H-InvDB release 6, a comprehensive annotation resource for human genes and transcripts (2009)
Chisato Yamasaki, Katsuhiko Murakami, Jun-ichi Takeda, Yoshiharu Sato, Akiko Noda, Ryuichi Sakate, ...
H-Invitational Database (H-InvDB; "http://www.h-invitational.jp/":http://www.h-invitational.jp/) is an integrated database of human genes and transcripts. By extensive analyses of all human...
Imanishi, Tadashi, Nakaoka, Hajime
Hyperlink Management System (HMS) is a system for automatically updating and maintaining hyperlinks among major public databases in the field of life science. We daily create corresponding tables of...
VarySysDB: a human genetic polymorphism database based on all H-InvDB transcripts (2009)
Shimada, Makoto K., Matsumoto, Ryuzou, Hayakawa, Yosuke, Sanbonmatsu, Ryoko, Gough, Craig, Yamaguchi-Kabata, Yumi, ...
Creation of a vast variety of proteins is accomplished by genetic variation and a variety of alternative splicing transcripts. Currently, however, the abundant available data on genetic variation and...
TACT: Transcriptome Auto-Annotation Conducting Tool of H-InvDB (2008)
Chisato Yamasaki, Hiroaki Kawashima, Fusano Todokoro, Yasuhiro Imamizu, Makoto Ogawa, Motohiko Tanino, ...
Transcriptome Auto-annotation Conducting Tool (TACT) is a newly developed web-based automated tool for conducting functional annotation of transcripts by the
Murakami, Katsuhiko, Imanishi, Tadashi, Gojobori, Takashi, Nakai, Kenta
Abstract Background It is essential in modern biology to understand how transcriptional regulatory regions are composed of cis -elements, yet we have limited knowledge of, for example, the...
Matsuya, Akihiro, Sakate, Ryuichi, Kawahara, Yoshihiro, Koyanagi, Kanako O., Sato, Yoshiharu, Fujii, Yasuyuki, ...
Orthologs are genes in different species that evolved from a common ancestral gene by speciation. Currently, with the rapid growth of transcriptome data of various species, more reliable orthology...
Takeda, Jun-ichi, Suzuki, Yutaka, Sakate, Ryuichi, Sato, Yoshiharu, Seki, Masahide, Irie, Takuma, ...
Using full-length cDNA sequences, we compared alternative splicing (AS) in humans and mice. The alignment of the human and mouse genomes showed that 86% of 199 426 total exons in human AS variants...
TTOP: A System for Phylogenetic Tree Editing and Evolutionary Annotation of Genes (2007)
Srinesh Kundu, Masato Hagiwara, Kanako O. Koyanagi, Tadashi Imanishi, Takeshi Itoh
We have developed a tool called TTOP (stand for “Tree Topology Operation Tool”). TTOP has applications both in phylogenetic tree editing and in the annotation of the evolutionary characteristics...
β-Globin Gene Cluster Haplotype Frequencies in Khalkhs and Buryats of Mongolia (2007)
Shimizu, Koji., Tokimasa, Kozue., Takeuchi, Yukiko., Gereksaikhan, Tudevdagva., Tanabe, Yuichi., ...
Human Biology - Volume 78, Number 6, December 2006
Itoh, Takeshi, Tanaka, Tsuyoshi, Barrero, Roberto A., Yamasaki, Chisato, Fujii, Yasuyuki, Hilton, Phillip B., ...
We present here the annotation of the complete genome of rice Oryza sativa L. ssp. japonica cultivar Nipponbare. All functional annotations for proteins and non-protein-coding RNA (npRNA) candidates...
Kawahara, Yoshihiro, Imanishi, Tadashi
Abstract Background Changes in protein evolutionary rates among lineages have been frequently observed during periods of notable phenotypic evolution. It is also known that, following gene...
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)...
Itoh, Takeshi, Tanaka, Tsuyoshi, Barrero, Roberto A., Yamasaki, Chisato, Fujii, Yasuyuki, Hilton, Phillip B., ...
We present here the annotation of the complete genome of rice Oryza sativa L. ssp. japonica cultivar Nipponbare. All functional annotations for proteins and non-protein-coding RNA (npRNA) candidates...
β-Globin Gene Cluster Haplotype Frequencies in Khalkhs and Buryats of Mongolia (2006)
Koji Shimizu, Kozue Tokimasa, Yukiko Takeuchi, Tudevdagva Gereksaikhan, Yuichi Tanabe, Keiichi Omoto, ...
β-globin gene cluster haplotype frequencies of 169 Khalkhs and 145 Buryats were estimated, and their characteristics were compared with those of Evenkis, Oroqens, Koreans, Japanese, and three...
