Osada, Naoki, Hashimoto, Katsuyuki, Kameoka, Yosuke, Hirata, Makoto, Tanuma, Reiko, Uno, Yasuhiro, ...
Abstract Background Cynomolgus macaques ( Macaca fascicularis ) are widely used as experimental animals in biomedical research and are closely related to other laboratory macaques, such as rhesus...
Integrative Annotation of 21,037 Human Genes Validated by Full-Length cDNA Clones (2004)
Tadashi Imanishi, Takeshi Itoh, Yutaka Suzuki, Claire O'Donovan, Satoshi Fukuchi, Kanako O. Koyanagi, ...
An international team has systematically validated and annotated just over 21,000 human genes using full-length cDNA, thereby providing a valuable new resource for the human genetics community.
Integrative Annotation of 21,037 Human Genes Validated by Full-Length cDNA Clones (2004)
Tadashi Imanishi, Takeshi Itoh, Yutaka Suzuki, Claire O'Donovan, Satoshi Fukuchi, Kanako O. Koyanagi, ...
The human genome sequence defines our inherent biological potential; the realization of the biology encoded therein requires knowledge of the function of each gene. Currently, our knowledge in this...
Integrative annotation of 21,037 human genes validated by full-length cDNA clones (2004)
Imanishi, Tadashi, Itoh, Takeshi, Suzuki, Yutaka, O'Donovan, Claire, Fukuchi, Satoshi, Koyanagi, Kanako O., ...
This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the...
Osada, Naoki, Hida, Munetomo, Kusuda, Jun, Tanuma, Reiko, Hirata, Makoto, Hirai, Momoki, ...
Abstract Background The complete assignment of the protein-coding regions of the human genome is a major challenge for genome biology today. We have already isolated many hitherto unknown full-length...
Pyong Sik Pak, Yutaka Suzuki, Takanobu Kosugi
A CO 2 -capturing hybrid-type power generation system with highly ecient use of solar thermal energy was proposed and its characteristics were investigated. In the system, relatively low temperature...
-Capturing Hybrid Power Generation System (1999)
Pyong Sik Pak, Yutaka Suzuki, Takanobu Kosugi
A CO 2 -capturing hybrid-type power generation system with highly ecient use of solar thermal energy was proposed and its characteristics were investigated. In the system, relatively low temperature...
The twisted SU(2) group and its representations /--by Yutaka Suzuki. (1996)
Thesis (M.A.)--Arizona State University, 1996.
Watanabe, Junichi, Sasaki, Masahide, Suzuki, Yutaka, Sugano, Sumio
FULL-malaria is a database for a full-length-enriched cDNA library from the human malaria parasite Plasmodium falciparum (http://133.11.149.55/). Because of its medical importance, this organism is...
HUNT: launch of a full-length cDNA database from the Helix Research Institute
Yudate, Henrik T., Suwa, Makiko, Irie, Ryotaro, Matsui, Hiroshi, Nishikawa, Tetsuo, Nakamura, Yoshitaka, ...
The Helix Research Institute (HRI) in Japan is releasing 4356 HUman Novel Transcripts and related information in the newly established HUNT database. The institute is a joint research project...
Omori, Yoshihiro, Imai, Jun-ichi, Watanabe, Manabu, Komatsu, Takami, Suzuki, Yutaka, Kataoka, Kohsuke, ...
The expression of liver-specific genes is regulated by unequivocally allocated transcription factors via proper responsible elements within their promoters. We identified a novel transcription...
DBTSS: DataBase of human Transcriptional Start Sites and full-length cDNAs
Suzuki, Yutaka, Yamashita, Riu, Nakai, Kenta, Sugano, Sumio
Although the information of cDNAs is indispensable for analyzing gene function, most of the cDNA sequences stored in current databases are imperfect in the sense that they lack the precise...
Internal ribosome entry site-mediated translation of Smad5 in vivo: requirement for a nuclear event
Shiroki, Kazuko, Ohsawa, Chieko, Sugi, Natuki, Wakiyama, Motoaki, Miura, Kin-ichiro, Watanabe, Manabu, ...
