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RIKEN Center for Integrative Medical Sciences Laboratory for Comprehensive Genomic Analysis

Team Leader: Yasushi Okazaki (M.D., Ph.D.)

Research Summary

Yasushi  Okazaki(M.D., Ph.D.)

This facility will implement and standardize next generation sequencing applications, with particular focus on analysis of transcriptome, gene regulation network, ncRNA. The platform will provide highly standardized technological and analytical services to the users, in order to minimize the time from sample to data and to deliver high quality data.

Main Research Fields

  • Medicine, Dentistry & Pharmacy

Related Research Fields

  • Informatics
  • Biology

Keywords

  • Mitochondrial Disease
  • Bioinformatics
  • Inherited Disease

Selected Publications

Papers with an asterisk(*) are based on research conducted outside of RIKEN.

  • 1. Ozaki K, Irioka T, Uchihara T, Yamada A,Nakamura A,Majima T,Igarashi S, Shintaku H,Yakeishi M, Tsuura Y, Okazaki Y,Ishikawa K, Yokota T,
    "Neuropathology of SCA34 showing widespread oligodendroglial pathology with vacuolar white matter degeneration: a case study
    Acta Neuropathol Commun. 9(1)172(2021) doi: 10.1186/s40478-021-01272-w.
  • 2. Yasuoka Y, Taira M
    "LIM homeodomain proteins and associated partners: Then and now
    Current Topics in Developmental Biology. 145,113-166(2021) doi: 10.1016/bs.ctdb.2021.04.003.
  • 3. Inaba A, Arinaga A, Tanaka K, Endo T, Hayatsu N, Okazaki Y, Yamane T, Oishi Y, Imai H, Iwatsuki K
    "Interleukin-4 Promotes Tuft Cell Differentiation and Acetylcholine Production in Intestinal Organoids of Non-Human Primate"
    Int J Mol Sci. 22(15)7921(2021) doi: 10.3390/ijms22157921.
  • 4. Takata S, Amitani H, Endo M, Yuki H, Ramilowski J, Severin J, Manabe R, Watanabe T, Ozaki K, Kaneko A, Kajita H, Fujiki S, Sato K, Honma T, Uchida N, Fukami T, Okazaki Y, Ohara O, Shultz L, Yamada M, Taniguchi S, Vyas P, deHoon M, Momozawa Y, Ishikawa F,
    "Combined inhibition of XIAP and BCL2 drives maximal therapeutic efficacy in genetically diverse aggressive acute myeloid leukemia"
    Nature Cancer 2,340–356 (2021) https://doi.org/10.1038/s43018-021-00177-w
  • 5. Grapotte M, Saraswat M, Bessière C, Menichelli C, Ramilowski J, Severin J, Hayashizaki Y, Itoh M, Tagami M, Murata M, Kojima-Ishiyama M, Noma S, Noguchi S, Kasukawa T, Hasegawa A, Suzuki H, Nishiyori-Sueki H, C.Frith M, FANTOM consortium, Chatelain C, Carninci P, deHoon M, W.Wasserman W, Bréhélin L, Lecellier C,
    "Discovery of widespread transcription initiation at microsatellites predictable by sequence-based deep neural network"
    Nat Commun. 12(1)3297(2021) doi: 10.1038/s41467-021-23143-7.
  • 6. Ducoli L,Agrawal S,Hon C, Ramilowski J,Sibler E, Tagami M, Itoh M, Kondo N, Abugessaisa I, Hasegawa A, Kasukawa T, Suzuki H, Carninci P, Shin J, J.L.deHoon M, Detmar M,
    "The choice of negative control antisense oligonucleotides dramatically impacts downstream analysis depending on the cellular background"
    BMC Genomic Data 22,33 (2021) doi:10.1186/s12863-021-00992-1.
  • 7. *Saito K, Zhang Q, Yang H, Yamatani K, Ai T, Ruvolo V, Baran N, Cai T, Ma H, Jacamo R, Kuruvilla V, Imoto J, Kinjo S, Ikeo K, Moriya K, Suzuki K, Miida T, Kim Y-M, Vellano C P, Andreeff M, Marszalek J R, Tabe Y, Konopleva M,
    "Exogenous mitochondrial transfer and endogenous mitochondrial fission facilitate AML resistance to OxPhos inhibition"
    Blood Adv. 5(20)4233-4255(2021) doi: 10.1182/bloodadvances.2020003661.
  • 8. Ito Y, Terao Y, Noma S, Tagami M, Yoshida E, Hayashizaki Y, Itoh M, Kawaji H,
    "Nanopore sequencing reveals TACC2 locus complexity and diversity of isoforms transcribed from an intronic promoter"
    Sci Rep,11,9355(2021) doi: 10.1038/s41598-021-88018-9
  • 9. *Yamamura Y, Furuichi K, Murakawa Y, Hirabayashi S, Yoshihara M, Sako K, Kitajima S, Toyama T, Iwata Y, Sakai N, Hosomichi K, Murphy P.M, Tajima A, Okita K, Osafune K, Kaneko S, Wada T,
    "Identification of candidate PAX2-regulated genes implicated in human kidney development"
    Sci Rep, 11, 9123(2021) doi: 10.1038/s41598-021-88743-1
  • 10. Yasuoka Y, Matsumoto M, Yagi K, Okazaki Y
    "Evolutionary History of GLIS genes illuminates their Roles in Cell Reprogramming and Ciliogenesis"
    Mol Biol Evol.37(1),100-109(2020) doi: 10.1093/molbev/msz205.

Related Links

Lab Members

Principal investigator

Yasushi Okazaki
Team Leader

Core members

Kokoro Ozaki
Deputy Team Leader
Riichiroh Manabe
Senior Research Scientist
Yuuri Yasuoka
Research Scientist
Norihito Hayatsu
Research Scientist
Hiroko Hagiwara
Research Scientist
Tomoko Hirata
Technical Scientist
Yumiko Yamamoto
Technical Scientist
Ryota Teramoto
Special Postdoctoral Researcher
Michihira Tagami
Expert Technician
Tsugumi Kawashima
Senior Technical Staff
Shohei Noma
Senior Technical Staff
Chitose Takahashi
Technical Staff I
Hiroko Kinoshita
Technical Staff I
Ayaka Tokumura
Technical Staff I

Contact Information

West Research Building 4F W403
1-7-22 Suehiro-cho, Tsurumi-ku,
Yokohama, Kanagawa,
230-0045, Japan
Tel: +81-(0)45-503-9237
Fax: +81-(0)45-503-9216
Email: LSA-support [at] riken.jp

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