研究者詳細 - 森田　瑞樹

論文 - 森田　瑞樹

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Effects of Cold Ischemia on RNA Stability and Quality of Lung Tissues Based on Standard PREanalytical Code Categorization 査読国際誌

Takehiro Matsubara, Shuta Tomida, Junichi Soh, Takahiro Uwabo, Yoshiko Mori, Mizuki Morita, Yasutomo Nasu, Susumu Kanazawa, Shinichi Toyooka

Biopreservation and Biobanking 15 ( 5 ) 484 - 486 2017年10月

MedNLPDoc: Japanese Shared Task for Clinical NLP 査読国際誌

Eiji Aramaki, Yoshinobu Kano, Tomoko Ohkuma, Mizuki Morita

Proceedings of the Clinical Natural Language Processing Workshop at the 26th International Conference on Computational Linguistics (COLING 2016) 13 - 16 2016年12月

Overview of the NTCIR-12 MedNLPDoc Task. 査読

Eiji Aramaki, Mizuki Morita, Yoshinobu Kano, Tomoko Ohkuma

Proceedings of the 12th NTCIR Conference on Evaluation of Information Access Technologies, National Center of Sciences, Tokyo, Japan, June 7-10, 2016 2016年

Antitumor effect of afatinib, as a human epidermal growth factor receptor 2-targeted therapy, in lung cancers harboring HER2 oncogene alterations 査読国際誌

Ken Suzawa, Shinichi Toyooka, Masakiyo Sakaguchi, Mizuki Morita, Hiromasa Yamamoto, Shuta Tomida, Tomoaki Ohtsuka, Mototsugu Watanabe, Shinsuke Hashida, Yuho Maki, Junichi Soh, Hiroaki Asano, Kazunori Tsukuda, Shinichiro Miyoshi

Cancer Science 107 ( 1 ) 45 - 52 2015年11月

記述言語：英語掲載種別：研究論文（学術雑誌）出版者・発行元：WILEY

Human epidermal growth factor receptor 2 (HER2) is a member of the HER family of proteins containing four receptor tyrosine kinases. It plays an important role in the pathogenesis of certain human cancers. In non-small-cell lung cancer (NSCLC), HER2 amplification or mutations have been reported. However, little is known about the benefit of HER2-targeted therapy for NSCLCs harboring HER2 alterations. In this study, we investigated the antitumor effect of afatinib, an irreversible epidermal growth factor receptor (EGFR)-HER2 dual inhibitor, in lung cancers harboring HER2 oncogene alterations, including novel HER2 mutations in the transmembrane domain, which we recently identified. Normal bronchial epithelial cells, BEAS-2B, ectopically overexpressing wild-type HER2 or mutants (A775insYVMA, G776VC, G776LC, P780insGSP, V659E, and G660D) showed constitutive autophosphorylation of HER2 and activation of downstream signaling. They were sensitive to afatinib, but insensitive to gefitinib. Furthermore, we examined the antitumor activity of afatinib and gefitinib in several NSCLC cell lines, and investigated the association between their genetic alterations and sensitivity to afatinib treatment. In HER2-altered NSCLC cells (H2170, Calu-3, and H1781), afatinib downregulated the phosphorylation of HER2 and EGFR as well as their downstream signaling, and induced an antiproliferative effect through G(1) arrest and apoptotic cell death. In contrast, HER2- or EGFR-non-dependent NSCLC cells were insensitive to afatinib. In addition, these effects were confirmed in vivo by using a xenograft mouse model of HER2-altered lung cancer cells. Our results suggest that afatinib is a therapeutic option as a HER2-targeted therapy for NSCLC harboring HER2 amplification or mutations.

