先進ゲノム解析研究推進プラットフォーム

• Project/Area Number: 16H06279
• Research Category: Grant-in-Aid for Scientific Research on Innovative Areas ― Platforms for Advanced Technologies and Research Resources
• Allocation Type: Single-year Grants
• Research Institution: National Institute of Genetics
• Principal Investigator: 小原 雄治 (2019) 国立遺伝学研究所, 先端ゲノミクス推進センター, 特任教授
• Principal Investigator(Support): 小原 雄治 (2016-2018) 国立遺伝学研究所, 先端ゲノミクス推進センター, 特任教授 (70135292)
• Co-Investigator(Kenkyū-buntansha)(Support): 加藤 和人 大阪大学, 大学院医学系研究科, 教授 (10202011) ; 川嶋 実苗 国立研究開発法人科学技術振興機構, バイオサイエンスデータベースセンター, 研究員 (00396706) ; 豊田 敦 国立遺伝学研究所, 生命情報研究センター, 特任教授 (10267495) ; 鈴木 穣 東京大学, 大学院新領域創成科学研究科, 教授 (40323646) ; 三井 純 東京大学, 医学部附属病院, 特任准教授 (70579862) ; 林 哲也 九州大学, 大学院医学研究院, 教授 (10173014) ; 時野 隆至 札幌医科大学, 医学部, 教授 (40202197) ; 黒川 顕 国立遺伝学研究所, 生命情報研究センター, 教授 (20343246) ; 中村 保一 国立遺伝学研究所, 生命情報研究センター, 教授 (60370920) ; 野口 英樹 大学共同利用機関法人情報・システム研究機構(機構本部施設等), データサイエンス共同利用基盤施設, 特任教授 (50333349) ; 高木 利久 東京大学, 大学院理学系研究科, 教授 (30110836) ; 岩崎 渉 東京大学, 大学院理学系研究科, 准教授 (50545019) ; 森下 真一 東京大学, 大学院新領域創成科学研究科, 教授 (90292854) ; 浅井 潔 東京大学, 大学院新領域創成科学研究科, 教授 (30356357) ; 笠原 雅弘 東京大学, 大学院新領域創成科学研究科, 講師 (60376605) ; 伊藤 武彦 東京工業大学, 生命理工学院, 教授 (90501106) ; 山田 拓司 東京工業大学, 生命理工学院, 准教授 (10437262) ; 小椋 義俊 九州大学, 大学院医学研究院, 准教授 (40363585) ; 久原 哲 九州大学, 大学院農学研究院, 名誉教授 (00153320) ; 高橋 弘喜 千葉大学, 真菌医学研究センター, 准教授 (60548460) ; 瀬々 潤 国立研究開発法人産業技術総合研究所, 人工知能研究センター, 研究チーム長 (40361539) ; 榊原 康文 慶應義塾大学, 理工学部, 教授 (10287427)
• Project Period (FY): 2016 – 2021
• Project Status: Granted (Fiscal Year 2019)
• Budget Amount: ¥7,698,340,000 (Direct Cost: ¥5,921,800,000、Indirect Cost: ¥1,776,540,000); Fiscal Year 2018: ¥1,282,970,000 (Direct Cost: ¥986,900,000、Indirect Cost: ¥296,070,000); Fiscal Year 2017: ¥1,282,970,000 (Direct Cost: ¥986,900,000、Indirect Cost: ¥296,070,000); Fiscal Year 2016: ¥1,283,490,000 (Direct Cost: ¥987,300,000、Indirect Cost: ¥296,190,000)
• Keywords: 次世代DNAシーケンサー / 新規ゲノム配列決定 / リシーケンシング / エピゲノム / RNA-Seq / 1細胞解析 / メタゲノム解析 / スーパーコンピューター / ゲノムアッセンブル / ゲノム多型 / メタゲノム / ゲノムアノテーション

Outline of Annual Research Achievements

①総括支援活動では、支援課題の公募を行った。審査委員はすべてプラットフォーム外の専門家とし、経費上限設定などによりできるだけ多くの採択ができるように努めた結果、371件の応募から168件を採択し支援した(採択率45.3%)。支援課題は科研費生物系のほぼすべての分野に渡っており、支援の成果を含む論文として2019年度に117報が発表された。この中には「魚類の淡水への進出と放散の鍵を担う代謝遺伝子」(Science)、「植物ミトコンドリアのゲノム編集による細胞質雄性不稔性の回復」(Nature Plants)、「ncRNA作動エレメントの配列構造の同定」(EMBO J)、「メタゲノム・メタボローム解析により大腸がん発症関連細菌を特定」(Nature Medicine)など広い分野でのレベルの高い成果が含まれている。研究コミュニティ形成のために拡大班会議や情報解析講習会を開催し、またヒトゲノム研究倫理を考える会を開催した。
②大規模配列解析拠点ネットワーク支援活動においては、最先端技術を支援に提供するとともに、染色体レベルの新規ゲノム配列決定(遺伝研)、シングルセル解析(東大新領域)、パクテリアにおける高精度SNP 同定システの開発(九大)、リキッドバイオプシー検出感度の上昇(札医大)等支援技術の整備や高度化を進めた。
③高度情報解析支援ネットワーク活動では、支援から浮かび上がった課題を解決するソフトウェアの開発を進め、実際の課題への適用を進めた。2019年度には、ヘテロ接合度が高いゲノムのアッセンブルツールPlatanus-allee(東工大)、高速オルソログ遺伝子同定プログラムSonicParanoid (東大理)、高精度染色体ゲノムアセンブリツールHiC-Hiker (東大新領域)、微生物の比較ゲノム解析パイプライン(九大)等の開発を進め、②と合わせて31報の論文を発表した。

Current Status of Research Progress

2: Research has progressed on the whole more than it was originally planned.

Reason

・支援への応募数は増えたが、適切な選考ができた。申請は、解析の5つの対象(ヒト、マウス、マウス以外動物、植物、微生物)と6つの技術項目(新規ゲノム解析、変異解析、修飾/エピゲノム解析、RNA解析、メタゲノム等解析、超高感度解析)及び情報解析との各組合せを審査区分として受け付けた。審査は二段階とし、第一段審査では各審査区分に5名の審査委員(すべてプラットフォーム外の専門家)を委嘱し、書面審査と合議により支援候補の順位を決定した。第二段審査は各審査区分の主査で行い、全体予算や技術面等を考慮して採択課題を決定した。昨年度に比べ90件増の371件の応募になり、また支援希望内容も拡大しているが、経費上限の設定や支援内容精査などにより採択率を50%近くに維持することができた。科研費ほぼ全種目から課題採択できており、同程度の評価の場合は若手・女性・少額科研費からの課題及び新たな申請者を優先するなどの措置をとり、多様な課題への支援ができた。公募の機会増の要望を受け2020年度から年2回公募にするために前倒しで第1回公募を開始し、4月の最終決定に向け、1-3月に上記と同様のプロセスで支援課題候補を決定した。
・支援成果を含む論文発表は2019年度は117報と順調に増えている。
・支援技術の高度化のための活動も大規模DNAシーケンシング支援、高度情報解析支援共に進めることができ、高度化の論文は31報発表した。
・拡大班会議を開催し、支援依頼者の若手共同研究者の旅費援助をするなどして、研究コミュニティ作りが進んだ。また、情報解析講習会や解析パイプラインを整備などにより、支援依頼者が自力で解析できるように技術移転を進めた。
・これらの活動を、当初計画通り国立遺伝学研究所を中核機関として、参加する班員が所属する主な機関を連携機関とする連携ネットワークを形成して進めることができた。

Strategy for Future Research Activity

・最先端の技術をより多く提供するために、支援拠点における支援技術の高度化を進めることが重要である。ゲノム解析は技術進展のスピードが特に速く、2-3年で解析手法が様変わりするために、新たなDNAシーケンシング技術の導入・開発、目的に沿った情報解析技術の開発と整備が中心になる。そのためにも支援のための機器整備を工夫して進めていく。
・支援課題の採択率は、現状は予算の制限から50%にとどまっており、より多い課題の支援が求められる。現状では、各支援課題の支援経費の上限を設けて、これを超す分は経費負担を求める形にすることで、ようやくこの採択率になっている。解析内容を精査する効果はあるが、一方でゲノム解析においては一定規模以上で支援しないと意味のある結果が出ないことも多く、若手をはじめ、経費面で敷居が高くなるケースもある。そのためにも技術高度化により、より効果的な解析技術の整備やコスト削減を図っていく必要がある。
・大量データ解析の支援要望はますます増加していることから、解析パイプラインの整備とともに、情報解析講習会の開催を継続拡充する必要がある。また、ゲノム解析の感覚を研究者コミュニティに共有してもらうためにも、拡大班会議などの場が必要である。2020年度は新型コロナウィルス対応で困難ではあるが、工夫して進めていきたい。

Research Products

• [Int'l Joint Research] City University of New York/National Cancer Institute/The Jackson Laboratory for Genomic Medicine(USA)
• [Int'l Joint Research] European Molecular Biology Laboratory/German Cancer Research Center/Max Delbruck Centre for Molecular Medicine(Germany)
• [Int'l Joint Research] CHU de Toulouse/Institut Pasteur/Université de Toulouse(France)
• [Int'l Joint Research] Chulalongkorn University/Bangkok Medical Center/Rajavithi Hospital(Thailand)
• [Int'l Joint Research] CSIRO/Curtin University/University of Technology(Australia)
• [Int'l Joint Research]
• [Int'l Joint Research] Baylor College of Medicine/City University of New York/Fred Hutchinson Cancer Research Center（アメリカ）
• [Int'l Joint Research] European Molecular Biology Laboratory/German Cancer Research Center/Heinrich Heine University（ドイツ）
• [Int'l Joint Research] Universitas Airlangga/University of Indonesia/Merauke City General Hospital（インドネシア）
• [Int'l Joint Research] University of Trento/University of Turin/European Institute of Oncology（イタリア）
• [Int'l Joint Research] University of Oxford/University of Cambridge/John Innes Centre（英国）
• [Int'l Joint Research]
• [Int'l Joint Research] コールドスプリングハーバー研究所/エネルギー省連合ゲノム研究所/ヴァンダービルト大学(アメリカ)
• [Int'l Joint Research] マックスプランク研究所/ミュンスター大学/オスナブリュック大学(ドイツ)
• [Int'l Joint Research] ケンブリッジ大学/オックスフォード大学(英国)
• [Int'l Joint Research] モナシュ大学/メルボルン大学(オーストラリア)
• [Int'l Joint Research] チュラーロンコーン大学/マヒドン大学(タイ)
• [Int'l Joint Research]
• [Int'l Joint Research] USDepartment of Energy Joint Genome Institute/University of California at Berkley/National Cancer Institute(USA)
• [Int'l Joint Research] University of Calgary/University of Western Ontario(Canada)
• [Int'l Joint Research] Sam Ratulangi University(Indonesia)
• [Int'l Joint Research] Mahidol University(Thailand)
• [Int'l Joint Research] Radboud University(The Netherlands)
• [Int'l Joint Research]
• [Journal Article] Dysfunctional missense variant of OAT10/SLC22A13 decreases gout risk and serum uric acid levels. (2020)
  • Author(s): Higashino T, Morimoto K, Nakaoka H, Toyoda Y, Kawamura Y, Shimizu S, Nakamura T, Hosomichi K, Nakayama A, Ooyama K, Ooyama H, Shimizu T, Ueno M, Ito T, Tamura T, Naito M, Nakashima H, Kawaguchi M, Takao M, Kawai Y, Osada N, Ichida K, Yamamoto K, Suzuki H, Shinomiya N, Inoue I, Takada T, Matsuo H
  • Journal Title: Ann Rheum Dis. Volume: 79(1) Pages: 164166-164166
  • DOI: 10.1136/annrheumdis-2019-216044
  • Peer Reviewed / Open Access
• [Journal Article] Subtype-specific gout susceptibility loci and enrichment of selection pressure on ABCG2 and ALDH2 identified by subtype genome-wide meta-analyses of clinically-defined gout patients. (2020)
  • Author(s): Nakayama A, Nakatochi M, Kawamura Y, Yamamoto K, Nakaoka H, Kuriki K, Wakai K, Matsuo H, et al.
  • Journal Title: Ann Rheum Dis. Volume: 79 Issue: 5 Pages: 657-65
  • DOI: 10.1136/annrheumdis-2019-216644
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] The m6A Methyltransferase METTL3 Contributes to Transforming Growth Factor-beta-induced Epithelial-Mesenchymal Transition of Lung Cancer Cells Through the Regulation of JUNB (2020)
  • Author(s): Sasithorn Wanna-Udom, Minoru Terashima, Hanbing Lyu, Akihiko Ishimura, Takahisa Takino, Matomo Sakari, Toshifumi Tsukahara, Takeshi Suzuki
  • Journal Title: Biochem Biophys Res Commun. Volume: 524 Pages: 150-155
  • DOI: 10.1016/j.bbrc.2020.01.042
  • Peer Reviewed / Open Access
• [Journal Article] Finding the Direct Optimal RNA Barrier Energy and Improving Pathways with an Arbitrary Energy Model (2020)
  • Author(s): Hiroki Takizawa, Junichi Iwakiri, Goro Terai and Kiyoshi Asai
  • Journal Title: Bioinformatics
  • DOI: 10.1093/bioinformatics/btaa469
  • Description: in press
  • Peer Reviewed / Open Access
• [Journal Article] Heterogeneous fluid-like movements of chromatin and their implications to transcription. (2020)
  • Author(s): Ashwin SS, Maeshima K, Sasai M.
  • Journal Title: Biophys Rev. Volume: 12 Issue: 2 Pages: 461-468
  • DOI: 10.1007/s12551-020-00675-8
  • Peer Reviewed / Open Access
• [Journal Article] MoAIMS : Efficient Software for Detection of Enriched Regions of MeRIP-Seq (2020)
  • Author(s): Yiqian Zhang and Michiaki Hamada
  • Journal Title: BMC Bioinformatics Volume: 21 Pages: 103-103
  • DOI: 10.1186/s12859-020-3430-0
  • Peer Reviewed / Open Access
• [Journal Article] An improved de novo genome assembly of the common marmoset genome yields improved contiguity and increased mapping rates of sequence data (2020)
  • Author(s): Vasanthan Jayakumar, Hiromi Ishii, Misato Seki, Wakako Kumita, Takashi Inoue, Sumitaka Hase, Kengo Sato, Hideyuki Okano, Erika Sasaki, Yasubumi Sakakibara
  • Journal Title: BMC Genomics Volume: 21 Pages: 243-243
  • DOI: 10.1186/s12864-020-6657-2
  • Peer Reviewed / Open Access
• [Journal Article] E-test versus agar dilution for antibiotic susceptibility testing of Helicobacter pylori : a comparison study. (2020)
  • Author(s): Miftahussurur M, Fauzia KA, Nusi IA, Setiawan PB, Syam AF, Waskito LA, Doohan D, Ratnasari N, Khomsan A, Adnyana IK, Akada J, Yamaoka Y.
