• Search Research Projects
  • Search Researchers
  • How to Use
  1. Back to previous page

Single cell transcriptome analysis

Research Project

Project/Area Number 25710018
Research Category

Grant-in-Aid for Young Scientists (A)

Allocation TypePartial Multi-year Fund
Research Field Genome biology
Research InstitutionInstitute of Physical and Chemical Research

Principal Investigator

Plessy Charles  国立研究開発法人理化学研究所, ライフサイエンス技術基盤研究センター, ユニットリーダ ー (60391984)

Project Period (FY) 2013-04-01 – 2016-03-31
Project Status Completed (Fiscal Year 2015)
Budget Amount *help
¥25,220,000 (Direct Cost: ¥19,400,000、Indirect Cost: ¥5,820,000)
Fiscal Year 2014: ¥13,000,000 (Direct Cost: ¥10,000,000、Indirect Cost: ¥3,000,000)
Fiscal Year 2013: ¥12,220,000 (Direct Cost: ¥9,400,000、Indirect Cost: ¥2,820,000)
Keywords生物学 / ハイスループット / トランスクリプトーム / 単一細胞 / Transcriptome / CAGE / HPV / Human Papillomavirus / Single-cell / 幹細胞
Outline of Final Research Achievements

We have developed methods to study the activity of genes in isolated single cells by quantitative sequencing of messenger RNA copies. First, we analysed cells that have a different fluorescent colour before and after the replication of their DNA, and found genes whose activity can predict the stage of single cells their division cycle. Then, we prepared a high-throughput method using a flow cytometer to isolate more than 6,000 single cells in microwell plates. To keep a reasonable cost, we reduced the reaction volumes in each well, using a high-performance system for transferring nanoliters of liquid reagents, called "Labcyte Echo". In our pilot experiment, we compared reference cell lines, to estimate our method's precision to measure differences of gene activity. Altogether, these results open the way to studies of cell differentiation, which have potential impact on regenerative medicine and cancer research.

Report

(4 results)
  • 2015 Annual Research Report   Final Research Report ( PDF )
  • 2014 Annual Research Report
  • 2013 Annual Research Report
  • Research Products

    (8 results)

All 2016 2015 2014

All Journal Article (2 results) (of which Int'l Joint Research: 2 results,  Peer Reviewed: 1 results,  Open Access: 1 results,  Acknowledgement Compliant: 2 results) Presentation (6 results) (of which Int'l Joint Research: 2 results,  Invited: 1 results)

  • [Journal Article] Targeted reduction of highly abundant transcripts using pseudo-random primers.2016

    • Author(s)
      Arnaud O, Kato S, Poulain S, Plessy C
    • Journal Title

      BioTechniques

      Volume: 60 Issue: 4 Pages: 169-174

    • DOI

      10.2144/000114400

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
  • [Journal Article] nanoCAGE: a method for the analysis of coding and non-coding 5’-capped transcriptomes2016

    • Author(s)
      Poulain S, Kato S, Arnaud O, Morlighem JE, Suzuki M, Harbers M
    • Journal Title

      Methods in Molecular Biology (Walker, J.M., ed.)

      Volume: in press

    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research / Acknowledgement Compliant
  • [Presentation] Single-molecule RNA sequencing in single cells.2015

    • Author(s)
      Plessy C
    • Organizer
      29th International Mammalian Genome Conference
    • Place of Presentation
      Yokohama Port Opening Memorial Hall
    • Year and Date
      2015-11-09
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Transcriptome analysis of FACS-sorted single cells with nanoCAGE2015

    • Author(s)
      Poulain S
    • Organizer
      29th International Mammalian Genome Conference
    • Place of Presentation
      Yokohama Port Opening Memorial Hall
    • Year and Date
      2015-11-08
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Targeted reduction of highly abundant transcript with pseudo-random primers2015

    • Author(s)
      Arnaud O
    • Organizer
      29th International Mammalian Genome Conference
    • Place of Presentation
      Yokohama Port Opening Memorial Hall
    • Year and Date
      2015-11-08
    • Related Report
      2015 Annual Research Report
  • [Presentation] C1 CAGE, single-molecule reconstruction, and pseudo-random primers for single-cell population transcriptomics2015

    • Author(s)
      Plessy C
    • Organizer
      The 11th International Workshop on Advanced Genomics
    • Place of Presentation
      Hitotsubashi Hall Tokyo Japan
    • Year and Date
      2015-05-20
    • Related Report
      2015 Annual Research Report
  • [Presentation] Transcriptome analysis of FACS-sorted single cells with nanoCAGE2015

    • Author(s)
      Poulain S
    • Organizer
      The 11th International Workshop on Advanced Genomics
    • Place of Presentation
      Hitotsubashi Hall Tokyo Japan
    • Year and Date
      2015-05-20
    • Related Report
      2015 Annual Research Report
  • [Presentation] Single-cell markers of the cell cycle2014

    • Author(s)
      Charles Plessy
    • Organizer
      2nd UK / Japan workshop on Epigenetics and Transcription.
    • Place of Presentation
      London
    • Year and Date
      2014-12-16
    • Related Report
      2014 Annual Research Report
    • Invited

URL: 

Published: 2013-05-21   Modified: 2019-07-29  

Information User Guide FAQ News Terms of Use Attribution of KAKENHI

Powered by NII kakenhi