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Takashi Gojobori

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Yoji Nakamura; Ichiro Nakayama; Nobuhiko Ojima; Motohiko Sano; Naobumi Sasaki; Masataka Satomi; Yuya Shigenobu; Koji Shiwaku; Atsumi Tsujimoto; Tokio Wada; Motoshige Yasuike; Kiyoshi Inouye; Fuminari Ito; Masahiro Kobayashi; Takanori Kobayashi; Satoru Kuhara; Kazuhiro Nakajima; Yoshiya Fukuma; Takashi Gojobori; Kazuho Ikeo
The first symbiont-free genome sequence of marine red alga, Susabi-nori (Pyropia yezoensis).
Ryo Asato; Hiroshi Enaida; Takashi Gojobori; Kazuho Ikeo; Keijiro Ishikawa; Toshihiro Kono; Takahito Nakama; Shintaro Nakao; Atsushi Ogura; Yuji Oshima; Yukio Sassa; Shigeo Yoshida; Tatsuro Ishibashi
Comparison of gene expression profile of epiretinal membranes obtained from eyes with proliferative vitreoretinopathy to that of secondary epiretinal membranes.
So Nakagawa; Yuki Nakaya; Toshihiro Sakurai; Hanako Bai; Takashi Gojobori; Toshihiro Konno; Takayuki Miyazawa; Kazuhiko Imakawa
Dynamic evolution of endogenous retrovirus-derived genes expressed in bovine conceptuses during the period of placentation.

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All Publications

2013: Yoji Nakamura; Ichiro Nakayama; Nobuhiko Ojima; Motohiko Sano; Naobumi Sasaki; Masataka Satomi; Yuya Shigenobu; Koji Shiwaku; Atsumi Tsujimoto; Tokio Wada; Motoshige Yasuike; Kiyoshi Inouye; Fuminari Ito; Masahiro Kobayashi; Takanori Kobayashi; Satoru Kuhara; Kazuhiro Nakajima; Yoshiya Fukuma; Takashi Gojobori; Kazuho Ikeo
The first symbiont-free genome sequence of marine red alga, Susabi-nori (Pyropia yezoensis).
PloS one 2013;8(3):e57122.
2013: Ryo Asato; Hiroshi Enaida; Takashi Gojobori; Kazuho Ikeo; Keijiro Ishikawa; Toshihiro Kono; Takahito Nakama; Shintaro Nakao; Atsushi Ogura; Yuji Oshima; Yukio Sassa; Shigeo Yoshida; Tatsuro Ishibashi
Comparison of gene expression profile of epiretinal membranes obtained from eyes with proliferative vitreoretinopathy to that of secondary epiretinal membranes.
PloS one 2013;8(1):e54191.
2013: So Nakagawa; Yuki Nakaya; Toshihiro Sakurai; Hanako Bai; Takashi Gojobori; Toshihiro Konno; Takayuki Miyazawa; Kazuhiko Imakawa
Dynamic evolution of endogenous retrovirus-derived genes expressed in bovine conceptuses during the period of placentation.
Genome biology and evolution 2013;5(2):296-306.
2013: Jun-Ichi Takeda; Chisato Yamasaki; Takashi Gojobori; Takuya Habara; Yuichiro Hara; Katsuhiko Murakami; Yoko Nagai; Nobuo Obi; Miho Sera; Tadashi Imanishi
H-InvDB in 2013: an omics study platform for human functional gene and transcript discovery.
Nucleic acids research 2013;41(Database issue):D915-9.
2012: Shuri Kato; Toshio Katsuki; Asako Matsumoto; Kazuo Moriwaki; Kentaro Nakamura; Toshihiko Shiroishi; Yoshiaki Tsuda; Takashi Gojobori; Shogo Ishio; Kojiro Iwamoto; Kensuke Yoshimura; Hiroshi Yoshimaru
Clone identification in Japanese flowering cherry (Prunus subgenus Cerasus) cultivars using nuclear SSR markers.
Breeding science 2012;62(3):248-55.
2012: Takao Iwayanagi; Takeshi Konno; Sei Miyamoto; Hisashi Mizutani; Yasumasa Shigemoto; Takashi Gojobori; Tomohiro Hirai; Hideaki Sugawara
TP Atlas: integration and dissemination of advances in Targeted Proteins Research Program (TPRP)-structural biology project phase II in Japan.
Journal of structural and functional genomics 2012;13(3):145-54.
2012: Yukari Anai; Takashi Gojobori; Maki Kawamura; So Nakagawa; Haruyo Ochi; Shinya Watanabe; Kazuo Nishigaki
Infectious endogenous retroviruses in cats and emergence of recombinant viruses.
Journal of virology 2012;86(16):8634-44.
2012: Yasuhiro Takenaka; Masaki Torimura; Naoki Tsuruoka; Atsushi Yamaguchi; Takashi Gojobori; Yasushi Shigeri
Evolution of bioluminescence in marine planktonic copepods.
Molecular biology and evolution 2012;29(6):1669-81.
2012: Ikuo K Suzuki; Takahiko Kawasaki; Takashi Gojobori; Tatsumi Hirata
The temporal sequence of the mammalian neocortical neurogenetic program drives mediolateral pattern in the chick pallium.
Developmental cell 2012;22(4):863-70.
2012: Goh Nishitani; Kiyonari Sakurada; Shiho Hayakawa; Takashi Kamiyama; Yuki Kosaka; Satoshi Nagai; Takashi Gojobori
Multiple plastids collected by the dinoflagellate Dinophysis mitra through kleptoplastidy.
Applied and environmental microbiology 2012;78(3):813-21.
2012: Craig Alan Gough; Keiichi Homma; Tadashi Imanishi; Hisakazu Iwama; Shinsei Minoshima; Ken Nishikawa; Shigetaka Sakamoto; Yoshiharu Sato; Makoto K Shimada; Yoshiyuki Suzuki; Masahito Tada-Umezaki; Yumi Yamaguchi-Kabata; Ranajit Chakraborty; Yasuyuki Fujii; Takashi Gojobori
Prediction of protein-destabilizing polymorphisms by manual curation with protein structure.
PloS one 2012;7(11):e50445.
2012: Kyoko Hayashida; Keiichi Homma; Tadashi Imanishi; Noboru Inoue; Kimihito Ito; Minoru Kanehisa; Toshiaki Katayama; Shuichi Kawashima; Takehide Kosuge; Vishvanath Nene; Arnab Pain; Yoshiharu Sato; Brian R Shiels; Hideaki Sugawara; Yutaka Suzuki; Masahito Tada-Umezaki; Atsushi Toyoda; Hiroyuki Wakaguri; Hidemi Watanabe; William Weir; Yukio Yagi; Chisato Yamasaki; Takashi Abe; Yasuyuki Fujii; Malcolm Gardner; Takashi Gojobori; Takuya Habara; Yuichiro Hara; Masahira Hattori; Chihiro Sugimoto
Comparative genome analysis of three eukaryotic parasites with differing abilities to transform leukocytes reveals key mediators of Theileria-induced leukocyte transformation.
mBio 2012;3(5):e00204-12.
2012: Yasuyuki Tomita; Hideyuki Tamakawa; Takashi Gojobori; Kazuho Ikeo; Shigehito Ikushima
Genome and transcriptome analysis of the food-yeast Candida utilis.
PloS one 2012;7(5):e37226.
2012: Kirill Kryukov; Takashi Gojobori; Kazuho Ikeo; Kenta Sumiyama; Naruya Saitou
A new database (GCD) on genome composition for eukaryote and prokaryote genome sequences and their initial analyses.
Genome biology and evolution 2012;4(4):501-12.
2011: Chi Chiu Wang; Yasuhiro Kazuki; Mitsuo Oshimura; Kazuho Ikeo; Takashi Gojobori
Gene dosage imbalance of human chromosome 21 in mouse embryonic stem cells differentiating to neurons.
Gene 2011;481(2):93-101.
2011: Kiyoshi Ezawa; Takashi Gojobori; Kazuho Ikeo; Naruya Saitou
Evolutionary patterns of recently emerged animal duplogs.
Genome biology and evolution 2011;3():1119-35.
2011: Roberto A Barrero; Takashi Gojobori; Felix D Guerrero; Kazuho Ikeo; Gabriel Keeble-Gagnère; Ala Lew-Tabor; Paula M Moolhuijzen; Yoshio Tateno; Bing Zhang; Matthew Bellgard
Evolutionary conserved microRNAs are ubiquitously expressed compared to tick-specific miRNAs in the cattle tick Rhipicephalus (Boophilus) microplus.
BMC genomics 2011;12():328.
2011: Satoshi Fukuchi; Takashi Gojobori; Keiichi Homma; Kazuo Hosoda; Ken Nishikawa
Binary classification of protein molecules into intrinsically disordered and ordered segments.
BMC structural biology 2011;11():29.
2011: Eli Kaminuma; Takehide Kosuge; Yuichi Kodama; Hideo Aono; Jun Mashima; Takashi Gojobori; Hideaki Sugawara; Osamu Ogasawara; Toshihisa Takagi; Kousaku Okubo; Yasukazu Nakamura
DDBJ progress report.
Nucleic acids research 2011;39(Database issue):D22-7.
2011: Yuki Kobayashi; Yoshiyuki Suzuki; Takuya Itou; Fumio H Ito; Takeo Sakai; Takashi Gojobori
Evolutionary history of dog rabies in Brazil.
The Journal of general virology 2011;92(Pt 1):85-90.
2010: Jung Shan Hwang; Yasuharu Takaku; Tsuyoshi Momose; Patrizia Adamczyk; Suat Özbek; Kazuho Ikeo; Konstantin Khalturin; Georg Hemmrich; Thomas C G Bosch; Thomas W Holstein; Charles N David; Takashi Gojobori
Nematogalectin, a nematocyst protein with GlyXY and galectin domains, demonstrates nematocyte-specific alternative splicing in Hydra.
Proceedings of the National Academy of Sciences of the United States of America 2010;107(43):18539-44.
2010: Kiyoshi Ezawa; Kazuho Ikeo; Takashi Gojobori; Naruya Saitou
Evolutionary pattern of gene homogenization between primate-specific paralogs after human and macaque speciation using the 4-2-4 method.
Molecular biology and evolution 2010;27(9):2152-71.
2010: Patrizia Adamczyk; Claudia Zenkert; Prakash G Balasubramanian; Shuhei Yamada; Saori Murakoshi; Kazuyuki Sugahara; Jung Shan Hwang; Takashi Gojobori; Thomas W Holstein; Suat Ozbek
A non-sulfated chondroitin stabilizes membrane tubulation in cnidarian organelles.
The Journal of biological chemistry 2010;285(33):25613-23.
2010: Shigeo Yoshida; Atsushi Ogura; Keijiro Ishikawa; Ayako Yoshida; Richiro Kohno; Yoko Yamaji; Kazuho Ikeo; Takashi Gojobori; Toshihiro Kono; Tatsuro Ishibashi
Gene expression profile of fibrovascular membranes from patients with proliferative diabetic retinopathy.
The British journal of ophthalmology 2010;94(6):795-801.
2010: So Nakagawa; Yoshihito Niimura; Kin-ichiro Miura; Takashi Gojobori
Dynamic evolution of translation initiation mechanisms in prokaryotes.
Proceedings of the National Academy of Sciences of the United States of America 2010;107(14):6382-7.
2010: Néstor J Oviedo; Junji Morokuma; Peter Walentek; Ido P Kema; Man Bock Gu; Joo-Myung Ahn; Jung Shan Hwang; Takashi Gojobori; Michael Levin
Long-range neural and gap junction protein-mediated cues control polarity during planarian regeneration.
Developmental biology 2010;339(1):188-99.
2010: Yuki Kobayashi; Yoshiyuki Suzuki; Takuya Itou; Adolorata A B Carvalho; Elenice M S Cunha; Fumio H Ito; Takashi Gojobori; Takeo Sakai
Low genetic diversities of rabies virus populations within different hosts in Brazil.
Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2010;10(2):278-83.
2010: Masayuki Horie; Tomoyuki Honda; Yoshiyuki Suzuki; Yuki Kobayashi; Takuji Daito; Tatsuo Oshida; Kazuyoshi Ikuta; Patric Jern; Takashi Gojobori; John M Coffin; Keizo Tomonaga
Endogenous non-retroviral RNA virus elements in mammalian genomes.
Nature 2010;463(7277):84-7.
2010: Yoji Nakamura; Tomoyoshi Komiyama; Motoki Furue; Takashi Gojobori; Yasuto Akiyama
CIG-DB: the database for human or mouse immunoglobulin and T cell receptor genes available for cancer studies.
BMC bioinformatics 2010;11():398.
2010: Makoto K Shimada; Yosuke Hayakawa; Jun-ichi Takeda; Takashi Gojobori; Tadashi Imanishi
A comprehensive survey of human polymorphisms at conserved splice dinucleotides and its evolutionary relationship with alternative splicing.
BMC evolutionary biology 2010;10():122.
2010: Jun-ichi Takeda; Yutaka Suzuki; Ryuichi Sakate; Yoshiharu Sato; Takashi Gojobori; Tadashi Imanishi; Sumio Sugano
H-DBAS: human-transcriptome database for alternative splicing: update 2010.
Nucleic acids research 2010;38(Database issue):D86-90.
2010: Chisato Yamasaki; Katsuhiko Murakami; Jun-ichi Takeda; Yoshiharu Sato; Akiko Noda; Ryuichi Sakate; Takuya Habara; Hajime Nakaoka; Fusano Todokoro; Akihiro Matsuya; Tadashi Imanishi; Takashi Gojobori
H-InvDB in 2009: extended database and data mining resources for human genes and transcripts.
Nucleic acids research 2010;38(Database issue):D626-32.
2010: Eli Kaminuma; Jun Mashima; Yuichi Kodama; Takashi Gojobori; Osamu Ogasawara; Kousaku Okubo; Toshihisa Takagi; Yasukazu Nakamura
DDBJ launches a new archive database with analytical tools for next-generation sequence data.
Nucleic acids research 2010;38(Database issue):D33-8.
2009: Yoshihiro Kawahara; Ryuichi Sakate; Akihiro Matsuya; Katsuhiko Murakami; Yoshiharu Sato; Hao Zhang; Takashi Gojobori; Takeshi Itoh; Tadashi Imanishi
G-compass: a web-based comparative genome browser between human and other vertebrate genomes.
Bioinformatics (Oxford, England) 2009;25(24):3321-2.
2009: Yoshiyuki Suzuki; Takashi Gojobori; Sudhir Kumar
Methods for incorporating the hypermutability of CpG dinucleotides in detecting natural selection operating at the amino acid sequence level.
Molecular biology and evolution 2009;26(10):2275-84.
2009: Qing-Xin Liu; Masaki Hiramoto; Hitoshi Ueda; Takashi Gojobori; Yasushi Hiromi; Susumu Hirose
Midline governs axon pathfinding by coordinating expression of two major guidance systems.
Genes & development 2009;23(10):1165-70.
