東北メディカル・メガバンク機構

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    Establishment of Protocols for Global Metabolomics by LC-MS for Biomarker Discovery

    Daisuke Saigusa, Yasunobu Okamura, Ikuko N. Motoike, Yasutake Katoh, Yasuhiro Kurosawa, Reina Saijyo, Seizo Koshiba, Jun Yasuda, Hozumi Motohashi, Junichi Sugawara, Osamu Tanabe, Kengo Kinoshita, and Masayuki Yamamoto
    PLoS ONE 11(8): e0160555
    Published: August 31, 2016
    DOI: 10.1371/journal.pone.0160555

    邦題:バイオマーカー探索を目的とした質量分析計によるヒト血漿中代謝物の網羅的メタボロミクス解析プロトコルの開発

    解説ページへ   原著論文へ

    The structural origin of metabolic quantitative diversity

    Seizo Koshiba, Ikuko Motoike, Kaname Kojima, Takanori Hasegawa,Matsuyuki Shirota, Tomo Saito, Daisuke Saigusa, Inaho Danjoh, Fumiki Katsuoka, Soichi Ogishima, Yosuke Kawai, Yumi Yamaguchi-Kabata, Miyuki Sakurai, Sachiko Hirano, Junichi Nakata, Hozumi Motohashi, Atsushi Hozawa, Shinichi Kuriyama, Naoko Minegishi, Masao Nagasaki, Takako Takai-Igarashi, Nobuo Fuse, Hideyasu Kiyomoto, Junichi Sugawara, Yoichi Suzuki, Shigeo Kure, Nobuo Yaegashi, Osamu Tanabe, Kengo Kinoshita, Jun Yasuda & Masayuki Yamamoto
    Scientific Reports 6, Article number: 31463 (2016)
    Published online August 16, 2016
    doi:10.1038/srep31463

    邦題:代謝物の量的な多様性の構造的起源

    解説ページへ   原著論文へ

    Partners’ Ongoing Treatment for Chronic Disease and the Risk of Psychological Distress after the Great East Japan Earthquake

    Naoki Nakaya, Akira Narita, Naho Tsuchiya, Tomohiro Nakamura, Ichiro Tsuji, Atsushi Hozawa, Hiroaki Tomita
    Vol. 239 (2016) No. 4 August p. 307-314
    Published online August 10, 2016
    http://doi.org/10.1620/tjem.239.307

    邦題:配偶者の慢性疾患治療と心理的苦痛リスク

    解説ページへ   原著論文へ

    The Tohoku Medical Megabank Project: Design and Mission

    Shinichi Kuriyama, Nobuo Yaegashi, Fuji Nagami, Tomohiko Arai, Yoshio Kawaguchi, Noriko Osumi, Masaki Sakaida, Yoichi Suzuki, Keiko Nakayama, Hiroaki Hashizume, Gen Tamiya, Hiroshi Kawame, Kichiya Suzuki, Atsushi Hozawa, Naoki Nakaya, Masahiro Kikuya, Hirohito Metoki, Ichiro Tsuji, Nobuo Fuse, Hideyasu Kiyomoto, Junichi Sugawara, Akito Tsuboi, Shinichi Egawa, Kiyoshi Ito, Koichi Chida, Tadashi Ishii, Hiroaki Tomita, Yasuyuki Taki, Naoko Minegishi, Naoto Ishii, Jun Yasuda, Kazuhiko Igarashi, Ritsuko Shimizu, Masao Nagasaki, Seizo Koshiba, Kengo Kinoshita, Soichi Ogishima, Takako Takai-Igarashi, Teiji Tominaga, Osamu Tanabe, Noriaki Ohuchi, Toru Shimosegawa, Shigeo Kure, Hiroshi Tanaka, Sadayoshi Ito, Jiro Hitomi, Kozo Tanno, Motoyuki Nakamura, Kuniaki Ogasawara, Seiichiro Kobayashi, Kiyomi Sakata, Mamoru Satoh, Atsushi Shimizu, Makoto Sasaki, Ryujin Endo, Kenji Sobue, the Tohoku Medical Megabank Project Study Group, Masayuki Yamamoto
    Published online: 23 June 2016
    Journal of Epidemiology
    http://doi.org/10.2188/jea.JE20150268

    邦題:東北メディカル・メガバンク計画:デザインとミッション

    解説ページへ   原著論文へ

    Psychological Distress and the Risk of Withdrawing From Hypertension Treatment After an Earthquake Disaster