  • Journal Title: BMC Res Notes. Volume: 13 Issue: 1 Pages: 22-22
  • DOI: 10.1186/s13104-019-4877-9
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Multiomics investigation revealing the characteristics of HIV-1-infected cells in vivo (2020)
  • Author(s): Hirofumi Aso, Shumpei Nagaoka, Eiryo Kawakami, Jumpei Ito, Saiful Islam, Benjy Jek Yang Tan, Shinji Nakaoka, Koichi Ashizaki, Katsuyuki Shiroguchi, Yutaka Suzuki, Yorifumi Satou, Yoshio Koyanagi, Kei Sato
  • Journal Title: Cell Reports
  • Description: 未定 in press
  • Peer Reviewed / Open Access
• [Journal Article] Systematic Analysis of Targets of Pumilio-mediated mRNA Decay Reveals that PUM1 Repression by DNA Damage Activates Translesion Synthesis (2020)
  • Author(s): Yamada T., Imamachi N., Imamura K., Taniue K., Kawamura T., Suzuki Y., Nagahama M., Akimitsu N.
  • Journal Title: Cell Reports Volume: - Pages: 107542-107542
  • DOI: 10.1016/j.celrep.2020.107542
  • Peer Reviewed / Open Access
• [Journal Article] Tandem paired nicking promotes precise genome editing with scarce interference by p53 (2020)
  • Author(s): Hyodo T, Rahman ML, Karnan S, Ito T, Toyoda A, Ota A, Wahiduzzaman M, Tsuzuki S, Okada Y, Hosokawa Y, Konishi H
  • Journal Title: Cell Reports Volume: 30 Pages: 1195-1207
  • DOI: 10.1016/j.celrep.2019.12.064
  • Peer Reviewed / Open Access
• [Journal Article] Chromatin organization in early land plants reveals an ancestral association between H3K27me3, transposons, and constitutive heterochromatin. (2020)
  • Author(s): Montgomery SA, Tanizawa Y, Galik B, Wang N, Ito T, Mochizuki T, Akimcheva S, Bowman JL, Cognat V, Drouard L, Ekker H, Houng SF, Kohchi T, Lin SS, Liu LYD, Nakamura Y, Valeeva LR, Shakirov EV, Shippen DE, Wei WL, Yagura M, Yamaoka S, Yamato KT, Liu C, Berger F.
  • Journal Title: Curr. Biol. Volume: 30 Pages: 573-588
  • DOI: 10.1016/j.cub.2019.12.015
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Maternal almondex, a neurogenic gene, is required for proper subcellular Notch distribution in early Drosophila embryogenesis. (2020)
  • Author(s): Das, P., Salazar, J. L., Li-Kroeger, D., Yamamoto, S., Nakamura, M., Sasamura, T., Inaki, M., Masuda, W., Kitagawa, M., Yamakawa, M., and Matsuno, K.
  • Journal Title: Dev. Grow. & Diff. Volume: 62 Pages: 80-93
  • DOI: 10.1111/dgd.12639
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Transient and lineage-restricted requirement of Ebf3 for sternum ossification (2020)
  • Author(s): Kuriki M, Sato F, Arai H, Sogabe M, Kaneko M, Kiyonari H, Kawakami K, Yoshimoto Y, Shukunami C, and Sehara-Fujisawa A.
  • Journal Title: Development Volume: 147 Issue: 9
  • DOI: 10.1242/dev.186239
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] LncRNA-dependent nuclear stress bodies promote intron retention through SR protein phosphorylation (2020)
  • Author(s): Ninomiya, K., Adachi, S., Natsume, T., Iwakiri, J., Terai, G., Asai, K., Hirose, T.
  • Journal Title: EMBO J Volume: 39
  • DOI: 10.15252/embj.2019102729
  • Peer Reviewed / Open Access
• [Journal Article] tRIP-seq reveals repression of premature polyadenylation by co-transcriptional FUS-U1 snRNP assembly. (2020)
  • Author(s): Masuda A, Kawachi T, Takeda JI, Ohkawara B, Ito M, Ohno K.
  • Journal Title: EMBO Rep Volume: -
  • DOI: 10.15252/embr.201949890
  • Peer Reviewed / Open Access
• [Journal Article] The mechanoreceptor DEG-1 regulates cold tolerance in Caenorhabditis elegans (2020)
  • Author(s): Takagaki N., Ohta A., Ohnishi K., Kawanabe A., Minakuchi Y., Toyoda A., Fujiwara Y., Kuhara A.
  • Journal Title: EMBO reports Volume: 21 Pages: 1-14
  • DOI: 10.15252/embr.201948671
  • Peer Reviewed / Open Access
• [Journal Article] Physiological and genomic characterization of a new “Candidatus Nitrotoga” isolate (2020)
  • Author(s): Kento Ishii, Hirotsugu Fujitani, Yuji Sekiguchi, Satoshi Tsuneda
  • Journal Title: Environmental Microbiology
  • DOI: 10.1111/1462-2920.15015
  • Description: オンラインのみ
  • Peer Reviewed
• [Journal Article] CNV analysis using whole exome sequencing identified biallelic CNVs of VPS13B in siblings with intellectual disability. (2020)
  • Author(s): Enomoto Y, Tsurusaki Y, Yokoi T, Abe-Hatano C, Ida K, Naruto T, Mitsui J, Tsuji S, Morishita S, Kurosawa K.
  • Journal Title: Eur J Med Genet. Volume: 63 Issue: 1 Pages: 103610-103610
  • DOI: 10.1016/j.ejmg.2018.12.015
  • Peer Reviewed
• [Journal Article] Artificial generation of centromeres and kinetochores to understand their structure and function (2020)
  • Author(s): Tetsuya Hori, Tatsuo Fukagawa
  • Journal Title: Experimental Cell Research Volume: 印刷中 Pages: 111898-111898
  • DOI: 10.1016/j.yexcr.2020.111898
  • Peer Reviewed
• [Journal Article] Geographical gradients of genetic diversity and differentiation among the southernmost marginal populations of Abies sachalinensis revealed by EST-SSR polymorphism (2020)
  • Author(s): Kitamura Keiko, Uchiyama Kentaro, Ueno Saneyoshi, Ishizuka Wataru, Tsuyama Ikutaro and Goto Susumu
  • Journal Title: Forests Volume: 11(2) Pages: 233-233
  • DOI: 10.3390/f11020233
  • Peer Reviewed / Open Access
• [Journal Article] Molecular mechanisms underlying pupal protective color switch in Papilio polytes butterflies. (2020)
  • Author(s): Yoda, S., Otaguro, E. Nobuta, M. and Fujiwara, H
  • Journal Title: Frontiers in Ecology and Evolution Volume: 8 Pages: 51-51
  • DOI: 10.3389/fevo.2020.00051
  • Peer Reviewed / Open Access
• [Journal Article] Promoter tools for further development of Aspergillus oryzae as a platform for fungal secondary metabolite production. (2020)
  • Author(s): Maiko Umemura, Kaoru Kuriiwa, Linh Viet Dao, Tetsuya Okuda, Goro Terai
  • Journal Title: Fungal Biology and Biotechnology Volume: 7 Pages: 3-3
  • DOI: 10.1186/s40694-020-00093-1
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] H3K27me3 demethylase UTX regulates the differentiation of a subset of bipolar cells in the mouse retina. (2020)
  • Author(s): Umutoni, D., Iwagawa, T., Baba, Y., Tsuhako, A., Honda, H., Aihara, M, Watanabe, S.
  • Journal Title: Genes to Cells Volume: 25 Pages: 1-11
  • DOI: 10.1111/gtc.12767
  • Peer Reviewed
• [Journal Article] Accumulation of deleterious mutations in landlocked threespine stickleback populations. (2020)
  • Author(s): Yoshida, K., Ravinet, M., Makino, T., Toyoda, A., Kokita, T., Mori, S., and Kitano, J.
  • Journal Title: Genome Biology and Evolution Volume: 12 Pages: 479-492
  • DOI: 10.1093/gbe/evaa065
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Long read sequencing for non-small cell lung cancer genomes (2020)
  • Author(s): Yoshitaka Sakamoto, Liu Xu, Masahide Seki, Toshiyuki T. Yokoyama, Masahiro Kasahara, Yukie Kashima, Akihiro Ohashi, Yoko Shimada, Noriko Motoi, Katsuya Tsuchihara, Susumu S. Kobayashi, Takashi Kohno, Yuichi Shiraishi, Ayako Suzuki, Yutaka Suzuki
  • Journal Title: Genome Research
  • Description: 未定 in press
  • Peer Reviewed / Open Access
• [Journal Article] A Common variant of LDL receptor related protein 2 (LRP2) gene is associated with gout susceptibility : meta-analysis in Japanese population (2020)
  • Author(s): Akashi A, Nakayama A, Kamatani Y, Higashino T, Shimizu S, Kawamura Y, Imoto M, Naito M, Hishida A, Kawaguchi M, Takao M, Matsuo M, Takada T, Ichida K, Ooyama H, Shinomiya N, Matsuo H
  • Journal Title: Hum Cell. Volume: 33 Pages: 303307-303307
  • DOI: 10.1007/s13577-019-00318-5
  • Peer Reviewed / Open Access
• [Journal Article] Dictyobacter vulcani sp. nov., belonging to the class Ktedonobacteria, isolated from soil of the Mt Zao volcano (2020)
  • Author(s): Zheng, Y., Wang, C. M., Sakai, Y., Abe, K., Yokota, A., and Yabe, S
  • Journal Title: Int. J. Syst. Evol. Microbiol Volume: 70 Pages: 1805-1813
  • DOI: 10.1099/ijsem.0.003975
  • Peer Reviewed / Open Access
• [Journal Article] Cd9 protects photoreceptors from injury and potentiates Edn2 expression (2020)
  • Author(s): Iwagawa, T., Aihara, Y., Umutoni, D. Baba, Y., Murakami, A. Miyado, K., Watanabe, S.
  • Journal Title: Invest. Ophthalmol. Vis. Sci. Volume: 61 Pages: 43842-43842
  • DOI: 10.1167/iovs.61.3.7
  • Peer Reviewed / Open Access
• [Journal Article] Draft Genome Sequences of Bifidobacterium animalis Consecutively Isolated from Healthy Japanese Individuals. (2020)
  • Author(s): Tsukimi T, Watabe T, Tanaka K, Sato MP, Suzuki H, Tomita M, Fukuda S.
  • Journal Title: J Genomics Volume: 8 Pages: 37-42
  • DOI: 10.7150/jgen.38516
  • Peer Reviewed / Open Access
• [Journal Article] Local Chromatin Motion and Transcription. (2020)
  • Author(s): Babokhov M, Hibino K, Itoh Y, Maeshima K.
  • Journal Title: J Mol Biol. Volume: 432 Pages: 694-700
  • DOI: 10.1016/j.jmb.2019.10.018
  • Peer Reviewed
• [Journal Article] Restored interlaced volumetric imaging increases image quality and scanning speed during intravital imaging in living mice. (2020)
  • Author(s): Sogabe M, Ohzeki M, Fujimoto K, Sehara-Fujisawa A and Nishimura S.
  • Journal Title: Journal of Biophotonics Volume: 13 Issue: 5 Pages: 201960204-201960204
  • DOI: 10.1002/jbio.201960204
  • Peer Reviewed / Open Access
• [Journal Article] A new era of long-read sequencing for cancer genomics (2020)
  • Author(s): Yoshitaka Sakamoto, Sarun Sereewattanawoot, Ayako Suzuki
  • Journal Title: Journal of Human Genetics Volume: 65 Pages: 3-10
  • DOI: 10.1038/s10038-019-0658-5
  • Peer Reviewed / Open Access
• [Journal Article] Visualization tools for human structural variations identified by whole-genome sequencing (2020)
  • Author(s): Yokoyama, T. T. & Kasahara, M.
  • Journal Title: Journal of Human Genetics Volume: 65 Pages: 49-60
  • DOI: 10.1038/s10038-019-0687-0
  • Peer Reviewed / Open Access
• [Journal Article] Recent advances in the detection of base modifications using the Nanopore sequencer (2020)
  • Author(s): Liu Xu, Masahide Seki
  • Journal Title: Journal of Human Genetics Volume: 65 Pages: 25-33
  • DOI: 10.1038/s10038-019-0679-0
  • Peer Reviewed / Open Access
• [Journal Article] Differential dynamics and impacts of prophages and plasmids on the pangenome and virulence factor repertoires of Shiga toxin-producing Escherichia coli O145 : H28 (2020)
  • Author(s): Keiji Nakamura, Kazunori Murase, Mitsuhiko P. Sato, Atsushi Toyoda, Takehiko Itoh, Jacques Georges Mainil, Denis Pierard, Shuji Yoshino, Keiko Kimata, Junko Isobe, Kazuko Seto, Yoshiki Etoh, Hiroshi Narimatsu, Shioko Saito, Jun Yatsuyanagi, Kenichi Lee, Sunao Iyoda, Makoto Ohnishi, Tadasuke Ooka, Yasuhiro Gotoh, Yoshitoshi Ogura and Tetsuya Hayashi.
  • Journal Title: Microb Genom. Volume: 6
  • DOI: 10.1099/mgen.0.000323
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Diversity of Methylobacterium spp. in the Rice of the Vietnamese Mekong Delta (2020)
  • Author(s): Khoa Lai, Ngoc Thai Nguyen, Hiroki Miwa, Michiko Yasuda, Hiep Huu Nguyen, Shin Okazaki
  • Journal Title: Microb. Environ. Volume: 35 Issue: 1 Pages: 1-5
  • DOI: 10.1264/jsme2.me19111 10.1264/jsme2.ME19111
  • ISSN: 1342-6311, 1347-4405
  • Peer Reviewed / Open Access
• [Journal Article] Transcriptome analysis of the ammonia-oxidizing bacterium Nitrosomonas mobilis Msl reveals division of labor between aggregates and free-living cells (2020)
  • Author(s): Rino Isshiki, Hirotsugu Fujitani, Satoshi Tsuneda
  • Journal Title: Microb. Environ. Volume: 35 Issue: 2 Pages: n/a
  • DOI: 10.1264/jsme2.me19148 10.1264/jsme2.ME19148
  • ISSN: 1342-6311, 1347-4405
  • Peer Reviewed / Open Access
• [Journal Article] VPS13D-related disorders presenting as a pure and complicated form of hereditary spastic paraplegia. (2020)
  • Author(s): Koh K, Ishiura H, Shimazaki H, Tsutsumiuchi M, Ichinose Y, Nan H, Hamada S, Ohtsuka T, Tsuji S, Takiyama Y.
