Article

Nature 409, 685-690 (8 February 2001) | ; Received 6 November 2000; Accepted 29 December 2000

Functional annotation of a full-length mouse cDNA collection

J. Kawai1,2, A. Shinagawa1, K. Shibata1,2, M. Yoshino1, M. Itoh1,2, Y. Ishii1, T. Arakawa1, A. Hara1, Y. Fukunishi1,2, H. Konno1,2, J. Adachi1, S. Fukuda1,2, K. Aizawa1,2, M. Izawa1, K. Nishi1, H. Kiyosawa1, S. Kondo1, I. Yamanaka1 & T. Saito1

  1. Laboratory for Genome Exploration Research Group, RIKEN Genomic Sciences Center (GSC), Yokohama Institute 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa, 230-0045, Japan
  2. CREST, JST, 3-1-1 Koyadai, Tsukuba, Ibaraki 305-0074 Japan

Y. Okazaki1, T. Gojobori3, H. Bono1, T. Kasukawa4, R. Saito1, K. Kadota1, H. Matsuda5, M. Ashburner6, S. Batalov7, T. Casavant8, W. Fleischmann6, T. Gaasterland9, C. Gissi10, B. King11, H. Kochiwa12, P. Kuehl13, S. Lewis14, Y. Matsuo15, I. Nikaido16, G. Pesole10, J. Quackenbush17, L. M. Schriml18, F. Staubli19, R. Suzuki12, M. Tomita12, L. Wagner18, T. Washio12, K. Sakai1, T. Okido1, M. Furuno1, H. Aono1, R. Baldarelli11, G. Barsh20, J. Blake11, D. Boffelli21, N. Bojunga19, P. Carninci1, M. F. de Bonaldo22, M. J. Brownstein23, C. Bult11, C. Fletcher7, M. Fujita24, M. Gariboldi25, S. Gustincich26, D. Hill11, M. Hofmann19, D. A. Hume27, M. Kamiya1,2, N. H. Lee17, P. Lyons28, L. Marchionni29, J. Mashima3, J. Mazzarelli30, P. Mombaerts31, P. Nordone32, B. Ring33, M. Ringwald11, I. Rodriguez31, N. Sakamoto34, H. Sasaki35, K. Sato1,44, C. Schönbach36, T. Seya37, Y. Shibata1, K.-F. Storch38, H. Suzuki1, K. Toyo-oka39, K. H. Wang40, C. Weitz38, C. Whittaker41, L. Wilming42, A. Wynshaw-Boris43, K. Yoshida1, Y. Hasegawa4, H. Kawaji4,5 & S. Kohtsuki4