Sumio Sugano, Takashi Gojobori, Tadashi Imanishi
sequenced and manually annotated full-length cDNAs based on H-Invitational
TACT: Transcriptome Auto-annotation Conducting Tool of H-InvDB (2006)
Yamasaki, Chisato, Kawashima, Hiroaki, Todokoro, Fusano, Imamizu, Yasuhiro, Ogawa, Makoto, Tanino, Motohiko, ...
Transcriptome Auto-annotation Conducting Tool (TACT) is a newly developed web-based automated tool for conducting functional annotation of transcripts by the integration of sequence similarity...
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, 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...
Ohyanagi, Hajime, Tanaka, Tsuyoshi, Sakai, Hiroaki, Shigemoto, Yasumasa, Yamaguchi, Kaori, Habara, Takuya, ...
With the completion of the rice genome sequencing, a standardized annotation is necessary so that the information from the genome sequence can be fully utilized in understanding the biology of rice...
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...
Characteristic [Beta]-Globin Gene Cluster Haplotypes of Evenkis and Oroqens in North China (2005)
Shimizu, Koji., Marubayashi, Azusa., Tokimasa, Kozue., Harihara, Shinji., Imanishi, Tadashi., ...
Human Biology - Volume 76, Number 5, October 2004
Whole Genome Association Study of Rheumatoid Arthritis Using 27,039 Microsatellites (2005)
Gen Tamiya, Minori Shinya, Tadashi Imanishi, Tomoki Ikuta, Koichi Okamoto, Koh Furugaki, ...
© The Author 2005. Published by Oxford University Press. All rights reserved The online version of this article has been published under an open access model. Users are entitled to use, reproduce,...
Tanino, Motohiko, Debily, Marie-Anne, Tamura, Takuro, Hishiki, Teruyoshi, Ogasawara, Osamu, Murakawa, Katsuji, ...
The Human Anatomic Gene Expression Library (H-ANGEL) is a resource for information concerning the anatomical distribution and expression of human gene transcripts. The tool contains protein...
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...
The Human Anatomic Gene Expression Library (2004)
Motohiko Tanino, Marie-anne Debily, Takuro Tamura, Teruyoshi Hishiki, Osamu Ogasawara, Katsuji Murakawa, ...
(H-ANGEL), the H-Inv integrative display of human gene expression across disparate
Novel algorithm for automated genotyping of (2004)
Toshiko Matsumoto, Wataru Yukawa, Yasuyuki Nozaki, Ryo Nakashige, Minori Shinya, Satoshi Makino, ...
microsatellites
Novel algorithm for automated genotyping of microsatellites (2004)
Matsumoto, Toshiko, Yukawa, Wataru, Nozaki, Yasuyuki, Nakashige, Ryo, Shinya, Minori, Makino, Satoshi, ...
Microsatellites or short tandem repeats (STRs) are abundant in the human genome with easily assayed polymorphisms, providing powerful genetic tools for mapping both Mendelian and complex traits....
Detection of Processed Pseudogenes Based on cDNA Mapping to the Human Genome (2003)
Human Genome, Hiroaki Sakai, Kanako O. Koyanagi, Takeshi Itoh, Tadashi Imanishi, Takashi Gojobori
Introduction Processed pseudogenes are defined as those obtained by reverse transcription of messenger RNAs followed by reintegration into genomic DNA and subsequent degradation with disablements...
Anzai, Tatsuya, Shiina, Takashi, Kimura, Natsuki, Yanagiya, Kazuyo, Kohara, Sakae, Shigenari, Atsuko, ...
Despite their high degree of genomic similarity, reminiscent of their relatively recent separation from each other (≈6 million years ago), the molecular basis of traits unique to humans vs. their...
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...
Novel algorithm for automated genotyping of microsatellites
Matsumoto, Toshiko, Yukawa, Wataru, Nozaki, Yasuyuki, Nakashige, Ryo, Shinya, Minori, Makino, Satoshi, ...
Microsatellites or short tandem repeats (STRs) are abundant in the human genome with easily assayed polymorphisms, providing powerful genetic tools for mapping both Mendelian and complex traits....
Tanino, Motohiko, Debily, Marie-Anne, Tamura, Takuro, Hishiki, Teruyoshi, Ogasawara, Osamu, Murakawa, Katsuji, ...
The Human Anatomic Gene Expression Library (H-ANGEL) is a resource for information concerning the anatomical distribution and expression of human gene transcripts. The tool contains protein...
The Rice Annotation Project Database (RAP-DB): hub for Oryza sativa ssp. japonica genome information
Ohyanagi, Hajime, Tanaka, Tsuyoshi, Sakai, Hiroaki, Shigemoto, Yasumasa, Yamaguchi, Kaori, Habara, Takuya, ...