2009: Christian Schönbach; Alistair Forrest; Erik van Nimwegen; Carsten O Daub; Piotr J Balwierz; Katharine M Irvine; Timo Lassmann; Timothy Ravasi; Yuki Hasegawa; Michiel J L de Hoon; Shintaro Katayama; Kate Schroder; piero carninci; Yasuhiro Tomaru; Mutsumi Kanamori-Katayama; Atsutaka Kubosaki; Altuna Akalin; Yoshinari Ando; Erik Arner; Maki Asada; Hiroshi Asahara; Timothy Bailey; Vladimir Bajic; Denis Bauer; Anthony Beckhouse; Nicolas Bertin; Johan Björkegren; Frank Brombacher; Erika Bulger; Alistair Chalk; Joe Chiba; Nicole Cloonan; Adam Dawe; Josee Dostie; Pär G Engström; Magbubah Essack; Geoffrey J Faulkner; J Lynn Fink; David Fredman; Ko Fujimori; Masaaki Furuno; Takashi Gojobori; Julian Gough; Sean M Grimmond; Mika Gustafsson; Megumi Hashimoto; Takehiro Hashimoto; Mariko Hatakeyama; Susanne Heinzel; Winston Hide; Oliver Hofmann; Michael Hörnquist; Lukasz Huminiecki; Kazuho Ikeo; Naoko Imamoto; Satoshi Inoue; Yusuke Inoue; Ryoko Ishihara; Takao Iwayanagi; Anders Jacobsen; Mandeep Kaur; Hideya Kawaji; Markus C Kerr; Ryuichiro Kimura; Syuhei Kimura; Yasumasa Kimura; Hiroaki Kitano; Hisashi Koga; Toshio Kojima; Shinji Kondo; Takeshi Konno; Anders Krogh; Adele Kruger; Ajit Kumar; Boris Lenhard; Andreas Lennartsson; Morten Lindow; Marina Lizio; Cameron Macpherson; Norihiro Maeda; Christopher A. Maher; Monique Maqungo; Jessica Mar; Nicholas A Matigian; Hideo Matsuda; John S Mattick; Stuart Meier; Sei Miyamoto; Etsuko Miyamoto-Sato; Kazuhiko Nakabayashi; Yutaka Nakachi; Mika Nakano; Sanne Nygaard; Toshitsugu Okayama; Yasushi Okazaki; Haruka Okuda-Yabukami; Valerio Orlando; Jun Otomo; Mikhail Pachkov; Nikolai Petrovsky; Charles Plessy; John Quackenbush; Aleksandar Radovanovic; Michael Rehli; Rintaro Saito; Albin Sandelin; Sebastian Schmeier; Christian Schönbach; Ariel S Schwartz; Colin A Semple; Miho Sera; Jessica Severin; Katsuhiko Shirahige; Cas Simons; George St Laurent; Masanori Suzuki; Takahiro Suzuki; Matthew J Sweet; Ryan J Taft; Shizu Takeda; Yoichi Takenaka; Kai Tan; Martin S Taylor; Rohan D Teasdale; Jesper Tegnér; Sarah Teichmann; Eivind Valen; Claes Wahlestedt; Kazunori Waki; Andrew Waterhouse; Christine A Wells; Ole Winther; Linda Wu; Kazumi Yamaguchi; Hiroshi Yanagawa; Jun Yasuda; Mihaela Zavolan; David A Hume; Takahiro Arakawa; Shiro Fukuda; Kengo Imamura; Chikatoshi Kai; Ai Kaiho; Tsugumi Kawashima; Chika Kawazu; Yayoi Kitazume; Miki Kojima; Hisashi Miura; Kayoko Murakami; Mitsuyoshi Murata; Noriko Ninomiya; Hiromi Nishiyori; Shohei Noma; Chihiro Ogawa; Takuma Sano; Christophe Simon; Michihira Tagami; Yukari Takahashi; Jun Kawai; Yoshihide Hayashizaki
The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line.
Nature genetics 2009;41(5):553-62.
2009: Lihua Jin; Kirill Kryukov; Yoshiyuki Suzuki; Tadashi Imanishi; Kazuho Ikeo; Takashi Gojobori
The evolutionary study of small RNA-directed gene silencing pathways by investigating RNase III enzymes.
Gene 2009;435(1-2):1-8.
2009: Tomoyoshi Komiyama; Hiroyuki Kobayashi; Yoshio Tateno; Hidetoshi Inoko; Takashi Gojobori; Kazuho Ikeo
An evolutionary origin and selection process of goldfish.
Gene 2009;430(1-2):5-11.
2009: Shigeyuki Uehara; Yoshiko Izumi; Yuko Kubo; Chi Chiu Wang; KATSUHIKO MINETA; Kazuho Ikeo; Takashi Gojobori; Masayoshi Tachibana; Toshihiko Kikuchi; Toshimitsu Kobayashi; Shigeki Shibahara; Choji Taya; Hiromichi Yonekawa; Toshihiko Shiroishi; Hiroaki Yamamoto
Specific expression of Gsta4 in mouse cochlear melanocytes: a novel role for hearing and melanocyte differentiation.
Pigment cell & melanoma research 2009;22(1):111-9.
2009: Takashi Gojobori; William Martin
Welcome to Genome Biology and Evolution.
Genome biology and evolution 2009;1():1.
2009: Satoshi Fukuchi; Keiichi Homma; Yoshiaki Minezaki; Takashi Gojobori; Ken Nishikawa
Development of an accurate classification system of proteins into structured and unstructured regions that uncovers novel structural domains: its application to human transcription factors.
BMC structural biology 2009;9():26.
2009: Shuhei Mano; Takaho A Endo; Akira Oka; Akira Ozawa; Takashi Gojobori; Hidetoshi Inoko
Detecting linkage between a trait and a marker in a random mating population without pedigree record.
PloS one 2009;4(3):e4956.
2009: José C Clemente; Kazuho Ikeo; Gabriel Valiente; Takashi Gojobori
Optimized ancestral state reconstruction using Sankoff parsimony.
BMC bioinformatics 2009;10():51.
2009: Satoshi Fukuchi; Keiichi Homma; Shigetaka Sakamoto; Hideaki Sugawara; Yoshio Tateno; Takashi Gojobori; Ken Nishikawa
The GTOP database in 2009: updated content and novel features to expand and deepen insights into protein structures and functions.
Nucleic acids research 2009;37(Database issue):D333-7.
2009: Makoto K Shimada; Ryuzou Matsumoto; Yosuke Hayakawa; Ryoko Sanbonmatsu; Craig Gough; Yumi Yamaguchi-Kabata; Chisato Yamasaki; Tadashi Imanishi; Takashi Gojobori
VarySysDB: a human genetic polymorphism database based on all H-InvDB transcripts.
Nucleic acids research 2009;37(Database issue):D810-5.
2009: Hideaki Sugawara; Kazuho Ikeo; Satoshi Fukuchi; Takashi Gojobori; Yoshio Tateno
DDBJ dealing with mass data produced by the second generation sequencer.
Nucleic acids research 2009;37(Database issue):D16-8.
2008: Akishinonomiya Fumihito; Yuji Ikeda; Masahiro Aizawa; Takashi Makino; Yumi Umehara; Yoshiaki Kai; Yuriko Nishimoto; Masami Hasegawa; Tetsuji Nakabo; Takashi Gojobori
Evolution of Pacific Ocean and the Sea of Japan populations of the gobiid species, Pterogobius elapoides and Pterogobius zonoleucus, based on molecular and morphological analyses.
Gene 2008;427(1-2):7-18.
2008: Lihua Jin; Kirill Kryukov; Jose C Clemente; Tomoyoshi Komiyama; Yoshiyuki Suzuki; Tadashi Imanishi; Kazuho Ikeo; Takashi Gojobori
The evolutionary relationship between gene duplication and alternative splicing.
Gene 2008;427(1-2):19-31.
2008: Jun-Ichi Takeda; Yutaka Suzuki; Ryuichi Sakate; Yoshiharu Sato; Masahide Seki; Takuma Irie; Nono Takeuchi; Takuya Ueda; Mitsuteru Nakao; Sumio Sugano; Takashi Gojobori; Tadashi Imanishi
Low conservation and species-specific evolution of alternative splicing in humans and mice: comparative genomics analysis using well-annotated full-length cDNAs.
Nucleic acids research 2008;36(20):6386-95.
2008: Hajime Ohyanagi; Kazuho Ikeo; Takashi Gojobori
The origin of nucleus: rebuild from the prokaryotic ancestors of ribosome export factors.
Gene 2008;423(2):149-52.
2008: Hajime Ohyanagi; Kazuho Ikeo; Takashi Gojobori
Eukaryotic nuclear structure explains the evolutionary rate difference of ribosome export factors.
Gene 2008;421(1-2):7-13.
2008: Doug Howe; Maria Costanzo; Petra Fey; Takashi Gojobori; Linda Hannick; Winston Hide; David P Hill; Renate Kania; Mary Schaeffer; Susan St Pierre; Simon Twigger; Owen R White; Seung Yon Rhee
Big data: The future of biocuration.
Nature 2008;455(7209):47-50.
2008: Charles N David; Suat Ozbek; Patrizia Adamczyk; Sebastian Meier; Barbara Pauly; Jarrod Chapman; Jung Shan Hwang; Takashi Gojobori; Thomas W Holstein
Evolution of complex structures: minicollagens shape the cnidarian nematocyst.
Trends in genetics : TIG 2008;24(9):431-8.
2008: Jung Shan Hwang; Yasuharu Takaku; Jarrod Chapman; Kazuho Ikeo; Charles N David; Takashi Gojobori
Cilium evolution: identification of a novel protein, nematocilin, in the mechanosensory cilium of Hydra nematocytes.
Molecular biology and evolution 2008;25(9):2009-17.
2008: So Nakagawa; Yoshihito Niimura; Takashi Gojobori; Hiroshi Tanaka; Kin-ichiro Miura
Diversity of preferred nucleotide sequences around the translation initiation codon in eukaryote genomes.
Nucleic acids research 2008;36(3):861-71.
2008: Yumi Yamaguchi-Kabata; Makoto K Shimada; Yosuke Hayakawa; Shinsei Minoshima; Ranajit Chakraborty; Takashi Gojobori; Tadashi Imanishi
Distribution and effects of nonsense polymorphisms in human genes.
PloS one 2008;3(10):e3393.
2008: Katsuhiko Murakami; Tadashi Imanishi; Takashi Gojobori; Kenta Nakai
Two different classes of co-occurring motif pairs found by a novel visualization method in human promoter regions.
BMC genomics 2008;9():112.
2008: Kohji Hotta; Hiroki Takahashi; Nori Satoh; Takashi Gojobori
Brachyury-downstream gene sets in a chordate, Ciona intestinalis: integrating notochord specification, morphogenesis and chordate evolution.
Evolution & development 2008;10(1):37-51.
2008: Tsuyoshi Tanaka; Baltazar A Antonio; Shoshi Kikuchi; Takashi Matsumoto; Yoshiaki Nagamura; Hisataka Numa; Hiroaki Sakai; Jianzhong Wu; Takeshi Itoh; Takuji Sasaki; Ryo Aono; Yasuyuki Fujii; Takuya Habara; Erimi Harada; Masako Kanno; Yoshihiro Kawahara; Hiroaki Kawashima; Hiromi Kubooka; Akihiro Matsuya; Hajime Nakaoka; Naomi Saichi; Ryoko Sanbonmatsu; Yoshiharu Sato; Yuji Shinso; Mami Suzuki; Jun-ichi Takeda; Motohiko Tanino; Fusano Todokoro; Kaori Yamaguchi; Naoyuki Yamamoto; Chisato Yamasaki; Tadashi Imanishi; Toshihisa Okido; Masahito Tada; Kazuho Ikeo; Yoshio Tateno; Takashi Gojobori; Yao-Cheng Lin; Fu-Jin Wei; Yue-ie Hsing; Qiang Zhao; Bin Han; Melissa R Kramer; Richard W McCombie; David Lonsdale; Claire C O'Donovan; Eleanor J Whitfield; Rolf Apweiler; Kanako O Koyanagi; Jitendra P Khurana; Saurabh Raghuvanshi; Nagendra K Singh; Akhilesh K Tyagi; Georg Haberer; Masaki Fujisawa; Satomi Hosokawa; Yukiyo Ito; Hiroshi Ikawa; Michie Shibata; Mayu Yamamoto; Richard M Bruskiewich; Douglas R Hoen; Thomas E Bureau; Nobukazu Namiki; Hajime Ohyanagi; Yasumichi Sakai; Satoshi Nobushima; Katsumi Sakata; Roberto A Barrero; Yutaka Sato; Alexandre Souvorov; Brian Smith-White; Tatiana Tatusova; Suyoung An; Gynheung An; Satoshi OOta; Galina Fuks; Galina Fuks; Joachim Messing; Karen R Christie; Damien Lieberherr; HyeRan Kim; Andrea Zuccolo; Rod A Wing; Kan Nobuta; Pamela J Green; Cheng Lu; Blake C Meyers; Cristian Chaparro; Benoit Piegu; Olivier Panaud; Manuel Echeverria
The Rice Annotation Project Database (RAP-DB): 2008 update.
Nucleic acids research 2008;36(Database issue):D1028-33.
2008: Chisato Yamasaki; Katsuhiko Murakami; Yasuyuki Fujii; Yoshiharu Sato; Erimi Harada; Jun-ichi Takeda; Takayuki Taniya; Ryuichi Sakate; Shingo Kikugawa; Makoto Shimada; Motohiko Tanino; Kanako O Koyanagi; Roberto A Barrero; Craig Gough; Hong-Woo Chun; Takuya Habara; Hideki Hanaoka; Yosuke Hayakawa; Phillip B Hilton; Yayoi Kaneko; Masako Kanno; Yoshihiro Kawahara; Toshiyuki Kawamura; Akihiro Matsuya; Naoki Nagata; Kensaku Nishikata; Akiko Ogura Noda; Shin Nurimoto; Naomi Saichi; Hiroaki Sakai; Ryoko Sanbonmatsu; Rie Shiba; Mami Suzuki; Kazuhiko Takabayashi; Aiko Takahashi; Takuro Tamura; Masayuki Tanaka; Susumu Tanaka; Fusano Todokoro; Kaori Yamaguchi; Naoyuki Yamamoto; Toshihisa Okido; Jun Mashima; Aki Hashizume; Lihua Jin; Kyung-Bum Lee; Yi-Chueh Lin; Asami Nozaki; Katsunaga Sakai; Masahito Tada; Satoru Miyazaki; Takashi Makino; Hajime Ohyanagi; Naoki Osato; Nobuhiko Tanaka; Yoshiyuki Suzuki; Kazuho Ikeo; Naruya Saitou; Hideaki Sugawara; Claire O'Donovan; Tamara Kulikova; Eleanor Whitfield; Brian Halligan; Mary Shimoyama; Simon Twigger; Kei Yura; Kouichi Kimura; Tomohiro Yasuda; Tetsuo Nishikawa; Yutaka Akiyama; Chie Motono; Yuri Mukai; Hideki Nagasaki; Makiko Suwa; Paul Horton; Reiko Kikuno; Osamu Ohara; Doron Lancet; Eric Eveno; Esther Graudens; Sandrine Imbeaud; Marie Anne Debily; Yoshihide Hayashizaki; Clara Amid; Michael Han; Andreas Osanger; Toshinori Endo; Michael A Thomas; Mika Hirakawa; Wojciech Makalowski; Mitsuteru Nakao; Nam-Soon Kim; Hyang-Sook Yoo; Sandro J De Souza; Maria de Fatima Bonaldo; Yoshihito Niimura; Vladimir Kuryshev; Ingo Schupp; Stefan Wiemann; Matthew Bellgard; Masafumi Shionyu; Libin Jia; Danielle Thierry-Mieg; Jean Thierry-Mieg; Lukas Wagner; Qinghua Zhang; Mitiko Go; Shinsei Minoshima; Masafumi Ohtsubo; Kousuke Hanada; Peter Tonellato; Takao Isogai; Ji Zhang; Boris Lenhard; Sangsoo Kim; Zhu Chen; Ursula Hinz; Anne Estreicher; Kenta Nakai; Izabela Makalowska; Winston Hide; Nicki Tiffin; Laurens Wilming; Ranajit Chakraborty; Marcelo Bento Soares; Maria Luisa Chiusano; Yutaka Suzuki; Charles Auffray; Yumi Yamaguchi-Kabata; Takeshi Itoh; Teruyoshi Hishiki; Satoshi Fukuchi; Ken Nishikawa; Sumio Sugano; Nobuo Nomura; Yoshio Tateno; Tadashi Imanishi; Takashi Gojobori
The H-Invitational Database (H-InvDB), a comprehensive annotation resource for human genes and transcripts.