    Naoki Nakaya, Tomohiro Nakamura, Naho Tsuchiya, Akira Narita, Ichiro Tsuji, Atsushi Hozawa and Hiroaki Tomita
    Published online: 23 June 2016
    Disaster Medicine and Public Health Preparedness
    doi: 10.1017/dmp.2016.102

    邦題:震災後の心理的苦痛と高血圧治療中断リスク

    解説ページへ   原著論文へ

    Comparison of Boiling and Robotics Automation Method in DNA Extraction for Metagenomic Sequencing of Human Oral Microbes

    Junya Yamagishi , Yukuto Sato , Natsuko Shinozaki, Bin Ye, Akito Tsuboi, Masao Nagasaki , Riu Yamashita
    Published: April 22, 2016
    PLoS One. 2016 Apr 22;11(4):e0154389.
    doi: 10.1371/journal.pone.0154389.

    解説ページへ   原著論文へ

    Public Attitudes toward an Epidemiological Study with Genomic Analysis in the Great East Japan Earthquake Disaster Area

    Mami Ishikuro, Naoki Nakaya, Taku Obara, Yuki Sato, Hirohito Metoki, Masahiro Kikuya, Naho Tsuchiya, Tomohiro Nakamura, Fuji Nagami, Shinichi Kuriyama, Atsushi Hozawa and the ToMMo Study Group
    Prehospital and Disaster Medicine: Published online: 28 March 2016 DOI: 10.1017/S1049023X16000182

    邦題:東日本大震災被災地域におけるゲノム解析を伴う疫学調査に対する人々の意識

    解説ページへ   原著論文へ

    A comprehensive genomic analysis reveals the genetic landscape of mitochondrial respiratory chain complex deficiencies

    Masakazu Kohda, Yoshimi Tokuzawa, Yoshihito Kishita, Hiromi Nyuzuki, Yohsuke Moriyama, Yosuke Mizuno, Tomoko Hirata, Yukiko Yatsuka, Yzumi Yamashita-Sugahara, Yutaka Nakachi, Hidemasa Kato, Akihiko Okuda, Shunsuke Tamaru, Nurun Nahar Borna, Kengo Banshoya, Toshiro Aigaki, Yukiko Sato-Miyata, Kohei Ohnuma, Tsutomu Suzuki, Asuteka Nagao, Hazuki Maehata, Fumihiko Matsuda, Koichiro Higasa, Masao Nagasaki, Jun Yasuda, Masayuki Yamamoto, Takuya Fushimi, Masaru Shimura, Keiko Kaiho-Ichimoto, Hiroko Harashima, Taro Yamazaki, Masato Mori, Kei Murayama, Akira Ohtake, Yasushi Okazaki
    PLOS Genetics: Published: January 7, 2016 DOI: 10.1371/journal.pgen.1005679

    邦題:網羅的ゲノム解析によりミトコンドリア病の遺伝的背景の一端を明らかにした

    解説ページへ   原著論文へ

    Monitoring of minimal residual disease in early T-cell precursor acute lymphoblastic leukemia by next-generation sequencing

    Xiaoqing Pan, Naoki Nariai, Noriko Fukuhara, Sakae Saito, Yukuto Sato, Fumiki Katsuoka, Kaname Kojima, Yoko Kuroki, Inaho Danjoh, Rumiko Saito, Shin Hasegawa, Yoko Okitsu, Aiko Kondo, Yasushi Onishi, Fuji Nagami, Hideyasu Kiyomoto, Atsushi Hozawa, Nobuo Fuse, Masao Nagasaki, Ritsuko Shimizu, Jun Yasuda, Hideo Harigae and Masayuki Yamamoto
    British Journal of Haematology Published online: 29 JAN 2016 DOI: 10.1111/bjh.13948

    邦題:次世代シークエンサーを用いた全ゲノム解析情報による初期前駆T細胞性急性リンパ芽球性白血病治療の効果判定

    解説ページへ   原著論文へ

    Prospect of the future housing and the risk of psychological distress at 1 year after an earthquake disaster

    Naoki Nakaya, Tomohiro Nakamura, Naho Tsuchiya, Akira Narita, Ichiro Tsuji, Atsushi Hozawa and Hiroaki Tomita
    Psychiatry and Clinical Neurosciences, Accepted manuscript online: 11 DEC 2015
    DOI: 10.1111/pcn.12377
    PMID: 26661684

    論文概要:震災1年後の将来の住居の見通しと心理的苦痛リスクの関連

    解説ページへ   原著論文へ

    Periodontitis-associated septic pulmonary embolism caused by Actinomyces species identified by anaerobic culture of bronchoalveolar lavage fluid: a case report

