Centers & Labs

RIKEN Center for Life Science Technologies

Genome Information Analysis Team

Team Leader: Piero Carninci (Ph.D.)
Piero  Carninci(Ph.D.)

How can we discriminate healthy and disease status in our body? We will study transcriptional networks and develop innovative analysis technologies based on next generation sequencing data to clarify differences between normal and disease cells, such as cancer. The team will also develop methods to identify biomarkers for early detection of disease, and applications to use genomics data to broadly understand biological function.

Related Research Fields

Biology & Biochemistry / Molecular Biology & Genetics

Research Subjects

  • Mammalian transcriptional networks
  • Transcriptome
  • Bioinformatics

Selected Publications

  1. Forrest ARR, Kawaji H, Rehli M et al.
    “A promoter level expression atlas.”
    Nature. 507, 462–470 (2014)
  2. Severin J, Lizio M, Harshbarger J, Kawaji H, Daub CO, Hayashizaki Y,:
    “The FANTOM Consortium, Bertin N, Forrest ARR. ZENBU: secured scientific collaborations, data integration and omics visualization.”
    Nature Biotechnology. http://dx.doi.org/10.1038/nbt.2840 (2014)
  3. Andersson R, Gebhard C, Miguel-Escalada I, et al.:
    “An atlas of active enhancers across human cell types and tissues.”
    Nature. http://dx.doi.org/10.1038/nature12787 (2014)
  4. Motakis E, Guhl S, Ishizu Y, et al.:
    “Redefinition of the human mast cell transcriptome by deep sequencing.:
    Blood http://dx.doi.org/ 10.1182/blood-2013-02-483792 (2014)
  5. Carrieri C, Cimatti L, Biagioli M, Beugnet A, Zucchelli S, Fedele S, Pesce E, Ferrer I, Collavin L, Santoro C, Forrest ARR, Carninci P, Biffo S, Stupka E, Gustincich S:
    “Long non-coding antisense RNA controls Uchl1 translation through an embedded SINEB2 repeat.”
    Nature. doi:10.1038/nature11508 (2012)
  6. Ravasi T, Cannistraci C, Katayama S, et al.:
    “An atlas of combinatorial transcriptional regulation in mouse and man.”
    Cell. Mar 5;140(5):744-52 (2010)
  7. Forrest ARR, Kanamori-Katayama M, Tomaru Y, Lassmann T, Ninomiya N, Takahashi Y, de Hoon MJL, Kubosaki A, Kaiho A, Suzuki M, Yasuda J, Kawai J, Hayashizaki Y,:
    “Hume DA, Suzuki H. Induction of microRNAs mir-155, mir-222, mir-424 and mir-503, promotes monocytic differentiation through combinatorial regulation.”
    Leukemia. 24: 460-466 (2010)
  8. Suzuki H, Forrest ARR, van Nimwegen E, et al.:
    “The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line.”
    Nature Genetics. doi:10.1038/ng.375 (2009)
  9. Faulkner G, Kimura Y, Daub C, et al.:
    “The regulated retrotransposon transcriptome of mammalian cells.”
    Nature Genetics. doi:10.1038/ng.368 (2009)
  10. Taft R, Glazov E, Cloonan N, et al.:
    “Tiny RNAs associated with transcription start sites in animals.”
    Nature Genetics. doi:10.1038/ng.312 (2009)

Lab Members

Principal Investigator

Piero Carninci
Team Leader

Core Members

Michiel De Hoon
Deputy Team Leader
Erik Arner
Senior Scientist
Jessica Severin
Senior Technical Scientist
Efthymios Motakis
Research Scientist
Jayson Harshbarger
Technical Scientist
Bogumil Kaczkowski
Foreign Postdoctoral Researcher
Jordan Ramilowski
Postdoctoral Researcher
Marina Lizio
Research Associate
Yuri Ishizu
Technical Staff 1