Nucleic acids research 2008;36(Database issue):D793-9.
2008: Akihiro Matsuya; Ryuichi Sakate; Yoshihiro Kawahara; Kanako O Koyanagi; Yoshiharu Sato; Yasuyuki Fujii; Chisato Yamasaki; Takuya Habara; Hajime Nakaoka; Fusano Todokoro; Kaori Yamaguchi; Toshinori Endo; Satoshi Oota; Wojciech Makalowski; Kazuho Ikeo; Yoshiyuki Suzuki; Kousuke Hanada; Katsuyuki Hashimoto; Momoki Hirai; Hisakazu Iwama; Naruya Saitou; Aiko T Hiraki; Lihua Jin; Yayoi Kaneko; Masako Kanno; Katsuhiko Murakami; Akiko Ogura Noda; Naomi Saichi; Ryoko Sanbonmatsu; Mami Suzuki; Jun-ichi Takeda; Masayuki Tanaka; Takashi Gojobori; Tadashi Imanishi; Takeshi Itoh
Evola: Ortholog database of all human genes in H-InvDB with manual curation of phylogenetic trees.
Nucleic acids research 2008;36(Database issue):D787-92.
2008: Hideaki Sugawara; Osamu Ogasawara; Kousaku Okubo; Takashi Gojobori; Yoshio Tateno
DDBJ with new system and face.
Nucleic acids research 2008;36(Database issue):D22-4.
2007: Kazuya Yuge; Kazuho Ikeo; Takashi Gojobori
Evolutionary origin of sex-related genes in the mouse brain.
Gene 2007;406(1-2):108-12.
2007: Jung Shan Hwang; Hajime Ohyanagi; Shiho Hayakawa; Naoki Osato; Chiemi Nishimiya-Fujisawa; Kazuho Ikeo; Charles N David; Toshitaka Fujisawa; Takashi Gojobori
The evolutionary emergence of cell type-specific genes inferred from the gene expression analysis of Hydra.
Proceedings of the National Academy of Sciences of the United States of America 2007;104(37):14735-40.
2007: Yasuhito Tanaka; Kousuke Hanada; Hideji Hanabusa; Fuat Kurbanov; Takashi Gojobori; Masashi Mizokami
Increasing genetic diversity of hepatitis C virus in haemophiliacs with human immunodeficiency virus coinfection.
The Journal of general virology 2007;88(Pt 9):2513-9.
2007: Ryuichi Sakate; Yumiko Suto; Tadashi Imanishi; Tetsuya Tanoue; Munetomo Hida; Ikuo Hayasaka; Jun Kusuda; Takashi Gojobori; Katsuyuki Hashimoto; Momoki Hirai
Mapping of chimpanzee full-length cDNAs onto the human genome unveils large potential divergence of the transcriptome.
Gene 2007;399(1):1-10.
2007: Kohji Hotta; Kenta Mitsuhara; Hiroki Takahashi; Kazuo Inaba; Kotaro Oka; Takashi Gojobori; Kazuho Ikeo
A web-based interactive developmental table for the ascidian Ciona intestinalis, including 3D real-image embryo reconstructions: I. From fertilized egg to hatching larva.
Developmental dynamics : an official publication of the American Association of Anatomists 2007;236(7):1790-805.
2007: Qing-Xin Liu; Naomi Nakashima-Kamimura; Kazuho Ikeo; Susumu Hirose; Takashi Gojobori
Compensatory change of interacting amino acids in the coevolution of transcriptional coactivator MBF1 and TATA-box-binding protein.
Molecular biology and evolution 2007;24(7):1458-63.
2007: Naoki Osato; Yoshiyuki Suzuki; Kazuho Ikeo; Takashi Gojobori
Transcriptional interferences in cis natural antisense transcripts of humans and mice.
Genetics 2007;176(2):1299-306.
2007: Ryuji Kubota; Kousuke Hanada; Yoshitaka Furukawa; Kimiyoshi Arimura; Mitsuhiro Osame; Takashi Gojobori; Shuji Izumo
Genetic stability of human T lymphotropic virus type I despite antiviral pressures by CTLs.
Journal of immunology (Baltimore, Md. : 1950) 2007;178(9):5966-72.
2007: Kousuke Hanada; Yasuhito Tanaka; Masashi Mizokami; Takashi Gojobori; Harvey Alter
A reduction in selective immune pressure during the course of chronic hepatitis C correlates with diminished biochemical evidence of hepatic inflammation.
Virology 2007;361(1):27-33.
2007: Hiroaki Sakai; Kanako O Koyanagi; Tadashi Imanishi; Takeshi Itoh; Takashi Gojobori
Frequent emergence and functional resurrection of processed pseudogenes in the human and mouse genomes.
Gene 2007;389(2):196-203.
2007: Keiichi Homma; Satoshi Fukuchi; Yoji Nakamura; Takashi Gojobori; Ken Nishikawa
Gene cluster analysis method identifies horizontally transferred genes with high reliability and indicates that they provide the main mechanism of operon gain in 8 species of gamma-Proteobacteria.
Molecular biology and evolution 2007;24(3):805-13.
2007: Takeshi Itoh; Tsuyoshi Tanaka; Roberto A Barrero; Chisato Yamasaki; Yasuyuki Fujii; Phillip B Hilton; Baltazar A Antonio; Hideo Aono; Rolf Apweiler; Richard Bruskiewich; Thomas Bureau; Frances Burr; Antonio Costa de Oliveira; Galina Fuks; Takuya Habara; Georg Haberer; Bin Han; Erimi Harada; Aiko T Hiraki; Hirohiko Hirochika; Douglas Hoen; Hiroki Hokari; Satomi Hosokawa; Yue-ie Hsing; Hiroshi Ikawa; Kazuho Ikeo; Tadashi Imanishi; Yukiyo Ito; Pankaj Jaiswal; Masako Kanno; Yoshihiro Kawahara; Toshiyuki Kawamura; Hiroaki Kawashima; Jitendra P Khurana; Shoshi Kikuchi; Setsuko Komatsu; Kanako O Koyanagi; Hiromi Kubooka; Damien Lieberherr; Yao-Cheng Lin; David Lonsdale; Takashi Matsumoto; Akihiro Matsuya; W Richard McCombie; Joachim Messing; Akio Miyao; Nicola Mulder; Yoshiaki Nagamura; Jongmin Nam; Nobukazu Namiki; Hisataka Numa; Shin Nurimoto; Claire O'Donovan; Hajime Ohyanagi; Toshihisa Okido; Satoshi Oota; Naoki Osato; Lance E Palmer; Francis Quetier; Saurabh Raghuvanshi; Naomi Saichi; Hiroaki Sakai; Yasumichi Sakai; Katsumi Sakata; Tetsuya Sakurai; Fumihiko Sato; Yoshiharu Sato; Heiko Schoof; Motoaki Seki; Michie Shibata; Yuji Shimizu; Kazuo Shinozaki; Yuji Shinso; Nagendra K Singh; Brian Smith-White; Jun-ichi Takeda; Motohiko Tanino; Tatiana Tatusova; Supat Thongjuea; Fusano Todokoro; Mika Tsugane; Akhilesh K Tyagi; Apichart Vanavichit; Aihui Wang; Rod A Wing; Kaori Yamaguchi; Mayu Yamamoto; Naoyuki Yamamoto; Yeisoo Yu; Hao Zhang; Qiang Zhao; Kenichi Higo; Benjamin Burr; Takashi Gojobori; Takuji Sasaki
Curated genome annotation of Oryza sativa ssp. japonica and comparative genome analysis with Arabidopsis thaliana.
Genome research 2007;17(2):175-83.
2007: Hurng-Yi Wang; Huan-Chieh Chien; Naoki Osada; Katsuyuki Hashimoto; Sumio Sugano; Takashi Gojobori; Chen-Kung Chou; Shih-Feng Tsai; Chung-I Wu; C-K James Shen
Rate of evolution in brain-expressed genes in humans and other primates.
PLoS biology 2007;5(2):e13.
2007: T Makino; Takashi Gojobori
Evolution of protein-protein interaction network.
Genome dynamics 2007;3():13-29.
2007: Jun-ichi Takeda; Yutaka Suzuki; Mitsuteru Nakao; Tsuyoshi Kuroda; Sumio Sugano; Takashi Gojobori; Tadashi Imanishi
H-DBAS: alternative splicing database of completely sequenced and manually annotated full-length cDNAs based on H-Invitational.
Nucleic acids research 2007;35(Database issue):D104-9.
2007: Hideaki Sugawara; Takashi Abe; Takashi Gojobori; Yoshio Tateno
DDBJ working on evaluation and classification of bacterial genes in INSDC.
Nucleic acids research 2007;35(Database issue):D13-5.
2007: Craig A Gough; Takashi Gojobori; Tadashi Imanishi
Cancer-related mutations in BRCA1-BRCT cause long-range structural changes in protein-protein binding sites: a molecular dynamics study.
Proteins 2007;66(1):69-86.
2006: Takehide Kosuge; Takashi Abe; Toshihisa Okido; Naoto Tanaka; Masaki Hirahata; Yutaka Maruyama; Jun Mashima; Aki Tomiki; Motoyoshi Kurokawa; Ryutaro Himeno; Satoshi Fukuchi; Satoru Miyazaki; Takashi Gojobori; Yoshio Tateno; Hideaki Sugawara
Exploration and grading of possible genes from 183 bacterial strains by a common protocol to identification of new genes: Gene Trek in Prokaryote Space (GTPS).
DNA research : an international journal for rapid publication of reports on genes and genomes 2006;13(6):245-54.
2006: Kousuke Hanada; Takashi Gojobori; Wen-Hsiung Li
Radical amino acid change versus positive selection in the evolution of viral envelope proteins.
Gene 2006;385():83-8.
2006: Kengo Yoshida; Toshitaka Fujisawa; Jung Shan Hwang; Kazuho Ikeo; Takashi Gojobori
Degeneration after sexual differentiation in hydra and its relevance to the evolution of aging.
Gene 2006;385():64-70.
2006: Takashi Makino; Yoshiyuki Suzuki; Takashi Gojobori
Differential evolutionary rates of duplicated genes in protein interaction network.
Gene 2006;385():57-63.
2006: Kei Yura; Masafumi Shionyu; Kei Hagino; Atsushi Hijikata; Yoshinori Hirashima; Taku Nakahara; Tatsuya Eguchi; Kazuki Shinoda; Akihiro Yamaguchi; Ken-Ichi Takahashi; Takeshi Itoh; Tadashi Imanishi; Takashi Gojobori; Mitiko Go
Alternative splicing in human transcriptome: functional and structural influence on proteins.
Gene 2006;380(2):63-71.
2006: Eriko Sakabe; Nobuhiko Tanaka; Naoki Shimozono; Takashi Gojobori; Shigeki Fujiwara
Effects of U0126 and fibroblast growth factor on gene expression profile in Ciona intestinalis embryos as revealed by microarray analysis.
Development, growth & differentiation 2006;48(6):391-400.
2006: Chisato Yamasaki; Hiroaki Kawashima; Fusano Todokoro; Yasuhiro Imamizu; Makoto Ogawa; Motohiko Tanino; Takeshi Itoh; Takashi Gojobori; Tadashi Imanishi
TACT: Transcriptome Auto-annotation Conducting Tool of H-InvDB.
Nucleic acids research 2006;34(Web Server issue):W345-9.
2006: Takashi Shiina; Masao Ota; Sayoko Shimizu; Yoshihiko Katsuyama; Nami Hashimoto; Miwa Takasu; Tatsuya Anzai; Jerzy K Kulski; Eri Kikkawa; Taeko K Naruse; Natsuki Kimura; Kazuyo Yanagiya; Atsushi Watanabe; Kazuyoshi Hosomichi; Sakae Kohara; Chie Iwamoto; Yumi Umehara; Alice Meyer; Valérie Wanner; Kazumi Sano; Cécile Macquin; Kazuho Ikeo; Katsushi Tokunaga; Takashi Gojobori; Hidetoshi Inoko; Seiamak Bahram
Rapid evolution of major histocompatibility complex class I genes in primates generates new disease alleles in humans via hitchhiking diversity.
Genetics 2006;173(3):1555-70.
2006: Naoki Kobayashi; Masakatsu Watanabe; Teiya Kijimoto; Koji Fujimura; Masumi Nakazawa; Kazuho Ikeo; Yuji Kohara; Takashi Gojobori; Norihiro Okada
magp4 gene may contribute to the diversification of cichlid morphs and their speciation.
Gene 2006;373():126-33.
2006: Takashi Makino; Takashi Gojobori
The evolutionary rate of a protein is influenced by features of the interacting partners.
Molecular biology and evolution 2006;23(4):784-9.
2006: K W Choy; C C Wang; A Ogura; tze lau; Michael Rogers; Kazuho Ikeo; Takashi Gojobori; D S C Lam; C P Pang
Genomic annotation of 15,809 ESTs identified from pooled early gestation human eyes.
Physiological genomics 2006;25(1):9-15.
2006: Kwong Wai Choy; Chi Chiu Wang; A Ogura; tze lau; Michael Scott Rogers; Kazuho Ikeo; Takashi Gojobori; L Y Tang; D S C Lam; Tony CHUNG; Chi Pui Pang
Molecular characterization of the developmental gene in eyes: through data-mining on integrated transcriptome databases.
Clinical biochemistry 2006;39(3):224-30.
2006: Akiko Ogura Noda; Kazuho Ikeo; Takashi Gojobori
Comparative genome analyses of nervous system-specific genes.
Gene 2006;365():130-6.
2006: Tsuyoshi Tanaka; Kazuho Ikeo; Takashi Gojobori
Evolution of metabolic networks by gain and loss of enzymatic reaction in eukaryotes.
Gene 2006;365():88-94.
2006: Jun-ichi Takeda; Yutaka Suzuki; Mitsuteru Nakao; Roberto A Barrero; Kanako O Koyanagi; Lihua Jin; Chie Motono; Hiroko Hata; Takao Isogai; Keiichi Nagai; Tetsuji Otsuki; Vladimir Kuryshev; Masafumi Shionyu; Kei Yura; Mitiko Go; Jean Thierry-Mieg; Danielle Thierry-Mieg; Stefan Wiemann; Nobuo Nomura; Sumio Sugano; Takashi Gojobori; Tadashi Imanishi
Large-scale identification and characterization of alternative splicing variants of human gene transcripts using 56,419 completely sequenced and manually annotated full-length cDNAs.
