Department of Genome Informatics

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

1. Swine to human transmission of reassortants of pandemic (H1N1) 2009 and endemic swine influenza viruses: Abstract.

   U Chandimal de Silva and Teruo Yasunaga

   PLoS Curr, 3, RRN1285, 2011.
2. Gut microbiota of healthy and malnourished children in bangladesh.

   Shirajum Monira, Shota Nakamura, Kazuyoshi Gotoh, Kaori Izutsu, Haruo Watanabe, Nur Haque Alam, Hubert Ph Endtz, Alejandro Cravioto, Sk Imran Ali, Takaaki Nakaya, Toshihiro Horii, Tetsuya Iida and Munirul Alam

   Front Microbiol, 2, 228, 2011.
3. The 2nd DBCLS BioHackathon: interoperable bioinformatics Web services for integrated applications.

   Toshiaki Katayama, Mark D Wilkinson, Rutger Vos, Takeshi Kawashima, Shuichi Kawashima, Mitsuteru Nakao, Yasunori Yamamoto, Hong-Woo Chun, Atsuko Yamaguchi, Shin Kawano, Jan Aerts, Kiyoko F Aoki-Kinoshita, Kazuharu Arakawa, Bruno Aranda, Raoul Jp Bonnal, José M Fernández, Takatomo Fujisawa, Paul Mk Gordon, Naohisa Goto, Syed Haider, Todd Harris, Takashi Hatakeyama, Isaac Ho, Masumi Itoh, Arek Kasprzyk, Nobuhiro Kido, Young-Joo Kim, Akira R Kinjo, Fumikazu Konishi, Yulia Kovarskaya, Greg von Kuster, Alberto Labarga, Vachiranee Limviphuvadh, Luke McCarthy, Yasukazu Nakamura, Yunsun Nam, Kozo Nishida, Kunihiro Nishimura, Tatsuya Nishizawa, Soichi Ogishima, Tom Oinn, Shinobu Okamoto, Shujiro Okuda, Keiichiro Ono, Kazuki Oshita, Keun-Joon Park, Nicholas Putnam, Martin Senger, Jessica Severin, Yasumasa Shigemoto, Hideaki Sugawara, James Taylor, Oswaldo Trelles, Chisato Yamasaki, Riu Yamashita, Noriyuki Satoh and Toshihisa Takagi

   J Biomed Semantics, 2, 4, 2011.
4. Metagenomic analysis of bacterial infections by means of high-throughput DNA sequencing.

   Shota Nakamura, Takaaki Nakaya and Tetsuya Iida

   Exp Biol Med (Maywood), 236 (8), 968-971, 2011.
5. Acquisition of Human-Type Receptor Binding Specificity by New H5N1 Influenza Virus Sublineages during Their Emergence in Birds in Egypt.

   Yohei Watanabe, Madiha S Ibrahim, Hany F Ellakany, Norihito Kawashita, Rika Mizuike, Hiroaki Hiramatsu, Nogluk Sriwilaijaroen, Tatsuya Takagi, Yasuo Suzuki and Kazuyoshi Ikuta

   PLoS Pathog, 7 (5), e1002068, 2011.
6. Genotypic Profile of Streptococcus suis Serotype 2 and Clinical Features of Infection in Humans, Thailand.

   Anusak Kerdsin, Surang Dejsirilert, Parichart Puangpatra, Saowalak Sripakdee, Koranan Chumla, Nitsara Boonkerd, Pitimol Polwichai, Susumu Tanimura, Dan Takeuchi, Tatsuya Nakayama, Shota Nakamura, Yukihiro Akeda, Marcelo Gottschalk, Pathom Sawanpanyalert and Kazunori Oishi

   Emerg Infect Dis, 17 (5), 835-842, 2011.
7. Factors predicting requirement of high-dose transdermal fentanyl in opioid switching from oral morphine or oxycodone in patients with cancer pain.

   Yuko Kanbayashi, Toyoshi Hosokawa, Kousuke Okamoto, Sawako Fujimoto, Hideyuki Konishi, Eigo Otsuji, Toshikazu Yoshikawa, Tatsuya Takagi, Tsuneharu Miki and Masafumi Taniwaki

   Clin J Pain, 27 (8), 664-667, 2011.
8. KaPPA-View4: a metabolic pathway database for representation and analysis of correlation networks of gene co-expression and metabolite co-accumulation and omics data.

   Nozomu Sakurai, Takeshi Ara, Yoshiyuki Ogata, Ryosuke Sano, Takashi Ohno, Kenjiro Sugiyama, Atsushi Hiruta, Kiyoshi Yamazaki, Kentaro Yano, Koh Aoki, Asaph Aharoni, Kazuki Hamada, Koji Yokoyama, Shingo Kawamura, Hirofumi Otsuka, Toshiaki Tokimatsu, Minoru Kanehisa, Hideyuki Suzuki, Kazuki Saito and Daisuke Shibata

   Nucleic Acids Res, 39 (Database issue), D677-684, 2011.

Link

http://www.biken.osaka-u.ac.jp/