  • Journal Title: Mol Genet Genomic Med. Volume: 8 Issue: 3
  • DOI: 10.1002/mgg3.1108
  • Peer Reviewed / Open Access
• [Journal Article] Endfoot regrowth for neural stem cell renewal. (2020)
  • Author(s): Tsuboi, M. and Gotoh, Y.
  • Journal Title: Nat Cell Biol. Volume: 22 Pages: 3-5
  • DOI: 10.1038/s41556-019-0448-5
  • Peer Reviewed / Open Access
• [Journal Article] The role of Mediator and Little Elongation Complex in transcription termination. (2020)
  • Author(s): Takahashi H, Ranjan A, Chen S, Suzuki H, Shibata M, Hirose T, Hirose H, Sasaki K, Abe R, Chen K, He Y, Zhang Y, Takigawa I, Tsukiyama T, Watanabe M, Fujii S, Iida M, Yamamoto J, Yamaguchi Y, Suzuki Y, Matsumoto M, Nakayama K. I, Washburn M. P, Saraf A, Florens L, Sato S, Tomomori-Sato C, Conaway R. C, Conaway J. W, Hatakeyama S.
  • Journal Title: Nat. Commun. Volume: 11 Pages: 1063-1063
  • DOI: 10.1038/s41467-020-14849-1
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] More dynamic, more quantitative, unexpectedly intricate : Advanced understanding on synaptic RNA localization in learning and memory (2020)
  • Author(s): R Roy, N Shiina, and D O Wang
  • Journal Title: Neurobiol Learn and Mem Volume: 168 Pages: 107149-107149
  • DOI: 10.1016/j.nlm.2019.107149
  • Peer Reviewed
• [Journal Article] Short Tandem Repeat-Enriched Architectural RNAs in Nuclear Bodies : Functions and Associated Diseases (2020)
  • Author(s): Ninomiya, K. Hirose, T.
  • Journal Title: Noncoding RNA Volume: 6 Pages: 6-6
  • DOI: 10.3390/ncrna6010006
  • Peer Reviewed / Open Access
• [Journal Article] LGP2 virus sensor enhances apoptosis by upregulating apoptosis regulatory genes through TRBP-bound miRNAs during viral infection. (2020)
  • Author(s): Takahashi T, Nakano Y, Onomoto K, Yoneyama M, Ui-Tei K.
  • Journal Title: Nucleic Acids Res. Volume: 48 Pages: 1494-1507
  • DOI: 10.1093/nar/gkz1143
  • Peer Reviewed / Open Access
• [Journal Article] XCL1 expression correlates with CD8-positive T cells infiltration and PD-L1 expression in squamous cell carcinoma arising from mature cystic teratoma of the ovary. (2020)
  • Author(s): Tamura R, Yoshihara K, Nakaoka H, Yachida N, Yamaguchi M, Suda K, Ishiguro T, Nishino K, Ichikawa H, Homma K, Kikuchi A, Ueda Y, Takei Y, Fujiwara H, Motoyama T, Okuda S, Wakai T, Inoue I, Enomoto T.
  • Journal Title: Oncogene Volume: 39 Pages: 3541-3554
  • DOI: 10.1038/s41388-020-1237-0
  • Peer Reviewed / Open Access
• [Journal Article] Escherichia coli 08 : H8 Carrying a Novel Variant of the Heat-Labile Enterotoxin LT2 Gene Caused Outbreaks of Diarrhea. (2020)
  • Author(s): Ishimaru K, Sasaki M, Narimatsu H, Arimizu Y, Gotoh Y, Nakamura K, Hayashi T, Ogura Y.
  • Journal Title: Open Forum Infect Dis. Volume: 7
  • DOI: 10.1093/ofid/ofaa021
  • Peer Reviewed / Open Access
• [Journal Article] Chemotherapy after progression on nivolumab is essential for responders with genetic alterations of driver gene : Review of two recurrent/metastatic oral squamous cell carcinoma patients. (2020)
  • Author(s): Ogi K, Kobayashi J, Nakagaki T, Okamoto J, Koike K, Hirokawa N, Someya M, Sakamoto H, Takada K, Tokino T, Sasaki Y, Hiratsuka H, Miyazaki A.
  • Journal Title: Oral Oncol. Volume: 102 Pages: 104509-104509
  • DOI: 10.1016/j.oraloncology.2019.104509
  • Peer Reviewed / Open Access
• [Journal Article] The Ficus erecta genome aids Ceratocystis canker resistance breeding in common fig (F. carica). (2020)
  • Author(s): Shirasawa K, Yakushiji H, Nishimura R, Morita T, Jikumaru S, Ikegami H, Toyoda A, Hirakawa H, Isobe S
  • Journal Title: Plant J
  • DOI: 10.1111/tpj.14703
  • Description: in press
  • Peer Reviewed / Open Access
• [Journal Article] RNA-binding motifs of hnRNP K are critical for induction of antibody diversification by activation-induced cytidine deaminase (2020)
  • Author(s): Ziwei Yina, Maki Kobayashi, Wenjun Hu, Koichi, Higashi, Nasim A. Begum, Ken Kurokawa and Tasuku Honjo
  • Journal Title: PNAS USA Volume: in press Pages: 11624-11635
  • DOI: 10.1073/pnas.1921115117
  • Peer Reviewed / Open Access
• [Journal Article] Long-read bitter gourd (Momordica charantia) genome and the genomic architecture of non-classic domestication (2020)
  • Author(s): Hideo Matsumura, Min-Chien Hsiao, Ya-Ping Lin, Atsushi Toyoda, Naoki Taniai4 Kazuhiko Tarora, Naoya Urasaki, Shashi S. Anand, Narinder P. S. Dhillon, Roland Schafleitner, Cheng-Ruei Lee
  • Journal Title: Proceedings of the National Academy of Science USA Volume: 117
  • DOI: 10.1073/pnas.1921016117
  • Peer Reviewed / Int'l Joint Research
• [Journal Article] A robust model for quantitative prediction of the silencing efficacy of wild-type and A-to-I edited miRNAs. (2020)
  • Author(s): Tian S, Terai G, Kobayashi Y, Kimura Y, Abe H, Asai K, Ui-Tei K.
  • Journal Title: RNA Biology Volume: 17 Pages: 264-280
  • DOI: 10.1080/15476286.2019.1678364
  • Peer Reviewed / Open Access
• [Journal Article] Role of the imprinted allele of the Cdknlc gene in mouse neocortical development. (2020)
  • Author(s): Imaizumi, Y., Furutachi, S., Watanabe, T., Miya, H., Kawaguchi, D., Gotoh, Y.
  • Journal Title: Sci. Rep. Volume: 10 Pages: 1884-1884
  • DOI: 10.1038/s41598-020-58629-9
  • Peer Reviewed / Open Access
• [Journal Article] Characteristics of induced mutations in offspring derived from irradiated mouse spermatogonia and mature oocytes (2020)
  • Author(s): Yasunari Satoh, Jun-ichi Asakawa, Mayumi Nishimura, Tony Kuo, Norio Shinkai, Harry M. Cullings, Yohei Minakuchi, Jun Sese, Atsushi Toyoda, Yoshiya Shimada, Nori Nakamura, Arikuni Uchimura
  • Journal Title: Scientific Reports Volume: 10 Pages: 37-37
  • DOI: 10.1038/s41598-019-56881-2
  • Peer Reviewed / Open Access
• [Journal Article] Modeling of early neural development in vitro by direct neurosphere formation culture of chimpanzee induced pluripotent stem cells (2020)
  • Author(s): Ryunosuke Kitajima, Risako Nakai, Takuya Imamura, Tomonori Kameda, Daiki Kozuka, Hirohisa Hirai, Haruka Ito, Hiroo Imai, Masanori Imamura
  • Journal Title: Stem Cell Research Volume: 44 Pages: 101749-101749
  • DOI: 10.1016/j.scr.2020.101749
  • Peer Reviewed / Open Access
• [Journal Article] Whole-genome sequencing and comparative transcriptome analysis of Bombyx mori nucleopolyhedrovirus La strain (2020)
  • Author(s): Fujimoto S, Kawamoto M, Shoji K, Suzuki Y, Katsuma S, Iwanaga M
  • Journal Title: Virus Genes Volume: 56 Pages: 249-259
  • DOI: 10.1007/s11262-019-01727-2
  • Peer Reviewed / Open Access
• [Journal Article] What is the switch for coupling transcription and splicing? RNA Polymerase II C-terminal domain phosphorylation, phase separation and beyond. (Review) (2020)
  • Author(s): Hiroshi Maita, Shinichi Nakagawa
  • Journal Title: Wiley Interdiscip Rev RNA. Volume: 11
  • DOI: 10.1002/wrna.1574
  • Peer Reviewed
• [Journal Article] Dynamics of kinetochore structure and its regulations during mitotic progression. (2020)
  • Author(s): Masatoshi Hara, and Tatsuo Fukagawa
  • Journal Title: Cellular and Molecular Life Sciences Volume: 印刷中
  • DOI: 10.1007/s00018-020-03472-4
  • Peer Reviewed
• [Journal Article] Pathogenesis of multiple pancreatic cancers involves multicentric carcinogenesis and intrapancreatic metastasis. (2020)
  • Author(s): Fujita Y, Matsuda S, Sasaki Y, Masugi Y, Kitago M, Yagi H, Abe Y, Shinoda M, Tokino T, Sakamoto M, Kitagawa Y.
  • Journal Title: Cancer Sci Volume: 111 Pages: 739-748
  • DOI: 10.1111/cas.14268
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Metalloprotease-dependent attenuation of BMP signaling restricts cardiac neural crest cell fate. (2020)
  • Author(s): Arai H, Sato F, Yamamoto T, Woltjen K, Kiyonari H, Yoshimoto Y, Shukunami C, Akiyama H, Kist R, Sehara-Fujisawan A.
  • Journal Title: Cell Reports Volume: 29 Pages: 603-616
  • DOI: 10.1016/j.celrep.2019.09.019
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Genetic isolation by distance in the yellowfin goby populations revealed by RAD sequencing. (2020)
  • Author(s): Shotaro Hirase, Ayumi Tezuka, Atsushi J, Nagano, Kiyoshi Kikuchi, and Wataru Iwasaki.
  • Journal Title: Ichthyological Research Volume: 67 Pages: 98-104
  • DOI: 10.1007/s10228-019-00709-6
  • Peer Reviewed
• [Journal Article] Assessment of Polygala paniculata (Polygalaceae) characteristics for evolutionary studies of legume-rhizobia symbiosis. (2020)
  • Author(s): Yuji Tokumoto, Kayo Hashimoto, Takashi Soyano, Seishiro Aoki, Wataru Iwasaki, Mai Fukuhara, Tomomi Nakagawa, Kazuhiko Saeki, Jun Yokoyama, Hironori Fujita, and Masayoshi Kawaguchi.
  • Journal Title: Journal of Plant Research Volume: 133 Pages: 109-122
  • DOI: 10.1007/s10265-019-01159-x
  • Peer Reviewed
• [Journal Article] Characterization of a novel Helicobacter pylori East Asian-type CagA ELISA for detecting patients infected with various cagA genotypes. (2020)
  • Author(s): Doohan D, Miftahussurur M, Matsuo Y, Kido Y, Akada J, Matsuhisa T, Yee TT, Htet K, Aftab H, Vilaichone RK, Mahachai V, Ratanachu-Ek T, Tshering L, Waskito LA, Fauzia KA, Uchida T, Syam AF, Rezkitha YAA, Yamaoka Y.
  • Journal Title: Med Microbiol Immunol Volume: 209 Pages: 29-40
  • DOI: 10.1007/s00430-019-00634-5
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] キンギョの多様な表現型と全ゲノム重複 : 疾患モデル動物としての展開 (2020)
  • Author(s): 大森 義裕
  • Journal Title: 体の科学
  • Description: in press
• [Journal Article] キンギョの遺伝子は普通の魚の約2倍!-キンギョが様々な形や色を持つ理由- (2020)
  • Author(s): 大森 義裕
  • Journal Title: きんぎょ生活 Volume: 6
• [Journal Article] 双翅目昆虫の交尾体位と生殖器形態の共進化の謎に迫る (2020)
  • Author(s): 稲富桃子, Shin Dungsun, Lai Yi-Ting, 松本竜実, 松野健治
  • Journal Title: 昆虫と自然 Volume: 55 Pages: 23-26
• [Journal Article] 性染色体獲得のジレンマー性染色体は進化の袋小路か? (2020)
  • Author(s): 野澤昌文
  • Journal Title: 日本の科学者
  • Description: 印刷中
• [Journal Article] Cooperation of Spaln and Prrn5 for construction of gene-structure-aware multiple sequence alignment (2020)
  • Author(s): Gotóh, O.
  • Journal Title: Methods in Molecular Biology
  • Description: in press
• [Journal Article] The Story of Helicobacter pylori : Depicting Human Migrations from the Phylogeography. (2019)
  • Author(s): Waskito LA, Yamaoka Y.
  • Journal Title: Adv Exp Med Biol. Volume: 1149 Pages: 1-16
  • DOI: 10.1007/5584_2019_356
  • Peer Reviewed / Int'l Joint Research
• [Journal Article] Genome-wide association study revealed novel loci which aggravate asymptomatic hyperuricaemia into gout. (2019)
  • Author(s): Kawamura Y, Nakaoka H, Nakayama A, Okada Y, Yamamoto K, Higashino T, Sakiyama M, Shimizu T, Ooyama H, Ooyama K, Nagase M, Hidaka Y, Shirahama Y, Hosomichi K, Nishida Y, Shimoshikiryo I, Hishida A, Katsuura-Kamano S, Shimizu S, Kawaguchi M, Uemura H, Ibusuki R, Hara M, Naito M, Takao M, Nakajima M, Iwasawa S, Nakashima H, Ohnaka K, M, Hosoya T, Ichida K, Inoue I, Shinomiya N, Matsuo H, et al.
