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A technology to measure personal interactomes

Research Project

Project/Area Number 18H02428
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section一般
Review Section Basic Section 43060:System genome science-related
Research InstitutionThe University of Tokyo

Principal Investigator

Yachie Nozomu  東京大学, 先端科学技術研究センター, 客員准教授 (60636801)

Project Period (FY) 2018-04-01 – 2021-03-31
Project Status Completed (Fiscal Year 2020)
Budget Amount *help
¥17,550,000 (Direct Cost: ¥13,500,000、Indirect Cost: ¥4,050,000)
Fiscal Year 2020: ¥5,070,000 (Direct Cost: ¥3,900,000、Indirect Cost: ¥1,170,000)
Fiscal Year 2019: ¥5,070,000 (Direct Cost: ¥3,900,000、Indirect Cost: ¥1,170,000)
Fiscal Year 2018: ¥7,410,000 (Direct Cost: ¥5,700,000、Indirect Cost: ¥1,710,000)
Keywordsタンパク質間相互作用 / インタラクトーム / 酵母遺伝学 / DNAバーコード / 超並列シークエンシング / 次世代シークエンシング
Outline of Final Research Achievements

Human disorders and cancers are rarely interpreted by a single gene defect but rather by a malfunction of the cellular network. The recent deep sequencing-based screening methods have enabled high-throughput identification of human protein interaction maps. Furthermore, computational studies have shown that phenotypic prediction of mutations can be improved using cellular network information. This study aimed to develop a personal interactome technology using a high-throughput interactome screening method BFG-Y2H (barcode fusion genetics-yeast two-hybrid) that we have established previously.

Academic Significance and Societal Importance of the Research Achievements

ゲノム変異情報をヒトのリファレンスインタラクトームにマッピングすることで病態予測や予後予測の精度が向上することが示されている。また疾患関連変異が他のゲノム変異に比べて有意に多くのタンパク質間相互作用を阻害することも知られている。したがって、インタラクトーム情報を個人レベルで調べることが可能になればパーソナルゲノム情報に加えてより高度な細胞あるいは疾病の動態予測が可能になる。またより高速なインタラクトーム測定技術の開発は様々な生物種のゲノム情報がどのように形質として転写されるのか知る大きな手がかりともなり、本技術が医療分野および基礎生物学分野に与える影響は大きい。

Report

(4 results)
  • 2020 Annual Research Report   Final Research Report ( PDF )
  • 2019 Annual Research Report
  • 2018 Annual Research Report
  • Research Products

    (35 results)

All 2020 2019 2018 Other

All Int'l Joint Research (3 results) Journal Article (17 results) (of which Int'l Joint Research: 13 results,  Peer Reviewed: 16 results,  Open Access: 7 results) Presentation (12 results) (of which Int'l Joint Research: 8 results,  Invited: 11 results) Remarks (1 results) Patent(Industrial Property Rights) (2 results)

  • [Int'l Joint Research] University of Toronto/Laval University/Mt Sinai Hospital(カナダ)

    • Related Report
      2020 Annual Research Report
  • [Int'l Joint Research] Laval University/University of Toronto/Mt Sinai Hospital(カナダ)

    • Related Report
      2019 Annual Research Report
  • [Int'l Joint Research] Laval University/University of Toronto/Mt Sinai Hospital(カナダ)

    • Related Report
      2018 Annual Research Report
  • [Journal Article] Interrogation of kinase genetic interactions provides a global view of PAK1-mediated signal transduction pathways2020

    • Author(s)
      Kim Jae-Hong、Seo Yeojin、Jo Myungjin、Jeon Hyejin、Kim Young-Seop、Kim Eun-Jung、Seo Donggun、Lee Won-Ha、Kim Sang Ryong、Yachie Nozomu、Zhong Quan、Vidal Marc、Roth Frederick P.、Suk Kyoungho
    • Journal Title

