Department of Genome Informatics

Staff:

Professor

Teruo Yasunaga, Ph.D.

Professor(SUP)

Tatsuya Takagi, Ph.D.

Associate Professor

Naohisa Goto, Ph.D.

Shota Nakamura, Ph.D.

Associate Professor(SUP)

Norihito Kawashita, Ph.D.

Graduate Student

Kiyoshi Yamazaki

Ryuuta Seto

Yoshitaka Onishi

Subjects:

1. Bioinformatics and molecular evolution analysis of genes and genomes.
2. Analysis of protein 3-D structure information for drug discovery and design.
3. Genome sequencing of disease-causing organisms in collaboration with other laboratories.
4. Development of genome information analysis software, including Next-Generation Sequencing data management and analysis.

Published Papers in 2014

1. Performance comparison of second- and third-generation sequencers using a bacterial genome with two chromosomes.

   Mari Miyamoto, Daisuke Motooka, Kazuyoshi Gotoh, Takamasa Imai, Kazutoshi Yoshitake, Naohisa Goto, Tetsuya Iida, Teruo Yasunaga, Toshihiro Horii, Kazuharu Arakawa, Masahiro Kasahara and Shota Nakamura

   BMC Genomics, 15, 699, 2014.
2. Chikungunya virus was isolated in Thailand, 2010.

   Mikiko Sasayama, Surachet Benjathummarak, Norihito Kawashita, Prasert Rukmanee, Suntaree Sangmukdanun, Promsin Masrinoul, Pannamthip Pitaksajjakul, Orapim Puiprom, Pitak Wuthisen, Takeshi Kurosu, Panjaporn Chaichana, Pannamas Maneekan, Kazuyoshi Ikuta, Pongrama Ramasoota, Tamaki Okabayashi, Pratap Singhasivanon and Natthanej Luplertlop

   Virus Genes, 49 (3), 485-489, 2014.
3. BioHackathon series in 2011 and 2012: penetration of ontology and linked data in life science domains.

   Toshiaki Katayama, Mark D Wilkinson, Kiyoko F Aoki-Kinoshita, Shuichi Kawashima, Yasunori Yamamoto, Atsuko Yamaguchi, Shinobu Okamoto, Shin Kawano, Jin-Dong Kim, Yue Wang, Hongyan Wu, Yoshinobu Kano, Hiromasa Ono, Hidemasa Bono, Simon Kocbek, Jan Aerts, Yukie Akune, Erick Antezana, Kazuharu Arakawa, Bruno Aranda, Joachim Baran, Jerven Bolleman, Raoul Jp Bonnal, Pier Luigi Buttigieg, Matthew P Campbell, Yi-An Chen, Hirokazu Chiba, Peter Ja Cock, K Bretonnel Cohen, Alexandru Constantin, Geraint Duck, Michel Dumontier, Takatomo Fujisawa, Toyofumi Fujiwara, Naohisa Goto, Robert Hoehndorf, Yoshinobu Igarashi, Hidetoshi Itaya, Maori Ito, Wataru Iwasaki, Matúš Kalaš, Takeo Katoda, Taehong Kim, Anna Kokubu, Yusuke Komiyama, Masaaki Kotera, Camille Laibe, Hilmar Lapp, Thomas Lütteke, M Scott Marshall, Takaaki Mori, Hiroshi Mori, Mizuki Morita, Katsuhiko Murakami, Mitsuteru Nakao, Hisashi Narimatsu, Hiroyo Nishide, Yosuke Nishimura, Johan Nystrom-Persson, Soichi Ogishima, Yasunobu Okamura, Shujiro Okuda, Kazuki Oshita, Nicki H Packer, Pjotr Prins, Rene Ranzinger, Philippe Rocca-Serra, Susanna Sansone, Hiromichi Sawaki, Sung-Ho Shin, Andrea Splendiani, Francesco Strozzi, Shu Tadaka, Philip Toukach, Ikuo Uchiyama, Masahito Umezaki, Rutger Vos, Patricia L Whetzel, Issaku Yamada, Chisato Yamasaki, Riu Yamashita, William S York, Christian M Zmasek, Shoko Kawamoto and Toshihisa Takagi

   J Biomed Semantics, 5 (1), 5, 2014.
4. Generation of Rodent Malaria Parasites with a High Mutation Rate by Destructing Proofreading Activity of DNA Polymerase δ.

   Hajime Honma, Makoto Hirai, Shota Nakamura, Hassan Hakimi, Shin-Ichiro Kawazu, Nirianne M Q Palacpac, Hajime Hisaeda, Hiroyuki Matsuoka, Satoru Kawai, Hiroyoshi Endo, Teruo Yasunaga, Jun Ohashi, Toshihiro Mita, Toshihiro Horii, Mitsuru Furusawa and Kazuyuki Tanabe

   DNA Res, 21 (4), 439-446, 2014.
5. Meta-analysis of the risk of upper gastrointestinal hemorrhage with combination therapy of selective serotonin reuptake inhibitors and non-steroidal anti-inflammatory drugs.

   Yoshinari Oka, Kousuke Okamoto, Norihito Kawashita, Yuko Shirakuni and Tatsuya Takagi

   Biol Pharm Bull, 37 (6), 947-953, 2014.
6. Analysis of genes causing hypertension and stroke in spontaneously hypertensive rats: Gene expression profiles in the brain.

   Momoko Yoshida, Yuko Watanabe, Kyosuke Yamanishi, Akifumi Yamashita, Hideyuki Yamamoto, Daisuke Okuzaki, Kazunori Shimada, Hiroshi Nojima, Teruo Yasunaga, Haruki Okamura, Hisato Matsunaga and Hiromichi Yamanishi

   Int J Mol Med, 33 (4), 887-896, 2014.
7. Characterization of human immunodeficiency virus type 1 CRF01_AE env genes derived from recently infected Thai individuals.

   Nithinart Chaitaveep, Piraporn Utachee, Shota Nakamura, Thippawan Chuenchitra, Pattama Ekpo, Naokazu Takeda, Kovit Pattanapanyasat and Masanori Kameoka

   Microbes Infect, 16 (2), 142-152, 2014.

Link

Department of Genome Informatics

Research Institute for Microbial Diseases, Osaka University