  • Journal Title: Ann Rheum Dis. Volume: 78 Pages: 14301437-14301437
  • DOI: 10.1136/annrheumdis-2019-215521
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Hedgehog-related genes regulate reactivation of quiescent neural progenitors in Caenorhabditis elegans. (2019)
  • Author(s): Kume M, Chiyoda H, Kontani K, Katada T, Fukuyama M
  • Journal Title: Biochem Biophys Res Commun Volume: 520 Pages: 532-537
  • DOI: 10.1016/j.bbrc.2019.10.045
  • Peer Reviewed
• [Journal Article] Discovering novel mutation signatures by latent Dirichlet allocation with variational Bayes inference (2019)
  • Author(s): Taro Matsutani, Yuki Ueno, Tsukasa Fukunaga, Michiaki Hamada
  • Journal Title: Bioinformatics Volume: 35 Issue: 22 Pages: 4543-4552
  • DOI: 10.1093/bioinformatics/btz266
  • Peer Reviewed
• [Journal Article] FuncTree2 : an interactive radial tree for functional hierarchies and omics data visualization (2019)
  • Author(s): Youssef Darzi, Yuta Yamate, Takuji Yamada
  • Journal Title: Bioinformatics Volume: 35 Pages: 4519-4521
  • DOI: 10.1093/bioinformatics/btz245
  • Peer Reviewed / Open Access
• [Journal Article] MoMI-G : Modular multi-scale integrated genome graph browser. (2019)
  • Author(s): Yokoyama, T. T., Sakamoto, Y., Seki, M., Suzuki, Y. & Kasahara, M.
  • Journal Title: BMC Bioinformatics Volume: 20 Pages: 548-548
  • DOI: 10.1186/s12859-019-3145-2
  • Peer Reviewed / Open Access
• [Journal Article] Comparative study between Helicobacter pylori and host human genetics in the Dominican Republic. (2019)
  • Author(s): Ono Takaaki、Cruz Modesto、Jimenez Abreu Jose A.、Nagashima Hiroyuki、Subsomwong Phawinee、Hosking Celso、Shiota Seiji、Suzuki Rumiko、Yamaoka Yoshio
  • Journal Title: BMC Evol Biol. Volume: 19 Issue: 1 Pages: 197-197
  • DOI: 10.1186/s12862-019-1526-9
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Significant epitranscriptomes in heterogeneous cancer. (2019)
  • Author(s): Konno, M., Taniguchi, M., Ishii, H.
  • Journal Title: Cancer Sci. Volume: 110 Pages: 2318-2327
  • DOI: 10.1111/cas.14095
  • Peer Reviewed / Open Access
• [Journal Article] Western-Type Helicobacter pylori CagA are the Most Frequent Type in Mongolian Patients. (2019)
  • Author(s): Tserentogtokh T, Gantuya B, Subsomwong P, Oyuntsetseg K, Bolor D, Erdene-Ochir Y, Azzaya D, Davaadorj D, Uchida T, Matsuhisa T, Yamaoka Y.
  • Journal Title: Cancers (Basel) Volume: 11
  • DOI: 10.3390/cancers11050725
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Gastric Microbiota in Helicobacter pylori-Negative and -Positive Gastritis Among High Incidence of Gastric Cancer Area. (2019)
  • Author(s): Gantuya B, El-Serag HB, Matsumoto T, Ajami NJ, Oyuntsetseg K, Azzaya D, Uchida T, Yamaoka Y.
  • Journal Title: Cancers (Basel) Volume: 11 Pages: 504-504
  • DOI: 10.3390/cancers11040504
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Biosynthetic Short Neuropeptides : A Rational Theory Based on Experimental Results for the Missing Pain-Relief Opioid Endomorphin Precursor Gene (2019)
  • Author(s): Matsushima, A., Sese, J., & Koyanagi, K. O.
  • Journal Title: ChemBioChem Volume: 20 Pages: 2054-2058
  • DOI: 10.1002/cbic.201900317
  • Peer Reviewed
• [Journal Article] The mimetic wing pattern of Papilio polytes butterflies is regulated by a doublesex-orchestrated gene network (2019)
  • Author(s): Iijima T, Yoda S, Fujiwara H
  • Journal Title: Commun Biol. Volume: 2 Pages: 257-257
  • DOI: 10.1038/s42003-019-0510-7
  • Peer Reviewed / Open Access
• [Journal Article] Genome and transcriptome evolve separately in recently hybridized Trichosporon fungi. (2019)
  • Author(s): Sira Sriswasdi, Masako Takashima, Ri-ichiroh Manabe, Moriya Ohkuma, and Wataru Iwasaki.
  • Journal Title: Communications Biology Volume: 2 Pages: 263-263
  • DOI: 10.1038/s42003-019-0515-2
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Genome sequence of Striga asiatica provides insight into the evolution of plant parasitism. (2019)
  • Author(s): Yoshida, S., Kim, S., Wafula, E. K., Tanskanen, J., Kim, Y. -M., Honaas, L., et al.
  • Journal Title: Curr. Biol. Volume: 29 Pages: 3041-3052
  • DOI: 10.1016/j.cub.2019.07.086
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Diverse gene regulatory mechanisms mediated by Polycomb group proteins during neural development (2019)
  • Author(s): Tsuboi, M., Hirabayashi, Y. and Gotoh, Y.
  • Journal Title: Curr. Opin. Neurobiol. Volume: 59 Pages: 164-173
  • DOI: 10.1016/j.conb.2019.07.003
  • Peer Reviewed
• [Journal Article] A SNP in a steroidogenic enzyme is associated with phenotypic sex in Seriola fishes. (2019)
  • Author(s): Koyama K., M. Nakamoto, K. Morishima, R. Yamashita, T. Yamashita, K. Sasaki, Y. Kuruma, N. Mizuno, M. Suzuki, Y. Okada, R. Ieda, T. Uchino, S. Tasumi, S. Hosoya, S. Uno, J. Koyama, A. Toyoda, K. Kikuchi, T. Sakamoto
  • Journal Title: Current Biol Volume: 29 Pages: 1901-1909
  • DOI: 10.1016/j.cub.2019.04.069
  • Peer Reviewed / Open Access
• [Journal Article] Lack of whey acidic protein (WAP) four-disulfide core domain protease inhibitor 2 (WFDC2) causes neonatal death from respiratory failure in mice (2019)
  • Author(s): Nakajima K, Ono M, Radovic U, Dizdarevic S, Tomizawa SI, Kuroha K, Nagamatsu G, Hoshi I, Matsunaga R, Shirakawa T, Kurosawa T, Miyazaki Y, Seki M, Suzuki Y, Koseki H, Nakamura M, Suda T, Ohbo K.
  • Journal Title: Disease Models & Mechanisms Volume: 12 Pages: 1-13
  • DOI: 10.1242/dmm.040139
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Comparison of the sequencing bias of currently available library preparation kits for Illumina sequencing of bacterial genomes and metagenomes. (2019)
  • Author(s): Sato MP, Ogura Y, Nakamura K, Nishida R, Gotoh Y, Hayashi M, Hisatsune J, Sugai M, Takehiko I, Hayashi T.
  • Journal Title: DNA Res. Volume: 26 Pages: 391-398
  • DOI: 10.1093/dnares/dsz017
  • Peer Reviewed / Open Access
• [Journal Article] The histone modification H3 lysine 27 tri-methylation has conserved gene regulatory roles in the triplicated genome of Brassica rapa L. (2019)
  • Author(s): Akter A, Takahashi S, Deng W, Shea DJ, Itabashi E, Shimizu M, Miyaji N, Osabe K, Nishida N, Suzuki Y, Helliwell CA, Seki M, Peacock WJ, Dennis ES, Fujimoto R.
  • Journal Title: DNA Research Volume: 26 Pages: 433-443
  • DOI: 10.1093/dnares/dsz021
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] A unicellular relative of animals generates a layer of polarized cells by actomyosin-dependent cellularization. (2019)
  • Author(s): Dudin, O., A. Ondracka, X. Grau-Bove, A. A. Haraldsen, A. Toyoda, H. Suga, J. Brate and I. Ruiz-Trillo
  • Journal Title: Elife Volume: 8
  • DOI: 10.7554/elife.49801
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Masc-induced dosage compensation in silkworm cultured cells (2019)
  • Author(s): Katsuma S, Shoji K, Sugano Y, Suzuki Y, Kiuchi T
  • Journal Title: FEBS Open Bio Volume: 9 Pages: 1573-1579
  • DOI: 10.1002/2211-5463.12698
  • Peer Reviewed / Open Access
• [Journal Article] Genomic Features of Rickettsia heilongjiangensis Revealed by Intraspecies Comparison and Detailed Comparison With Rickettsia japonica. (2019)
  • Author(s): Kasama K, Fujita H, Yamamoto S, Ooka T, Gotoh Y, Ogura Y, Ando S, Hayashi T.
  • Journal Title: Front. Microbiol. Volume: 6
  • DOI: 10.3389/fmicb.2019.02787
  • Peer Reviewed / Open Access
• [Journal Article] Initial Trials With Susceptibility-Based and Empiric Anti-H. pylori Therapies in Mongolia. (2019)
  • Author(s): Byambajav TO, Bira N, Choijamts G, Davaadorj D, Gantuya B, Sarantuya T, Sarantuya G, Enkhtsetseg A, Erdenetsogt D, Battulga A, Tserentogtokh T, Matsuhisa T, Yamaoka Y, Oyuntsetseg K.
  • Journal Title: Front Pharmacol. Volume: 10 Pages: 394-394
  • DOI: 10.3389/fphar.2019.00394
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Streptococcus pneumoniae evades host cell phagocytosis and limits host mortality through its cell wall anchoring protein PfbA. (2019)
  • Author(s): Yamaguchi M., Hirose Y., Takemura M., Ono M., Sumitomo T., Nakata M., Terao Y., Kawabata S.
  • Journal Title: Front. Cell. Infect. Microbiol. Volume: 9 Pages: 301-301
  • DOI: 10.3389/fcimb.2019.00301
  • Peer Reviewed / Open Access
• [Journal Article] LncRRIsearch : a web server for IncRNA-RNA interaction prediction integrated with tissue-specific expression and subcellular localization data (2019)
  • Author(s): Tsukasa Fukunaga, Junichi Iwakiri, Yukiteru Ono, Michiaki Hamada
  • Journal Title: Frontiers in Genetics Volume: - Pages: 462-462
  • DOI: 10.3389/fgene.2019.00462
  • Peer Reviewed / Open Access
• [Journal Article] Haustorium Inducing Factors for Parasitic Orobanchaceae. (2019)
  • Author(s): Goyet, V., Wada, S., Cui, S., Wakatake, T., Shirasu, K., Montiel, G., Simier, P. and Yoshida S.
  • Journal Title: Frontiers Plant Sci. Volume: 10 Pages: 1056-1056
  • DOI: 10.3389/fpls.2019.01056
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] A carrier protein is essential for the action of silver nanoparticles in an animal experiment (2019)
  • Author(s): Masami Ishido
  • Journal Title: Fundam. Toxicol. Sci. Volume: 6 Issue: 7 Pages: 277-279
  • DOI: 10.2131/fts.6.277
  • ISSN: 2189-115X
  • Peer Reviewed / Open Access
• [Journal Article] Plagl regulates neuronal gene expression and neuronal differentiation of neocortical neural progenitor cells (2019)
  • Author(s): Hiroshi Sakai, Yuki Fujii, Naohiro Kuwayama, Keita Kawaji, Yukiko Gotoh, and Yusuke Kishi
  • Journal Title: Genes to Cells Volume: 24 Pages: 650-666
  • DOI: 10.1111/gtc.12718
  • Peer Reviewed / Open Access
• [Journal Article] E and ID proteins regulate cell chirality and left-right asymmetric development in Drosophila. (2019)
  • Author(s): Ishibashi, T., Hatori, R., Maeda, R., Nakamura, M., Matsuyama, Y., and Matsuno, K.
  • Journal Title: Genes to Cells Volume: 24 (3) Pages: 214-230
  • DOI: 10.1111/gtc.12669
  • Peer Reviewed
• [Journal Article] Large-scale genome analysis of bovine commensal Escherichia coli reveals that bovine-adapted E. coli lineages are serving as evolutionary sources of the emergence of human intestinal pathogenic strains. (2019)
  • Author(s): Arimizu Y, Kirino Y, Sato MP, Uno K, Sato T, Gotoh Y, Auvray F, Brugere H, Oswald E, Mainil JG, Anklam KS, Dopfer D, Yoshino S, Ooka T, Tanizawa Y, Nakamura Y, Iguchi A, Morita-Ishihara T, Ohnishi M, Akashi K, Hayashi T, Ogura Y
  • Journal Title: Genome Res. Volume: 29 Pages: 1495-1505
  • DOI: 10.1101/gr.249268.119
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Genome-wide mutation analysis of Helicobacter pylori after inoculation to Mongolian gerbils. (2019)
  • Author(s): Suzuki R, Satou K, Shiroma A, Shimoji M, Teruya K, Matsumoto T, Akada J, Hirano T, Yamaoka Y.
  • Journal Title: Gut Pathog Volume: 11 Pages: 45-45
  • DOI: 10.1186/s13099-019-0326-5
  • Peer Reviewed / Open Access
• [Journal Article] Changes of tight junction and interleukin-8 expression using a human gastroid monolayer model of Helicobacter pylori infection. (2019)
  • Author(s): Uotani T, Murakami K, Uchida T, Tanaka S, Nagashima H, Zeng XL, Akada J, Estes MK, Graham DY, Yamaoka Y.
  • Journal Title: Helicobacter Volume: 24
  • DOI: 10.1111/hel.12583
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Different mutation profiles between epithelium and stroma in endometriosis and normal endometrium (2019)
  • Author(s): Suda K, Nakaoka H, Yoshihara K, Ishiguro T, Adachi S, Kase H, Motoyama T, Inoue I, Enomoto T.
  • Journal Title: Human Reproduction Volume: 34 Pages: 1899-1905
  • DOI: 10.1093/humrep/dez155
  • Peer Reviewed
• [Journal Article] Novel Sequence Type in Bacillus cereus Strains Associated with Nosocomial Infections and Bacteremia, Japan. (2019)
  • Author(s): Akamatsu R, Suzuki M, Okinaka K, Sasahara T, Yamane K, Suzuki S, Fujikura D, Furuta Y, Ohnishi N, Esaki M, Shibayama K, Higashi H.
  • Journal Title: Infect Dis. Volume: 25 Pages: 883-890
  • DOI: 10.3201/eid2505.171890
  • Peer Reviewed / Open Access
• [Journal Article] High-quality genome assembly of the silkworm, Bombyx mori. (2019)
  • Author(s): Kawamoto, M., A. Jouraku, A. Toyoda, K. Yokoi, Y. Minakuchi, S. Katsuma, A. Fujiyama, T. Kiuchi, K. Yamamoto and T. Shimada
  • Journal Title: Insect Biochem Mol Biol Volume: 107 Pages: 53-62
  • DOI: 10.1016/j.ibmb.2019.02.002
  • Peer Reviewed
• [Journal Article] Thermogemmatispora aurantia sp. nov. and Thermogemmatispora argillosa sp. nov., within the class Ktedonobacteria, and emended description of the genus Thermogemmatispora (2019)
  • Author(s): Zheng, Y., Wang, C. M., Sakai, Y., Abe, K., Yokota, A., & Yabe, S.