Smad5 is thought to relay signals of the bone morphogenetic protein pathway. The 5′ untranslated region (5′UTR) of human Smad5 mRNA is long, has the potential to form secondary structures and...
Osada, Naoki, Hida, Munetomo, Kusuda, Jun, Tanuma, Reiko, Hirata, Makoto, Hirai, Momoki, ...
Twenty-nine novel human genes were predicted with putative coding regions sharing an open reading frame with the cynomolgus monkey, and the expression of 21 pairs of genes was confirmed by reverse...
DBTSS, DataBase of Transcriptional Start Sites: progress report 2004
Suzuki, Yutaka, Yamashita, Riu, Sugano, Sumio, Nakai, Kenta
DBTSS (http://dbtss.hgc.jp) was originally constructed based on a collection of experimentally determined TSSs of human genes. Since its first release in 2002, it has been updated several times....
Watanabe, Junichi, Suzuki, Yutaka, Sasaki, Masahide, Sugano, Sumio
Full-malaria (http://fullmal.ims.u-tokyo.ac.jp), a database for full-length cDNAs from the human malaria parasite, Plasmodium falciparum has been updated in at least three points. (i) We added 8934...
CART Classification of Human 5′ UTR Sequences
Davuluri, Ramana V., Suzuki, Yutaka, Sugano, Sumio, Zhang, Michael Q.
A nonredundant database of 2312 full-length human 5′-untranslated regions (UTRs) was carefully prepared using state-of-the-art experimental and computational technologies. A comprehensive...
Identification and Characterization of the Potential Promoter Regions of 1031 Kinds of Human Genes
Suzuki, Yutaka, Tsunoda, Tatsuhiko, Sese, Jun, Taira, Hirotoshi, Mizushima-Sugano, Junko, Hata, Hiroko, ...
To understand the mechanism of transcriptional regulation, it is essential to identify and characterize the promoter, which is located proximal to the mRNA start site. To identify the promoters from...
Integrative Annotation of 21,037 Human Genes Validated by Full-Length cDNA Clones
Imanishi, Tadashi, Itoh, Takeshi, Suzuki, Yutaka, O'Donovan, Claire, Fukuchi, Satoshi, Koyanagi, Kanako O, ...
The human genome sequence defines our inherent biological potential; the realization of the biology encoded therein requires knowledge of the function of each gene. Currently, our knowledge in this...
Fugu ESTs: New Resources for Transcription Analysis and Genome Annotation
Clark, Melody S., Edwards, Yvonne J.K., Peterson, Dan, Clifton, Sandra W., Thompson, Amanda J., Sasaki, Masahide, ...
The draft Fugu rubripes genome was released in 2002, at which time relatively few cDNAs were available to aid in the annotation of genes. The data presented here describe the sequencing and analysis...
GATA-1 and NF-Y cooperate to mediate erythroid-specific transcription of Gfi-1B gene
Huang, Duen-Yi, Kuo, Yuan-Yeh, Lai, Jiann-Shiun, Suzuki, Yutaka, Sugano, Sumio, Chang, Zee-Fen
Expression of Gfi (growth factor-independence)-1B, a Gfi-1-related transcriptional repressor, is restricted to erythroid lineage cells and is essential for erythropoiesis. We have determined the...
Suzuki, Yutaka, Yamashita, Riu, Shirota, Matsuyuki, Sakakibara, Yuta, Chiba, Joe, Mizushima-Sugano, Junko, ...
Comparative sequence analysis was carried out for the regions adjacent to experimentally validated transcriptional start sites (TSSs), using 3324 pairs of human and mouse genes. We aligned the...
Analysis of Small Human Proteins Reveals the Translation of Upstream Open Reading Frames of mRNAs
Oyama, Masaaki, Itagaki, Chiharu, Hata, Hiroko, Suzuki, Yutaka, Izumi, Tomonori, Natsume, Tohru, ...