      Journal of Biological Chemistry

      Volume: 295 Issue: 50 Pages: 16906-16919

    • DOI

      10.1074/jbc.ra120.014831

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Highly Combinatorial Genetic Interaction Analysis Reveals a Multi-Drug Transporter Influence Network2020

    • Author(s)
      Celaj Albi、Gebbia Marinella、Musa Louai、Cote Atina G.、Snider Jamie、Wong Victoria、Ko Minjeong、Fong Tiffany、Bansal Paul、Mellor Joseph C.、Seesankar Gireesh、Nguyen Maria、Zhou Shijie、Wang Liangxi、Kishore Nishka、Stagljar Igor、Suzuki Yo、Yachie Nozomu、Roth Frederick P.
    • Journal Title

      Cell Systems

      Volume: 10 Issue: 1 Pages: 25-38.e10

    • DOI

      10.1016/j.cels.2019.09.009

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Complete Genome Sequence of Bacillus sp. Strain KH172YL63, Isolated from Deep-Sea Sediment2020

    • Author(s)
      Murai Yumi、Masuda Takahiro、Onuma Yasuhide、Evans-Yamamoto Daniel、Takeuchi Nao、Mori Hideto、Masuyama Nanami、Ishiguro Soh、Yachie Nozomu、Arakawa Kazuharu
    • Journal Title

      Microbiology Resource Announcements

      Volume: 9 Issue: 16

    • DOI

      10.1128/mra.00291-20

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Use of Freeze-thawed Embryos for High-efficiency Production of Genetically Modified Mice2020

    • Author(s)
      Nishizono Hirofumi、Darwish Mohamed、Uosaki Hideki、Masuyama Nanami、Seki Motoaki、Abe Hiroyuki、Yachie Nozomu、Yasuda Ryohei
    • Journal Title

      Journal of Visualized Experiments

      Volume: - Issue: 158 Pages: 1-1

    • DOI

      10.3791/60808

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Perturbing proteomes at single residue resolution using base editing2020

    • Author(s)
      Despres Philippe C.、Dube Alexandre K.、Seki Motoaki、Yachie Nozomu、Landry Christian R.
    • Journal Title

      Nature Communications

      Volume: 11 Issue: 1 Pages: 1871-1871

    • DOI

      10.1038/s41467-020-15796-7

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Yeast-Based Genetic Interaction Analysis of Human Kinome2020

    • Author(s)
      Kim Jae-Hong、Seo Yeojin、Jo Myungjin、Jeon Hyejin、Lee Won-Ha、Yachie Nozomu、Zhong Quan、Vidal Marc、Roth Frederick P.、Suk Kyoungho
    • Journal Title

      Cells

      Volume: 9 Issue: 5 Pages: 1156-1156

    • DOI

      10.3390/cells9051156

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Base editors for simultaneous introduction of C-to-T and A-to-G mutations2020

    • Author(s)
      Sakata Rina C.、Ishiguro Soh、Mori Hideto、Tanaka Mamoru、Tatsuno Kenji、Ueda Hiroki、Yamamoto Shogo、Seki Motoaki、Masuyama Nanami、Nishida Keiji、Nishimasu Hiroshi、Arakawa Kazuharu、Kondo Akihiko、Nureki Osamu、Tomita Masaru、Aburatani Hiroyuki、Yachie Nozomu
    • Journal Title

      Nature Biotechnology

      Volume: na Issue: 7 Pages: 865-869

    • DOI

      10.1038/s41587-020-0509-0

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] DNA event recorders send past information of cells to the time of observation2019

    • Author(s)
      Ishiguro Soh、Mori Hideto、Yachie Nozomu
    • Journal Title

      Current Opinion in Chemical Biology

      Volume: 52 Pages: 54-62

    • DOI

      10.1016/j.cbpa.2019.05.009

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed
  • [Journal Article] DNA barcodes evolve for high-resolution cell lineage tracing2019