Nucleic acids research 2006;34(14):3917-28.
2006: Hajime Ohyanagi; Tsuyoshi Tanaka; Hiroaki Sakai; Yasumasa Shigemoto; Kaori Yamaguchi; Takuya Habara; Yasuyuki Fujii; Baltazar A Antonio; Yoshiaki Nagamura; Tadashi Imanishi; Kazuho Ikeo; Takeshi Itoh; Takashi Gojobori; Takuji Sasaki
The Rice Annotation Project Database (RAP-DB): hub for Oryza sativa ssp. japonica genome information.
Nucleic acids research 2006;34(Database issue):D741-4.
2006: Kousaku Okubo; Hideaki Sugawara; Takashi Gojobori; Yoshio Tateno
DDBJ in preparation for overview of research activities behind data submissions.
Nucleic acids research 2006;34(Database issue):D6-9.
2005: Chisato Yamasaki; Kanako O Koyanagi; Yasuyuki Fujii; Takeshi Itoh; Roberto Barrero; Takuro Tamura; Yumi Yamaguchi-Kabata; Motohiko Tanino; Jun-Ichi Takeda; Satoshi Fukuchi; Satoru Miyazaki; Nobuo Nomura; Sumio Sugano; Tadashi Imanishi; Takashi Gojobori
Investigation of protein functions through data-mining on integrated human transcriptome database, H-Invitational database (H-InvDB).
Gene 2005;364():99-107.
2005: Yasuyuki Fujii; Takeshi Itoh; Ryuichi Sakate; Kanako O Koyanagi; Akihiro Matsuya; Takuya Habara; Kaori Yamaguchi; Yayoi Kaneko; Takashi Gojobori; Tadashi Imanishi
A web tool for comparative genomics: G-compass.
Gene 2005;364():45-52.
2005: Motohiko Tanino; Yutaka Suzuki; Tadashi Imanishi; Teruyoshi Hishiki; Kousaku Okubo; Takashi Gojobori; Sumio Sugano
[Human transcriptome].
Tanpakushitsu kakusan koso. Protein, nucleic acid, enzyme 2005;50(16 Suppl):2059-64.
2005: Naoki Osada; Makoto Hirata; Reiko Tanuma; Jun Kusuda; Munetomo Hida; Yutaka Suzuki; Sumio Sugano; Takashi Gojobori; C-K James Shen; Chung-I Wu; Katsuyuki Hashimoto
Substitution rate and structural divergence of 5'UTR evolution: comparative analysis between human and cynomolgus monkey cDNAs.
Molecular biology and evolution 2005;22(10):1976-82.
2005: piero carninci; T Kasukawa; S Katayama; J Gough; M C Frith; N Maeda; R Oyama; T Ravasi; B Lenhard; C Wells; R Kodzius; K Shimokawa; Vladimir Bajic; S E Brenner; S Batalov; Alistair Forrest; M Zavolan; M J Davis; L G Wilming; V Aidinis; J E Allen; A Ambesi-Impiombato; R Apweiler; R N Aturaliya; Timothy Lawrence Bailey; M Bansal; L Baxter; K W Beisel; Tom Bersano; H Bono; Alistair Chalk; K P Chiu; V Choudhary; A Christoffels; D R Clutterbuck; M L Crowe; E Dalla; B P Dalrymple; B de Bono; G Della Gatta; D di Bernardo; T Down; P Engstrom; M Fagiolini; G Faulkner; C F Fletcher; T Fukushima; M Furuno; S Futaki; manuela gariboldi; P Georgii-Hemming; Thomas Gingeras; Takashi Gojobori; R E Green; S Gustincich; M Harbers; Y Hayashi; T K Hensch; N Hirokawa; D Hill; L Huminiecki; M Iacono; Kazuho Ikeo; A Iwama; T Ishikawa; M Jakt; Alexander Kanapin; M Katoh; Y Kawasawa; J Kelso; H Kitamura; H Kitano; george kollias; S P T Krishnan; A Kruger; S K Kummerfeld; I V Kurochkin; L F Lareau; D Lazarevic; Leonard Lipovich; J Liu; S Liuni; S McWilliam; M Madan Babu; M Madera; LUIGI MARCHIONNI; H Matsuda; S Matsuzawa; H Miki; F Mignone; S Miyake; K Morris; S Mottagui-Tabar; N Mulder; N Nakano; H Nakauchi; P Ng; R Nilsson; S Nishiguchi; S Nishikawa; F Nori; O Ohara; Yasushi Okazaki; V Orlando; K C Pang; W J Pavan; G Pavesi; G Pesole; Nikolai Petrovsky; S Piazza; J Reed; J F Reid; B Z Ring; M Ringwald; B Rost; Y Ruan; Steven L Salzberg; A Sandelin; C Schneider; Christian Schönbach; K Sekiguchi; Colin Semple; S Seno; L Sessa; Y Sheng; Y Shibata; H Shimada; K Shimada; D Silva; B Sinclair; S Sperling; Elia Stupka; K Sugiura; R Sultana; Y Takenaka; K Taki; K Tammoja; S L Tan; S Tang; Martin Taylor; J Tegner; S A Teichmann; H R Ueda; E van Nimwegen; R Verardo; C L Wei; K Yagi; H Yamanishi; E Zabarovsky; S Zhu; A Zimmer; Winston Hide; Carol Bult; S M Grimmond; Rohan Teasdale; Edison Liu; V Brusic; John Quackenbush; Claes Wahlestedt; J S Mattick; D A Hume; C Kai; D Sasaki; Y Tomaru; S Fukuda; M Kanamori-Katayama; M Suzuki; J Aoki; T Arakawa; J Iida; K Imamura; Masayoshi Itoh; T Kato; Hideya Kawaji; N Kawagashira; T Kawashima; M Kojima; S Kondo; H Konno; K Nakano; N Ninomiya; T Nishio; M Okada; C Plessy; K Shibata; T Shiraki; S Suzuki; M Tagami; Kazunori Waki; A Watahiki; Y Okamura-Oho; H Suzuki; J Kawai; Y Hayashizaki
The transcriptional landscape of the mammalian genome.
Science (New York, N.Y.) 2005;309(5740):1559-63.
2005: Gen Tamiya; Minori Shinya; Tadashi Imanishi; Tomoki Ikuta; Satoshi Makino; Koichi Okamoto; Koh Furugaki; Toshiko Matsumoto; Shuhei Mano; Satoshi Ando; Yasuyuki Nozaki; Wataru Yukawa; Ryo Nakashige; Daisuke Yamaguchi; Hideo Ishibashi; Manabu Yonekura; Yuu Nakami; Seiken Takayama; Takaho Endo; Takuya Saruwatari; Masaru Yagura; Yoko Yoshikawa; Kei Fujimoto; Akira Oka; Suenori Chiku; Samuel E V Linsen; Marius J Giphart; Jerzy K Kulski; Toru Fukazawa; Hiroshi Hashimoto; Minoru Kimura; Yuuichi Hoshina; Yasuo Suzuki; Tomomitsu Hotta; Joji Mochida; Takatoshi Minezaki; Koichiro Komai; Shunichi Shiozawa; Atsuo Taniguchi; Hisashi Yamanaka; Naoyuki Kamatani; Takashi Gojobori; Seiamak Bahram; Hidetoshi Inoko
Whole genome association study of rheumatoid arthritis using 27 039 microsatellites.
Human molecular genetics 2005;14(16):2305-21.
2005: Teiya Kijimoto; Masakatsu Watanabe; Koji Fujimura; Masumi Nakazawa; Yasunori Murakami; Shigeru Kuratani; Yuji Kohara; Takashi Gojobori; Norihiro Okada
cimp1, a novel astacin family metalloproteinase gene from East African cichlids, is differentially expressed between species during growth.
Molecular biology and evolution 2005;22(8):1649-60.
2005: Kanako O Koyanagi; Masato Hagiwara; Takeshi Itoh; Takashi Gojobori; Tadashi Imanishi
Comparative genomics of bidirectional gene pairs and its implications for the evolution of a transcriptional regulation system.
Gene 2005;353(2):169-76.
2005: Yoshiyuki Suzuki; Kazuho Ikeo; Takashi Gojobori
[Genome network].
Nihon yakurigaku zasshi. Folia pharmacologica Japonica 2005;126(1):55-9.
2005: Michihiro Ogasawara; Tadashi Imanishi; Kazuo Moriwaki; Silvana Gaudieri; Hiroshi Tsuda; Hiroshi Hashimoto; Toshihiko Shiroishi; Takashi Gojobori; Tsuyoshi Koide
Length variation of CAG/CAA triplet repeats in 50 genes among 16 inbred mouse strains.
Gene 2005;349():107-19.
2005: Kousuke Hanada; Yoshiyuki Suzuki; Takashi Nakane; Osamu Hirose; Takashi Gojobori
The origin and evolution of porcine reproductive and respiratory syndrome viruses.
Molecular biology and evolution 2005;22(4):1024-31.
2005: Tomokazu Shirai; Akinori Nakato; Noriyuki Izutani; Keisuke Nagahisa; Suteaki Shioya; Eiichiro Kimura; Yutaka Kawarabayasi; Akihiko Yamagishi; Takashi Gojobori; Hiroshi Shimizu
Comparative study of flux redistribution of metabolic pathway in glutamate production by two coryneform bacteria.
Metabolic engineering 2005;7(2):59-69.
2005: Tsuyoshi Tanaka; Yoshio Tateno; Takashi Gojobori
Evolution of vitamin B6 (pyridoxine) metabolism by gain and loss of genes.
Molecular biology and evolution 2005;22(2):243-50.
2005: Atsushi Ogura; Kazuho Ikeo; Takashi Gojobori
Estimation of ancestral gene set of bilaterian animals and its implication to dynamic change of gene content in bilaterian evolution.
Gene 2005;345(1):65-71.
2005: Yasuhito Tanaka; Kousuke Hanada; Etsuro Orito; Yoshihiro Akahane; Kazuaki Chayama; Hiroshi Yoshizawa; Michio Sata; Nobuo Ohta; Yuzo Miyakawa; Takashi Gojobori; Masashi Mizokami
Molecular evolutionary analyses implicate injection treatment for schistosomiasis in the initial hepatitis C epidemics in Japan.
Journal of hepatology 2005;42(1):47-53.
2005: Motohiko Tanino; Marie-Anne Debily; Takuro Tamura; Teruyoshi Hishiki; Osamu Ogasawara; Katsuji Murakawa; Shoko Kawamoto; Kouichi Itoh; Shinya Watanabe; Sandro J de Souza; Sandrine Imbeaud; Esther Graudens; Eric Eveno; Phillip Hilton; Yukio Sudo; Janet Kelso; Kazuho Ikeo; Tadashi Imanishi; Takashi Gojobori; Charles Auffray; Winston Hide; Kousaku Okubo
The Human Anatomic Gene Expression Library (H-ANGEL), the H-Inv integrative display of human gene expression across disparate technologies and platforms.
Nucleic acids research 2005;33(Database issue):D567-72.
2005: Yoshio Tateno; N Saitou; Kousaku Okubo; Hideaki Sugawara; Takashi Gojobori
DDBJ in collaboration with mass-sequencing teams on annotation.
Nucleic acids research 2005;33(Database issue):D25-8.
2004: Hisakazu Iwama; Takashi Gojobori
Highly conserved upstream sequences for transcription factor genes and implications for the regulatory network.
Proceedings of the National Academy of Sciences of the United States of America 2004;101(49):17156-61.
2004: Toshitsugu Okayama; Kazuho Ikeo; Takashi Gojobori
[Integrated database (2): Data oriented approach to genome network informatics].
Tanpakushitsu kakusan koso. Protein, nucleic acid, enzyme 2004;49(17 Suppl):2921-7.
2004: Takuro Tamura; Kazuho Ikeo; Takashi Gojobori
[Integrated database (2): Integrated database for the Genome Network Project].
Tanpakushitsu kakusan koso. Protein, nucleic acid, enzyme 2004;49(17 Suppl):2916-20.
2004: Haris Alexopoulos; Angelika Böttger; Sylvia Fischer; Alice Levin; Alexander Wolf; Toshitaka Fujisawa; Shiho Hayakawa; Takashi Gojobori; Jane A Davies; Charles N David; Jonathan P Bacon
Evolution of gap junctions: the missing link?
Current biology : CB 2004;14(20):R879-80.
2004: Tomoyoshi Komiyama; Kazuho Ikeo; Yoshio Tateno; Takashi Gojobori
Japanese domesticated chickens have been derived from Shamo traditional fighting cocks.
Molecular phylogenetics and evolution 2004;33(1):16-21.
2004: Yousuke Nishio; Yoji Nakamura; Yoshihiro Usuda; Shinichi Sugimoto; Kazuhiko Matsui; Yutaka Kawarabayasi; Hisashi Kikuchi; Takashi Gojobori; Kazuho Ikeo
Evolutionary process of amino acid biosynthesis in Corynebacterium at the whole genome level.
Molecular biology and evolution 2004;21(9):1683-91.
2004: Yasuyuki Fujii; Tadashi Imanishi; Takashi Gojobori
[H-Invitational Database: integrated database of human genes].
Tanpakushitsu kakusan koso. Protein, nucleic acid, enzyme 2004;49(11 Suppl):1937-43.
2004: Atsushi Ogura; Kazuho Ikeo; Takashi Gojobori
Comparative analysis of gene expression for convergent evolution of camera eye between octopus and human.
Genome research 2004;14(8):1555-61.
2004: Masashi Mizokami; Takashi Gojobori; Kousuke Hanada
[Molecular evolutionary analysis of hepatitis C virus--detection of positive selective sites].
Nihon rinsho. Japanese journal of clinical medicine 2004;62 Suppl 7(Pt 1):76-80.
2004: Yoji Nakamura; Takeshi Itoh; Hideo Matsuda; Takashi Gojobori
Biased biological functions of horizontally transferred genes in prokaryotic genomes.
Nature genetics 2004;36(7):760-6.