To find novel short coding sequences from accumulated full-length cDNA sequences, proteomic analysis of small proteins expressed in human leukemia K562 cells was performed using high-resolution...
Diverse transcriptional initiation revealed by fine, large-scale mapping of mRNA start sites
Suzuki, Yutaka, Taira, Hirotoshi, Tsunoda, Tatsuhiko, Mizushima-Sugano, Junko, Sese, Jun, Hata, Hiroko, ...
Determination of the mRNA start site is the first step in identifying the promoter region, which is of key importance for transcriptional regulation of gene expression. The ‘oligo-capping’ method...
DBTSS: DataBase of Human Transcription Start Sites, progress report 2006
Yamashita, Riu, Suzuki, Yutaka, Wakaguri, Hiroyuki, Tsuritani, Katsuki, Nakai, Kenta, Sugano, Sumio
DBTSS was first constructed in 2002 based on precise, experimentally determined 5′ end clones. Several major updates and additions have been made since the last report. First, the number of human...
Kimura, Kouichi, Wakamatsu, Ai, Suzuki, Yutaka, Ota, Toshio, Nishikawa, Tetsuo, Yamashita, Riu, ...
By analyzing 1,780,295 5′-end sequences of human full-length cDNAs derived from 164 kinds of oligo-cap cDNA libraries, we identified 269,774 independent positions of transcriptional start sites...
Takeda, Jun-ichi, Suzuki, Yutaka, Nakao, Mitsuteru, Barrero, Roberto A., Koyanagi, Kanako O., Jin, Lihua, ...
We report the first genome-wide identification and characterization of alternative splicing in human gene transcripts based on analysis of the full-length cDNAs. Applying both manual and...
Equilibrium incentives and accumulation of relational skills in a dynamic model of hold up
We construct a dynamic model of Holdup by applying a framework in capital accumulation games, and derive the Markov perfect equilibrium of the game. Firmsf specific investments for the current period...
Watanabe, Junichi, Sasaki, Masahide, Suzuki, Yutaka, Sugano, Sumio
FULL-malaria is a database for a full-length-enriched cDNA library from the human malaria parasite Plasmodium falciparum (http://133.11.149.55/). Because of its medical importance, this organism is...
HUNT: launch of a full-length cDNA database from the Helix Research Institute
Yudate, Henrik T., Suwa, Makiko, Irie, Ryotaro, Matsui, Hiroshi, Nishikawa, Tetsuo, Nakamura, Yoshitaka, ...
The Helix Research Institute (HRI) in Japan is releasing 4356 HUman Novel Transcripts and related information in the newly established HUNT database. The institute is a joint research project...
Omori, Yoshihiro, Imai, Jun-ichi, Watanabe, Manabu, Komatsu, Takami, Suzuki, Yutaka, Kataoka, Kohsuke, ...
The expression of liver-specific genes is regulated by unequivocally allocated transcription factors via proper responsible elements within their promoters. We identified a novel transcription...
DBTSS: DataBase of human Transcriptional Start Sites and full-length cDNAs
Suzuki, Yutaka, Yamashita, Riu, Nakai, Kenta, Sugano, Sumio
Although the information of cDNAs is indispensable for analyzing gene function, most of the cDNA sequences stored in current databases are imperfect in the sense that they lack the precise...
Internal ribosome entry site-mediated translation of Smad5 in vivo: requirement for a nuclear event
Shiroki, Kazuko, Ohsawa, Chieko, Sugi, Natuki, Wakiyama, Motoaki, Miura, Kin-ichiro, Watanabe, Manabu, ...
Smad5 is thought to relay signals of the bone morphogenetic protein pathway. The 5′ untranslated region (5′UTR) of human Smad5 mRNA is long, has the potential to form secondary structures and...
Osada, Naoki, Hida, Munetomo, Kusuda, Jun, Tanuma, Reiko, Hirata, Makoto, Hirai, Momoki, ...
Twenty-nine novel human genes were predicted with putative coding regions sharing an open reading frame with the cynomolgus monkey, and the expression of 21 pairs of genes was confirmed by reverse...
