Piero Carninci, Ph.D.
1989 Ph.D, Biological Sciences at University of Trieste
1990 National (Italian) Examination for the profession of Biologist, University of Ferrara, Italy
April 2008 - present Leader of the Functional Genomics Technology Team
Leader of the Omics Resource Development Unit
Deputy Project Director of the LSA Technology Development Group, RIKEN, Yokohama Institute, Japan
April 2006 Adjunctive Professor, Gunma University
April 2003 Senior Scientist at RIKEN, Wako, Genome Science Laboratory (tenure); adjunct appointment as Senior Scientist at RIKEN Genomic Sciences Center, RIKEN Yokohama Institute, Japan
Oct 2001 - Mar 2003 Scientist, Genome Science Laboratory (tenure), RIKEN, Wako, Japan
April 1997- Sept 2001 Scientist, RIKEN-Tsukuba Life Science Center, GS-laboratory (tenure), Japan
Oct 1995-March 1997 STA Fellow at RIKEN, Genome Science Laboratory, Wako, Japan
April 1995 - Sept 1995 Genome Science Laboratory research position at RIKEN,
Oct 1990- Mar 1995 Researcher at TALENT srl (http://www.spin.it/talent/).
Sept 1991- Dec 1993 Researcher with Prof. C. Schneider, director of the National Laboratory of Italian Consortium for Biotechnology, Trieste, Italy
Oct 1989 - Sept 1990 Health assistant in military hospital, part-time consultant in TALENT srl, Trieste, Italy
Compulsory Italian army duty as in a military hospital. At the same time, was a part-time consultant in a biotechnology company, TALENT srl, Trieste, Italy, and prepared the National examination.
April 1989-Sept 1989 Research Associate in laboratory of Prof. C. Schneider, ICGEB, Trieste, Italy, where he developed a discontinuous buffer system to increase speed and resolution in sequencing electrophoresis and methods for the rapid purification of Genomic DNA from whole blood and yeast.
First prize of the Biotec Award in Milan, Italy for constructing full-length cDNA encyclopedia,
dedicated to Italian Scientists under 40 in biological research
Yamazaki-Teiichi Award (http://www.mst.or.jp/prize/2007/jushou.html) for the developing
cap-trapper technology and its use for annotating genome output
2009 OSC Award 2009 “Development of the Cap Analysis of Gene Expression (CAGE) Method”
OSC Award 2010 “Successful Completion of FANTOM4 project”
Memberships and Chairs
Member of the International Mouse Nomenclature Committee (2003-)
Associate Editor of the journal “Genomics” (September 2006-)
Scientific Advisory Board of DNAform (January 2009-)
Editorial Board of Nature Communications (2010-)
Editorial Board of BioEssays (2010-)
Member of IMGC Secretariat(2010-)
Member of RIKEN Science Council(2011-)
Publications out of a total of over 200 papers, which have been cited 15,613 times (as of June 2011) with an H-index of 46.
Kanamori-Katayama M, Itoh M, Kawaji H, Lassmann T, Katayama S, Kojima M, Bertin N, Kaiho A, Ninomiya N, Daub CO, Carninci P, Forrest AR, Hayashizaki Y. Unamplified cap analysis of gene expression on a single-molecule sequencer. Genome Res. Epub 2011 May 19.
Salimullah M, Mizuho S, Plessy C, Carninci P. NanoCAGE: A High-Resolution Technique to Discover and Interrogate Cell Transcriptomes. Cold Spring Harb Protoc. 2011 Jan 1
Plessy C, Bertin N, Takahashi H, Salimullah M, LassmannT, Vitezic M, Severin J, Olivarius S, Lazarevic D, Hornig N, Orland V, Bell I, Gao H, Dumais J, Kapranov P, Wang H, Davis CA, Gingeras TR, Kawai J, Daub CO, Hayashizaki Y, Gustincich S, Carninci P. Linking promoters to functional transcripts in small samples with nanoCAGE and CAGEscan. Nat. Methods. 7:528-34.2010
Atanur SS, Birol I, Guryev V, Hirst M, Hummel O, Morrissey C, Behmoaras J, Fernandez-Suarez XM, Johnson MD, McLaren WM, Patone G, Petretto E, Plessy C, Rockland KS, Rockland C, Saar K, Zhao Y, Carninci P, Flicek P, Kurtz T, Cuppen E,Pravenec M, Hubner N, Jones SJ, Birney E, Aitman TJ. The genome sequence of the spontaneously hypertensive rat: Analysis and functional significance. Genome Res. 20:791-803.2010
Ravasi T. et al. An atlas of combinatorial transcriptional regulation in mouse and man. Cell. 140:744-52.2010
Carninci P. Is Sequencing Enlightenment ending the Dark Age of the transcriptome? Nature Methods. 6:711-13.2009
Faulkner GJ, Kimura Y, Daub CO, Wani S, Plessy C, Irvine KM, Schroder K, Cloonan N, Steptoe AL, Lassmann T, Waki K, Hornig N, Arakawa T, Takahashi H, Kawai J, Forrest AR, Suzuki H, Hayashizaki Y, Hume DA, Orlando V, Grimmond SM, Carninci P. The regulated retrotransposon transcriptome of mammalian cells. Nat. Genet. 41:563-71.2009
Taft R, Glazov EA, Cloonan N, Simons S, Stephen S, Faulkner G, Lassmann T, Forrest AR, Grimmond SM, Schroder K, Irvine K, Arakawa T, Nakamura M, Kubosaki A Hayashida K, Kawazu C, Murata M, Nishiyori H, Fukuda S, Kawai J, Daub CO, Hume DA, Suzuki H, Orlando V, Carninci P, Hayashizaki Y and Mattick J. Tiny RNAs associated with transcription start sites in animals, Nat. Genet.41:572-8.2009
Suzuki H. et al. The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line. Nat Genet. 41:553-62. 2009
Valen E, Pascarella G, Chalk A, Maeda N, Kojima M, Kawazu C, Murata M, Nishiyori H, Lazarevic D, Motti D, Marstrand TT, Eric Tang MH, Zhao X, Krogh A, Winther O, Arakawa T, Kawai J, Wells C, Daub C, Harbers M, Hayashizaki Y, Gustincich S, Sandelin A, Carninci P. Genome-wide detection and analysis of hippocampus core promoters using DeepCAGE. Genome Res. 19:255-65.2009
Sandelin A, Carninci P, Lenhard B, Ponjavic J. Hayashizaki Y, Hume DA. Mammalian RNA Polymerase II core promoters — insights from genome-wide studies. Nature Rev. Genetics 8:424-36.2007
The ENCODE Project Consortium. Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature, 447:799-816.2007
Carninci P. et al. Genome-wide analysis of mammalian promoter architecture and evolution. Nat. Genetics 38:626-35. 2006
Katayama S, Tomaru Y, Kasukawa T, Waki K, Nakanishi M, Nakamura M, Nishida H, Yap CC, Suzuki M, Kawai J, Suzuki H, Carninci P, Hayashizaki Y, Wells C, Frith MC, Ravasi T, Pang KC, Mattick JS, Hume DA, Lipovich L, Engström PG, Mizuno Y, Faghihi MA, Sandelin A, Chalk A, Mottagui-Tabar S, Liang Z, Lenhard B, Wahlestedt C. Antisense transcription in the mammalian transcriptome. Science 309:1564-6. 2005
FANTOM Consortium. The Transcriptional Landscape of the Mammalian Genome. Science. 309:1559-63. 2005