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ORCIDPiero Carninci
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- affiliation: RIKEN, Wako, Japan
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2020 – today
- 2022
[j21]Jonathan Moody
, Tsukasa Kouno, Jen-Chien Chang, Yoshinari Ando, Piero Carninci, Jay W. Shin, Chung-Chau Hon:
SCAFE: a software suite for analysis of transcribed cis-regulatory elements in single cells. Bioinform. 38(22): 5126-5128 (2022)- 2021
- [j20]Imad Abugessaisa, Jordan A. Ramilowski, Marina Lizio, Jesicca Severin, Akira Hasegawa, Jayson Harshbarger, Atsushi Kondo, Shuhei Noguchi, Chi Wai Yip, Jasmine Li Ching Ooi, Michihira Tagami, Fumi Hori, Saumya Agrawal, Chung-Chau Hon, Mélissa Cardon, Shuya Ikeda, Hiromasa Ono, Hidemasa Bono, Masaki Kato, Kosuke Hashimoto, Alessandro Bonetti, Norio Kobayashi, Jay W. Shin, Michiel J. L. de Hoon, Yoshihide Hayashizaki, Piero Carninci, Hideya Kawaji, Takeya Kasukawa:
FANTOM enters 20th year: expansion of transcriptomic atlases and functional annotation of non-coding RNAs. Nucleic Acids Res. 49(Database-Issue): D892-D898 (2021)
2010 – 2019
- 2019
- [j19]Marina Lizio, Imad Abugessaisa, Shuhei Noguchi, Atsushi Kondo, Akira Hasegawa, Chung-Chau Hon, Michiel J. L. de Hoon, Jessica Severin, Shinya Oki, Yoshihide Hayashizaki, Piero Carninci, Takeya Kasukawa, Hideya Kawaji:
Update of the FANTOM web resource: expansion to provide additional transcriptome atlases. Nucleic Acids Res. 47(Database-Issue): D752-D758 (2019) - 2018
- [j18]Imad Abugessaisa, Shuhei Noguchi, Michael Böttcher, Akira Hasegawa, Tsukasa Kouno, Sachi Kato, Yuhki Tada, Hiroki Ura, Kuniya Abe, Jay W. Shin, Charles Plessy, Piero Carninci, Takeya Kasukawa:
SCPortalen: human and mouse single-cell centric database. Nucleic Acids Res. 46(Database-Issue): D781-D787 (2018) - [j17]J. Kenneth Baillie, Andrew Bretherick, Christopher S. Haley, Sara Clohisey, Alan Gray, Lucile P. A. Neyton, Jeffrey Barrett, Eli A. Stahl, Albert Tenesa, Robin Andersson, J. Ben Brown, Geoffrey J. Faulkner, Marina Lizio, Ulf Schaefer, Carsten O. Daub, Masayoshi Itoh, Naoto Kondo, Timo Lassmann, Jun Kawai, IIBDGC Consortium, Damian Mole, Vladimir B. Bajic, Peter Heutink, Michael Rehli, Hideya Kawaji, Albin Sandelin, Harukazu Suzuki, Jack Satsangi, Christine A. Wells, Nir Hacohen, Tom C. Freeman, Yoshihide Hayashizaki, Piero Carninci, Alistair R. R. Forrest, David A. Hume:
Shared activity patterns arising at genetic susceptibility loci reveal underlying genomic and cellular architecture of human disease. PLoS Comput. Biol. 14(3) (2018) - 2017
- [j16]Marina Lizio, Jayson Harshbarger, Imad Abugessaisa, Shuei Noguchi, Atsushi Kondo, Jessica Severin, Chris Mungall, David J. Arenillas, Anthony Mathelier, Yulia A. Medvedeva, Andreas Lennartsson, Finn Drabløs, Jordan A. Ramilowski, Owen J. L. Rackham, Julian Gough, Robin Andersson, Albin Sandelin, Hans Ienasescu, Hiromasa Ono, Hidemasa Bono, Yoshihide Hayashizaki, Piero Carninci, Alistair R. R. Forrest, Takeya Kasukawa, Hideya Kawaji:
Update of the FANTOM web resource: high resolution transcriptome of diverse cell types in mammals. Nucleic Acids Res. 45(Database-Issue): D737-D743 (2017) - 2016
- [j15]Imad Abugessaisa, Hisashi Shimoji, Serkan Sahin, Atsushi Kondo, Jayson Harshbarger, Marina Lizio, Yoshihide Hayashizaki, Piero Carninci, Alistair R. R. Forrest, Takeya Kasukawa, Hideya Kawaji:
FANTOM5 transcriptome catalog of cellular states based on Semantic MediaWiki. Database J. Biol. Databases Curation 2016 (2016) - [j14]Hans Ienasescu, Kang Li, Robin Andersson, Morana Vitezic, Sarah Rennie, Yun Chen, Kristoffer Vitting-Seerup, Emil Lagoni, Mette Boyd, Jette Bornholdt, Michiel J. L. de Hoon, Hideya Kawaji, Timo Lassmann, Fantom Consortium, Yoshihide Hayashizaki, Alistair R. R. Forrest, Piero Carninci, Albin Sandelin:
On-the-fly selection of cell-specific enhancers, genes, miRNAs and proteins across the human body using SlideBase. Database J. Biol. Databases Curation 2016 (2016) - 2015
- [j13]Stuart Aitken, Shigeyuki Magi, Ahmad M. N. Alhendi, Masayoshi Itoh, Hideya Kawaji, Timo Lassmann, Carsten O. Daub, Erik Arner, Piero Carninci, Alistair R. R. Forrest, Yoshihide Hayashizaki, Levon M. Khachigian, Mariko Okada-Hatakeyama, Colin A. M. Semple:
Transcriptional Dynamics Reveal Critical Roles for Non-coding RNAs in the Immediate-Early Response. PLoS Comput. Biol. 11(4) (2015) - 2014
- [j12]Timo Lassmann, Akira Hasegawa, Carsten O. Daub, Piero Carninci, Yoshihide Hayashizaki:
MOIRAI: A Compact Workflow System for CAGE Analysis. BMC Bioinform. 15: 144 (2014) - [j11]Vanja Haberle, Nan Li, Yavor Hadzhiev, Charles Plessy, Christopher Previti, Chirag Nepal, Jochen Gehrig, Xianjun Dong, Altuna Akalin, Ana Maria Suzuki, Wilfred F. J. van IJcken, Olivier Armant, Marco Ferg, Uwe Strähle, Piero Carninci, Ferenc Müller, Boris Lenhard:
Two independent transcription initiation codes overlap on vertebrate core promoters. Nat. 507(7492): 381-385 (2014) - 2011
- [j10]Margherita Francescatto, Luba Pardo, Patrizia Rizzu, Morana Vitezic, Javier Simón-Sánchez, Hazuki Takahashi, Carsten O. Daub, Piero Carninci, Peter Heutink:
Profiling transcription initiation in human aged brain using deep-CAGE. BMC Bioinform. 12(S-11): A8 (2011) - [j9]Hideya Kawaji, Jessica Severin, Marina Lizio, Alistair R. R. Forrest, Erik van Nimwegen, Michael Rehli, Kate Schroder, Katharine M. Irvine, Harukazu Suzuki, Piero Carninci, Yoshihide Hayashizaki, Carsten O. Daub:
Update of the FANTOM web resource: from mammalian transcriptional landscape to its dynamic regulation. Nucleic Acids Res. 39(Database-Issue): 856-860 (2011)
2000 – 2009
- 2007
- [j8]Kazuro Shimokawa, Yuko Okamura-Oho, Takio Kurita, Martin C. Frith, Jun Kawai, Piero Carninci, Yoshihide Hayashizaki:
Large-scale clustering of CAGE tag expression data. BMC Bioinform. 8 (2007) - 2006
- [j7]Manisha Brahmachary, Christian Schönbach, Liang Yang, Enli Huang, Sin Lam Tan, Rajesh Chowdhary, S. P. T. Krishnan, Chin-Yo Lin, David A. Hume, Chikatoshi Kai, Jun Kawai, Piero Carninci, Yoshihide Hayashizaki, Vladimir B. Bajic:
Computational promoter analysis of mouse, rat and human antimicrobial peptide-coding genes. BMC Bioinform. 7(S-5) (2006) - [j6]J. Lynn Fink, Rajith N. Aturaliya, Melissa J. Davis, Fasheng Zhang, Kelly Hanson, Melvena S. Teasdale, Chikatoshi Kai, Jun Kawai, Piero Carninci, Yoshihide Hayashizaki, Rohan D. Teasdale:
LOCATE: a mouse protein subcellular localization database. Nucleic Acids Res. 34(Database-Issue): 213-217 (2006) - [j5]Hideya Kawaji, Takeya Kasukawa, Shiro Fukuda, Shintaro Katayama, Chikatoshi Kai, Jun Kawai, Piero Carninci, Yoshihide Hayashizaki:
CAGE Basic/Analysis Databases: the CAGE resource for comprehensive promoter analysis. Nucleic Acids Res. 34(Database-Issue): 632-636 (2006) - 2005
- [j4]Noriyuki Kitagawa, Takanori Washio, Shunichi Kosugi, Tomoya Yamashita, Kenji Higashi, Hiroshi Yanagawa, Kenichi Higo, Koji Satoh, Yasuhiro Ohtomo, Tomomi Sunako, Kazuo Murakami, Kenichi Matsubara, Jun Kawai, Piero Carninci, Yoshihide Hayashizaki, Shoshi Kikuchi, Masaru Tomita:
Computational analysis suggests that alternative first exons are involved in tissue-specific transcription in rice (Oryza sativa). Bioinform. 21(9): 1758-1763 (2005) - 2004
- [j3]Yutaka Suzuki, Riu Yamashita, Matsuyuki Shirota, Yuta Sakakibara, Joe Chiba, Junko Mizushima-Sugano, Alexander E. Kel, Takahiro Arakawa, Piero Carninci, Jun Kawai, Yoshihide Hayashizaki, Toshihisa Takagi, Kenta Nakai, Sumio Sugano:
Large-scale collection and characterization of promoters of human and mouse genes. Silico Biol. 4(4): 429-444 (2004) - 2002
- [j2]Jean-Marie Buerstedde, Hiroshi Arakawa, Akira Watahiki, Piero Carninci, Yoshihide Hayashizaki, Bernhard Korn, Jiri Plachy:
The DT40 web site: sampling and connecting the genes of a B cell line. Nucleic Acids Res. 30(1): 230-231 (2002) - [c1]Nobuyuki Kawagashira, Yasuhiro Ohtomo, Kazuo Murakami, Kenichi Matsubara, Jun Kawai, Piero Carninci, Yoshihide Hayashizaki, Shoshi Kikuchi:
Wavelet Profiles: Their Application in Oryza sativa DNA Sequence Analysis. CSB 2002: 345-346
1990 – 1999
- 1990
- [j1]Piero Carninci, Stefano Gustincich, S. Bottega, C. Patrosso, G. Del Sal, Guidalberto Manfioletti, Claudio Schneider:
A simple discontinuous buffer system for increased resolution and speed in gel electrophoretic analysis of DNA sequence. Nucleic Acids Res. 18(1): 204 (1990)
Coauthor Index
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