2004: Tadashi Imanishi; Takeshi Itoh; Yutaka Suzuki; Claire O'Donovan; Satoshi Fukuchi; Kanako O Koyanagi; Roberto A Barrero; Takuro Tamura; Yumi Yamaguchi-Kabata; Motohiko Tanino; Kei Yura; Satoru Miyazaki; Kazuho Ikeo; Keiichi Homma; Arek Kasprzyk; Tetsuo Nishikawa; Mika Hirakawa; Jean Thierry-Mieg; Danielle Thierry-Mieg; Jennifer Ashurst; Libin Jia; Mitsuteru Nakao; Michael A Thomas; Nicola Mulder; Youla Karavidopoulou; Lihua Jin; Sangsoo Kim; Tomohiro Yasuda; Boris Lenhard; Eric Eveno; Yoshiyuki Suzuki; Chisato Yamasaki; Jun-ichi Takeda; Craig Gough; Phillip Hilton; Yasuyuki Fujii; Hiroaki Sakai; Susumu Tanaka; Clara Amid; Matthew Bellgard; Maria de Fatima Bonaldo; Hidemasa Bono; Susan K Bromberg; Anthony J Brookes; Elspeth Bruford; piero carninci; Claude Chelala; Christine Couillault; Sandro J de Souza; Marie-Anne Debily; Marie-Dominique Devignes; Inna Dubchak; Toshinori Endo; Anne Estreicher; Eduardo Eyras; Kaoru Fukami-Kobayashi; Gopal R Gopinath; Esther Graudens; Yoonsoo Hahn; Michael Han; Ze-Guang Han; Kousuke Hanada; Hideki Hanaoka; Erimi Harada; Katsuyuki Hashimoto; Ursula Hinz; Momoki Hirai; Teruyoshi Hishiki; Ian Hopkinson; Sandrine Imbeaud; Hidetoshi Inoko; Alexander Kanapin; Yayoi Kaneko; Takeya Kasukawa; Janet Kelso; Paul Kersey; Reiko Kikuno; Kouichi Kimura; Bernhard Korn; Vladimir Kuryshev; Izabela Makalowska; Takashi Makino; Shuhei Mano; Regine Mariage-Samson; Jun Mashima; Hideo Matsuda; Hans-Werner Mewes; Shinsei Minoshima; Keiichi Nagai; Hideki Nagasaki; Naoki Nagata; Rajni Nigam; Osamu Ogasawara; Osamu Ohara; Masafumi Ohtsubo; Norihiro Okada; Toshihisa Okido; Satoshi Oota; Motonori Ota; Toshio Ota; Tetsuji Otsuki; Dominique Piatier-Tonneau; Annemarie Poustka; Shuang-Xi Ren; Naruya Saitou; Katsunaga Sakai; Shigetaka Sakamoto; Ryuichi Sakate; Ingo Schupp; Florence Servant; Stephen Sherry; Rie Shiba; Nobuyoshi Shimizu; Mary Shimoyama; Andrew J Simpson; Bento Soares; Charles Steward; Makiko Suwa; Mami Suzuki; Aiko Takahashi; Gen Tamiya; Hiroshi Tanaka; Todd Taylor; Joseph D Terwilliger; Per Unneberg; Vamsi Veeramachaneni; Shinya Watanabe; Laurens Wilming; Norikazu Yasuda; Hyang-Sook Yoo; Marvin Stodolsky; Wojciech Makalowski; Mitiko Go; Kenta Nakai; Toshihisa Takagi; Minoru Kanehisa; Yoshiyuki Sakaki; John Quackenbush; Yasushi Okazaki; Yoshihide Hayashizaki; Winston Hide; Ranajit Chakraborty; Ken Nishikawa; Hideaki Sugawara; Yoshio Tateno; Zhu Chen; Michio Oishi; Peter Tonellato; Rolf Apweiler; Kousaku Okubo; Lukas Wagner; Stefan Wiemann; Robert L Strausberg; Takao Isogai; Charles Auffray; Nobuo Nomura; Takashi Gojobori; Sumio Sugano
Integrative annotation of 21,037 human genes validated by full-length cDNA clones.
PLoS biology 2004;2(6):e162.
2004: Kousuke Hanada; Yoshiyuki Suzuki; Takashi Gojobori
A large variation in the rates of synonymous substitution for RNA viruses and its relationship to a diversity of viral infection and transmission modes.
Molecular biology and evolution 2004;21(6):1074-80.
2004: Tomoyoshi Komiyama; Kazuho Ikeo; Takashi Gojobori
The evolutionary origin of long-crowing chicken: its evolutionary relationship with fighting cocks disclosed by the mtDNA sequence analysis.
Gene 2004;333():91-9.
2004: Jung Shan Hwang; Chiyoko Kobayashi; Kiyokazu Agata; Kazuho Ikeo; Takashi Gojobori
Detection of apoptosis during planarian regeneration by the expression of apoptosis-related genes and TUNEL assay.
Gene 2004;333():15-25.
2004: Reiko Toyoda; Akiko Kasai; Shigeru Sato; Shuichi Wada; Hidetoshi Saiga; Kazuho Ikeo; Takashi Gojobori; Takaharu Numakunai; Hiroaki Yamamoto
Pigment cell lineage-specific expression activity of the ascidian tyrosinase-related gene.
Gene 2004;332():61-9.
2004: Shuhei Mano; N Yasuda; T Katoh; Kenichi Tounai; H Inoko; T Imanishi; G Tamiya; Takashi Gojobori
Notes on the maximum likelihood estimation of haplotype frequencies.
Annals of human genetics 2004;68(Pt 3):257-64.
2004: Matthew Bellgard; Jia Ye; Takashi Gojobori; Rudi Appels
The bioinformatics challenges in comparative analysis of cereal genomes-an overview.
Functional & integrative genomics 2004;4(1):1-11.
2004: Chi Chiu Wang; Mitsutaka Kadota; Ryuichi Nishigaki; Yasuhiro Kazuki; Yasuaki Shirayoshi; Michael Scott Rogers; Takashi Gojobori; Kazuho Ikeo; Mitsuo Oshimura
Molecular hierarchy in neurons differentiated from mouse ES cells containing a single human chromosome 21.
Biochemical and biophysical research communications 2004;314(2):335-50.
2004: Toshiko Matsumoto; Wataru Yukawa; Yasuyuki Nozaki; Ryo Nakashige; Minori Shinya; Satoshi Makino; Masaru Yagura; Tomoki Ikuta; Tadashi Imanishi; Hidetoshi Inoko; Gen Tamiya; Takashi Gojobori
Novel algorithm for automated genotyping of microsatellites.
Nucleic acids research 2004;32(20):6069-77.
2004: Mitsutaka Kadota; Ryuichi Nishigaki; Chi Chiu Wang; Tosifusa Toda; Yasuaki Shirayoshi; Toshiaki Inoue; Takashi Gojobori; Kazuho Ikeo; Michael Scott Rogers; Mitsuo Oshimura
Proteomic signatures and aberrations of mouse embryonic stem cells containing a single human chromosome 21 in neuronal differentiation: an in vitro model of Down syndrome.
Neuroscience 2004;129(2):325-35.
2004: T Daniel Andrews; Takashi Gojobori
Strong positive selection and recombination drive the antigenic variation of the PilE protein of the human pathogen Neisseria meningitidis.
Genetics 2004;166(1):25-32.
2004: Satoru Miyazaki; Hideaki Sugawara; Kazuho Ikeo; Takashi Gojobori; Yoshio Tateno
DDBJ in the stream of various biological data.
Nucleic acids research 2004;32(Database issue):D31-4.
2003: Ichiro Yajima; Kosuke Endo; Shigeru Sato; Reiko Toyoda; Hiroshi Wada; Shigeki Shibahara; Takaharu Numakunai; Kazuho Ikeo; Takashi Gojobori; Colin R Goding; Hiroaki Yamamoto
Cloning and functional analysis of ascidian Mitf in vivo: insights into the origin of vertebrate pigment cells.
Mechanisms of development 2003;120(12):1489-504.
2003: Asako Ando; Hisako Kawata; Atsuko Shigenari; Tatsuya Anzai; Masao Ota; Yoshihiko Katsuyama; Masaharu Sada; Rieko Goto; Shin-nosuke Takeshima; Yoko Aida; Takahiro Iwanaga; Nobuyuki Fujimura; Yoshiyuki Suzuki; Takashi Gojobori; Hidetoshi Inoko
Genetic polymorphism of the swine major histocompatibility complex ( SLA) class I genes, SLA-1, -2 and -3.
Immunogenetics 2003;55(9):583-93.
2003: Takeshi Itoh; Takashi Gojobori
[Large-scale analysis by full-length cDNA sequences].
Tanpakushitsu kakusan koso. Protein, nucleic acid, enzyme 2003;48(14):1962-7.
2003: Tomoyoshi Komiyama; Kazuho Ikeo; Takashi Gojobori
Where is the origin of the Japanese gamecocks?
Gene 2003;317(1-2):195-202.
2003: Kinya Ota; Yoshio Tateno; Takashi Gojobori
Highly differentiated and conserved sex chromosome in fish species (Aulopus japonicus: Teleostei, Aulopidae).
Gene 2003;317(1-2):187-93.
2003: Kohji Hotta; Hiroki Takahashi; Naoto Ueno; Takashi Gojobori
A genome-wide survey of the genes for planar polarity signaling or convergent extension-related genes in Ciona intestinalis and phylogenetic comparisons of evolutionary conserved signaling components.
Gene 2003;317(1-2):165-85.
2003: Yoji Nakamura; Yousuke Nishio; Kazuho Ikeo; Takashi Gojobori
The genome stability in Corynebacterium species due to lack of the recombinational repair system.
Gene 2003;317(1-2):149-55.
2003: Kazuho Ikeo; Jun Ishi-i; Takurou Tamura; Takashi Gojobori; Yoshio Tateno
CIBEX: center for information biology gene expression database.
Comptes rendus biologies 2003;326(10-11):1079-82.
2003: Yoshihito Niimura; Mahito Terabe; Takashi Gojobori; Kin-ichiro Miura
Comparative analysis of the base biases at the gene terminal portions in seven eukaryote genomes.
Nucleic acids research 2003;31(17):5195-201.
2003: Yousuke Nishio; Yoji Nakamura; Yutaka Kawarabayasi; Yoshihiro Usuda; Eiichiro Kimura; Shinichi Sugimoto; Kazuhiko Matsui; Akihiko Yamagishi; Hisashi Kikuchi; Kazuho Ikeo; Takashi Gojobori
Comparative complete genome sequence analysis of the amino acid replacements responsible for the thermostability of Corynebacterium efficiens.
Genome research 2003;13(7):1572-9.
2003: KATSUHIKO MINETA; Masumi Nakazawa; Francesc Cebria; Kazuho Ikeo; Kiyokazu Agata; Takashi Gojobori
Origin and evolutionary process of the CNS elucidated by comparative genomics analysis of planarian ESTs.
Proceedings of the National Academy of Sciences of the United States of America 2003;100(13):7666-71.
2003: Tatsuya Anzai; Takashi Shiina; Natsuki Kimura; Kazuyo Yanagiya; Sakae Kohara; Atsuko Shigenari; Tetsushi Yamagata; Jerzy K Kulski; Taeko K Naruse; Yoshifumi Fujimori; Yasuhito Fukuzumi; Masaaki Yamazaki; Hiroyuki Tashiro; Chie Iwamoto; Yumi Umehara; Tadashi Imanishi; Alice Meyer; Kazuho Ikeo; Takashi Gojobori; Seiamak Bahram; Hidetoshi Inoko
Comparative sequencing of human and chimpanzee MHC class I regions unveils insertions/deletions as the major path to genomic divergence.
Proceedings of the National Academy of Sciences of the United States of America 2003;100(13):7708-13.
2003: Tomoko Ishibashi; Masumi Nakazawa; Hiroaki Ono; Nori Satoh; Takashi Gojobori; Shigeki Fujiwara
Microarray analysis of embryonic retinoic acid target genes in the ascidian Ciona intestinalis.
Development, growth & differentiation 2003;45(3):249-59.
2003: Masumi Nakazawa; Francesc Cebrià; KATSUHIKO MINETA; Kazuho Ikeo; Kiyokazu Agata; Takashi Gojobori
Search for the evolutionary origin of a brain: planarian brain characterized by microarray.
Molecular biology and evolution 2003;20(5):784-91.
2003: Kozo Nakamura; Y Suzuki; Kazuho Ikeo; Yasuo Ikeda; Eiichi Sato; N T P Nguyen; Takashi Gojobori; Takeshi Mikami; Takayuki Miyazawa
Phylogenetic analysis of Vietnamese isolates of feline immunodeficiency virus: genetic diversity of subtype C.
Archives of virology 2003;148(4):783-91.
2003: Yoji Nakamura; Yoshiyuki Suzuki; Takashi Gojobori
[Haemophilus influenzae].
Nihon rinsho. Japanese journal of clinical medicine 2003;61 Suppl 3():716-21.
2003: Sara Pignatelli; Paola Dal Monte; Giada Rossini; Sunwen Chou; Takashi Gojobori; K Hanada; J J Guo; W Rawlinson; W Britt; Michael Mach; Maria P Landini
Human cytomegalovirus glycoprotein N (gpUL73-gN) genomic variants: identification of a novel subgroup, geographical distribution and evidence of positive selective pressure.
The Journal of general virology 2003;84(Pt 3):647-55.
2003: Kazuhiko Ohshima; Masahira Hattori; Tetsusi Yada; Takashi Gojobori; Yoshiyuki Sakaki; Norihiro Okada
Whole-genome screening indicates a possible burst of formation of processed pseudogenes and Alu repeats by particular L1 subfamilies in ancestral primates.
Genome biology 2003;4(11):R74.
2003: Satoru Miyazaki; Hideaki Sugawara; Takashi Gojobori; Yoshio Tateno
DNA Data Bank of Japan (DDBJ) in XML.
Nucleic acids research 2003;31(1):13-6.
2002: Yasushi Okazaki; M Furuno; T Kasukawa; J Adachi; H Bono; S Kondo; I Nikaido; N Osato; R Saito; H Suzuki; I Yamanaka; H Kiyosawa; K Yagi; Y Tomaru; Y Hasegawa; A Nogami; Christian Schönbach; Takashi Gojobori; R Baldarelli; D P Hill; Carol Bult; D A Hume; John Quackenbush; Lynn M Schriml; Alexander Kanapin; H Matsuda; S Batalov; K W Beisel; J A Blake; D Bradt; V Brusic; C Chothia; L E Corbani; S Cousins; E Dalla; T A Dragani; C F Fletcher; Alistair Forrest; K S Frazer; T Gaasterland; manuela gariboldi; C Gissi; A Godzik; J Gough; S Grimmond; S Gustincich; N Hirokawa; I J Jackson; E D Jarvis; A Kanai; Hideya Kawaji; Y Kawasawa; R M Kedzierski; B L King; A Konagaya; I V Kurochkin; Y Lee; B Lenhard; P A Lyons; D R Maglott; L Maltais; LUIGI MARCHIONNI; L McKenzie; H Miki; T Nagashima; K Numata; T Okido; W J Pavan; G Pertea; G Pesole; Nikolai Petrovsky; R Pillai; J U Pontius; D Qi; S Ramachandran; T Ravasi; J C Reed; D J Reed; J Reid; B Z Ring; M Ringwald; A Sandelin; C Schneider; Colin Semple; M Setou; K Shimada; R Sultana; Y Takenaka; Martin Taylor; Rohan Teasdale; M Tomita; R Verardo; L Wagner; Claes Wahlestedt; Y Wang; Y Watanabe; C Wells; L G Wilming; A Wynshaw-Boris; M Yanagisawa; I Yang; L Yang; Z Yuan; M Zavolan; Y Zhu; A Zimmer; piero carninci; N Hayatsu; T Hirozane-Kishikawa; H Konno; M Nakamura; N Sakazume; K Sato; T Shiraki; Kazunori Waki; J Kawai; K Aizawa; T Arakawa; S Fukuda; A Hara; W Hashizume; K Imotani; Y Ishii; Masayoshi Itoh; I Kagawa; A Miyazaki; K Sakai; D Sasaki; K Shibata; A Shinagawa; A Yasunishi; M Yoshino; R Waterston; E S Lander; J Rogers; E Birney; Y Hayashizaki
Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs.
Nature 2002;420(6915):563-73.