    Shun Endo, Eikan Mishima, Yoichi Takeuchi, Takashi Ohi, Masatsugu Ishida, Masaru Yanai, Hideyasu Kiyomoto, Tasuku Nagasawa and Sadayoshi Ito
    BMC Infectious Diseases 2015, 15:552, Published online: 1 December 2015
    DOI: 10.1186/s12879-015-1286-0
    PMID: 26626753 [PubMed – in process] PMCID: PMC4667511

    論文概要:気管支肺胞洗浄液の嫌気培養により診断されたアクチノマイセスによる歯周炎関連ー敗血症性肺塞栓の1例

    解説ページへ   原著論文へ

    Eczema and Asthma Symptoms among Schoolchildren in Coastal and Inland Areas after the 2011 Great East Japan Earthquake: The ToMMo Child Health Study

    Masako Miyashita, Masahiro Kikuya, Chizuru Yamanaka, Mami Ishikuro, Taku Obara, Yuki Sato, Hirohito Metoki, Naoki Nakaya, Fuji Nagami, Hiroaki Tomita, Hideyasu Kiyomoto, Junichi Sugawara, Atsushi Hozawa, Nobuo Fuse, Yoichi Suzuki, Ichiro Tsuji, Shigeo Kure, Nobuo Yaegashi, Masayuki Yamamoto, Shinichi Kuriyama
    The Tohoku Journal of Experimental Medicine, Vol. 237 (2015) No. 4 December p. 297-305 Published online December 02, 2015
    doi: 10.1620/tjem.237.297

    解説ページへ   原著論文へ

    iJGVD: an integrative Japanese genome variation database based on whole-genome sequencing

    Yumi Yamaguchi-Kabata, Naoki Nariai, Yosuke Kawai, Yukuto Sato, Kaname Kojima, Minoru Tateno, Fumiki Katsuoka, Jun Yasuda, Masayuki Yamamoto, and Masao Nagasaki
    Human Genome Variation 2, Article number: 15050 (2015)
    Published online 26 November 2015
    doi: 10.1038/hgv.2015.50

    論文概要:iJGVD: 全ゲノム解析に基づく日本人ゲノム多様性情報の統合されたデータベース

    解説ページへ    原著論文へ

    Unemployment risk among individuals undergoing medical treatment for chronic diseases

    Naoki Nakaya, Tomohiro Nakamura, Naho Tsuchiya, Ichiro Tsuji, Atsushi Hozawa and Hiroaki Tomita
    Occup Med (Lond) (2015)
    First published online: November 13, 2015
    doi: 10.1093/occmed/kqv159

    論文概要:東日本大震災の被災地の沿岸地域において慢性疾患の有無と無職リスクの関連性を検討した。慢性疾患治療者の無職リスクは高く、心理・身体面が不良な者は慢性疾患治療と無職リスクの有意な関連が示された。

    解説ページへ    原著論文へ

    Rare variant discovery by deep whole-genome sequencing of 1070 Japanese Individuals

    Masao Nagasaki, Jun Yasuda, Fumiki Katsuoka, Naoki Nariai, Kaname Kojima, Yosuke Kawai, Yumi Yamaguchi-Kabata, Junji Yokozawa, Inaho Danjoh, Sakae Saito, Yukuto Sato, Takahiro Mimori, Kaoru Tsuda, Rumiko Saito, Xiaoqing Pan, Satoshi Nishikawa, Shin Ito, Yoko Kuroki, Osamu Tanabe, Nobuo Fuse, Shinichi Kuriyama, Hideyasu Kiyomoto, Atsushi Hozawa, Naoko Minegishi, James Douglas Engel, Kengo Kinoshita, Shigeo Kure, Nobuo Yaegashi, ToMMo Japanese Reference Panel Project & Masayuki Yamamoto
    Nature Communications 6, Article number: 8018
    Published 21 August 2015
    doi: 10.1038/ncomms9018
    PMID: 26292667

    論文概要:東北メディカル・メガバンク計画のコホート調査に参加した健常な日本人1,070人分の全ゲノムを解析し、精度検証を進めることで、日本人の全ゲノムリファレンスパネル(1KJPN)を構築

    解説ページへ    原著論文へ

    Inter-individual differences in the oral bacteriome are greater than intra-day fluctuations in individuals

    Yukuto Sato, Junya Yamagishi, Riu Yamashita, Natsuko Shinozaki, Bin Ye, Takuji Yamada, Masayuki Yamamoto, Masao Nagasaki, Akito Tsuboi
    PLOS ONE. 2015, 10(6): e0131607. Published online 2015 June 29.
    doi: 10.1371/journal.pone.0131607
    PMCID: PMC4487993

