Earlier projects
FANTOM3
FANTOM consortium utilized a new technology, CAGE, to reveal that more
than 63% of the genome — instead of the known ~1.5% fraction of protein
coding exons — is transcribed as RNA. We also confirmed the existence of
over 23,000 non-coding RNAs (ncRNAs) and that >73% of the transcriptional
units show sense-antisense transcription. This work was published in a
couple of papers in the “RNA special issue” of Science in 2005 (Carninci et
al. 2005; Katayama et al. 2005)
FANTOM2
During the second phase of the FANTOM activities, we determined the base
sequences and assigned functional annotations to a set of 60,770 full-length
mouse cDNAs. This was the first project worldwide to standardize full-length
mammalian cDNAs. The research was published in a special issue of Nature
on the decoding of the mouse genome in 2002 (Okazaki et al. 2002)
FANTOM1
The consortium developed an effective system for functional gene annotation
by designing appropriate rules and methods. The result was mainly published
in Nature in 2001(Kawai et al. 2001). The paper was followed by the draft
sequence of human genome (Lander et al. 2001) week later because they
used our cDNA for gene number prediction.
List of Participants in FANTOM4(Mininetwork) Project
Australia
The University of Queensland
Timothy Bailey, Denis Bauer, Nicole Cloonan, Larry Croft, Geoffrey Faulkner, J Lynn Fink, Sean Grimmond, Katherine Irvine, Markus Kerr, John Mattick, Kate Schroder, Cas Simons, Matthew Sweet, Ryan Taft, Rohan Teasdale
Griffith University (Eskitis Institute)
Anthony Beckhouse, Alistair Chalk, Alistair Forrest, Nicholas Matigian, Christine Wells
Flinders Medical Centre
Suzanne Heinzel, Yoshikazu Honda, Nikolai Petrovsky, Linda Wu
Canada
McGill University
Mathieu Blanchet, Jennifer Crutchley, Xjanjun Dong, Josee Dostie, Maria Ferraiuolo, James Fraser, Carol Miyamoto, Ravishankar Palanisami, Matthew Pinchuk, Mathieu Rousseau, Solomon Shenker
Denmark
University of Copenhagen
Anders Jacobsen, Anders Krogh, Stinus Lindgreen, Morten Lindow, Troels Marstrand, Sanne Nygaard, Albin Sandelin, Man-Hung Tang, Eivind Valen, Ole Winther
Germany
University Hospital Regensburg
Michael Rehli
Greece
Institute of Immunology
Vassilis Aidinis
India
Indian Institute of Science
Manju Bansal
Italy
The Telethon Institute of Genetics and Medicine
Alberto Ambesi, Mukesh Bansal, Vincenzo Belcastro, Diego di Bernardo
Dulbecco Telethon Institute
Valerio Orlando
SISSA
Stefano Gustincich
Japan
RIKEN (Omics Science Center)
Yoshinari Ando, Takahiro Arakawa, Erik Arner, Hiroto Atsui, Nicolas Bertin, Joost Boele, Erika Bulger, Alexander Burroughs, Piero Carninci, Carsten Daub, Hanna Daub, Michiel de Hoon, Alistair Forrest, Shiro Fukuda, Yoshifumi Fukunishi, Masaaki Furuno, Akira Hasegawa, Yuki Hasegawa, Takehiro Hashimoto, Yoshihide Hayashizaki, Fumi Hori, Kengo Imamura, Ryoko Ishihara, Akihiro Ishiyama, Emi Itoh, Masayoshi Itoh, Chikatoshi Kai, Ai Kaiho, Mutsumi Kanamori-Katayama,
Shintaro Katayama, Jun Kawai, Hideya Kawaji, Mitsuoki Kawano, Tsugumi Kawashima, Chika Kawazu, Yasumasa Kimura, Yohei Kinoshita, Mami Kishima, Yayoi Kitazume,
Toshio Kojima, Miki Kojima, Vitaliy Kolisnychenko, Shinji Kondo, Akiko Kubo, Atsutaka Kubosaki, Junpei Kurosawa, Timo Lassmann, Andreas Lennartsson, Alexander Lezhava, Marina Lizio, Norihiro Maeda, Riichiro Manabe, Kouichi Maruyama, Hisashi Miura, Jean-Etienne Morighem, Ayako Morinaga, Ryoji Morita, Kayoko Murakami, Mitsuyoshi Murata, Mika Nakano, Yutaka Negishi, Noriko Ninomiya, Hiromi Nishiyori, Shohei Noma, Chihiro Ogawa, Shingo Ohki, Haruka Okuda-Yabukami, Giovanni Panariello, My Persson, Charles Plessy, Thomas Rodgers, Tsutomu Saitoh, Hiromi Sano, Takuma Sano, Jessica Severin, Jae Shin, Christophe Simon, Harukazu Suzuki, Masanori Suzuki, Takahiro Suzuki, Michihira Tagami, Naoko Takahashi, Yukari Takahashi, Ryosuke Takai, Akiko Tomaru, Yasuhiro Tomaru, Kasumi Toyoda, Kengo Usui, Sylvia Victor, Morana Vitezic, Kazunori Waki, Kazufumi Watanabe, Andrew Waterhouse, Kazumi Yamaguchi, Rumi Yamamoto, Jun Yasuda, Kazue Yoshida
