura, 2010) and (Yokoyama et al, 2010)).…”

Section: Available Databasesmentioning

confidence: 99%

RIKEN MetaDatabase

Kobayashi¹,

Kume²,

Lenz³

et al. 2018

International Journal on Semantic Web and Information Systems

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Recently, the number and heterogeneity of life science datasets published on the Web have increased significantly. However, biomedical scientists face numerous serious difficulties finding, using and publishing useful databases. To address these issues, the authors developed a Resource Description Framework-based database platform, called the RIKEN MetaDatabase (http://metadb.riken.jp), that allows biologists to develop, publish and integrate multiple databases easily. The platform manages the metadata of both research and individual data described using standardised vocabularies and ontologies, and has a simple browser-based graphical user interface to view data including tabular and graphical forms. The platform was released in April 2015, and 113 databases, including mammalian, plant, bioresource and image databases, with 26 ontologies have been published using this platform as of January 2017. This paper describes the technical knowledge obtained through the development and operation of the RIKEN MetaDatabase to accelerate life science data distribution.

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Enriching iPSC research diversity: Harnessing human biobank collections for improved ethnic representation

Gurwitz,

Steeg

2024

Drug Development Research

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Biobanks of human biosamples and cell lines are indispensable for biomedical research on human health and disease and for drug development projects. Many human cell line biobanks worldwide hold collections of lymphoblastoid cell lines (LCLs), representing thousands of affected and control donors from diverse ethnic/ancestry groups. In recent years, induced human pluripotent stem cells (iPSCs) and differentiated human cells derived from these iPSCs have become indispensable for applied biomedical research. Establishing iPSCs remains a laborious and costly step towards generating differentiated human cells. To address this research need, several non‐profit and commercial biobanks have established iPSC collections for distribution to researchers, thereby serving as a resource for generating differentiated human cells. The most common starting materials for generation of iPSCs are a skin biopsy for harvesting fibroblasts, or a blood sample for collection of peripheral blood mononuclear cells. However untapped resources include the large established collections of biobanked human LCLs which can be reprogrammed to iPSCs using a variety of published protocols including the use of non‐integrating episomal vectors. Many biobanks curate LCLs from diverse ethnic/ancestry populations, an aspect largely absent in most established iPSC biobanks which tend to primarily reflect populations from developed countries. Here, we call upon researchers across the breadth of iPSC research to tap the unique resource of existing and diverse human LCL collections for establishing biobanked iPSC panels that better represent the varied human ethnic (and hence genomic) diversity, thereby benefiting precision medicine and drug development research on a global scale.

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Genetic Materials at the Gene Engineering Division, RIKEN BioResource Center

Cited by 8 publications

References 34 publications

Mouse resources at the RIKEN BioResource Research Center and the National BioResource Project core facility in Japan

Mouse resources at the RIKEN BioResource Research Center and the National BioResource Project core facility in Japan

RIKEN MetaDatabase

Enriching iPSC research diversity: Harnessing human biobank collections for improved ethnic representation

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