DOI： 10.1111/cas.12845

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MDP環境モデルを使った心不全臨床データの分析

城真範, 森田瑞樹, 神嶌敏弘, 橋田浩一, 赤穂昭太郎, 麻生英樹, 荒牧英治, 興梠貴英, 合原一幸, 小室一成, 永井良三

生産研究 67 ( 3 ) 281 - 285 2015年5月

Implementation of linked data in the life sciences at BioHackathon 2011 査読

Kiyoko F. Aoki-Kinoshita, Akira R. Kinjo, Mizuki Morita, Yoshinobu Igarashi, Yi-an Chen, Yasumasa Shigemoto, Takatomo Fujisawa, Yukie Akune, Takeo Katoda, Anna Kokubu, Takaaki Mori, Mitsuteru Nakao, Shuichi Kawashima, Shinobu Okamoto, Toshiaki Katayama, Soichi Ogishima

Journal of Biomedical Semantics 6 3 2015年1月

記述言語：英語掲載種別：研究論文（学術雑誌）出版者・発行元：BMC

Background: Linked Data has gained some attention recently in the life sciences as an effective way to provide and share data. As a part of the Semantic Web, data are linked so that a person or machine can explore the web of data. Resource Description Framework (RDF) is the standard means of implementing Linked Data. In the process of generating RDF data, not only are data simply linked to one another, the links themselves are characterized by ontologies, thereby allowing the types of links to be distinguished. Although there is a high labor cost to define an ontology for data providers, the merit lies in the higher level of interoperability with data analysis and visualization software. This increase in interoperability facilitates the multi-faceted retrieval of data, and the appropriate data can be quickly extracted and visualized. Such retrieval is usually performed using the SPARQL (SPARQL Protocol and RDF Query Language) query language, which is used to query RDF data stores. For the database provider, such interoperability will surely lead to an increase in the number of users.Results: This manuscript describes the experiences and discussions shared among participants of the week-long BioHackathon 2011 who went through the development of RDF representations of their own data and developed specific RDF and SPARQL use cases. Advice regarding considerations to take when developing RDF representations of their data are provided for bioinformaticians considering making data available and interoperable.Conclusions: Participants of the BioHackathon 2011 were able to produce RDF representations of their data and gain a better understanding of the requirements for producing such data in a period of just five days. We summarize the work accomplished with the hope that it will be useful for researchers involved in developing laboratory databases or data analysis, and those who are considering such technologies as RDF and Linked Data.

DOI： 10.1186/2041-1480-6-3

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患者／クライエント／当事者による記録を活かす意見交換会の活動報告査読

荒牧英治, 荒木健治, 石井保志, 上松幸一, 北嶋志保, 熊谷晋一郎, 櫻井公恵, 瀬戸山陽子, 高橋由光, 冨井美子, 堀里子, 西舘澄人, 森田瑞樹, 矢島弘士, 和田恵美子, 則のぞみ, 島本裕美子

医療情報学 34 ( 4 ) 197 - 200 2014年9月

患者中心の情報管理とそれを可能にする新しいインフォームドコンセント招待

森田瑞樹

情報管理 57 ( 1 ) 3 - 11 2014年4月

記述言語：日本語出版者・発行元：科学技術振興機構

遺伝情報をはじめとした私たちの医療・健康情報は，利活用することで個人および公共の双方にとって利益をもたらすものであると同時に，機微性の高い情報でありその扱いには慎重さが求められる。そのため，それらは医療機関や研究機関において厳重に管理されている。しかし近年，医療・健康情報を取り巻く状況には大きな変化が起こっており，新しい考え方が必要である。これはまた，患者や一般市民が自分自身の個人情報をコントロールできる範囲を広げ，同時に，患者や一般市民による医学研究への関与を深める可能性を秘めている。こうした状況の変化を踏まえつつ，ダイナミックコンセントと呼ばれる比較的新しいインフォームドコンセントの方法を中心に，患者・一般市民による医療・健康情報の管理について概観する。

DOI： 10.1241/johokanri.57.3

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BioHackathon series in 2011 and 2012: penetration of ontology and linked data in life science domains. 査読

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, Toshihisa Takagi

Journal of Biomedical Semantics 5 5 2014年2月

Arresting Treatment Patterns for Individual Patients in Clinical Big Data: An Exploratory Procedure.