  • Journal Title: Int. J. Syst. Evol. Microbiol Volume: 69 Pages: 1744-1750
  • DOI: 10.1099/ijsem.0.003388
  • Peer Reviewed / Open Access
• [Journal Article] Tengunoibacter tsumagoiensis gen. nov., sp. nov., Dictyobacter kobayashii sp. nov., Dictyobacter alpinus sp. nov., and description of Dictyobacteraceae fam. nov. within the order Ktedonobacterales isolated from Tengu-no-mugimeshi, a soil-like granular mass of micro-organisms, and emended descriptions of the genera Ktedonobacter and Dictyobacter (2019)
  • Author(s): Wang, C. M., Zheng, Y., Sakai, Y., Toyoda, A., Minakuchi, Y., Abe, K., Yokota, A. & Yabe, S
  • Journal Title: Int. J. Syst. Evol. Microbiol Volume: 69 Pages: 1910-1918
  • DOI: 10.1099/ijsem.0.003396
  • Peer Reviewed / Open Access
• [Journal Article] A Next-Generation Sequencing-Based Approach to Identify Genetic Determinants of Antibiotic Resistance in Cambodian Helicobacter pylori Clinical Isolates. (2019)
  • Author(s): Tuan VP, Narith D, Tshibangu-Kabamba E, Dung HDQ, Viet PT, Sokomoth S, Binh TT, Sokhem S, Tri TD, Ngov S, Tung PH, Thuan NPM, Truc TC, Phuc BH, Matsumoto T, Fauzia KA, Akada J, Trang TTH, Yamaoka Y.
  • Journal Title: J Clin Med Volume: 8 Issue: 6 Pages: 858-858
  • DOI: 10.3390/jcm8060858
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Peroxisomes control mitochondrial dynamics and the mitochondrion-dependent pathway of apoptosis (2019)
  • Author(s): Tanaka H., Okazaki T., Aoyama S., Yokota M., Koike M., Okada Y., Fujiki Y. and Gotoh Y.
  • Journal Title: Journal of Cell Science Volume: －
  • DOI: 10.1242/jcs.224766
  • Peer Reviewed / Open Access
• [Journal Article] CDK1-mediated CENP-C phosphorylation modulates CENP-A binding and mitotic kinetochore localization. (2019)
  • Author(s): Watanabe R, Hara M, Okumura EI, Herv S, Fachinetti D, Ariyoshi M, Fukagawa T
  • Journal Title: Journal of Cell Biology Volume: 218 Pages: 4042-4062
  • DOI: 10.1083/jcb.201907006
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] O-antigen biosynthesis gene clusters of Escherichia albertii : their diversity and similarity to Escherichia coli gene clusters and the development of an O-genotyping method. (2019)
  • Author(s): Ooka T, Seto K, Ogura Y, Nakamura K, Iguchi A, Gotoh Y, Honda M, Etoh Y, Ikeda T, Sugitani W, Konno T, Kawano K, Imuta N, Yoshiie K, Hara-Kudo Y, Murakami K, Hayashi T, Nishi J.
  • Journal Title: Microb Genom. Volume: 5（11） Issue: 11
  • DOI: 10.1099/mgen.0.000314
  • Peer Reviewed / Open Access
• [Journal Article] The earth is small for "leviathans" : long distance dispersal of giant viruses across aquatic environments (2019)
  • Author(s): Li Y., Endo H., Gotoh Y., Watai H., Ogawa N., Blanc-Mathieu R., Yoshida T., Ogata H.
  • Journal Title: Microb. Environ. Volume: 34 Issue: 3 Pages: 334-339
  • DOI: 10.1264/jsme2.me19037 10.1264/jsme2.ME19037
  • NAID: 130007687429
  • ISSN: 1342-6311, 1347-4405
  • Peer Reviewed / Open Access
• [Journal Article] Evaluation of SNP calling methods for closely related bacterial isolates and a novel high-accuracy pipeline : BactSNP (2019)
  • Author(s): Yoshimura D, Kajitani R, Gotoh Y, Katahira K, Okuno M, Ogura Y, Hayashi T, Itoh T
  • Journal Title: Microbial genomics Volume: 5
  • DOI: 10.1099/mgen.0.000261
  • Peer Reviewed / Open Access
• [Journal Article] Draft Genome Sequences of Enterococcus faecalis Strains Isolated from Healthy Japanese Individuals. (2019)
  • Author(s): Tanaka K, Watabe T, Kato K, Tsukimi T, Sato MP, Odamaki T, Tomita M, Fukuda S.
  • Journal Title: Microbiol Resour Announc. Volume: 8
  • DOI: 10.1128/mra.00832-19
  • Peer Reviewed / Open Access
• [Journal Article] Draft Genome Sequence of Acidovorax sp. Strain NB1, Isolated from a Nitrite-Oxidizing Enrichment Culture (2019)
  • Author(s): Hiroto Ide, Kento Ishii, Hirotsugu Fujitani, Satoshi Tsuneda
  • Journal Title: Microbiology Resource Announcements Volume: 8
  • DOI: 10.1128/mra.00547-19
  • Description: オンラインのみ
  • Peer Reviewed / Open Access
• [Journal Article] An Optimized Metabarcoding Method for Mimiviridae (2019)
  • Author(s): Prodinger F, Endo H, Gotoh Y, Li Y, Morimoto D, Omae K, Tominaga K, Blanc-Mathieu R, Takano Y, Hayashi T, Nagasaki K, Yoshida T, Ogata H.
  • Journal Title: Microorganisms Volume: 8
  • DOI: 10.3390/microorganisms8040506
  • Peer Reviewed / Open Access
• [Journal Article] A fast Likelihood method to reconstruct and visualize ancestral scenarios. (2019)
  • Author(s): Sohta A Ishikawa, Anna Zhukova, Wataru Iwasaki, and Olivier Gascuel.
  • Journal Title: Molecular Biology and Evolution Volume: 36 Pages: 2069-2085
  • DOI: 10.1093/molbev/msz131
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Platanus-allee is a de novo haplotype assembler enabling a comprehensive access to divergent heterozygous regions. (2019)
  • Author(s): Kajitani, R., D. Yoshimura, M. Okuno, Y. Minakuchi, H. Kagoshima, A. Fujiyama, K. Kubokawa, Y. Kohara, A. Toyoda and T. Itoh
  • Journal Title: Nat Commun Volume: - Issue: 1 Pages: 1-15
  • DOI: 10.1038/s41467-019-09575-2
  • Peer Reviewed / Open Access
• [Journal Article] Noncoding CGG repeat expansions in neuronal intranuclear inclusion disease, oculopharyngodistal myopathy and an overlapping disease. (2019)
  • Author(s): Ishiura H, Shibata S, Yoshimura J, Suzuki Y, Qu W, Doi K, Almansour MA, Kikuchi JK, Taira M, Mitsui J, Takahashi Y, Ichikawa Y, Mano T, Iwata A, Harigaya Y, Matsukawa MK, Matsukawa T, Tanaka M, Shirota Y, Ohtomo R, Kowa H, Date H, Mitsue A, Hatsuta H, Morimoto S, Murayama S, Shiio Y, Saito Y, Mitsutake A, Kawai M, Sasaki T, Sugiyama Y, Hamada M, Ohtomo G, Terao Y, Morishita S, Tsuji S, et al.
  • Journal Title: Nat Genet. Volume: 51 Issue: 8 Pages: 1222-1232
  • DOI: 10.1038/s41588-019-0458-z
  • Peer Reviewed / Int'l Joint Research
• [Journal Article] Metagenomic and metabolomic analyses reveal distinct stage-specific phenotypes of the gut microbiota in colorectal cancer. (2019)
  • Author(s): Yachida, S., S. Mizutani, H. Shiroma, S. Shiba, T. Nakajima, T. Sakamoto, H. Watanabe, K. Masuda, Y. Nishimoto, M. Kubo, F. Hosoda, H. Rokutan, M. Matsumoto, H. Takamaru, M. Yamada, T. Matsuda, M. Iwasaki, T. Yamaji, T. Yachida, T. Soga, K. Kurokawa, A. Toyoda, Y. Ogura, T. Hayashi, M. Hatakeyama, H. Nakagama, Y. Saito, S. Fukuda, T. Shibata and T. Yamada
  • Journal Title: Nat Med Volume: 25 Issue: 6 Pages: 968-976
  • DOI: 10.1038/s41591-019-0458-7
  • Peer Reviewed / Open Access
• [Journal Article] Distinct Methylation Levels of Mature MicroRNAs in Gastrointestinal Cancers. (2019)
  • Author(s): Konno, M., Koseki, J., Ishii, H
  • Journal Title: Nature Commun. Volume: 10 Pages: 3888-3888
  • DOI: 10.1038/s41467-019-11826-1
  • Peer Reviewed / Open Access
• [Journal Article] Metagenomic analysis of colorectal cancer datasets identifies cross-cohort microbial diagnostic signatures and a link with choline degradation (2019)
  • Author(s): Andrew Maltez Thomas, Paolo Manghi, Francesco Asnicar, Edoardo Pasolli, Federica Armanini, Moreno Zolfo, Francesco Beghini, Serena Manara, Nicolai Karcher, Chiara Pozzi, Sara Gandini, Davide Serrano, Sonia Tarallo, Antonio Francavilla, Gaetano Gallo, Mario Trompetto, Giulio Ferrero, Sayaka Mizutani, Hirotsugu Shiroma, Tatsuhiro Shibata, Shinichi Yachida, Takuji Yamada, Nicola Segata, et al.
  • Journal Title: Nature Madicine Volume: 25 Pages: 667-678
  • DOI: 10.1038/s41591-019-0663-4
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Meta-analysis of fecal metagenomes reveals global microbial signatures that are specific for colorectal cancer (2019)
  • Author(s): Jakob Wirbel, Paul Theodor Pyl, Ece Kartal, Konrad Zych, Alireza Kashani, Alessio Milanese, Jonas S Fleck, Anita Y Voigt, Albert Palleja, Ruby Ponnudurai, Shinichi Sunagawa, Luis Pedro Coelho, Petra Schrotz-King, Emily Vogtmann, Nina Habermann, Emma Nimeus, Andrew M Thomas, Paolo Manghi, Sara Gandini, Davide Serrano, Sayaka Mizutani, Hirotsugu Shiroma, Georg Zeller, et al.
  • Journal Title: Nature Madicine Volume: 25 Pages: 679-689
  • DOI: 10.1038/s41591-019-0406-6
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Auxin-mediated rapid degradation of target proteins in hippocampal neurons (2019)
  • Author(s): Nakano R, Ihara N, Morikawa S, Nakashima A, Kanemaki MT, Ikegaya Y, and Takeuchi H.
  • Journal Title: neuroreport Volume: 30 Pages: 908-913
  • DOI: 10.1097/wnr.0000000000001299
  • Peer Reviewed
• [Journal Article] Translation-dependent unwinding of stem-loops by UPF1 licenses Regnase-1 to degrade inflammatory mRNAs. (2019)
  • Author(s): Mino, T., Iwai, N., Endo, M., Inoue, K., Akaki, K., Hia, F., Uehata, T., Emura, T., Hidaka, K., Suzuki, Y., Standley, D. M., Okada-Hatakeyama, M., Ohno, S., Sugiyama, H., Yamashita, A., Takeuchi, O.
  • Journal Title: Nucleic Acids Research Volume: 47 Pages: 8838-8859
  • DOI: 10.1093/nar/gkz628
  • NAID: 120006708220
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Genome Sequencing Verifies Relapsed Infection of Helicobacter cinaedi. (2019)
  • Author(s): Sawada O, Gotoh Y, Taniguchi T, Furukawa S, Yoshimura D, Sasaki S, Shida H, Kusunoki Y, Yamamura T, Furuya K, Itoh T, Horita T, Hayashi T, Misawa N.
  • Journal Title: Open Forum Infect Dis. Volume: 印刷中
  • DOI: 10.1093/ofid/ofz200
  • Peer Reviewed / Open Access
• [Journal Article] SIMON : Simple methods for analyzing DNA methylation by targeted bisulfite next-generation sequencing. (2019)
  • Author(s): Vial-Pradel S., Hasegawa Y., Nakagawa A., Miyaki S., Machida Y., Kojima S., *Machida C., *Takahashi H.
  • Journal Title: Plant Biotechnology Volume: 36 Issue: 4 Pages: 213-222
  • DOI: 10.5511/plantbiotechnology.19.0822a
  • ISSN: 1342-4580, 1347-6114
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] High mesophy11 conductance in the high-yielding rice cultivar Takanari quantified with the combined gas exchange and chlorophy11 fluorescence measurements under free-air CO2 enrichmen (2019)
  • Author(s): Ikawa, H., Sakai, H., Chen, C. P., Soong, T. H., Yonemura, S., Taniguchi, Y., Yoshimoto, M., Tokida, Zhang, G., T., Kuwagata, et al.
  • Journal Title: Plant Production Science Volume: 22 Pages: 395-406
  • DOI: 10.1080/1343943x.2019.1626253
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Transcriptional regulatory divergence underpinning species-specific learned vocalization in songbirds. (2019)
  • Author(s): Wang H, Sawai A, Toji N, Sugioka R, Shibata Y, Suzuki Y, Ji Y, Hayase S, Akama S, Sese J, Wada K.
  • Journal Title: PLoS Biology Volume: 17
  • DOI: 10.1371/journal.pbio.3000476
  • Peer Reviewed / Open Access
• [Journal Article] DIpartite : A tool for detecting bipartite motifs by considering base interdependencies (2019)
  • Author(s): Vahed M, Ishihara JI, Takahashi H
  • Journal Title: PLoS One Volume: 14(8): e0220207 Issue: 8 Pages: 1-14
  • DOI: 10.1371/journal.pone.0220207
  • Peer Reviewed / Open Access
• [Journal Article] Analysis of risks of gastric cancer by gastric mucosa among Indonesian ethnic groups. (2019)
  • Author(s): Miftahussurur M, Waskito LA, Syam AF, Nusi IA, Wibawa IDN, Rezkitha YAA, Siregar G, Yulizal OK, Akil F, Uwan WB, Simanjuntak D, Waleleng JB, Saudale AMJ, Yusuf F, Maulahela H, Richardo M, Rahman A, Namara YS, Sudarmo E, Adi P, Maimunah U, Setiawan PB, Fauzia KA, Doohan D, Uchida T, Lusida MI, Yamaoka Y.