    • Author(s)
      Masuyama Nanami、Mori Hideto、Yachie Nozomu
    • Journal Title

      Current Opinion in Chemical Biology

      Volume: 52 Pages: 63-71

    • DOI

      10.1016/j.cbpa.2019.05.014

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed
  • [Journal Article] The role of structural pleiotropy and regulatory evolution in the retention of heteromers of paralogs2019

    • Author(s)
      Marchant Axelle、Cisneros Angel F、Dube Alexandre K、Gagnon-Arsenault Isabelle、Ascencio Diana、Jain Honey、Aube Simon、Eberlein Chris、Evans-Yamamoto Daniel、Yachie Nozomu、Landry Christian R
    • Journal Title

      eLife

      Volume: 8

    • DOI

      10.7554/elife.46754

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] A genome-scale CRISPR/Cas9 knockout screening reveals SH3D21 as a sensitizer for gemcitabine2019

    • Author(s)
      Masoudi Mohammad、Seki Motoaki、Yazdanparast Razieh、Yachie Nozomu、Aburatani Hiroyuki
    • Journal Title

      Scientific Reports

      Volume: 9 Issue: 1 Pages: 19188-19188

    • DOI

      10.1038/s41598-019-55893-2

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] The role of structural pleiotropy and regulatory evolution in the retention of heteromers of paralogs2019

    • Author(s)
      Marchant Axelle、Cisneros Angel F.、Dube Alexandre K、Gagnon-Arsenault Isabelle、Ascencio Diana、Jain Honey A.、Aube Simon、Eberlein Chris、Evans-Yamamoto Daniel、Yachie Nozomu、Landry Christian R
    • Journal Title

      bioRxiv

      Volume: NA

    • DOI

      10.1101/564401

    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research
  • [Journal Article] Complete Genome Sequence of Psychrobacter sp. Strain KH172YL61, Isolated from Deep-Sea Sediments in the Nankai Trough, Japan2019

    • Author(s)
      Evans-Yamamoto Daniel、Takeuchi Nao、Masuda Takahiro、Murai Yumi、Onuma Yasuhide、Mori Hideto、Masuyama Nanami、Ishiguro Soh、Yachie Nozomu、Arakawa Kazuharu
    • Journal Title

      Microbiology Resource Announcements

      Volume: 8 Issue: 16

    • DOI

      10.1128/mra.00326-19

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed
  • [Journal Article] beditor: A Computational Workflow for Designing Libraries of Guide RNAs for CRISPR-Mediated Base Editing2019

    • Author(s)
      Dandage Rohan、Despres Philippe C.、Yachie Nozomu、Landry Christian R.
    • Journal Title

      Genetics

      Volume: NA Issue: 2 Pages: 377-385

    • DOI

      10.1534/genetics.119.302089

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Fast and global detection of periodic sequence repeats in large genomic resources2018

    • Author(s)
      Mori Hideto、Evans-Yamamoto Daniel、Ishiguro Soh、Tomita Masaru、Yachie Nozomu
    • Journal Title

      Nucleic Acids Research

      Volume: 47 Issue: 2 Pages: e8-e8

    • DOI

      10.1093/nar/gky890

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Engineered CRISPR-Cas9 nuclease with expanded targeting space2018

    • Author(s)
      Nishimasu Hiroshi、Shi Xi、Ishiguro Soh、Gao Linyi、Hirano Seiichi、Okazaki Sae、Noda Taichi、Abudayyeh Omar O.、Gootenberg Jonathan S.、Mori Hideto、Oura Seiya、Holmes Benjamin、Tanaka Mamoru、Seki Motoaki、Hirano Hisato、Aburatani Hiroyuki、Ishitani Ryuichiro、Ikawa Masahito、Yachie Nozomu、Zhang Feng、Nureki Osamu
    • Journal Title

      Science

      Volume: 361 Issue: 6408 Pages: 1259-1262

    • DOI

      10.1126/science.aas9129

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Double Selection Enhances the Efficiency of Target-AID and Cas9-Based Genome Editing in Yeast2018

