おもな発表論文

プロテオミクスの技術開発

i-RUBY: A novel software for quantitative analysis of highly accurate shotgun-proteomics liquid chromatography/tandem mass spectrometry data obtained without stable-isotope labeling of proteins
Wada K, Ogiwara A, Nagasaka K, Tanaka N, Komatsu Y.
Rapid Commun Mass Spectrom. 25(7):960-8 (2011)

Selected Reaction Monitoring by Linear Ion-Trap Mass Spectrometry can Effectively be Applicable to Simultaneous Quantification of Multiple Peptides
Naoki TANAKA, Keiko NAGASAKA, and Yasuhiko KOMATSU
Biological & Pharmaceutical Bulletin 34(1), 135-141 (2011)

Clinical-scale high-throughput human plasma proteome analysis: Lung adenocarcinoma
K. Fujii, T. Nakano, M. Kanazawa, S. Akimoto, T. Hirano, H. Kato, and T. Nishimura
Proteomics, 5(4), 1150-1159 (2005)

Protein identification from product ion spectra of peptides validated by correlation between measured and predicted elution times in liquid chromatography/mass spectrometry
T. Kawakami, K. Tateishi, Y. Tamano, T. Ishikawa, K. Kuroki, and T. Nishimura
Proteomics, 5(4), 856-864 (2005)

血漿/血清のプロテオミクス（バイオマーカー開発）

Proteomic biomarkers for acute interstitial lung disease in gefitinib-treated Japanese lung cancer patients.
Nyberg F, Ogiwara A, Harbron CG, Kawakami T, Nagasaka K, Takami S, Wada K, Tu HK, Otsuji M, Kyono Y, Dobashi T, Komatsu Y, Kihara M, Akimoto S, Peers IS, South MC, Higenbottam T, Fukuoka M, Nakata K, Ohe Y, Kudoh S, Clausen IG, Nishimura T, Marko-Varga G, Kato H.
PLoS One. 6(7):e22062. (2011)

Personalized Medicine and Proteomics : Lessons from non-small cell Lung Cancer
G. Marko-Varga, A. Ogiwara, K. Nishio, H. Kato, Tim Higenbottam, et al.
J.Proteome Research, 6(8), 2925-2935 (2007)

臨床組織プロテオミクス

Preferential expression of potential markers for cancer stem cells in large cell neuroendocrine carcinoma of the lung. An FFPE proteomic study.
Nomura M, Fukuda T, Fujii K, Kawamura T, Tojo H, Kihara M, Bando Y, Gazdar AF, Tsuboi M, Oshiro H, Nagao T, Ohira T, Ikeda N, Gotoh N, Kato H, Marko-Varga G, Nishimura T.
Journal of Clinical Bioinformatics, 1(23). (2011)

Identification by Differential Tissue Proteome Analysis of Talin-1 as a Novel Molecular Marker of Progression of Hepatocellular Carcinoma.
Kanamori H, Kawakami T, Effendi K, Yamazaki K, Mori T, Ebinuma H, Masugi Y, Du W, Nagasaka K, Ogiwara A, Kyono Y, Tanabe M, Saito H, Hibi T, Sakamoto M.
Oncology. 15;80(5-6):406-415. (2011)

Proteomic Analysis of Primary Lung Cancer Aimed at Clinical Application.
Takashi Hirano, Junichi Maeda, Takao Kawakami, Masakazu Kojika, Masatoshi Kakihana, Yasufumi Kato, Masaharu Nomura, Naohiro Kajiwara, Osamu Uchida, Tatsuo Ohira, Norihiko Ikeda, Harubumi Kato.
Japanese Journal of Lung Cancer 49 (4). 427-434, 2009. review, in Japanese.

Proteomic analysis of stage Ⅰ primary lung adenocarcinoma aimed at individualisation of postoperative therapy
J. Maeda, A. Ogiwara, S. Akimoto, Y. Fukui, T. Oka, H. Kato et al.
British J.Cancer, 98(3), 596-603 (2008)

リン酸化プロテオミクス

Augmentation of multiple protein kinase activities associated with secondary imatinib resistance in gastrointestinal stromal tumors as revealed by quantitative phosphoproteome analysis
K. Nagata, T. Kawakami, Y. Kurata, Y. Kimura, Y. Suzuki, T. Nagata, Y. Sakuma, Y. Miyagi, H. Hirano
Journal of Proteomics, 115, 132-42 (2015)

動物モデルの分析

Synuclein-gamma is closely involved in perineural invasion and distant metastasis in mouse models and is a novel prognostic factor in pancreatic cancer
T. Hibi, T. Mori, A. Ogiwara, T. Kawakami, M. Sakamoto et al.
Clin Cancer Res 15(8), 2864-2871 (2009)

Ubiquitin-Interaction Motif (UIM)（※）

A novel method, using ubiquitin-trapping with a UIM peptide and immunoprecipitation, for identification in non-denaturing conditions of molecules associated with ubiquitinated proteins.
Sakiko Kuroda, Eiko Takiguchi, Takaaki Nakamura, Takehiro Nishiyama, Keisuke Hashimoto, Takao Kawakami, Junya Kohroki, and Yasuhiko Masuho.
The Kitasato Medical Journal, 2012; 42: 120-127.

The ASB2β ubiquitin-interacting motif is involved in its monoubiquitination.
Takehiro Nishiyama, Sakiko Kuroda, Eiko Takiguchi, Takaaki Nakamura, Keisuke Hashimoto, Kenta Tsuzuranuki, Takao Kawakami, Yasuhiko Masuho, and Junya Kohroki.
Biochemical and Biophysical Research Communications, 2012 Apr 13;420(3):487-91. Epub 2012 Feb 20. PubMed PMID: 22382022.

Comprehensive trapping of polyubiquitinated proteins using the UIM peptide of ASB2a.
Kohroki J, Kuroda S, Takiguchi E, Nakamura T, Nishiyama T, Tsuzuranuki K, Kawakami T, Masuho Y.
Biochemical and Biophysical Research Communications, 414(2):292-7. (2011)

Leucine-rich repeat and fibronectin type Ⅲ domain-containing 4 (LRFN4) （※）

A neuronal transmembrane protein LRFN4 complexes with 14-3-3s and NCK1 to induce morphological change in monocytic cells via Rac1-mediated actin cytoskeleton reorganization.
Konakahara S, Suzuki Y, Kawakami T, Saitou M, Kajikawa M, Masuho Y, Kohroki J.
FEBS Letter, 585(14):2377-2384 (2012)

A neuronal transmembrane protein LRFN4 induces monocyte/macrophage migration via actin cytoskeleton reorganization.
Shu Konakahara, Maki Saitou, Shunsuke Hori, Taku Nakane, Kenko Murai, Reiko Itoh, Aya Shinsaka, Junya Kohroki, Takao Kawakami, Masunori Kajikawa, and Yasuhiko Masuho.
FEBS Letters, 2011 Jul 21;585(14):2377-84. Epub 2011 Jun 21. PubMed PMID: 21704618.