    論文概要:個人の口腔内のバクテリア叢は比較的安定して存在しており、その日内の変動は個人間の差よりも小さい

    解説ページへ    原著論文へ

    Japonica Array: Improved genotype imputation by designing a population-specific SNP array with 1,070 Japanese individuals

    Yosuke Kawai, Takahiro Mimori, Kaname Kojima, Naoki Nariai, Inaho Danjoh, Rumiko Saito, Jun Yasuda, Masayuki Yamamoto, Masao Nagasaki
    Journal of Human Genetics advance online publication 25 June 2015
    doi: 10.1038/jhg.2015.68

    論文概要:ジャポニカアレイ®:1,070人の日本人の情報に基づく日本人集団に適したSNPアレイの設計によるインピュテーションの改良

    解説ページへ    原著論文へ

    Protocol and Research Perspectives of the ToMMo Child Health Study after the 2011 Great East Japan Earthquake

    Masahiro Kikuya, Masako Miyashita, Chizuru Yamanaka, Mami Ishikuro, Yuki Sato, Taku Obara, Hirohito Metoki, Naoki Nakaya, Fuji Nagami, Hiroaki Tomita, Hideyasu Kiyomoto, Junichi Sugawara, Atsushi Hozawa, Nobuo Fuse, Yoichi Suzuki, Ichiro Tsuji, Shigeo Kure, Nobuo Yaegashi, Masayuki Yamamoto and Shinichi Kuriyama
    The Tohoku Journal of Experimental Medicine, Vol. 236 No. 2 June 2015
    doi: 0.1620/tjem.236.123
    PMID: 26040309

    論文概要:地域子ども長期健康調査の研究デザインと2012年度に岩沼市・亘理町・山元町で実施した調査の結果

    解説ページへ    原著論文へ(J-STAGE)

    The Association Between Medical Treatment of Physical Diseases and Psychological Distress After the Great East Japan Earthquake: The Shichigahama Health Promotion Project.

    Naoki Nakaya, Tomohiro Nakamura, Naho Tsuchiya, Ichiro Tsuji, Atsushi Hozawa and Hiroaki Tomita
    Disaster Medicine and Public Health Preparedness, online: 27 April 2015
    doi: 10.1017/dmp.2015.52
    PMID: 25912962

    論文概要:東日本大震災で甚大な被害を受けた沿岸地域における循環器疾患、がん、高脂血症、肝臓病、腎臓病、糖尿病などの疾患を治療している者と心理的苦痛の関連の検討

    解説ページへ    原著論文へ

    Validation of multiple single nucleotide variation calls by additional exome analysis with a semiconductor sequencer to supplement data of whole-genome sequencing of a human population

    Ikuko N Motoike, Mitsuyo Matsumoto, Inaho Danjoh, Masayuki Yamamoto, et al.
    BMC Genomics. 2014, 15: 673.
    doi: 10.1186/1471-2164-15-673
    PMID: 25560536

    論文概要:複数の種類の次世代型シークエンサーによる一塩基置換の読み取りの精度向上について

    解説ページへ    原著論文へ

    An efficient quantitation method of next-generation sequencing libraries by using MiSeq sequencer

    Fumiki Katsuoka, Junji Yokozawa, Kaoru Tsuda, Shin Ito, Xiaoqing Pan, Masao Nagasaki, Jun Yasuda, Masayuki Yamamoto
    Anal Biochem. 2014 Aug 28;466C:27-29.
    doi: 10.1016/j.ab.2014.08.015.
    PMID:25173513

    論文概要:ToMMoで開発した新しいライブラリ定量に関する方法の論文です。ToMMoでは、この新しい定量方法を採用することで、効率の良い安定した全ゲノム解析を実現しています。

    解説ページへ    原著論文へ

    HapMonster: A Statistically Unified Approach for Variant Calling and Haplotyping Based on Phase-Informative Reads

    Kaname Kojima, Naoki Nariai, Takahiro Mimori, Yumi Yamaguchi-Kabata, Yukuto Sato, Yosuke Kawai and Masao Nagasaki
    Lecture Notes in Computer Science Volume 8542, 2014, pp 107-118

    原著論文へ

    SVEM: a Structural Variant Estimation Method using Multi-Mapped Reads on Breakpoints

    Tomohiko Ohtsuki, Naoki Nariai, Kaname Kojima, Takahiro Mimori, Yukuto Sato, Yosuke Kawai, Yumi Yamaguchi-Kabata, Tetsuo Shibuya and Masao Nagasaki
    Lecture Notes in Computer Science Volume 8542, 2014, pp 208-219