    • Author(s)
      Despres Philippe C、Dube Alexandre K、Nielly-Thibault Lou、Yachie Nozomu、Landry Christian R
    • Journal Title

      G3: Genes|Genomes|Genetics

      Volume: 8 Issue: 10 Pages: 3163-3171

    • DOI

      10.1534/g3.118.200461

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed / Int'l Joint Research
  • [Presentation] DNA Event Recording Biology2020

    • Author(s)
      Yachie N
    • Organizer
      CRISPR and Beyond: Perturbations at Scale to Understand Genomes
    • Related Report
      2020 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Towards a high-resolution whole-body map of cell lineage and differentiation trajectories in mammalian development2020

    • Author(s)
      Yachie N
    • Organizer
      Cascadia 2.0
    • Related Report
      2020 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] DNA barcode technologies to dissect heterogeneous biological systems2019

    • Author(s)
      Yachie N
    • Organizer
      The 13th Intn’l Workshop on Advanced Genomics
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Recording cellular events in DNA2019

    • Author(s)
      Yachie N
    • Organizer
      Asian Synthetic Biology Association
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Recording cellular events in DNA2019

    • Author(s)
      Yachie N
    • Organizer
      Frontiers in Genome Engineering
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Bringing the sense of amazing yeast genetics to mammalian biology2018

    • Author(s)
      谷内江 望
    • Organizer
      第22回酵母合同シンポジウム
    • Related Report
      2018 Annual Research Report
    • Invited
  • [Presentation] Synthetic DNA memory devices to measure molecular and cellular dynamics2018

    • Author(s)
      谷内江 望
    • Organizer
      生命科学系フロンティアミーティング 2018
    • Related Report
      2018 Annual Research Report
    • Invited
  • [Presentation] Developing new genome editing technologies2018

    • Author(s)
      谷内江 望
    • Organizer
      第41回日本分子生物学会年会
    • Related Report
      2018 Annual Research Report
    • Invited
  • [Presentation] A new genetic marker to analyze molecular dynamics of a same clone in complex cell populations2018

    • Author(s)
      Nozomu Yachie
    • Organizer
      The 91st Annual Meeting of the Japanese Biochemical Society
    • Related Report
      2018 Annual Research Report
  • [Presentation] Scaling up massively parallel experiments using DNA barcodes2018

    • Author(s)
      Nozomu Yachie
    • Organizer
      JST ImPACT Artificial Cell Program, Tokyo
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Chasing molecular and cellular dynamics using DNA barcodes2018

    • Author(s)
      Nozomu Yachie
    • Organizer
      Cell Mapping Symposium, San Diego, US
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] We do not have a time machine, but can install a recording system to a cell2018

    • Author(s)
      Nozomu Yachie
    • Organizer
      Asian Synthetic Biology Association 2018, Ceju, Korea
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research / Invited
  • [Remarks] Yachie Laboratory at the University of Tokyo

    • URL

      http://yachie-lab.org/

    • Related Report
      2018 Annual Research Report
  • [Patent(Industrial Property Rights)] 2種の核酸塩基変換酵素が融合されたCasタンパク質を利用したゲノム編集システム2019

    • Inventor(s)
      谷内江望、石黒宗、坂田莉奈、森秀人
    • Industrial Property Rights Holder
      谷内江望、石黒宗、坂田莉奈、森秀人
    • Industrial Property Rights Type
      特許
    • Filing Date
      2019
    • Related Report
      2019 Annual Research Report
  • [Patent(Industrial Property Rights)] 汎用的繰り返しDNAアセンブリ技術(FRACTALアセンブリ)2019

    • Inventor(s)
      谷内江望、山口七海、森秀人
    • Industrial Property Rights Holder
      谷内江望、山口七海、森秀人
    • Industrial Property Rights Type
      特許
    • Industrial Property Number
      2020-053077
    • Filing Date
      2019
    • Related Report
      2019 Annual Research Report

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Published: 2018-04-23   Modified: 2022-01-27  

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