Mizuki Morita, Masanori Shiro, Shotaro Akaho, Hideki Asoh, Toshihiro Kamishima, Eiji Aramaki, Kôiti Hasida, Takahide Kohro

2014 AAAI Spring Symposia 2014年

Comparing Social Media and Search Activity as Social Sensors for the Detection of Influenza 査読

Mizuki Morita, Sachiko Maskawa, Eiji Aramaki

Proceedings of the 5th International Symposium on Language in Biology and Medicine (LBM2013) 75 - 79 2013年12月

患者と医師が使う言葉の違い : 闘病記の医学的な応用に向けて(<特集>パーソナルデータに基づく気付きの創発)

荒牧英治, 増川佐知子, 宮部真衣, 森田瑞樹

人工知能学会誌 28 ( 6 ) 857 - 861 2013年11月

A Word in a Dictionary is used by Numerous Users 査読

Eiji Aramaki, Sachiko Maskawa, Mai Miyabe, Mizuki Morita, Sachi Yasuda

Proceedings of the 6th International Joint Conference on Natural Language Processing (IJCNLP 2013) 874 - 877 2013年10月

Toxygates: interactive toxicity analysis on a hybrid microarray and linked data platform 査読国際誌

Johan Nystroem-Persson, Yoshinobu Igarashi, Maori Ito, Mizuki Morita, Noriyuki Nakatsu, Hiroshi Yamada, Kenji Mizuguchi

Bioinformatics 29 ( 23 ) 3080 - 3086 2013年9月

記述言語：英語掲載種別：研究論文（学術雑誌）出版者・発行元：OXFORD UNIV PRESS

Motivation: In early stage drug development, it is desirable to assess the toxicity of compounds as quickly as possible. Biomarker genes can help predict whether a candidate drug will adversely affect a given individual, but they are often difficult to discover. In addition, the mechanism of toxicity of many drugs and common compounds is not yet well understood. The Japanese Toxicogenomics Project provides a large database of systematically collected microarray samples from rats (liver, kidney and primary hepatocytes) and human cells (primary hepatocytes) after exposure to 170 different compounds in different dosages and at different time intervals. However, until now, no intuitive user interface has been publically available, making it time consuming and difficult for individual researchers to explore the data.
Results: We present Toxygates, a user-friendly integrated analysis platform for this database. Toxygates combines a large microarray dataset with the ability to fetch semantic linked data, such as pathways, compound-protein interactions and orthologs, on demand. It can also perform pattern-based compound ranking with respect to the expression values of a set of relevant candidate genes. By using Toxygates, users can freely interrogate the transcriptome's response to particular compounds and conditions, which enables deep exploration of toxicity mechanisms.

DOI： 10.1093/bioinformatics/btt531

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マイノリティのための情報処理 -難病支援を題材に- 招待

森田瑞樹, 荒牧英治

情報処理 54 ( 8 ) 834 - 840 2013年7月

記述言語：日本語掲載種別：研究論文（学術雑誌）出版者・発行元：一般社団法人情報処理学会

インターネットと情報処理技術によって人間社会におけるロングテールである社会的マイノリティの支援のあり方が変わりつつある.本稿では,社会的マイノリティのひとつとして難病を取り上げ,本邦における難病患者が,現在どのような問題を抱えているかを概観する.同時に,難病患者を取りまず状況を改善するために,現在,どのような情報処理の取り組みがなされ,また,今後,どのような支援が望まれているかを解説する.