  • Journal Title: PLoS One Volume: 14
  • DOI: 10.1371/journal.pone.0216670
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] A distinct lineage of giant viruses brings a rhodopsin photosystem to unicellular marine predators. (2019)
  • Author(s): David M. Needham, Susumu Yoshizawa, Toshiaki Hosaka, Camille Poirier, Chang Jae Choi, Elisabeth Hehenberger, Nicholas A. T. Irwin, Susanne Wilken, Cheuk-Man Yung, Charles Bachy, Rika Kurihara, Yu Nakajima, Keiichi Kojima, Tomomi Kimura-Someya, Guy Leonard, Rex R. Malmstrom, Daniel R. Mende, Daniel K. Olson, Yuki Sudo, Sebastian Sudek, Wataru Iwasaki, and Alexandra Z. Worden, et al.
  • Journal Title: Proc Nat1 Acad Sci U S A Volume: 116 Pages: 20574-20583
  • DOI: 10.1073/pnas.1907517116
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Organization of fast and slow chromatin revealed by single-nucleosome dynamics. (2019)
  • Author(s): Ashwin SS, Nozaki T, Maeshima K, Sasai M.
  • Journal Title: Proc Nat1 Acad Sci U S A. Volume: 116 Pages: 19939-19944
  • DOI: 10.1073/pnas.1907342116
  • Peer Reviewed / Open Access
• [Journal Article] Arsenate and microbial dynamics in different phosphorus regimes of the subtropical Pacific Ocean. (2019)
  • Author(s): Hashima F, Suwa S, Kanda J, Ehama M, Sakuraba R, Kinouchi S, Sato M, Yamaguchi T, Saito H, Ogura Y, Hayashi T, Mori H, Kurokawa K, Suzuki S, Hamasaki K
  • Journal Title: Progrss in Oceanography Volume: 176 Pages: 102115-102115
  • DOI: 10.1016/j.pocean.2019.05.007
  • Peer Reviewed
• [Journal Article] Proper direction of male genitalia is prerequisite for copulation in Drosophila, implying cooperative evolution between genitalia rotation and mating behavior. (2019)
  • Author(s): Inatomi, M., Shin, D., Lai, Y. -T., and Matsuno, K.
  • Journal Title: Sci. Rep. Volume: 9 (1) Pages: 210-210
  • DOI: 10.1038/s41598-018-36301-7
  • Peer Reviewed / Open Access
• [Journal Article] Structured spike series specify gene expression patterns for olfactory circuit formation (2019)
  • Author(s): Nakashima, A., Ihara, N., Shigeta, M., Kiyonari, H., Ikegaya, Y., Takeuchi, H.
  • Journal Title: Science Volume: 365(6448)
  • DOI: 10.1126/science.aaw5030
  • Peer Reviewed / Int'l Joint Research
• [Journal Article] Characterization of cancer omics and drug perturbations in panels of lung cancer cells (2019)
  • Author(s): Suzuki Ayako、Onodera Keiichi、Matsui Ken、Seki Masahide、Esumi Hiroyasu、Soga Tomoyoshi、Sugano Sumio、Kohno Takashi、Suzuki Yutaka、Tsuchihara Katsuya
  • Journal Title: Scientific Reports Volume: 9 Pages: 19529-19529
  • DOI: 10.1038/s41598-019-55692-9
  • Peer Reviewed / Open Access
• [Journal Article] Cells with broken left-right symmetry : roles of intrinsic cell chirality in left-right asymmetric epithelial morphogenesis. (2019)
  • Author(s): Utsunomiya, S., Sakamura, S., Sasamura, T., Ishibashi, T., Maeda, C., Inaki, M., and Matsuno K.
  • Journal Title: Symmetry Volume: 11 (4) Pages: 505-505
  • DOI: 10.3390/sym11040505
  • Peer Reviewed / Open Access
• [Journal Article] Graph splitting : A graph-based approach for superfamily-scale phylogenetic tree reconstruction. (2019)
  • Author(s): Motomu Matsui and Wataru Iwasaki.
  • Journal Title: Systematic Biology Volume: 69 Pages: 265-279
  • DOI: 10.1093/sysbio/syz049
  • Peer Reviewed / Open Access
• [Journal Article] Helicobacter pylori Virulence Factors Exploiting Gastric Colonization and its Pathogenicity. (2019)
  • Author(s): Ansari S, Yamaoka Y.
  • Journal Title: Toxins (Basel) Volume: 11
  • DOI: 10.3390/toxins11110677
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Genotypic diversity of Streptococcus suis and the S. suis-like bacterium Streptococcus ruminantium in ruminants. (2019)
  • Author(s): Okura M, Maruyama F, Ota A, Tanaka T, Matoba Y, Osawa A, Sadaat SM, Osaki M, Toyoda A, Ogura Y, Hayashi T, Takamatsu D.
  • Journal Title: Vet Res. Volume: 50 Pages: 94-94
  • DOI: 10.1186/s13567-019-0708-1
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] SEARCH FOR SIGNATURES OF HUMAN GENETIC ADAPTATIONS IN EAST ASIA (2019)
  • Author(s): 木村亮介
  • Journal Title: Japanese Journal of Physiological Anthropology Volume: 24 Issue: 2 Pages: 87-91
  • DOI: 10.20718/jjpa.24.2_87
  • NAID: 130007677029
  • ISSN: 1342-3215, 2432-0986
  • Peer Reviewed / Open Access
• [Journal Article] Phylogeographic characteristics of hypervariable regions in the mitochondrial genome of a cosmopolitan, bloom-forming raphidophyte, Heterosigma akashiwo (2019)
  • Author(s): Ueki, S
  • Journal Title: Journal of Phycology Volume: 55 Issue: 4 Pages: 858-867
  • DOI: 10.1111/jpy.12868
  • Peer Reviewed / Open Access
• [Journal Article] Long-read metagenomic exploration of extrachromosomal mobile genetic elements in the human gut. (2019)
  • Author(s): Suzuki Y, Nishijima S, Furuta Y, Yoshimura J, Suda W, Oshima K, Hattori M, Morishita S.
  • Journal Title: Microbiome. Volume: 7 Issue: 1 Pages: 119-119
  • DOI: 10.1186/s40168-019-0737-z
  • Peer Reviewed / Open Access
• [Journal Article] Recompleting the Caenorhabditis elegans genome. (2019)
  • Author(s): Yoshimura J, Ichikawa K, Shoura MJ, Artiles KL, Gabdank I, Wahba L, Smith CL, Edgley ML, Rougvie AE, Fire AZ, Morishita S, Schwarz EM.
  • Journal Title: Genome Res. Volume: 29 Issue: 6
  • DOI: 10.1101/gr.244830.118
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Interspecies Comparative Analyses Reveal Distinct Carbohydrate-Responsive Systems among Drosophila Species. (2019)
  • Author(s): Kaori Watanabe, YasutetsuKanaoka, Shoko Mizutani, Hironobu Uchiyama, ShunsukeYajima, Masayoshi Watada, Tadashi Uemura, and Yukako Hattori
  • Journal Title: Cell Reports Volume: 28(10) Issue: 10 Pages: 2594-2607
  • DOI: 10.1016/j.celrep.2019.08.030
  • NAID: 120006716587
  • Peer Reviewed / Open Access
• [Journal Article] Evidence for sympatric speciation in a Wallacean ancient lake (2019)
  • Author(s): Nobu Sutra, Junko Kusumi, Javier Montenegro, Hirozumi Kobayashi, Shingo Fujimoto, Kawilarang W. A. Masengi, Atsushi J. Nagano, Atsushi Toyoda, Masatoshi Matsunami, Ryosuke Kimura, Kazunori Yamahira
  • Journal Title: Evolution Volume: 73 Issue: 9 Pages: 1898-1915
  • DOI: 10.1111/evo.13821
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Curing cytoplasmic male sterility via TALEN-mediated mitochondrial genome editing (2019)
  • Author(s): T. Kazama, M. Okuno, Y. Watari, S. Yanase, C. Koizuka, Y. Tsuruta, H. Sugaya, A. Toyoda, T. Itoh, N. Tsutsumi, K. Toriyama, N. Koizuka, S. Arimura
  • Journal Title: Nature Plants Volume: 5 Pages: 722-730
  • DOI: 10.1038/s41477-019-0459-z
  • Peer Reviewed / Open Access
• [Journal Article] A key metabolic gene for recurrent freshwater colonization and radiation in fishes. (2019)
  • Author(s): Asano Ishikawa, Naoki Kabeya, Koki Ikeya, Ryo Kakioka, Jennifer N. Cech, Naoki Osada, Miguel C. Leal, Jun Inoue, Manabu Kume, Atsushi Toyoda, Ayumi Tezuka, Atsushi J. Nagano, Yo Y. Yamasaki, Yuto Suzuki, Tomoyuki Kokita, Hiroshi Takahashi, Kay Lucek, David Marques, Yusuke Takehana, Kiyoshi Naruse, Catherine L. Peichel, Ole Seehausen, Goro Yoshizaki, Jun Kitano, et al.
  • Journal Title: Science Volume: 364 Issue: 6443 Pages: 886-889
  • DOI: 10.1126/science.aau5656
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Toward repositioning Allium vegetable crops as global commodities : opportunities and challenges for future application of omics and phytomedomics platforms to crop improvement. (2019)
  • Author(s): M. Shigyo, S. Fujito, S. Sato
  • Journal Title: Acta Hortic Volume: 1251 Pages: 1-7
  • DOI: 10.17660/actahortic.2019.1251.1
• [Journal Article] ゲノム研究関連指針改正に関するアンケート結果報告-指針改正に現場の声を届けるために- (2019)
  • Author(s): 山﨑千里, 大橋範子, 小門穂, 加藤和人
  • Journal Title: 医療・生命と倫理・社会 Issue: 15 Pages: 23-33
  • Open Access
• [Journal Article] Effective therapeutic regimens in two South Asian countries with high resistance to major Helicobacter pylori antibiotics. (2019)
  • Author(s): Miftahussurur M, Aftab H, Shrestha PK, Sharma RP, Subsomwong P, Waskito LA, Doohan D, Fauzia KA, Yamaoka Y.
  • Journal Title: Antimicrob Resist Infect Control. Volume: 8 Pages: 40-40
  • DOI: 10.1186/s13756-019-0482-x
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] SonicParanoid : fast, accurate and easy orthology inference. (2019)
  • Author(s): Salvatore Cosentino and Wataru Iwasaki.
  • Journal Title: Bioinformatics Volume: 35 Pages: 149-151
  • DOI: 10.1093/bioinformatics/bty631
  • Peer Reviewed / Open Access
• [Journal Article] Epigenetic control of early dendritic cell lineage specification by the transcription factor IRF8 in mice (2019)
  • Author(s): Kurotaki D, Kawase W, Sasaki H, Nakabayashi J, Nishiyama A, Morse HC Ⅲ, Ozato K, Suzuki Y, Tamura T
  • Journal Title: Blood Volume: 133 Pages: 1803-1813
  • DOI: 10.1182/blood-2018-06-857789
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] reactIDR : Evaluation of the statistical reproducibility of high-throughput structural analyses towards a robust RNA structure prediction (2019)
  • Author(s): Risa Kawaguchi, Hisanori Kiryu, Junichi Iwakiri, Jun Sese
  • Journal Title: BMC Bioinformatics Volume: 20 Issue: 3 Pages: 130-130
  • DOI: 10.1186/s12859-019-2645-4
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Whole-exome sequencing in a Japanese pedigree implicates a rare non-synonymous single-nucleotide variant in BEST3 as a candidate for mandibular prognathism. (2019)
  • Author(s): Kajii TS, Oka A, Saito F, Mitsui J, Iida J.
  • Journal Title: Bone Volume: 122 Pages: 193-198
  • DOI: 10.1016/j.bone.2019.03.004
  • Peer Reviewed
• [Journal Article] Disruption of Endolysosomal RAB5/7 Efficiently Eliminates Colorectal Cancer Stem Cells. (2019)
  • Author(s): Takeda, M., Koseki, J., Takahashi, H., Miyoshi, N., Nishida, N., Nishimura, J., Hata, T., Matsuda, C., Mizushima, T., Yamamoto, H., Ishii, H., Doki, Y., Mori, M., Haraguchi, N.
  • Journal Title: Cancer Res. Volume: 79 Pages: 1426-1437
  • DOI: 10.1158/0008-5472.can-18-2192
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Mitochondrial pyruvate carrier I expression controls cancer EMT and radioresistance. (2019)
  • Author(s): Takaoka, Y., Konno, M., Koseki, J., Colvin, H., Asai, A., Tamari, K., Satoh, T., Mori, M., Doki, Y., Ogawa, K., Ishii, H.
  • Journal Title: Cancer Sci. Volume: 110 Issue: 4 Pages: 1331-1339
  • DOI: 10.1111/cas.13980
  • Peer Reviewed / Open Access
• [Journal Article] Molecular and Cellular Network Systems Underlying Cold Tolerance of Caenorhabditis elegans (2019)
  • Author(s): Kohei OHNISHI, Natsune TAKAGAKI, Misaki OKAHATA, Mayu FUJITA, Akane OHTA, Atsushi KUHARA
  • Journal Title: Cryobiology and Cryotechnology Volume: 64, 2 Issue: 2 Pages: 53-59
  • DOI: 10.20585/cryobolcryotechnol.64.2_53
  • NAID: 130007590027
  • ISSN: 1340-7902, 2424-1555
  • Peer Reviewed
• [Journal Article] Dynamic chromatin organization without the 30-nm fiber. (2019)
  • Author(s): Maeshima, K., Ide, S., Babokhov, M.
  • Journal Title: Current Opinion in Cell Biology Volume: 58 Pages: 95-104
  • DOI: 10.1016/j.ceb.2019.02.003
  • Peer Reviewed / Open Access
• [Journal Article] Evaluation and application of RNA-Seq by MinION. (2019)
  • Author(s): Seki M, Katsumata E, Suzuki A, Sereewattanawoot S, Sakamoto Y, Mizushima-Sugano J, Sugano S, Kohno T, Frith MC, Tsuchihara K, Suzuki Y.
  • Journal Title: DNA Res Volume: 26 Pages: 55-65
  • DOI: 10.1093/dnares/dsy038
  • Peer Reviewed / Open Access
• [Journal Article] Mdm2-p53-SF1 pathway in ovarian granulosa cells directs ovulation and fertilization by conditining oocyte quality. (2019)
  • Author(s): Haraguchi H, Hirota Y, Saito-Fujita T, Tanaka T, Shimizu-Hirota R, Harada M, Akaeda S, Hiraoka T, Matsuo M, Matsumoto L, Hirata T, Koga K, Wada-Hiraike O, Fujii T, Osuga Y.