DBTSS, DataBase of Transcriptional Start Sites: progress report 2004
Suzuki, Yutaka, Yamashita, Riu, Sugano, Sumio, Nakai, Kenta
DBTSS (http://dbtss.hgc.jp) was originally constructed based on a collection of experimentally determined TSSs of human genes. Since its first release in 2002, it has been updated several times....
Watanabe, Junichi, Suzuki, Yutaka, Sasaki, Masahide, Sugano, Sumio
Full-malaria (http://fullmal.ims.u-tokyo.ac.jp), a database for full-length cDNAs from the human malaria parasite, Plasmodium falciparum has been updated in at least three points. (i) We added 8934...
CART Classification of Human 5′ UTR Sequences
Davuluri, Ramana V., Suzuki, Yutaka, Sugano, Sumio, Zhang, Michael Q.
A nonredundant database of 2312 full-length human 5′-untranslated regions (UTRs) was carefully prepared using state-of-the-art experimental and computational technologies. A comprehensive...
Identification and Characterization of the Potential Promoter Regions of 1031 Kinds of Human Genes
Suzuki, Yutaka, Tsunoda, Tatsuhiko, Sese, Jun, Taira, Hirotoshi, Mizushima-Sugano, Junko, Hata, Hiroko, ...
To understand the mechanism of transcriptional regulation, it is essential to identify and characterize the promoter, which is located proximal to the mRNA start site. To identify the promoters from...
Integrative Annotation of 21,037 Human Genes Validated by Full-Length cDNA Clones
Imanishi, Tadashi, Itoh, Takeshi, Suzuki, Yutaka, O'Donovan, Claire, Fukuchi, Satoshi, Koyanagi, Kanako O, ...
The human genome sequence defines our inherent biological potential; the realization of the biology encoded therein requires knowledge of the function of each gene. Currently, our knowledge in this...
Fugu ESTs: New Resources for Transcription Analysis and Genome Annotation
Clark, Melody S., Edwards, Yvonne J.K., Peterson, Dan, Clifton, Sandra W., Thompson, Amanda J., Sasaki, Masahide, ...
The draft Fugu rubripes genome was released in 2002, at which time relatively few cDNAs were available to aid in the annotation of genes. The data presented here describe the sequencing and analysis...
GATA-1 and NF-Y cooperate to mediate erythroid-specific transcription of Gfi-1B gene
Huang, Duen-Yi, Kuo, Yuan-Yeh, Lai, Jiann-Shiun, Suzuki, Yutaka, Sugano, Sumio, Chang, Zee-Fen
Expression of Gfi (growth factor-independence)-1B, a Gfi-1-related transcriptional repressor, is restricted to erythroid lineage cells and is essential for erythropoiesis. We have determined the...
Suzuki, Yutaka, Yamashita, Riu, Shirota, Matsuyuki, Sakakibara, Yuta, Chiba, Joe, Mizushima-Sugano, Junko, ...
Comparative sequence analysis was carried out for the regions adjacent to experimentally validated transcriptional start sites (TSSs), using 3324 pairs of human and mouse genes. We aligned the...
Analysis of Small Human Proteins Reveals the Translation of Upstream Open Reading Frames of mRNAs
Oyama, Masaaki, Itagaki, Chiharu, Hata, Hiroko, Suzuki, Yutaka, Izumi, Tomonori, Natsume, Tohru, ...
To find novel short coding sequences from accumulated full-length cDNA sequences, proteomic analysis of small proteins expressed in human leukemia K562 cells was performed using high-resolution...
Diverse transcriptional initiation revealed by fine, large-scale mapping of mRNA start sites
Suzuki, Yutaka, Taira, Hirotoshi, Tsunoda, Tatsuhiko, Mizushima-Sugano, Junko, Sese, Jun, Hata, Hiroko, ...
Determination of the mRNA start site is the first step in identifying the promoter region, which is of key importance for transcriptional regulation of gene expression. The ‘oligo-capping’ method...