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Online population-based patient registry to collect and share health-related data of rare disease patients

Mizuki Morita, Soichi Ogishima, Kunihiro Nishimura, Eiji Aramaki, Tateo Ito

AAAI Spring Symposium - Technical Report SS-13-03 65 - 66 2013年

掲載種別：研究論文（国際会議プロシーディングス）

Rare diseases, those affecting few patients, are in fact neglected diseases that demand special concern and care. We are constructing an online system to collect health-related data and complaints from rare-disease patients to share that information with stakeholders, thereby facilitating the development of new or improved drugs, treatments, and policies and enhancing the quality of life (QOL) for patients with such diseases. The system will also track and monitor the physical states and conditions of patients, which will facilitate the management of their QOL and improve communication with health professionals. Copyright © 2013 Association for the Advancement of Artificial Intelligence.

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Overview of the NTCIR-10 MedNLP Task. 査読

Mizuki Morita, Yoshinobu Kano, Tomoko Ohkuma, Mai Miyabe, Eiji Aramaki

Proceedings of the 10th NTCIR Conference on Evaluation of Information Access Technologies, NTCIR-10, National Center of Sciences, Tokyo, Japan, June 18-21, 2013 2013年

文章分類と疾患モデルの融合によるソーシャルメディアからの感染症把握査読

荒牧英治, 増川佐知子, 森田瑞樹

自然言語処理 19 ( 5 ) 419 - 435 2012年12月

記述言語：日本語掲載種別：研究論文（学術雑誌）

近年，ウェブの情報を用いて，感染症などの疾病状態を監視するシステムに注目が集まっている．本研究では，ソーシャルメディアを用いたインフルエンザ・サーベイランスに注目する．これまでの多くのシステムは，単純な単語の頻度情報をもとに患者の状態を調査するというものであった．しかし，この方法では，実際に疾患にかかっていない場合の発言を収集してしまう恐れがある．また，そもそも，医療者でない個人の自発的な発言の集計が，必ずしもインフルエンザの流行と一致するとは限らない．本研究では，前者の問題に対応するため，発言者が実際にインフルエンザにかかっているもののみを抽出し集計を行う．後者の問題に対して，発言と流行の時間的なずれを吸収するための感染症モデルを提案する．実験においては，Twitter の発言を材料にしたインフルエンザ流行の推定値は，感染症情報センターの患者数と相関係数 0.910 という高い相関を示し，その有効性を示した．本研究により，ソーシャルメディア上の情報をそのまま用いるのではなく，文章分類や疾患モデルと組み合わせて用いることで，さらに精度を向上できることが示された．

DOI： 10.5715/jnlp.19.419

J-GLOBAL

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Blind prediction of quaternary structures of homo-oligomeric proteins from amino acid sequences based on templates 査読

Mizuki Morita, Masanori Kakuta, Kentaro Shimizu, Shugo Nakamura

Journal of Proteome Science & Computational Biology 1 1 2012年4月

Sagace: A web-based search engine for biomedical databases in Japan 査読

Mizuki Morita, Yoshinobu Igarashi, Maori Ito, Yi-An Chen, Chioko Nagao, Yuki Sakaguchi, Ryuichi Sakate, Tohru Masui, Kenji Mizuguchi

BMC Research Notes 5 604 2012年

記述言語：英語掲載種別：研究論文（学術雑誌）

Background: In the big data era, biomedical research continues to generate a large amount of data, and the generated information is often stored in a database and made publicly available. Although combining data from multiple databases should accelerate further studies, the current number of life sciences databases is too large to grasp features and contents of each database. Findings. We have developed Sagace, a web-based search engine that enables users to retrieve information from a range of biological databases (such as gene expression profiles and proteomics data) and biological resource banks (such as mouse models of disease and cell lines). With Sagace, users can search more than 300 databases in Japan. Sagace offers features tailored to biomedical research, including manually tuned ranking, a faceted navigation to refine search results, and rich snippets constructed with retrieved metadata for each database entry. Conclusions: Sagace will be valuable for experts who are involved in biomedical research and drug development in both academia and industry. Sagace is freely available at. © 2012 Morita et al.
licensee BioMed Central Ltd.

DOI： 10.1186/1756-0500-5-604

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論文 - 森田　瑞樹