  • Journal Title: FASEB J Volume: 33 Pages: 2610-2620
  • DOI: 10.1096/fj.201801401r
  • Peer Reviewed / Open Access
• [Journal Article] PDH-mediated metabolic flow is critical for skeletal muscle stem cell differentiation and myotube formation during regeneration in mice. (2019)
  • Author(s): Hori S, Hiramuki Y, Nishimura D, Sato F, Sehara-Fujisawa A.
  • Journal Title: FASEB J Volume: - Pages: 8094-8109
  • DOI: 10.1096/fj.201802479r
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Genome Features and Secondary Metabolites Biosynthetic Potential of the Class Ktedonobacteria (2019)
  • Author(s): Yu ZHENG, Ayana Saitou, Chiung-Mei Wang, Atsushi Toyoda, Yohei Minakuchi, Yuji Sekiguchi, Kenji Ueda, Hideaki Takano, Yasuteru Sakai, Keietsu Abe, Akira Yokota and Shuhei Yabe
  • Journal Title: Frontiers in Microbiology Volume: 10 Pages: 893-893
  • DOI: 10.3389/fmicb.2019.00893
  • Peer Reviewed / Open Access
• [Journal Article] Molecular Basis of White Adipose Tissue Remodeling That Precedes and Coincides With Hibernation in the Syrian Hamster, a Food-Storing Hibernator. (2019)
  • Author(s): Chayama Y, Ando L, Sato Y, Shigenobu S, Anegawa D, Fujimoto T, Taii H, Tamura Y, Miura M, Yamaguchi Y.
  • Journal Title: Frontiers in Physiology Volume: 9 Pages: 1973-1973
  • DOI: 10.3389/fphys.2018.01973
  • Peer Reviewed / Open Access
• [Journal Article] Reactive Oxygen Species (ROS) Generation Is Indispensable for Haustorium Formation of the Root Parasitic Plant Striga Hermonthica (2019)
  • Author(s): Wada, S., Cui, S. and Yoshida, S.
  • Journal Title: Frontiers Plant Sci. Volume: 10 Pages: 1-12
  • DOI: 10.3389/fpls.2019.00328
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] DOT1L inhibition blocks multiple myeloma cell proliferation by suppressing IRF4-MYC signaling (2019)
  • Author(s): Ishiguro K., Kitajima H., Niinuma T., Ishida T., Maruyama R., Ikeda H., Hayashi T., Sasaki H., Wakasugi H., Nishiyama K., Shindo T., Yamamoto E., Kai M., Sasaki Y., Tokino T., Nakase H., Suzuki H.
  • Journal Title: Haematologica Volume: 104 Pages: 155-165
  • DOI: 10.3324/haematol.2018.191262
  • Peer Reviewed / Open Access
• [Journal Article] Alternative eradication regimens for Helicobacter pylori infection in Indonesian regions with high metronidazole and levofloxacin resistance. (2019)
  • Author(s): Miftahussurur M, Waskito LA, Syam AF, Nusi IA, Siregar G, Richardo M, Bakry AF, Rezkitha YAA, Wibawa IDN, Yamaoka Y.
  • Journal Title: Infect Drug Resist. Volume: Volume 12 Pages: 345-358
  • DOI: 10.2147/idr.s187063
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Goldfish : An old and new model system to study vertebrate development, evolution, and human disease. (2019)
  • Author(s): Omori Y, Kon T
  • Journal Title: J Biochem Volume: 165 Pages: 209-218
  • DOI: 10.1093/jb/mvy076
  • Peer Reviewed / Open Access
• [Journal Article] A subset of diffuse-type gastric cancer is susceptible to mTOR inhibitors and checkpoint inhibitors (2019)
  • Author(s): Fukamachi H., Kim S., K., Koh J., Lee H. S., Sasaki Y., Yamashita K., Nishikawaji T., Shimada S., Akiyama Y., Byeon S. J., Bae D. H., Okuno K., Nakagawa M., Tanioka T., Inokuchi M., Kawachi H., Tsuchiya K., Kojima K., Tokino T., Eishi Y., Kim Y. S., Kim W. H., Yuasa Y., Tanaka S.
  • Journal Title: J Exp Clin Cancer Res Volume: 38 Pages: 127-127
  • DOI: 10.1186/s13046-019-1121-3
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Thioredoxin o-mediated reduction of mitochondrial alternative oxidase in the thermogenic skunk cabbage Symplocarpus renifolius. (2019)
  • Author(s): Umekawa Y, Ito K
  • Journal Title: Journal of Biochemistry Volume: 165 Pages: 57-65
  • DOI: 10.1093/jb/mvy082
  • NAID: 40021789431
  • Peer Reviewed / Open Access
• [Journal Article] Single nucleosome imaging reveals loose genome chromatin networks via active RNA polymerase II (2019)
  • Author(s): Nagashima, R., Hibino, K., Ashwin, S. S., Babokhov, M., Fujishiro, S., Imai, R., Nozaki, T., Tamura, S., Tani, T., Kimura, H., Shribak, M., Kanemaki, M. T., Sasai, M., Maeshima, K.
  • Journal Title: Journal of Cell Biology Volume: 218 Issue: 5 Pages: 1511-1530
  • DOI: 10.1083/jcb.201811090
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Transcriptome-wide identification of A-to-I RNA editing sites using ICE-seq (2019)
  • Author(s): Shunpei Okada, Hiroki Ueda, Yuta Noda, Tsutomu Suzuki
  • Journal Title: Methods Volume: 156 Pages: 66-78
  • DOI: 10.1016/j.ymeth.2018.12.007
  • Peer Reviewed / Open Access
• [Journal Article] Malignant paraganglioma of the posterior mediastinum : A case report with genetic analysis (2019)
  • Author(s): Adachi Y., Mita H., Sasaki Y., Himori R., Onodera K., Nakamura M., Kikuchi T., Yamashita K., Yoshida Y., Ishii Y., Endo T.
  • Journal Title: Mol Clin Oncol Volume: 10 Pages: 10-16
  • DOI: 10.3892/mco.2018.1758
  • Peer Reviewed / Open Access
• [Journal Article] Functional divergence of a heterochromatin-binding protein during stickleback speciation. (2019)
  • Author(s): Yoshida K, Ishikawa A, Toyoda A, Shigenobu S, Fujiyama A, Kitano J.
  • Journal Title: Mol Ecol. Volume: 28 Issue: 6 Pages: 1563-1578
  • DOI: 10.1111/mec.14841
  • Peer Reviewed
• [Journal Article] Metaepigenomic analysis reveals the unexplored diversity of DNA methylation in an environmental prokaryotic community. (2019)
  • Author(s): Hiraoka S, Okazaki Y, Anda M, Toyoda A, Nakano SI, Iwasaki W.
  • Journal Title: Nat Commun. Volume: 10 Issue: 1 Pages: 159-159
  • DOI: 10.1038/s41467-018-08103-y
  • Peer Reviewed / Open Access
• [Journal Article] The CENP-A centromere targeting domain facilitates H4K20 monomethylation in the nucleosome by structural polymorphism. (2019)
  • Author(s): Arimura Y, Tachiwana H, Takagi H, Hori T, Kimura H, Fukagawa T, Kurumizaka H.
  • Journal Title: Nature Commun Volume: 10 Pages: 1-10
  • DOI: 10.1038/s41467-019-08314-x
  • Peer Reviewed / Open Access
• [Journal Article] Genetic and phenotypic landscape of the MHC region in the Japanese population (2019)
  • Author(s): Hirata J, Hosomichi K, Sakaue S, Kanai M, Nakaoka H, Ishigaki K, Suzuki K, Akiyama M, Kishikawa T, Ogawa K, Masuda T, Yamamoto K, Hirata M, Matsuda K, Momozawa Y, Inoue I, Kubo M, Kamatani Y, Okada Y.
  • Journal Title: Nature Genetics Volume: 51 Pages: 470-480
  • DOI: 10.1038/s41588-018-0336-0
  • Peer Reviewed / Int'l Joint Research
• [Journal Article] Metagenomic analysis of colorectal cancer datasets identifies cross-cohort microbial diagnostic signatures and a link with choline degradation (2019)
  • Author(s): Andrew Maltez Thomas, Paolo Manghi, Francesco Asnicar, Edoardo Pasolli, Federica Armanini, Moreno Zolfo, Francesco Beghini, Serena Manara, Nicolai Karcher, Chiara Pozzi, Sara Gandini, Davide Serrano, Sonia Tarallo, Antonio Francavilla, Gaetano Gallo, 他25名
  • Journal Title: Nature Medicine Volume: 25 Pages: 667-678
  • DOI: 10.1038/s41591-019-0405-7
  • Peer Reviewed / Int'l Joint Research
• [Journal Article] The Structural Integrity of Lignin Is Crucial for Resistance against Striga hermonthica Parasitism in Rice (2019)
  • Author(s): Mutuku, J.M., Cui, S., C., Hori, Takeda, Y., Tobimatsu, Y., Nakabayashi, R., Mori, T., Saito, K., Demura, T., Umezawa, T., Yoshida, S., Shirasu, K.
  • Journal Title: Plant Physiol. Volume: 179 Pages: 1796-1809
  • DOI: 10.1104/pp.18.01133
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Alternative oxidase capacity of mitochondria in microsporophylls may function in cycad thermogenesis (2019)
  • Author(s): Yasuko Ito-Inaba, Mayuko Sato, Mitsuhiko P. Sato, Yuya Kurayama, Haruna Yamamoto, Mizuki Ohata, Yoshitoshi Ogura, Tetsuya Hayashi, Kiminori Toyooka, Takehito Inaba
  • Journal Title: Plant Physiology Volume: in press Pages: 743-756
  • DOI: 10.1104/pp.19.00150
  • Peer Reviewed / Open Access
• [Journal Article] Possible cross-feeding pathway of facultative methylotroph Methyloceanibacter caenitepidi Gela4 on methanotroph Methylocaldum marinum S8. (2019)
  • Author(s): Mio Takeuchi, Haruka Ozaki, Satoshi Hiraoka, Yoichi Kamagata, Susumu Sakata, Hideyoshi Yoshioka, and Wataru Iwasaki.
  • Journal Title: PLOS ONE Volume: 14
  • DOI: 10.1371/journal.pone.0213535
  • Peer Reviewed / Open Access
• [Journal Article] Molecular evidence for recent divergence of X- and Y-linked gene pairs in Spinacia oleracea L. (2019)
  • Author(s): Yosuke Okazaki, Satoshi Takahata, Hideki Hirakawa, Yutaka Suzuki, Yasuyuki Onodera,
  • Journal Title: PLOS ONE Volume: 14 Pages: 0214949-0214949
  • DOI: 10.1371/journal.pone.0214949
  • Peer Reviewed / Open Access
• [Journal Article] Five alternative Helicobacter pylori antibiotics to counter high levofloxacin and metronidazole resistance in the Dominican Republic. (2019)
  • Author(s): Miftahussurur M, Cruz M, Doohan D, Subsomwong P, Abreu JAJ, Hosking C, Waskito LA, Yamaoka Y.
  • Journal Title: PLoS One. Volume: 14 Issue: 3
  • DOI: 10.1371/journal.pone.0213868
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] ES-mediated chimera analysis revealed requirement of DDX6 for NANOS2 localization and function in mouse germ cells (2019)
  • Author(s): Shimada R, Kiso M, Saga Y
  • Journal Title: Scientific Report Volume: 9 Pages: 515-515
  • DOI: 10.1038/s41598-018-36502-0
  • Peer Reviewed / Open Access
• [Journal Article] Direct analysis of incorporation of an anticancer drug into DNA at single-molecule resolution. (2019)
  • Author(s): Oshiro, T., Komoto, Y., Konno, M., Koseki, J., Asai, A., Ishii, H., Taniguchi, M.
  • Journal Title: Sci. Rep. Volume: 9 Pages: 3886-3886
  • DOI: 10.1038/s41598-019-40504-x
  • Peer Reviewed / Open Access
• [Journal Article] Cold acclimation via the KQT-2 potassium channel is modulated by oxygen in Caenorhabditis elegans (2019)
  • Author(s): Okahata M., Wei A. D., Ohta A., Kuhara A.
  • Journal Title: Science Advances Volume: 5, 2 (eaav3631) Pages: 1-12
  • DOI: 10.1126/sciadv.aav3631
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Prepatterning of Papilio xuthus caterpillar camouflage is controlled by three homeobox genes : clawless, abdominal-A, and Abdominal-B (2019)
  • Author(s): H. Jin, T. Seki, J. Yamaguchi and H. Fujiwara
  • Journal Title: Science Advances Volume: 5
  • DOI: 10.1126/sciadv.aav7569
  • Peer Reviewed / Open Access
• [Journal Article] Local structural changes of the influenza A virus ribonucleoprotein complex by single mutations in the specific residues involved in efficient genome packaging. (2019)
  • Author(s): Takizawa N, Ogura Y, Fujita Y, Noda T, Shigematsu H, Hayashi T, Kurokawa K
  • Journal Title: Virology. Volume: 531 Pages: 126-140
  • DOI: 10.1016/j.virol.2019.03.004
  • Peer Reviewed / Open Access
• [Journal Article] Screening for long noncoding RNAs associated with oral squamous cell carcinoma reveals the potentially oncogenic actions of DLEU1. (2019)
  • Author(s): Nishiyama K, Maruyama R, Niinuma T, Kai M, Kitajima H, Toyota M, Hatanaka Y, Igarashi T, Kobayashi JI, Ogi K, Dehari H, Miyazaki A, Yorozu A, Yamamoto E, Idogawa M, Sasaki Y, Sugai T, Tokino T, Hiratsuka H, Suzuki H.
  • Journal Title: Cell Death Dis Volume: 9 Pages: 826-826
  • DOI: 10.1038/s41419-018-0893-2
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] 3D genomic architecture reveals that neocentromeres associate with heterochromatin regions. (2019)
  • Author(s): Nishimura, K., Komiya, M., Hori, T., Itoh, T, Fukagawa, T
  • Journal Title: J. Cell Biol. Volume: 218 Pages: 134-149
  • DOI: 10.1083/jcb.201805003
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Multi-step genomic dissection of a suspected intra-hospital Helicobacter cinaedi outbreak (2019)
  • Author(s): Yasuhiro Gotoh, Takako Taniguchi, Dai Yoshimura, Keisuke Katsura Yuji Saeki, Yasutoshi Hirabara, Mayumi Fukuda, Ichiro Takajo, Junko Tomida, Yoshiaki Kawamura, Yoshitoshi Ogura, Takehiko Itoh, Naoaki Misawa, Akihiko Okayama6, and Tetsuya Hayashi
  • Journal Title: Microbial Genomics Volume: 5 Issue: 12 Pages: 1-11
  • DOI: 10.1099/mgen.0.000236
  • Peer Reviewed / Open Access
• [Journal Article] Poly(ethylene glycol)-poly(lysine) block copolymer-ubenimex conjugate targets aminopeptidase N and exerts an antitumor effect in hepatocellular carcinoma stem cells. (2019)
  • Author(s): Toshiyama, R., Konno, M., Eguchi, H., Takemoto, H., Noda, T., Asai, A., Koseki, J., Haraguchi, N., Ueda, Y. Matsushita, K., Asukai, K., Ohashi, T., Iwagami, Y., Yamada, D., Sakai, D., Asaoka, T., Kudo, T., Kawamoto, K., Gotoh, K., Kobayashi, S., Satoh, T., Doki, Y., Nishiyama, N., Mori, M.