2002: Yasuhito Tanaka; Kousuke Hanada; Masashi Mizokami; Anthony E T Yeo; James Shih; Takashi Gojobori; Harvey Alter
A comparison of the molecular clock of hepatitis C virus in the United States and Japan predicts that hepatocellular carcinoma incidence in the United States will increase over the next two decades.
Proceedings of the National Academy of Sciences of the United States of America 2002;99(24):15584-9.
2002: Takuji Sasaki; Takashi Matsumoto; Kimiko Yamamoto; Katsumi Sakata; Tomoya Baba; Yuichi Katayose; Jianzhong Wu; Yoshihito Niimura; Zhukuan Cheng; Yoshiaki Nagamura; Baltazar A Antonio; Hiroyuki Kanamori; Satomi Hosokawa; Masatoshi Masukawa; Koji Arikawa; Yoshino Chiden; Mika Hayashi; Masako Okamoto; Tsuyu Ando; Hiroyoshi Aoki; Kohei Arita; Masao Hamada; Chizuko Harada; Saori Hijishita; Mikiko Honda; Yoko Ichikawa; Atsuko Idonuma; Masumi Iijima; Michiko Ikeda; Maiko Ikeno; Sachie Ito; Tomoko Ito; Yuichi Ito; Yukiyo Ito; Aki Iwabuchi; Kozue Kamiya; Wataru Karasawa; Satoshi Katagiri; Ari Kikuta; Noriko Kobayashi; Izumi Kono; Kayo Machita; Tomoko Maehara; Hiroshi Mizuno; Tatsumi Mizubayashi; Yoshiyuki Mukai; Hideki Nagasaki; Marina Nakashima; Yuko Nakama; Yumi Nakamichi; Mari Nakamura; Nobukazu Namiki; Manami Negishi; Isamu Ohta; Nozomi Ono; Shoko Saji; Kumiko Sakai; Michie Shibata; Takanori Shimokawa; Ayahiko Shomura; Jianyu Song; Yuka Takazaki; Kimihiro Terasawa; Kumiko Tsuji; Kazunori Waki; Harumi Yamagata; Hiroko Yamane; Shoji Yoshiki; Rie Yoshihara; Kazuko Yukawa; Huisun Zhong; Hisakazu Iwama; Toshinori Endo; Hidetaka Ito; Jang Ho Hahn; Ho-Il Kim; Moo-Young Eun; Masahiro Yano; Jiming Jiang; Takashi Gojobori
The genome sequence and structure of rice chromosome 1.
Nature 2002;420(6913):312-6.
2002: Hisakazu Iwama; Takashi Gojobori
Identification of neurotransmitter receptor genes under significantly relaxed selective constraint by orthologous gene comparisons between humans and rodents.
Molecular biology and evolution 2002;19(11):1891-901.
2002: Francesc Cebrià; Chiyoko Kobayashi; Yoshihiko Umesono; Masumi Nakazawa; KATSUHIKO MINETA; Kazuho Ikeo; Takashi Gojobori; Mari Itoh; Masanori Taira; Alejandro Sanchez; Kiyokazu Agata
FGFR-related gene nou-darake restricts brain tissues to the head region of planarians.
Nature 2002;419(6907):620-4.
2002: Kazuya Ogawa; Shogo Ishihara; Yumi Saito; KATSUHIKO MINETA; Masumi Nakazawa; Kazuho Ikeo; Takashi Gojobori; Kenji Watanabe; Kiyokazu Agata
Induction of a noggin-like gene by ectopic DV interaction during planarian regeneration.
Developmental biology 2002;250(1):59-70.
2002: Christian Elmerot; Ulfur Arnason; Takashi Gojobori; Axel Janke
The mitochondrial genome of the pufferfish, Fugu rubripes, and ordinal teleostean relationships.
Gene 2002;295(2):163-72.
2002: Kazuhiko Katayama; Haruko Shirato-Horikoshi; Shigeyuki Kojima; Tsutomu Kageyama; Tomoichiro Oka; Fuminori B Hoshino; Shuetsu Fukushi; Michiyo Shinohara; Kazue Uchida; Yoshiyuki Suzuki; Takashi Gojobori; Naokazu Takeda
Phylogenetic analysis of the complete genome of 18 Norwalk-like viruses.
Virology 2002;299(2):225-239.
2002: Taku Isobe; Masayasu Yoshino; Ken-Ichi Mizuno; Kirsten Fischer Lindahl; Tsuyoshi Koide; Silvana Gaudieri; Takashi Gojobori; Toshihiko Shiroishi
Molecular characterization of the Pb recombination hotspot in the mouse major histocompatibility complex class II region.
Genomics 2002;80(2):229-35.
2002: Francesc Cebrià; Tomomi Kudome; Masumi Nakazawa; KATSUHIKO MINETA; Kazuho Ikeo; Takashi Gojobori; Kiyokazu Agata
The expression of neural-specific genes reveals the structural and molecular complexity of the planarian central nervous system.
Mechanisms of development 2002;116(1-2):199-204.
2002: Takashi Gojobori
[Genomic evolution of pathogenic bacteria and horizontal gene transfer].
Nihon Hansenbyō Gakkai zasshi = Japanese journal of leprosy : official organ of the Japanese Leprosy Association 2002;71(2):131-2.
2002: Sumiko Kunihiro; Yuichi Kawanishi; Motoaki Sano; Kimitoshi Naito; Yukio Matsuura; Yoshio Tateno; Takashi Gojobori; Youhei Yamagata; Keietsu Abe; Masayuki Machida
A polymerase chain reaction-based method for cloning novel members of a gene family using a combination of degenerate and inhibitory primers.
Gene 2002;289(1-2):177-84.
2002: Jaime E Blair; Kazuho Ikeo; Takashi Gojobori; S Blair Hedges
The evolutionary position of nematodes.
BMC evolutionary biology 2002;2():7.
2002: Francesc Cebrià; Masumi Nakazawa; KATSUHIKO MINETA; Kazuho Ikeo; Takashi Gojobori; Kiyokazu Agata
Dissecting planarian central nervous system regeneration by the expression of neural-specific genes.
Development, growth & differentiation 2002;44(2):135-46.
2002: Hiroshi Akashi; Takashi Gojobori
Metabolic efficiency and amino acid composition in the proteomes of Escherichia coli and Bacillus subtilis.
Proceedings of the National Academy of Sciences of the United States of America 2002;99(6):3695-700.
2002: Giorgio Bernardi; Takashi Gojobori; Martin Kreitman
Zuckerkandl Prize.
Journal of molecular evolution 2002;54(2):143.
2002: Yoshihito Niimura; Takashi Gojobori
In silico chromosome staining: reconstruction of Giemsa bands from the whole human genome sequence.
Proceedings of the National Academy of Sciences of the United States of America 2002;99(2):797-802.
2002: Yasunari Ogihara; K Isono; T Kojima; A Endo; M Hanaoka; T Shiina; Toru Terachi; S Utsugi; M Murata; N Mori; Shigeo Takumi; Kazuho Ikeo; Takashi Gojobori; R Murai; Koji Murai; Yoshihiro Matsuoka; Y Ohnishi; H Tajiri; Koichiro Tsunewaki
Structural features of a wheat plastome as revealed by complete sequencing of chloroplast DNA.
Molecular genetics and genomics : MGG 2002;266(5):740-6.
2002: Yoshio Tateno; Tadashi Imanishi; Satoru Miyazaki; Kaoru Fukami-Kobayashi; N Saitou; Hideaki Sugawara; Takashi Gojobori
DNA Data Bank of Japan (DDBJ) for genome scale research in life science.
Nucleic acids research 2002;30(1):27-30.
2001: Shigeru Sato; M Tanaka; H Miura; Kazuho Ikeo; Takashi Gojobori; T Takeuchi; Hiroaki Yamamoto
Functional conservation of the promoter regions of vertebrate tyrosinase genes.
The journal of investigative dermatology. Symposium proceedings / the Society for Investigative Dermatology, Inc. [and] European Society for Dermatological Research 2001;6(1):10-8.
2001: Yoshiyuki Suzuki; Takashi Gojobori
Positively selected amino acid sites in the entire coding region of hepatitis C virus subtype 1b.
Gene 2001;276(1-2):83-7.
2001: Matthew Bellgard; David Schibeci; E Trifonov; Takashi Gojobori
Early detection of G + C differences in bacterial species inferred from the comparative analysis of the two completely sequenced Helicobacter pylori strains.
Journal of molecular evolution 2001;53(4-5):465-8.
2001: K Tsunoyama; M I Bellgard; Takashi Gojobori
Intragenic variation of synonymous substitution rates is caused by nonrandom mutations at methylated CpG.
Journal of molecular evolution 2001;53(4-5):456-64.
2001: H Iwama; Takashi Gojobori
[Evolution of molecules involved with neural transmission: in the case of catecholamine receptors and G protein alpha subunits].
Tanpakushitsu kakusan koso. Protein, nucleic acid, enzyme 2001;46(11 Suppl):1586-93.
2001: Y Suzuki; Takashi Gojobori; M Nei
ADAPTSITE: detecting natural selection at single amino acid sites.
Bioinformatics (Oxford, England) 2001;17(7):660-1.
2001: T Sato; M Terabe; H Watanabe; Takashi Gojobori; C Hori-Takemoto
Codon and base biases after the initiation codon of the open reading frames in the Escherichia coli genome and their influence on the translation efficiency.
Journal of biochemistry 2001;129(6):851-60.
2001: J Kawai; A Shinagawa; K Shibata; M Yoshino; Masayoshi Itoh; Y Ishii; T Arakawa; A Hara; Y Fukunishi; H Konno; J Adachi; S Fukuda; K Aizawa; M Izawa; K Nishi; H Kiyosawa; S Kondo; I Yamanaka; T Saito; Yasushi Okazaki; Takashi Gojobori; H Bono; T Kasukawa; R Saito; K Kadota; H Matsuda; Michael Ashburner; S Batalov; T Casavant; W Fleischmann; T Gaasterland; C Gissi; B King; H Kochiwa; P Kuehl; S Lewis; Y Matsuo; I Nikaido; G Pesole; John Quackenbush; Lynn M Schriml; F Staubli; R Suzuki; M Tomita; L Wagner; T Washio; K Sakai; T Okido; M Furuno; H Aono; R Baldarelli; G Barsh; J Blake; D Boffelli; N Bojunga; piero carninci; M F de Bonaldo; M J Brownstein; Carol Bult; C Fletcher; M Fujita; manuela gariboldi; S Gustincich; D Hill; Martin Hofmann-Apitius; D A Hume; M Kamiya; N H Lee; P Lyons; LUIGI MARCHIONNI; J Mashima; J Mazzarelli; P Mombaerts; P Nordone; B Ring; M Ringwald; ivan rodriguez; N Sakamoto; H Sasaki; K Sato; Christian Schönbach; Tsukasa Seya; Y Shibata; K F Storch; H Suzuki; K Toyo-oka; K H Wang; C Weitz; C Whittaker; L Wilming; A Wynshaw-Boris; K Yoshida; Y Hasegawa; Hideya Kawaji; S Kohtsuki; Y Hayashizaki
Functional annotation of a full-length mouse cDNA collection.
Nature 2001;409(6821):685-90.
2000: Nobuaki Shimizu; Takashi Gojobori
How can human and simian immunodeficiency viruses utilize chemokine receptors as their coreceptors?
Gene 2000;259(1-2):199-205.
2000: Reiko Toyoda; Shigeru Sato; Kazuho Ikeo; Takashi Gojobori; Takaharu Numakunai; Colin R Goding; Hiroaki Yamamoto
Pigment cell-specific expression of the tyrosinase gene in ascidians has a different regulatory mechanism from vertebrates.
Gene 2000;259(1-2):159-70.
2000: K Ota; T Kobayashi; K Ueno; Takashi Gojobori
Evolution of heteromorphic sex chromosomes in the order Aulopiformes.
Gene 2000;259(1-2):25-30.
2000: A Iwata; T Kobayashi; Kazuho Ikeo; T Imanishi; H Ono; Y Umehara; C Hamamatsu; K Sugiyama; Y Ikeda; K Sakamoto; A Fumihito; S Ohno; Takashi Gojobori
Evolutionary aspects of gobioid fishes based upon a phylogenetic analysis of mitochondrial cytochrome B genes.
Gene 2000;259(1-2):5-15.
2000: Silvana Gaudieri; Roger L Dawkins; K Habara; Jerzy K Kulski; Takashi Gojobori
SNP profile within the human major histocompatibility complex reveals an extreme and interrupted level of nucleotide diversity.
Genome research 2000;10(10):1579-86.
2000: S Nakane; Susumu Shirabe; Ryozo Moriuchi; A Mizokami; Takafumi Furuya; Yoshihiro Nishiura; S Okazaki; N Yoshizuka; Y Suzuki; Tatsufumi Nakamura; Shigeru Katamine; Takashi Gojobori; Katsumi Eguchi
Comparative molecular analysis of HTLV-I proviral DNA in HTLV-I infected members of a family with a discordant HTLV-I-associated myelopathy in monozygotic twins.
Journal of neurovirology 2000;6(4):275-83.
2000: M Seki; Yasuhito Higashiyama; A Mizokami; Jun-ichi Kadota; Ryozo Moriuchi; Shigeru Kohno; Y Suzuki; K Takahashi; Takashi Gojobori; Shigeru Katamine
Up-regulation of human T lymphotropic virus type 1 (HTLV-1) tax/rex mRNA in infected lung tissues.
Clinical and experimental immunology 2000;120(3):488-98.
2000: Y Yamaguchi-Kabata; Takashi Gojobori
Reevaluation of amino acid variability of the human immunodeficiency virus type 1 gp120 envelope glycoprotein and prediction of new discontinuous epitopes.
Journal of virology 2000;74(9):4335-50.
2000: Y Nakamura; Takashi Gojobori; T Ikemura
Codon usage tabulated from international DNA sequence databases: status for the year 2000.
Nucleic acids research 2000;28(1):292.
2000: Yoshio Tateno; Satoru Miyazaki; M Ota; Hideaki Sugawara; Takashi Gojobori
DNA data bank of Japan (DDBJ) in collaboration with mass sequencing teams.
Nucleic acids research 2000;28(1):24-6.
1999: Daisuke Hayasaka; Y Suzuki; Hiroaki Kariwa; Leonid I Ivanov; V Volkov; V Demenev; Tetsuya Mizutani; Takashi Gojobori; Ikuo Takashima
Phylogenetic and virulence analysis of tick-borne encephalitis viruses from Japan and far-Eastern Russia.
The Journal of general virology 1999;80 ( Pt 12)():3127-35.
1999: Y Suzuki; Takashi Gojobori
A method for detecting positive selection at single amino acid sites.
Molecular biology and evolution 1999;16(10):1315-28.
1999: Silvana Gaudieri; Jerzy K Kulski; Roger L Dawkins; Takashi Gojobori
Extensive nucleotide variability within a 370 kb sequence from the central region of the major histocompatibility complex.
Gene 1999;238(1):157-61.
1999: MI Bellgard; Takashi Gojobori
Significant differences between the G+C content of synonymous codons in orthologous genes and the genomic G+C content.
Gene 1999;238(1):33-7.
1999: Akira Tazaki; S Gaudieri; Kazuho Ikeo; Takashi Gojobori; Kenji Watanabe; Kiyokazu Agata
Neural network in planarian revealed by an antibody against planarian synaptotagmin homologue.