DBTSS: DataBase of Human Transcription Start Sites, progress report 2006
Yamashita, Riu, Suzuki, Yutaka, Wakaguri, Hiroyuki, Tsuritani, Katsuki, Nakai, Kenta, Sugano, Sumio
DBTSS was first constructed in 2002 based on precise, experimentally determined 5′ end clones. Several major updates and additions have been made since the last report. First, the number of human...
Kimura, Kouichi, Wakamatsu, Ai, Suzuki, Yutaka, Ota, Toshio, Nishikawa, Tetsuo, Yamashita, Riu, ...
By analyzing 1,780,295 5′-end sequences of human full-length cDNAs derived from 164 kinds of oligo-cap cDNA libraries, we identified 269,774 independent positions of transcriptional start sites...
Takeda, Jun-ichi, Suzuki, Yutaka, Nakao, Mitsuteru, Barrero, Roberto A., Koyanagi, Kanako O., Jin, Lihua, ...
We report the first genome-wide identification and characterization of alternative splicing in human gene transcripts based on analysis of the full-length cDNAs. Applying both manual and...
Takeda, Jun-ichi, Suzuki, Yutaka, Nakao, Mitsuteru, Kuroda, Tsuyoshi, Sugano, Sumio, Gojobori, Takashi, ...
The Human-transcriptome DataBase for Alternative Splicing (H-DBAS) is a specialized database of alternatively spliced human transcripts. In this database, each of the alternative splicing (AS)...
Watanabe, Junichi, Wakaguri, Hiroyuki, Sasaki, Masahide, Suzuki, Yutaka, Sugano, Sumio
Comparasite is a database for comparative studies of transcriptomes of parasites. In this database, each data is defined by the full-length cDNAs from various apicomplexan parasites. It integrates...
Common inheritance of chromosome Ia associated with clonal expansion of Toxoplasma gondii
Khan, Asis, Böhme, Ulrike, Kelly, Krystyna A., Adlem, Ellen, Brooks, Karen, Simmonds, Mark, ...
Toxoplasma gondii is a globally distributed protozoan parasite that can infect virtually all warm-blooded animals and humans. Despite the existence of a sexual phase in the life cycle, T. gondii has...
Differentiation of core promoter architecture between plants and mammals revealed by LDSS analysis
Yamamoto, Yoshiharu Y., Ichida, Hiroyuki, Abe, Tomoko, Suzuki, Yutaka, Sugano, Sumio, Obokata, Junichi
Mammalian promoters are categorized into TATA and CpG-related groups, and they have complementary roles associated with differentiated transcriptional characteristics. While the TATA box is also...
Tsuritani, Katsuki, Irie, Takuma, Yamashita, Riu, Sakakibara, Yuta, Wakaguri, Hiroyuki, Kanai, Akinori, ...
Although recent studies have revealed that the majority of human genes are subject to regulation of alternative promoters, the biological relevance of this phenomenon remains unclear. We have also...
DBTSS: database of transcription start sites, progress report 2008
Wakaguri, Hiroyuki, Yamashita, Riu, Suzuki, Yutaka, Sugano, Sumio, Nakai, Kenta
DBTSS is a database of transcriptional start sites, based on our unique collection of precise, experimentally determined 5′-end sequences of full-length cDNAs. Since its first release in 2002,...
Osada, Naoki, Hashimoto, Katsuyuki, Kameoka, Yosuke, Hirata, Makoto, Tanuma, Reiko, Uno, Yasuhiro, ...
Integration versus non-integration: specific investments and ex-post resource distribution
I adopt a non-cooperative game theoretic approach to an incomplete contracting transaction model, à la Grossman & Hart (1986) , Hart & Moore (1990) and Bolton & Whinston (1993) , consisting of one...
Yamashita, Riu, Suzuki, Yutaka, Takeuchi, Nono, Wakaguri, Hiroyuki, Ueda, Takuya, Sugano, Sumio, ...
Although the knowledge accumulated on the transcriptional regulations of eukaryotes is significant, the knowledge on their translational regulations remains limited. Thus, we performed a...