  1. Center for Information Biology, National Institute of Genetics, 1111 Yata, Mishima, Shizuoka 411-8540, Japan
  2. NTT Software Corporation, 223-1 Yamashita-cho, Naka-ku, Yokohama, Kanagawa, 231-8554, Japan
  3. Osaka University, 1-3 Machikaneyama, Toyonaka, Osaka 560-8531, Japan
  4. European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK
  5. Genomics Institute of the Novartis Research Foundation, 3115 Merryfield Row, San Diego, California 92121, USA
  6. The Coordinated Laboratory for Computational Genomics, University of Iowa Iowa City, Iowa 52242, USA
  7. The Rockefeller University, 1230 York Avenue, New York, New York 10021-6399, USA
  8. Dipartimento di Fisiologia e Biochimica Generali, Universita di Milano Via Celoria, 26, 20133 Milano, Italy
  9. Mouse Genome Informatics, The Jackson Laboratory, 600 Main Street, Bar Harbor, Maine 04609, USA
  10. Laboratory for Bioinformatics, Faculty of Environmental Information, Keio University, 5322 Endoh, Fujisawa, Kanagawa, 252-0816, Japan
  11. Department of Molecular & Cell Biology, University of Maryland at Baltimore, Baltimore, Maryland 20201, USA
  12. University of California, Berkeley, Department of Molecular & Cell Biology, 142 Life Sciences Addition #3200, Berkeley, California 94720-3200, USA
  13. Computational Proteomics Team, Bioinformatics Group, RIKEN Genomic Sciences Center (GSC), Yokohama Institute 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa, 230-0045, Japan
  14. Tokai University, Graduate School of Marine Science and Technology, 3-20-1 Orido, Shimizu, Shizuoka,424-8610 Japan
  15. The Institute for Genomic Research, 9712 Medical Center Dr., Rockville, Maryland 20850, USA
  16. National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Building 38A, Room 8N805, Bethesda, Maryland 20894, USA
  17. LION Bioscience AG, Im Neuenheimer Feld 515-519, D-69120 Heidelberg, Germany
  18. Stanford University School of Medicine, Beckman Centre B271A, Stanford, California 94305-5428, USA
  19. Lawrence Berkeley Laboratory, 1 Cyclotron Rd, MS84-255, Berkeley, California 94710, USA
  20. Department of Pediatrics, The University of Iowa, 200 Hawkins Drive 440B EMRB, Iowa City, Iowa 52242-1009, USA
  21. Laboratory of Genetics, NIMH/NHGRI, National Institutes of Health Building 36, Room 3D06, Bethesda, Maryland 20892, USA
  22. Graduate School of Medicine, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8655, Japan
  23. Istituto Tumori Milano, Via Venezian,1, 120133 Milano, Italy
  24. Department of Neurobiology, Harvard Medical School, 220 Longwood Ave., Boston, Massachusetts 02115, USA
  25. Institute for Molecular Bioscience, University of Queensland, Brisbane, Queensland 4072, Australia
  26. Department of Medical Genetics, Wellcome Trust Centre for Molecular Mechanisms in Disease, University of Cambridge, Wellcome Trust/MRC building, Addenbrookes Hospital, Cambridge, CB2 2XY, UK
  27. LNCIB c/o AREA Science Park, Padriciano 99, 34012 Trieste, Italy
  28. Computational and Bioinformatics Laboratory, Center for Bioinformatics, University of Pennsylvania, 1313 Blockley Hall, 418 Guardian Drive, Philadelphia, Pennsylvania 19104-6021, USA
  29. Vertebrate Developmental Neurogenetics, The Rockefeller University, 1230 York Avenue, Box 242, New York, New York 10021-6399, USA
  30. University at Buffalo/Roswell Park Cancer Institute, 120 Meyers Rd.#615, Amherst, New York 14226, USA
  31. Department of Genetics, Stanford University, Beckman Centre B281, Stanford, California 94305, USA
  32. RIKEN Brain Science Institute, 2-1 Hirosawa, Wako, Saitama 351-0198, Japan
  33. National Cancer Research Institute, 1-1 Tsukiji, Chuo-ku, Tokyo 104-0045, Japan
  34. Computational Genomics Team, Bioinformatics Group, RIKEN Genomic Sciences Center (GSC), Yokohama Institute 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa, 230-0045, Japan
  35. Osaka Medical Center for Cancer, Nakamichi 1-3-3, Higashinari-ku, Osaka 537-8511 Japan
  36. Department of Neurobiology, Harvard Medical School, 220 Longwood Ave., Boston, Massachusetts 02115, USA
  37. University of California, San Diego, School of Medicine, Department of Pediatrics, 9500 Gilman Dr., Medical Teaching Facility 253, La Jolla, California 92093-0627, USA
  38. E17-353, Center for Learning and Memory, Massacusetts Institute of Technlogy, 77 Massachusetts Ave., Cambridge, Massachusetts 02139, USA
  39. Massachusetts Institute of Technology, MIT CCR, 77 Massachusetts Avenue 17-230, Cambridge, Massachusetts 02139, USA
  40. Sanger Centre, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SA, UK
  41. University of California San Diego School of Medicine, 9500 Gilman Dr., Medical Teaching Facility, Room 252, La Jolla, California 92093-0627, USA
  42. Tsukuba University, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8577, Japan.

Correspondence to: Correspondence and requests for materials should be addressed to Y. Hayashizaki (e-mail: Email: yosihide@gsc.riken.go.uk). Accession numbers for all 21,076 cDNA clones are available as Supplementary Information or from https://genomec.gsc.riken.go.jp/genome/fantom1/Fig./nature/supplement/ (User name: fantom 1; password: fntn0828) and at http://www.gsc.riken.go.jp/e/FANTOM/supplement/.

Y. Hayashizaki1,2,44,45

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The RIKEN Mouse Gene Encyclopaedia Project, a systematic approach to determining the full coding potential of the mouse genome, involves collection and sequencing of full-length complementary DNAs and physical mapping of the corresponding genes to the mouse genome. We organized an international functional annotation meeting (FANTOM) to annotate the first 21,076 cDNAs to be analysed in this project. Here we describe the first RIKEN clone collection, which is one of the largest described for any organism. Analysis of these cDNAs extends known gene families and identifies new ones.