Biochemical and biophysical research communications 1999;260(2):426-32.
1999: Shigeru Sato; Reiko Toyoda; Y Katsuyama; Hidetoshi Saiga; Takaharu Numakunai; Kazuho Ikeo; Takashi Gojobori; Ichiro Yajima; Hiroaki Yamamoto
Structure and developmental expression of the ascidian TRP gene: insights into the evolution of pigment cell-specific gene expression.
Developmental dynamics : an official publication of the American Association of Anatomists 1999;215(3):225-37.
1999: Matthew Bellgard; Takashi Gojobori
Inferring the direction of evolutionary changes of genomic base composition.
Trends in genetics : TIG 1999;15(7):254-6.
1999: Silvana Gaudieri; Jerzy K Kulski; Roger L Dawkins; Takashi Gojobori
Different evolutionary histories in two subgenomic regions of the major histocompatibility complex.
Genome research 1999;9(6):541-9.
1999: Y Hatta; Jun Ohashi; T Imanishi; H Kamiyama; M Iha; T Simabukuro; A Ogawa; Harunari Tanaka; T Akaza; Takashi Gojobori; Takeo Juji; Katsushi Tokunaga
HLA genes and haplotypes in Ryukyuans suggest recent gene flow to the Okinawa Islands.
Human biology 1999;71(3):353-65.
1999: MI Bellgard; T Itoh; H Watanabe; T Imanishi; Takashi Gojobori
Dynamic evolution of genomes and the concept of genome space.
Annals of the New York Academy of Sciences 1999;870():293-300.
1999: N Takezaki; Takashi Gojobori
Correct and incorrect vertebrate phylogenies obtained by the entire mitochondrial DNA sequences.
Molecular biology and evolution 1999;16(5):590-601.
1999: Takashi Shiina; A Oka; Tadashi Imanishi; K Hanzawa; Takashi Gojobori; S Watanabe; Hidetoshi Inoko
Multiple class I loci expressed by the quail Mhc.
Immunogenetics 1999;49(5):456-60.
1999: Takashi Shiina; C Shimizu; A Oka; Y Teraoka; Tadashi Imanishi; Takashi Gojobori; K Hanzawa; S Watanabe; Hidetoshi Inoko
Gene organization of the quail major histocompatibility complex (MhcCoja) class I gene region.
Immunogenetics 1999;49(5):384-94.
1999: T Itoh; Toshitsugu Okayama; H Hashimoto; J Takeda; R W Davis; H Mori; Takashi Gojobori
A low rate of nucleotide changes in Escherichia coli K-12 estimated from a comparison of the genome sequences between two different substrains.
FEBS letters 1999;450(1-2):72-6.
1999: Y Suzuki; Kazuhiko Katayama; Shuetsu Fukushi; Tsutomu Kageyama; A Oya; H Okamura; Y Tanaka; M Mizokami; Takashi Gojobori
Slow evolutionary rate of GB virus C/hepatitis G virus.
Journal of molecular evolution 1999;48(4):383-9.
1999: T Itoh; K Takemoto; H Mori; Takashi Gojobori
Evolutionary instability of operon structures disclosed by sequence comparisons of complete microbial genomes.
Molecular biology and evolution 1999;16(3):332-46.
1999: MI Bellgard; Takashi Gojobori
Identification of a ribonuclease H gene in both Mycoplasma genitalium and Mycoplasma pneumoniae by a new method for exhaustive identification of ORFs in the complete genome sequences.
FEBS letters 1999;445(1):6-8.
1999: H Tanaka; F Ren; T Okayama; Takashi Gojobori
Topology selection in unrooted molecular phylogenetic tree by minimum model-based complexity method.
Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing 1999;():326-37.
1999: Ron Ophir; T Itoh; Dan Graur; Takashi Gojobori
A simple method for estimating the intensity of purifying selection in protein-coding genes.
Molecular biology and evolution 1999;16(1):49-53.
1999: Y Nakamura; Takashi Gojobori; T Ikemura
Codon usage tabulated from the international DNA sequence databases; its status 1999.
Nucleic acids research 1999;27(1):292.
1999: Hideaki Sugawara; Satoru Miyazaki; Takashi Gojobori; Yoshio Tateno
DNA Data Bank of Japan dealing with large-scale data submission.
Nucleic acids research 1999;27(1):25-8.
1998: M Horiuchi; Y Yamaguchi; Takashi Gojobori; M Mochizuki; H Nagasawa; Y Toyoda; N Ishiguro; M Shinagawa
Differences in the evolutionary pattern of feline panleukopenia virus and canine parvovirus.
Virology 1998;249(2):440-52.
1998: Y Suzuki; Takashi Gojobori; Osamu Nakagomi
Intragenic recombinations in rotaviruses.
FEBS letters 1998;427(2):183-7.
1998: Yoshihiko Katsuyama; Hidetoshi Inoko; T Imanishi; Nobuhisa Mizuki; Takashi Gojobori; Masao Ota
Genetic relationships among Japanese, northern Han, Hui, Uygur, Kazakh, Greek, Saudi Arabian, and Italian populations based on allelic frequencies at four VNTR (D1S80, D4S43, COL2A1, D17S5) and one STR (ACTBP2) loci.
Human heredity 1998;48(3):126-37.
1998: K Tsunoyama; Takashi Gojobori
Evolution of nicotinic acetylcholine receptor subunits.
Molecular biology and evolution 1998;15(5):518-27.
1998: Nobuhisa Mizuki; Shigeaki Ohno; H Ando; T Sato; T Imanishi; Takashi Gojobori; M Ishihara; K Goto; Masao Ota; Z Geng; L Geng; G Li; Hidetoshi Inoko
Major histocompatibility complex class II alleles in an Uygur population in the Silk Route of Northwest China.
Tissue antigens 1998;51(3):287-92.
1998: Yasuhito Tanaka; Masashi Mizokami; Etsuro Orito; KI Ohba; Takanobu Kato; Y Kondo; Innocent Mboudjeka; Leopold Zekeng; Lazare Kaptue; Blaise Bikandou; P M'Pele; Jun Takehisa; Masanori Hayami; Y Suzuki; Takashi Gojobori
African origin of GB virus C/hepatitis G virus.
FEBS letters 1998;423(2):143-8.
1998: F Ren; T Hiroshi; T Okayama; Takashi Gojobori
The application of model-based complexity inference method to molecular evolution analysis.
Studies in health technology and informatics 1998;52 Pt 1():367-71.
1998: B Robertson; G Myers; C Howard; T Brettin; Jens Bukh; B Gaschen; Takashi Gojobori; Geert Maertens; M Mizokami; Omana V Nainan; S Netesov; K Nishioka; Tadasu Shin-i; P Simmonds; D Smith; Lieven Stuyver; A Weiner
Classification, nomenclature, and database development for hepatitis C virus (HCV) and related viruses: proposals for standardization. International Committee on Virus Taxonomy.
Archives of virology 1998;143(12):2493-503.
1998: Toshitsugu Okayama; T Tamura; Takashi Gojobori; Yoshio Tateno; Kazuho Ikeo; Satoru Miyazaki; Kaoru Fukami-Kobayashi; Hideaki Sugawara
Formal design and implementation of an improved DDBJ DNA database with a new schema and object-oriented library.
Bioinformatics (Oxford, England) 1998;14(6):472-8.
1998: Y Suzuki; Takashi Gojobori
The origin and evolution of human T-cell lymphotropic virus types I and II.
Virus genes 1998;16(1):69-84.
1998: Y Nakamura; Takashi Gojobori; T Ikemura
Codon usage tabulated from the international DNA sequence databases.
Nucleic acids research 1998;26(1):334.
1998: Guy Perrière; Manolo Gouy; Takashi Gojobori
The non-redundant Bacillus subtilis (NRSub) database: update 1998.
Nucleic acids research 1998;26(1):60-2.
1998: Yoshio Tateno; Kaoru Fukami-Kobayashi; Satoru Miyazaki; Hideaki Sugawara; Takashi Gojobori
DNA Data Bank of Japan at work on genome sequence data.
Nucleic acids research 1998;26(1):16-20.
1997: T Endo; T Imanishi; Takashi Gojobori; H Inoko
Evolutionary significance of intra-genome duplications on human chromosomes.
Gene 1997;205(1-2):19-27.
1997: H Watanabe; Takashi Gojobori; K Miura; H Watanabea
Bacterial features in the genome of Methanococcus jannaschii in terms of gene composition and biased base composition in ORFs and their surrounding regions.
Gene 1997;205(1-2):7-18.
1997: Y Tateno; Takashi Gojobori
[Genome biology and DNA data bank].
Tanpakushitsu kakusan koso. Protein, nucleic acid, enzyme 1997;42(17 Suppl):3052-61.
1997: M Mizuki; Shigeaki Ohno; H Ando; T Sato; T Imanishi; Takashi Gojobori; M Ishihara; Masao Ota; Z Geng; L Geng; G Li; M Kimura; Hidetoshi Inoko
Major histocompatibility complex class II alleles in Kazak and Han populations in the Silk Route of northwestern China.
Tissue antigens 1997;50(5):527-34.
1997: Tadashi Kurihara; M Sakuma; Takashi Gojobori
Molecular evolution of myelin proteolipid protein.
Biochemical and biophysical research communications 1997;237(3):559-61.
1997: Y Suzuki; Takashi Gojobori
The origin and evolution of Ebola and Marburg viruses.
Molecular biology and evolution 1997;14(8):800-6.
1997: T Tenzen; T Yamagata; Tatsuo Fukagawa; K Sugaya; A Ando; H Inoko; Takashi Gojobori; A Fujiyama; K Okumura; Toshimichi Ikemura
Precise switching of DNA replication timing in the GC content transition area in the human major histocompatibility complex.
Molecular and cellular biology 1997;17(7):4043-50.
1997: Shigeru Sato; H Masuya; Takaharu Numakunai; N Satoh; Kazuho Ikeo; Takashi Gojobori; K Tamura; H Ide; T Takeuchi; Hiroaki Yamamoto
Ascidian tyrosinase gene: its unique structure and expression in the developing brain.
Developmental dynamics : an official publication of the American Association of Anatomists 1997;208(3):363-74.
1997: Y Yamaguchi; Takashi Gojobori
Evolutionary mechanisms and population dynamics of the third variable envelope region of HIV within single hosts.
Proceedings of the National Academy of Sciences of the United States of America 1997;94(4):1264-9.
1997: H Watanabe; Takashi Gojobori; M Terabe; M Wakiyama; K Miura
Characteristic distribution of bases and codons around the initiation and termination codons in whole reading frames in bacteria and yeast genomes.
Nucleic acids symposium series 1997;(37):297-8.
1997: H Watanabe; H Mori; T Itoh; Takashi Gojobori
Genome plasticity as a paradigm of eubacteria evolution.
Journal of molecular evolution 1997;44 Suppl 1():S57-64.
1997: Yoshio Tateno; Kazuho Ikeo; T Imanishi; H Watanabe; T Endo; Y Yamaguchi; Y Suzuki; K Takahashi; K Tsunoyama; M Kawai; Y Kawanishi; K Naitou; Takashi Gojobori
Evolutionary motif and its biological and structural significance.
Journal of molecular evolution 1997;44 Suppl 1():S38-43.
1997: Y Okamoto; Kouichi Shiosaki; Yasuyuki Eda; Sachio Tokiyoshi; Y Yamaguchi; Takashi Gojobori; T Hachimori; S Yamazaki; M Hondo
Father-to-mother-to-infant transmission of HIV-1: clonally transmitted isolate of infant mutates more rapidly than that of the mother and rapidly loses reactivity with neutralizing antibody.
Microbiology and immunology 1997;41(2):131-8.
1997: Masashi Mizokami; Etsuro Orito; K Ohba; Kazuho Ikeo; J Y Lau; Takashi Gojobori
Constrained evolution with respect to gene overlap of hepatitis B virus.
Journal of molecular evolution 1997;44 Suppl 1():S83-90.
1997: Y Nakamura; Takashi Gojobori; T Ikemura
Codon usage tabulated from the international DNA sequence databases.
Nucleic acids research 1997;25(1):244-5.
1997: Guy Perrière; I Moszer; Takashi Gojobori
The NRSub database: update 1997.
Nucleic acids research 1997;25(1):53-6.
1997: Yoshio Tateno; Takashi Gojobori
DNA Data Bank of Japan in the age of information biology.
Nucleic acids research 1997;25(1):14-7.
1996: Y Taniguchi; Y Katsumata; S Koido; H Suemizu; S Yoshimura; T Moriuchi; K Okumura; K Kagotani; H Taguchi; T Imanishi; Takashi Gojobori; H Inoko
Cloning, sequencing, and chromosomal localization of two tandemly arranged human pseudogenes for the proliferating cell nuclear antigen (PCNA).
Mammalian genome : official journal of the International Mammalian Genome Society 1996;7(12):906-8.
1996: A Fumihito; T Miyake; M Takada; R Shingu; T Endo; Takashi Gojobori; N Kondo; S Ohno
Monophyletic origin and unique dispersal patterns of domestic fowls.
Proceedings of the National Academy of Sciences of the United States of America 1996;93(13):6792-5.
1996: Y Yamaguchi; Takashi Gojobori
[Molecular evolution of viruses].
Uirusu 1996;46(1):1-6.
1996: M Mizokami; Takashi Gojobori; KI Ohba; Kazuho Ikeo; Xian-min Ge; Tomoyoshi Ohno; Etsuro Orito; Johnson Y N Lau
Hepatitis C virus types 7, 8 and 9 should be classified as type 6 subtypes.
Journal of hepatology 1996;24(5):622-4.
1996: T Endo; Kazuho Ikeo; Takashi Gojobori
Large-scale search for genes on which positive selection may operate.
Molecular biology and evolution 1996;13(5):685-90.
1996: KI Ohba; M Mizokami; Johnson Y N Lau; Etsuro Orito; Kazuho Ikeo; Takashi Gojobori
Evolutionary relationship of hepatitis C, pesti-, flavi-, plantviruses, and newly discovered GB hepatitis agents.
FEBS letters 1996;378(3):232-4.
1996: Guy Perrière; I Moszer; Takashi Gojobori
NRSub: a non-redundant database for Bacillus subtilis.
Nucleic acids research 1996;24(1):41-5.
1996: Y Nakamura; K Wada; Y Wada; H Doi; S Kanaya; Takashi Gojobori; T Ikemura
Codon usage tabulated from the international DNA sequence databases.
Nucleic acids research 1996;24(1):214-5.
1995: KI Ohba; M Mizokami; Tomoyoshi Ohno; K Suzuki; Etsuro Orito; Johnson Y N Lau; Y Ina; Kazuho Ikeo; Takashi Gojobori
Relationships between serotypes and genotypes of hepatitis B virus: genetic classification of HBV by use of surface genes.
Virus research 1995;39(1):25-34.
1995: L Geng; T Imanishi; K Tokunaga; D Zhu; Nobuhisa Mizuki; S Xu; Z Geng; Takashi Gojobori; K Tsuji; Hidetoshi Inoko
Determination of HLA class II alleles by genotyping in a Manchu population in the northern part of China and its relationship with Han and Japanese populations.
Tissue antigens 1995;46(2):111-6.