    原著論文へ

    A statistical variant calling approach from pedigree information and local haplotyping with phase informative reads

    Kaname Kojima, Naoki Nariai, Takahiro Mimori, Mamoru Takahashi, Yumi Yamaguchi-Kabata, Yukuto Sato, and Masao Nagasaki
    Bioinformatics. 2013 Nov 15;29(22):2835-43.
    doi: 10.1093/bioinformatics/btt503. Epub 2013 Sep 3.
    PMID: 24002111

    原著論文へ

    TIGAR: transcript isoform abundance estimation method with gapped alignment of RNA-Seq data by variational Bayesian inference

    Naoki Nariai, Osamu Hirose, Kaname Kojima and Masao Nagasaki
    Bioinformatics. 2013 Sep 15;29(18):2292-9.
    doi: 10.1093/bioinformatics/btt381. Epub 2013 Jul 2.
    PMID: 23821651

    原著論文へ

    主な査読付き国際学会proceedingsなど
    A Bayesian approach for estimating allele-specific expression from RNA-Seq data with diploid genomes

    Naoki Nariai, Kaname Kojima, Takahiro Mimori, Yosuke Kawai and Masao Nagasaki
    BMC Genomics201617(Suppl 1):2  Published: 11 January 2016
    DOI: 10.1186/s12864-015-2295-5
    Selected articles from the Fourteenth Asia Pacific Bioinformatics Conference (APBC 2016): Genomics

    邦題:RNAシークエンスデータと全ゲノムデータから、アレル特異的な遺伝子発現量を推定するベイズ理論を用いた手法を開発

    解説ページへ   原著論文へ

    HLA-VBSeq: accurate HLA typing at full resolution from whole-genome sequencing data

    Naoki Nariai, Kaname Kojima, Sakae Saito, Takahiro Mimori, Yukuto Sato, Yosuke Kawai, Yumi Yamaguchi-Kabata, Jun Yasuda, Masao Nagasaki
    BMC Genomics, 16(Suppl 2):S7 (2015)
    doi: 10.1186/1471-2164-16-S2-S7

    論文概要:HLAの型を全ゲノムシークエンスデータから高精度で推定することができる統計手法の開発とソフトウェアHLA-VBSeqの実装

    原著論文へ

    Estimating copy numbers of alleles from population-scale high-throughput sequencing data

    Takahiro Mimori, Naoki Nariai, Kaname Kojima, Yukuto Sato, Yosuke Kawai, Yumi Yamaguchi-Kabata and Masao Nagasaki
    BMC Bioinformatics, 16(Suppl 1):S4 (2015)
    doi: 10.1186/1471-2105-16-S1-S4

    論文概要:集団の全ゲノムシークエンスデータから、コピー数変異 (CNV) の塩基配列を推定する統計手法の開発と実装

    原著論文へ

    TIGAR2: sensitive and accurate estimation of transcript isoform expression with longer RNA-Seq reads

    Naoki Nariai, Kaname Kojima, Takahiro Mimori, Yukuto Sato, Yosuke Kawai, Yumi Yamaguchi-Kabata and Masao Nagasaki
    BMC Genomics, 15(Suppl 10):S5 (2014)
    doi: 10.1186/1471-2164-15-S10-S5
    PMID: 25109789

    論文概要:既報のTIGARをさらに改良しより長い次世代シークエンサに転写産物の発現量を推定する手法の開発とソフトウェアTIGAR2の実装

    原著論文へ

    SUGAR: graphical user interface-based data refiner for high-throughput DNA sequencing

    Yukuto Sato, Kaname Kojima, Naoki Nariai, Yumi Yamaguchi-Kabata, Yosuke Kawai, Mamoru Takahashi, Takahiro Mimori and Masao Nagasaki
    BMC Genomics. 2014 Aug 8;15:664.
    doi: 10.1186/1471-2164-15-664.
    PMID: 25103311

    論文概要:大量DNAシークエンスデータのクオリティ・コントロールを行うためのグラフィカルユーザーインターフェースソフトウェアSUGAR

    解説ページへ    原著論文へ

    iSVP: an integrated structural variant calling pipeline from high-throughput sequencing data

    Takahiro Mimori, Naoki Nariai, Kaname Kojima, Mamoru Takahashi, Akira Ono, Yukuto Sato, Yumi Yamaguchi-Kabata and Masao Nagasaki
    BMC Syst Biol. 2013;7 Suppl 6:S8.
    doi: 10.1186/1752-0509-7-S6-S8. Epub 2013 Dec 13.
    PMID: 24564972 PMCID: PMC4029547

    原著論文へ

     

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