With the completion of the rice genome sequencing, a standardized annotation is necessary so that the information from the genome sequence can be fully utilized in understanding the biology of rice...
TACT: Transcriptome Auto-annotation Conducting Tool of H-InvDB
Yamasaki, Chisato, Kawashima, Hiroaki, Todokoro, Fusano, Imamizu, Yasuhiro, Ogawa, Makoto, Tanino, Motohiko, ...
Transcriptome Auto-annotation Conducting Tool (TACT) is a newly developed web-based automated tool for conducting functional annotation of transcripts by the integration of sequence similarity...
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...
Anzai, Tatsuya, Shiina, Takashi, Kimura, Natsuki, Yanagiya, Kazuyo, Kohara, Sakae, Shigenari, Atsuko, ...
Despite their high degree of genomic similarity, reminiscent of their relatively recent separation from each other (≈6 million years ago), the molecular basis of traits unique to humans vs. their...
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...
Novel algorithm for automated genotyping of microsatellites
Matsumoto, Toshiko, Yukawa, Wataru, Nozaki, Yasuyuki, Nakashige, Ryo, Shinya, Minori, Makino, Satoshi, ...
Microsatellites or short tandem repeats (STRs) are abundant in the human genome with easily assayed polymorphisms, providing powerful genetic tools for mapping both Mendelian and complex traits....
Tanino, Motohiko, Debily, Marie-Anne, Tamura, Takuro, Hishiki, Teruyoshi, Ogasawara, Osamu, Murakawa, Katsuji, ...
The Human Anatomic Gene Expression Library (H-ANGEL) is a resource for information concerning the anatomical distribution and expression of human gene transcripts. The tool contains protein...
The Rice Annotation Project Database (RAP-DB): hub for Oryza sativa ssp. japonica genome information
Ohyanagi, Hajime, Tanaka, Tsuyoshi, Sakai, Hiroaki, Shigemoto, Yasumasa, Yamaguchi, Kaori, Habara, Takuya, ...
With the completion of the rice genome sequencing, a standardized annotation is necessary so that the information from the genome sequence can be fully utilized in understanding the biology of rice...
TACT: Transcriptome Auto-annotation Conducting Tool of H-InvDB
Yamasaki, Chisato, Kawashima, Hiroaki, Todokoro, Fusano, Imamizu, Yasuhiro, Ogawa, Makoto, Tanino, Motohiko, ...
Transcriptome Auto-annotation Conducting Tool (TACT) is a newly developed web-based automated tool for conducting functional annotation of transcripts by the integration of sequence similarity...
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)...
Itoh, Takeshi, Tanaka, Tsuyoshi, Barrero, Roberto A., Yamasaki, Chisato, Fujii, Yasuyuki, Hilton, Phillip B., ...
We present here the annotation of the complete genome of rice Oryza sativa L. ssp. japonica cultivar Nipponbare. All functional annotations for proteins and non-protein-coding RNA (npRNA) candidates...
Evola: Ortholog database of all human genes in H-InvDB with manual curation of phylogenetic trees
Matsuya, Akihiro, Sakate, Ryuichi, Kawahara, Yoshihiro, Koyanagi, Kanako O., Sato, Yoshiharu, Fujii, Yasuyuki, ...
Orthologs are genes in different species that evolved from a common ancestral gene by speciation. Currently, with the rapid growth of transcriptome data of various species, more reliable orthology...
Distribution and Effects of Nonsense Polymorphisms in Human Genes
Yamaguchi-Kabata, Yumi, Shimada, Makoto K., Hayakawa, Yosuke, Minoshima, Shinsei, Chakraborty, Ranajit, Gojobori, Takashi, ...
Takeda, Jun-ichi, Suzuki, Yutaka, Sakate, Ryuichi, Sato, Yoshiharu, Seki, Masahide, Irie, Takuma, ...
Using full-length cDNA sequences, we compared alternative splicing (AS) in humans and mice. The alignment of the human and mouse genomes showed that 86% of 199 426 total exons in human AS variants...
VarySysDB: a human genetic polymorphism database based on all H-InvDB transcripts
Shimada, Makoto K., Matsumoto, Ryuzou, Hayakawa, Yosuke, Sanbonmatsu, Ryoko, Gough, Craig, Yamaguchi-Kabata, Yumi, ...
Creation of a vast variety of proteins is accomplished by genetic variation and a variety of alternative splicing transcripts. Currently, however, the abundant available data on genetic variation and...
Imanishi, Tadashi, Nakaoka, Hajime
Hyperlink Management System (HMS) is a system for automatically updating and maintaining hyperlinks among major public databases in the field of life science. We daily create corresponding tables of...