1995: KI Ohba; M Mizokami; Tomoyoshi Ohno; K Suzuki; Etsuro Orito; Y Ina; Johnson Y N Lau; Takashi Gojobori
Classification of hepatitis C virus into major types and subtypes based on molecular evolutionary analysis.
Virus research 1995;36(2-3):201-14.
1995: Kazuho Ikeo; K Takahashi; Takashi Gojobori
Different evolutionary histories of kringle and protease domains in serine proteases: a typical example of domain evolution.
Journal of molecular evolution 1995;40(3):331-6.
1995: F Ren; H Tanaka; Takashi Gojobori
Construction of molecular evolutionary phylogenetic trees from DNA sequences based on minimum complexity principle.
Computer methods and programs in biomedicine 1995;46(2):121-30.
1995: F R Ren; H Tanaka; N Fukuda; Takashi Gojobori
Minimum description principle applied to construction of molecular phylogenetic tree.
Medinfo. MEDINFO 1995;8 Pt 2():899-903.
1995: Takashi Shiina; Asako Ando; T Imanishi; Hisako Kawata; K Hanzawa; Takashi Gojobori; Hidetoshi Inoko; S Watanabe
Isolation and characterization of cDNA clones for Japanese quail (Coturnix japonica) major histocompatibility complex (MhcCoja) class I molecules.
Immunogenetics 1995;42(3):213-6.
1994: Guy Perrière; Manolo Gouy; Takashi Gojobori
NRSub: a non-redundant data base for the Bacillus subtilis genome.
Nucleic acids research 1994;22(25):5525-9.
1994: K Suzuki; M Mizokami; Johnson Y N Lau; N Mizoguchi; K Kato; Y Mizuno; T Sodeyama; K Kiyosawa; Takashi Gojobori
Confirmation of hepatitis C virus transmission through needlestick accidents by molecular evolutionary analysis.
The Journal of infectious diseases 1994;170(6):1575-8.
1994: M Mizokami; Johnson Y N Lau; K Suzuki; T Nakano; Takashi Gojobori
Differential sensitivity of hepatitis C virus quasispecies to interferon-alpha therapy.
Journal of hepatology 1994;21(5):884-6.
1994: Takashi Gojobori; Kazuho Ikeo
[Evolution based upon genetic information].
Tanpakushitsu kakusan koso. Protein, nucleic acid, enzyme 1994;39(15):2418-26.
1994: Takashi Gojobori; Y Yamaguchi; Kazuho Ikeo; M Mizokami
Evolution of pathogenic viruses with special reference to the rates of synonymous and nonsynonymous substitutions.
Idengaku zasshi 1994;69(5):481-8.
1994: M Mizokami; Takashi Gojobori; J Y Lau
Molecular evolutionary virology: its application to hepatitis C virus.
Gastroenterology 1994;107(4):1181-2.
1994: Y Ina; Takashi Gojobori
Statistical analysis of nucleotide sequences of the hemagglutinin gene of human influenza A viruses.
Proceedings of the National Academy of Sciences of the United States of America 1994;91(18):8388-92.
1994: T Shin'i; Takashi Gojobori
[DDBJ database and genetic information analysis softwares].
Tanpakushitsu kakusan koso. Protein, nucleic acid, enzyme 1994;39(11):1927-43.
1994: K Ishibashi; S Sasaki; K Fushimi; S Uchida; M Kuwahara; H Saito; T Furukawa; K Nakajima; Y Yamaguchi; Takashi Gojobori
Molecular cloning and expression of a member of the aquaporin family with permeability to glycerol and urea in addition to water expressed at the basolateral membrane of kidney collecting duct cells.
Proceedings of the National Academy of Sciences of the United States of America 1994;91(14):6269-73.
1994: Takashi Gojobori; Kazuho Ikeo
Molecular evolution of serine protease and its inhibitor with special reference to domain evolution.
Philosophical transactions of the Royal Society of London. Series B, Biological sciences 1994;344(1310):411-5.
1994: Y Ina; M Mizokami; K Ohba; Takashi Gojobori
Reduction of synonymous substitutions in the core protein gene of hepatitis C virus.
Journal of molecular evolution 1994;38(1):50-6.
1994: H Kitakami; Y Tateno; Takashi Gojobori
Toward unification of taxonomy databases in a distributed computer environment.
Proceedings / ... International Conference on Intelligent Systems for Molecular Biology ; ISMB. International Conference on Intelligent Systems for Molecular Biology 1994;2():227-35.
1993: Takashi Gojobori
[New developments of life science in connection with information science--future of bio-informatics].
Tanpakushitsu kakusan koso. Protein, nucleic acid, enzyme 1993;38(12):2070-1.
1992: Takashi Gojobori
[Molecular evolution of viruses].
Tanpakushitsu kakusan koso. Protein, nucleic acid, enzyme 1992;37(14 Suppl):2895-903.
1992: N Shimizu; Y Takeuchi; T Naruse; M Inagaki; E Moriyama; Takashi Gojobori; H Hoshino
Six strains of human immunodeficiency virus type 1 isolated in Japan and their molecular phylogeny.
Journal of molecular evolution 1992;35(4):329-36.
1992: T Imanishi; Takashi Gojobori
Patterns of nucleotide substitutions inferred from the phylogenies of the class I major histocompatibility complex genes.
Journal of molecular evolution 1992;35(3):196-204.
1992: Kazuho Ikeo; K Takahashi; Takashi Gojobori
Evolutionary origin of a Kunitz-type trypsin inhibitor domain inserted in the amyloid beta precursor protein of Alzheimer's disease.
Journal of molecular evolution 1992;34(6):536-43.
1992: K Wada; Y Wada; F Ishibashi; Takashi Gojobori; T Ikemura
Codon usage tabulated from the GenBank genetic sequence data.
Nucleic acids research 1992;20 Suppl():2111-8.
1992: E N Moriyama; Takashi Gojobori
Rates of synonymous substitution and base composition of nuclear genes in Drosophila.
Genetics 1992;130(4):855-64.
1991: Kazuho Ikeo; K Takahashi; Takashi Gojobori
Evolutionary origin of numerous kringles in human and simian apolipoprotein(a).
FEBS letters 1991;287(1-2):146-8.
1991: E N Moriyama; Y Ina; Kazuho Ikeo; N Shimizu; Takashi Gojobori
Mutation pattern of human immunodeficiency virus gene.
Journal of molecular evolution 1991;32(5):360-3.
1991: K Wada; Y Wada; H Doi; F Ishibashi; Takashi Gojobori; T Ikemura
Codon usage tabulated from the GenBank genetic sequence data.
Nucleic acids research 1991;19 Suppl():1981-6.
1991: K Nerome; Y Kanegae; Y Yoshioka; S Itamura; M Ishida; Takashi Gojobori; A Oya
Evolutionary pathways of N2 neuraminidases of swine and human influenza A viruses: origin of the neuraminidase genes of two reassortants (H1N2) isolated from pigs.
The Journal of general virology 1991;72 ( Pt 3)():693-8.
1991: S Miura; K Ohtani; N Numata; M Niki; K Ohbo; Y Ina; Takashi Gojobori; Y Tanaka; H Tozawa; M Nakamura
Molecular cloning and characterization of a novel glycoprotein, gp34, that is specifically induced by the human T-cell leukemia virus type I transactivator p40tax.
Molecular and cellular biology 1991;11(3):1313-25.
1991: K Takahashi; Takashi Gojobori; M Tanifuji
Two-color cytofluorometry and cellular properties of the urokinase receptor associated with a human metastatic carcinomatous cell line.
Experimental cell research 1991;192(2):405-13.
1991: S Sugita; Y Yoshioka; S Itamura; Y Kanegae; K Oguchi; Takashi Gojobori; K Nerome; A Oya
Molecular evolution of hemagglutinin genes of H1N1 swine and human influenza A viruses.
Journal of molecular evolution 1991;32(1):16-23.
1990: Takashi Gojobori; E N Moriyama; M Kimura
Molecular clock of viral evolution, and the neutral theory.
Proceedings of the National Academy of Sciences of the United States of America 1990;87(24):10015-8.
1990: Y Ina; Takashi Gojobori
Molecular evolution of human T-cell leukemia virus.
Journal of molecular evolution 1990;31(6):493-9.
1990: Tomoyuki Miura; J Sakuragi; Masaki Kawamura; M Fukasawa; E N Moriyama; Takashi Gojobori; Koichi Ishikawa; J A Mingle; V B Nettey; Hirofumi Akari
Establishment of a phylogenetic survey system for AIDS-related lentiviruses and demonstration of a new HIV-2 subgroup.
AIDS (London, England) 1990;4(12):1257-61.
1990: Takashi Gojobori; E N Moriyama; Y Ina; Kazuho Ikeo; T Miura; H Tsujimoto; M Hayami; S Yokoyama
Evolutionary origin of human and simian immunodeficiency viruses.
Proceedings of the National Academy of Sciences of the United States of America 1990;87(11):4108-11.
1990: K Wada; S Aota; R Tsuchiya; F Ishibashi; Takashi Gojobori; T Ikemura
Codon usage tabulated from the GenBank genetic sequence data.
Nucleic acids research 1990;18 Suppl():2367-411.
1990: Takashi Gojobori; E N Moriyama; M Kimura
Statistical methods for estimating sequence divergence.
Methods in enzymology 1990;183():531-50.
1990: K Takahashi; K Ikeo; Takashi Gojobori; M Tanifuji
Local function of urokinase receptor at the adhesion contact sites of a metastatic tumor cell.
Thrombosis research. Supplement 1990;10():55-61.
1990: Toshihiko Shiroishi; N Hanzawa; Tomoko Sagai; M Ishiura; Takashi Gojobori; M Steinmetz; K Moriwaki
Recombinational hotspot specific to female meiosis in the mouse major histocompatibility complex.
Immunogenetics 1990;31(2):79-88.
1989: Hajime Tsujimoto; A Hasegawa; N Maki; M Fukasawa; T Miura; S Speidel; R W Cooper; E N Moriyama; Takashi Gojobori; M Hayami
Sequence of a novel simian immunodeficiency virus from a wild-caught African mandrill.
Nature 1989;341(6242):539-41.
1989: Etsuro Orito; M Mizokami; Y Ina; E N Moriyama; N Kameshima; M Yamamoto; Takashi Gojobori
Host-independent evolution and a genetic classification of the hepadnavirus family based on nucleotide sequences.
Proceedings of the National Academy of Sciences of the United States of America 1989;86(18):7059-62.
1989: Nobuaki Shimizu; T Okamoto; E N Moriyama; Y Takeuchi; Takashi Gojobori; Hiroo Hoshino
Patterns of nucleotide substitutions and implications for the immunological diversity of human immunodeficiency virus.
FEBS letters 1989;250(2):591-5.
1989: E N Moriyama; Takashi Gojobori
Evolution of nested genes with special reference to cuticle proteins in Drosophila melanogaster.
Journal of molecular evolution 1989;28(5):391-7.
1988: K Hayasaka; Takashi Gojobori; S Horai
Molecular phylogeny and evolution of primate mitochondrial DNA.
Molecular biology and evolution 1988;5(6):626-44.
1988: S Harihara; Naruya Saitou; M Hirai; Takashi Gojobori; K S Park; S Misawa; S B Ellepola; T Ishida; K Omoto
Mitochondrial DNA polymorphism among five Asian populations.
American journal of human genetics 1988;43(2):134-43.
1988: S Yokoyama; L Chung; Takashi Gojobori
Molecular evolution of the human immunodeficiency and related viruses.
Molecular biology and evolution 1988;5(3):237-51.
1988: K Hayasaka; S Horai; Takashi Gojobori; Shotake Takayoshi; K Nozawa; E Matsunaga
Phylogenetic relationships among Japanese, rhesus, Formosan, and crab-eating monkeys, inferred from restriction-enzyme analysis of mitochondrial DNAs.
Molecular biology and evolution 1988;5(3):270-81.
1988: S Aota; Takashi Gojobori; F Ishibashi; T Maruyama; T Ikemura
Codon usage tabulated from the GenBank Genetic Sequence Data.
Nucleic acids research 1988;16 Suppl():r315-402.
1987: K Takahashi; Takashi Gojobori
[Molecular evolution of kringles and minikringles found in serine proteases and their inhibitors].
Tanpakushitsu kakusan koso. Protein, nucleic acid, enzyme 1987;32(10):1250-69.
1987: T Yamamoto; Takashi Gojobori; T Yokota
Evolutionary origin of pathogenic determinants in enterotoxigenic Escherichia coli and Vibrio cholerae O1.
Journal of bacteriology 1987;169(3):1352-7.
1987: H Bando; J Kusuda; Takashi Gojobori; T Maruyama; S Kawase
Organization and nucleotide sequence of a densovirus genome imply a host-dependent evolution of the parvoviruses.
Journal of virology 1987;61(2):553-60.
1987: Takashi Gojobori; S Yokoyama
Molecular evolutionary rates of oncogenes.
Journal of molecular evolution 1987;26(1-2):148-56.
1987: S Aota; Takashi Gojobori; Shigesada Katsuya; H Ozeki; T Ikemura
Nucleotide sequence and molecular evolution of mouse retrovirus-like IAP elements.
Gene 1987;56(1):1-12.
1987: S Yokoyama; Takashi Gojobori
Molecular evolution and phylogeny of the human AIDS viruses LAV, HTLV-III, and ARV.
Journal of molecular evolution 1987;24(4):330-6.
1986: Takashi Gojobori; S Aota; T Inoue; K Shimotohno
A sequence homology between the pX genes of HTLV-I/II and the murine IL-3 gene.
FEBS letters 1986;208(2):231-5.
1986: M Nei; Takashi Gojobori
Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions.
Molecular biology and evolution 1986;3(5):418-26.
1986: Takashi Gojobori; M Nei
Relative contributions of germline gene variation and somatic mutation to immunoglobulin diversity in the mouse.
Molecular biology and evolution 1986;3(2):156-67.
1986: T Maruyama; Takashi Gojobori; S Aota; T Ikemura
Codon usage tabulated from the GenBank genetic sequence data.
Nucleic acids research 1986;14 Suppl():r151-97.
1985: K Takahashi; Takashi Gojobori; H Naora
Homology of kringle structures in urokinase and tissue-type plasminogen activator: the phylogeny with the related serine proteases.
Cell structure and function 1985;10(3):209-18.
1985: Takashi Gojobori; S Yokoyama
Rates of evolution of the retroviral oncogene of Moloney murine sarcoma virus and of its cellular homologues.
Proceedings of the National Academy of Sciences of the United States of America 1985;82(12):4198-201.
1985: K Shimotohno; Y Takahashi; N Shimizu; Takashi Gojobori; D W Golde; I S Chen; M Miwa; T Sugimura
Complete nucleotide sequence of an infectious clone of human T-cell leukemia virus type II: an open reading frame for the protease gene.
Proceedings of the National Academy of Sciences of the United States of America 1985;82(10):3101-5.
1984: Takashi Gojobori; M Nei
Concerted evolution of the immunoglobulin VH gene family.
Molecular biology and evolution 1984;1(2):195-212.
1982: Takashi Gojobori; W H Li; Dan Graur
Patterns of nucleotide substitution in pseudogenes and functional genes.
Journal of molecular evolution 1982;18(5):360-9.
1981: W H Li; Takashi Gojobori; M Nei
Pseudogenes as a paradigm of neutral evolution.
Nature 1981;292(5820):237-9.