RIKEN (Advanced Science Institute)
Naoki Adati, Naoko Imamoto, Mariko Hatakeyama
RIKEN (Research Center for Allergy and Immunology)
Akihiko Koseki
National Institute of Genetics (NIG)
Takashi Gojobori, Kazuho Ikeo, Takeshi Konno, Sei Miyamoto, Toshitsugu Okayama, Toshiyuki Okumura, Miho Sera
Osaka University
Mitsuru Jikeya, Hideo Matsuda, Reiji Oosugi, Shigeto Senoo, Junya Seo, Takashi Shiraishi, Yoichi Takenaka
The University of Tokyo
Andre Fujita, Emi Ikeda, Seiya Imoto, Satoshi Inoue, Satoru Miyano, Masao Nagasaki, Ayumu Saitoh
Saitama Medical School
Kuniko Horie, Masami Muramatsu, Yutaka Nakachi, Yuichi Ninomiya, Yasushi Okazaki
Fukuoka University
Takahiro Fujimoto, Yoshihiko Fukue, Kzuhiko Nakabayashi
Hitachi, Ltd.
Takao Iwayanagi, Jun Otomo, Shizu Takeda
Kazusa DNA Research Institute
Shun Ikeda, Reiko Kikuno, Hisashi Koga
Keio University
Etsuko Miyamoto-Sato, Rintaro Saito, Hiroshi Yanagawa
Kyoto University
Ryo Kunimoto, Kazuya Terasawa, Soken Tsuchiya
National Research Institute for Child Health and Development
Maki Asada, Hiroshi Asahara, Megumi Hashimoto
Kyushu University
Hideki Hirakawa, Satoshi Kuhara
The Systems Biology Institute
Hiroaki Kitano, Yukiko Matsuoka
Tokyo University of Science
Jo Chiba, Ryuichiro Kimura
Gunma University
Yusuke Inoue
Jichi Medical University
Hideshi Ishii
Mitsubishi Space Software Co., Ltd.
Katsumi Sakata
National Institute of Radiological Sciences
Toshiyuki Saitoh
Osaka University of Pharmaceutical Sciences
Ko Fujimori
Tokyo Institute of Technology
Katsuhiko Shirahige
Tottori University
Syuhei Kimura
Norway
Bergen Center for Computational Science
Altuna Akalin, Pär Engström, David Fredman, Boris Lenhard, Ying Sheng
Singapore
Nanyang Technological University
Christian Schoenbach
South Africa
University of Western Cape (SANBI)
Vladimir Bajic, Adam Dawe, Magbubah Essack, Mandeep Kaur, Adele Kruger, Minna Lehvaslaiho, Cameron Macpherson, Christopher Maher, Monique Maqungo, Stuart Meier, Feziwe Mpondo, Sumir Panji, Aleksandar Radovanovic, Sebastian Schmeier, Ulf Shafer
University of Cape Town
Frank Brombacher, Anita Schwegmann
Sweden
Linköping University
Mika Gustafsson, Michael Hörnquist, Jesper Tegner
Karolinska Institutet
Johan Björkegren, Lukasz Huminiecki
Switzerland
University of Basel
Piotr Balwierz, Philipp Berninger, Mikhail Pachkov, Erik van Nimwegen, Mihaela Zavolan
UK
European Molecular Biology Laboratory (EMBL)
Martin Taylor
MRC Human Genetics Unit
Colin Semple
MRC Laboratory of Molecular Biology
Sarah Teichmann
The University of Edinburgh (Roslin Institute)
David Hume
University of Bristol
Julian Gough
University of Oxford
Aidrian Harris
USA
National Institute of Health (NIH)
Dmitri Loukinov, Elena Pugacheva, Alex Vostrov
The George Washington University Medical Center
Ajit Kumar, George St Laurent, Yan A. Su
University of California San Diego (UCSD)
Schwartz Ariel, Timothy Ravasi, Ariel S. Schwartz, Kai Tan
Dana-Farber Cancer Institute
John Quackenbush
Harvard School of Public Health
Winston Hide, Oliver Hofmann
Albert Einstein College of Medicine
Mark F. Mehler
The Jackson Laboratory
Carol Bult
The Scripps Research Institute
Claes Wahlestedt
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