  • Journal Title: Oncogene Volume: 38 Issue: 2 Pages: 244-260
  • DOI: 10.1038/s41388-018-0406-x
  • Peer Reviewed / Open Access
• [Journal Article] Semaphorin signaling via MICAL3 induces symmetric cell division to expand breast cancer stem-like cells. (2019)
  • Author(s): Tominaga, K., Ninato, H., Murayama, T., Sasahara, A., Nishimura, T., Kiyokawa, E., Kanauchi, H., Shimizu, S., Sato, A., Nishioka, K., Tsuji, E., Yano, M., Ogawa, T., Ishii, H., Mori, M., Akashi, K., Okamoto, K., Tanabe, M., Tada, K., Tojo, A., Gotoh, N.
  • Journal Title: Proc. Natl. Acad. Sci. U. S. A. Volume: 116 Issue: 2 Pages: 625-630
  • DOI: 10.1073/pnas.1806851116
  • Peer Reviewed / Open Access
• [Journal Article] Contributions of regulated transcription and mRNA decay to the dynamics of gene expression. (2019)
  • Author(s): Yamada T. and Akimitsu N.
  • Journal Title: Wiley Interdiscip Rev RNA Volume: 10
  • DOI: 10.1002/wrna.1508
  • Peer Reviewed / Open Access
• [Journal Article] Estimating energy parameters for RNA secondary structure predictions using both experimental and computational data (2019)
  • Author(s): Shimpei Nishida, Shun Sakuraba, Kiyoshi Asai, and Michiaki Hamada
  • Journal Title: IEEE/ACM transactions on computational biology and bioinformatics Volume: - Pages: 1645-1655
  • DOI: 10.1109/tcbb.2018.2813388
  • Description: in press
  • Peer Reviewed
• [Journal Article] CRISPR/Cas9-based heritable targeted mutagenesis in Thermobia domestica : A genetic tool in an apterygote development model of wing evolution (2018)
  • Author(s): Ohde, T., Takehana, Y., Shiotsuki, T. and Niimi T.
  • Journal Title: Arthropod Structure and Development Volume: 47 Pages: 362-369
  • DOI: 10.1016/j.asd.2018.06.003
  • Peer Reviewed
• [Journal Article] The role of Zhx2 transcription factor in bipolar cell differentiation during mouse retinal development (2018)
  • Author(s): Kawamura Y, Yamanaka K, Poh B, Kuribayashi H. Koso H, Watanabe S
  • Journal Title: Biochem Biophys Res Commun Volume: 503 Issue: 4 Pages: 3023-3030
  • DOI: 10.1016/j.bbrc.2018.08.088
  • Peer Reviewed
• [Journal Article] Unexpected role of the IMD pathway in Drosophila gut defense against Staphylococcus aureus (2018)
  • Author(s): Hori A, Kurata S, Kuraishi T
  • Journal Title: Biochemical and Biophysical Research Communications Volume: 495 Pages: 395-400
  • DOI: 10.1016/j.bbrc.2017.11.004
  • NAID: 120006375092
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Combining probabilistic alignments with read pair information improves accuracy of split-alignments (2018)
  • Author(s): Anish M S Shrestha, Naruki Yoshikawa, Kiyoshi Asai
  • Journal Title: Bioinformatics Volume: 34 Issue: 21 Pages: 3631-3637
  • DOI: 10.1093/bioinformatics/bty398
  • Peer Reviewed / Open Access
• [Journal Article] A framework and an algorithm to detect low-abundance DNA by a handy sequencer and a palm-sized computer (2018)
  • Author(s): Bansho Masutani, Shinichi Morishita
  • Journal Title: Bioinformatics Volume: 35 Pages: 584-592
  • DOI: 10.1093/bioinformatics/bty663
  • Peer Reviewed / Open Access
• [Journal Article] Convolutional neural networks for classification of alignments of non-coding RNA sequences (2018)
  • Author(s): Aoki, G. Sakakibara, Y.
  • Journal Title: Bioinformatics Volume: 34
  • DOI: 10.1093/bioinformatics/bty228
  • Peer Reviewed / Open Access
• [Journal Article] Data analytic study of the homothermal maintenance mechanism of Skunk Cabbage : Capturing pre-equilibrium characteristics using extended poisson model (2018)
  • Author(s): Kawasaki S, Ito K
  • Journal Title: BIOPHYSICS Volume: 15 Issue: 0 Pages: 235-250
  • DOI: 10.2142/biophysico.15.0_235
  • NAID: 130007506150
  • ISSN: 2189-4779
  • Peer Reviewed / Open Access
• [Journal Article] Identification of a neuronal population in the telencephalon essential for fear conditioning in zebrafish (2018)
  • Author(s): Lal, P., Tanabe, H., Suster, M. L., Ailani, D., Kotani, Y., Muto, A., Itoh, M., Iwasaki, M., Wada, H., Yaksi, E., and Kawakami, K.
  • Journal Title: BMC Biology Volume: 16 Pages: 45-45
  • DOI: 10.1186/s12915-018-0502-y
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Common variant of BCAS3 is associated with gout risk in Japanese population : the first replication study after gout GWAS in Han Chinese. (2018)
  • Author(s): Sakiyama M, Matsuo H, Nakaoka H, Kawamura Y, Kawaguchi M, Higashino T, Nakayama A, Akashi A, Ueyama J, Kondo T, Wakai K, Sakurai Y, Yamamoto K, Ooyama H, Shinomiya N.
  • Journal Title: BMC Med Genet Volume: 19 Issue: 1 Pages: 96-96
  • DOI: 10.1186/s12881-018-0583-z
  • Peer Reviewed / Open Access
• [Journal Article] Homeolog expression quantification methods for allopolyploids (2018)
  • Author(s): Tony C Y Kuo Masaomi Hatakeyama Toshiaki Tameshige Kentaro K Shimizu Jun Sese
  • Journal Title: Briefings in Bioinformatics Volume: bby121
  • DOI: 10.1093/bib/bby121
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] A convolutional neural network uses microscopic images to differentiate between mouse andhuman cell lines and their radioresistant clones. (2018)
  • Author(s): Toratani, M., Konno, M., Asai, A., Koseki, J., Kawamoto, K., Tamari, K., Li, Z., Sakai, D., Kudo, T., Satoh, T., Sato, K., Motooka, D., Okuzaki, D., Doki, Y., Mori, M., Ogawa, K., Ishii, H.
  • Journal Title: Cancer Res. Volume: 78 Pages: 6703-6707
  • DOI: 10.1158/0008-5472.can-18-0653
  • Peer Reviewed / Open Access
• [Journal Article] The Chara Genome : Secondary Complexity and Implications for Plant Terrestrialization. (2018)
  • Author(s): Nishiyama, T., Sakayama, H., de Vries, J., Buschmann, H., Saint-Marcoux, D., et al. (他55名)
  • Journal Title: Cell Volume: 174 Issue: 2 Pages: 448-464
  • DOI: 10.1016/j.cell.2018.06.033
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Roles of Nmnatl in the survival of retinal progenitors through the regulation of pro-apoptotic gene expression via histone acetylation (2018)
  • Author(s): Kuribayashi, H, Baba, Y, Iwagawa, T, Arai, E, Murakami, A, *Watanabe, S.
  • Journal Title: Cell Death and Diseases Volume: 9 Pages: 891-891
  • DOI: 10.1038/s41419-018-0907-0
  • Peer Reviewed
• [Journal Article] Polyamine flux suppresses histone lysine demethylases and enhances ID1 expression in cancer stem cells. (2018)
  • Author(s): Tamari, K., Konno, M., Asai, A., Koseki., Jun., Hayashi, K., Kawamoto, K., Murai, N., Matsufuji, S., Isohashi, F., Satoh, T., Goto, N., Tanaka, S., Doki, Y., Mori, M., Ogawa, K., Ishii, H.
  • Journal Title: Cell Death. Discovery Volume: 4 Issue: 104 Pages: 104-104
  • DOI: 10.1038/s41420-018-0117-7
  • Peer Reviewed / Open Access
• [Journal Article] Clonal Expansion and Diversification of Cancer-Associated Mutations in Endometriosis and Normal Endometrium. (2018)
  • Author(s): Suda K, Nakaoka H, Yoshihara K, Ishiguro T, Tamura R, Mori Y, Yamawaki K, Adachi S, Takahashi T, Kase H, Tanaka K, Yamamoto T, Motoyama T, Inoue I, Enomoto T
  • Journal Title: Cell Reports Volume: 24 Pages: 1777-1789
  • DOI: 10.1016/j.celrep.2018.07.037
  • Peer Reviewed / Open Access
• [Journal Article] Bacteroides Vulgatus and Bacteroides dorei Reduce Gut Microbial Lipopolysaccharide Production and Inhibit Atherosclerosis (2018)
  • Author(s): Naofumi Yoshida, Takuo Emoto, Tomoya Yamashita, Hikaru Watanabe, Tomohiro Hayashi, Tokiko Tabata, Namiko Hoshi, Naoya Hatano, Genki Ozawa, Naoto Sasaki, Taiji Mizoguchi, Hilman Zulkifli Amin, Yushi Hirota, Wataru Ogawa, Takuji Yamada, Ken-ichi Hirata
  • Journal Title: Circulation Volume: 138 Pages: 2486-2498
  • DOI: 10.1161/circulationaha.118.033714
  • Peer Reviewed
• [Journal Article] Gut microbiome and plasma microbiome-related metabolites in patients with decompensated and compensated heart failure (2018)
  • Author(s): Tomohiro Hayashi, Tomoya Yamashita, Hikaru Watanabe, Kenjiro Kami, Naofumi Yoshida, Tokiko Tabata, Takuo Emoto, Naoto Sasaki, Taiji Mizoguchi, Yasuhiro Irino, Ryuji Toh, Masakazu Shinohara, Yuko Okada, Wataru Ogawa, Takuji Yamada, Ken-ichi Hirata
  • Journal Title: Circ J Volume: 83 Issue: 1 Pages: 182-192
  • DOI: 10.1253/circj.cj-18-0468 10.1253/circj.CJ-18-0468
  • NAID: 130007550393
  • ISSN: 1346-9843, 1347-4820
  • Peer Reviewed / Open Access
• [Journal Article] Alternative splicing of the Caenorhabditis elegans lev-11 tropomyosin gene is regulated in a tissue-specific manner (2018)
  • Author(s): Eichi Watabe, Shoichiro Ono and Hidehito Kuroyanagi.
  • Journal Title: Cytoskeleton Volume: 75 Pages: 427-436
  • DOI: 10.1002/cm.21489
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Kmt2b conveys monovalent and bivalent H3K4me3 in spermatogonia stem cells at germline and embryonic promoters (2018)
  • Author(s): Tomizawa S, Kobayashi Y, Shirakawa T, Watanabe K, Mizoguchi K, Hoshi I, Nakajima K, Nakabayashi J, Singh S, Dahl A, Alexopoulou D, Seki M, Suzuki Y, Royo H, Peters6, A. H.F.M, Anastassiadis K, Stewart A.F. and Ohbo K
  • Journal Title: Development Volume: 145 Issue: 23
  • DOI: 10.1242/dev.169102
  • Peer Reviewed / Int'l Joint Research
• [Journal Article] Induced cell fate transitions at multiple cell layers configure haustorium development in parasitic plants. (2018)
  • Author(s): Wakatake, T., Yoshida, S., Shirasu, K.
  • Journal Title: Development Volume: 145
  • DOI: 10.1242/dev.164848
  • Peer Reviewed / Open Access
• [Journal Article] Ubiquitination-independent repression of PRC1 targets during neuronal fate restriction in the developing mouse neocortex (2018)
  • Author(s): Masafumi Tsuboi#, Yusuke Kishi, #* Wakana Kyozuka, Haruhiko Koseki, Yusuke Hirabayashi, and Yukiko Gotoh* (#Co-first author, *Corespondence)
  • Journal Title: Developmental Cell Volume: 47 Pages: 758-772
  • Peer Reviewed
• [Journal Article] Anteroposterior Molecular Registries in Ectodermof the Echinus Rudiment (2018)
  • Author(s): Shinya Adachi, Iyo Niimi, Yui Sakai, Fuminori Sato, Takuya Minokawa, Makoto Urata, Atsuko Sehara-Fujisawa, Isao Kobayashi, and Masaaki Yamaguchi
  • Journal Title: DEVELOPMENTAL DYNAMICS Volume: 247 Pages: 1297-1307
  • DOI: 10.1002/dvdy.24686
  • Peer Reviewed / Open Access
• [Journal Article] Transcriptome profiling reveals infection strategy of an insect maculavirus (2018)
  • Author(s): Katsuma S, Kawamoto M, Shoji K, Aizawa T, Kiuchi T, Izumi N, Ogawa M, Mashiko T, Kawasaki H, Sugano S, Tomari Y, Suzuki Y, Iwanaga M.
  • Journal Title: DNA Research Volume: 印刷中 Pages: 277-286
  • DOI: 10.1093/dnares/dsx056
  • Peer Reviewed / Open Access
• [Journal Article] Genome-wide characterization of DNA methylation, small RNA expression, and hitone H3 lysine nine di-methylation in Brassica rapa L. (2018)
  • Author(s): Takahashi S, Osabe K, Fukushima N, Takuno S, Miyaji N, Shimizu M, Takasaki-Yasuda T, Suzuki Y, Dennie ES, Seki M, Fujimoto R
  • Journal Title: DNA Research Volume: 25 Pages: 511-520
  • DOI: 10.1093/dnares/dsy021
  • NAID: 120006552896
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Diminished nuclear RNA decay upon Salmonella infection upregulates antibacterial noncoding RNAs (2018)
  • Author(s): Imamura Katsutoshi、Takaya Akiko、Ishida Yo‐ichi、Fukuoka Yayoi、Taya Toshiki、Nakaki Ryo、Kakeda Miho、Imamachi Naoto、Sato Aiko、Yamada Toshimichi、Onoguchi‐Mizutani Rena、Akizuki Gen、Tanu Tanzina、Tao Kazuyuki、Miyao Sotaro、Suzuki Yutaka、Nagahama Masami、Yamamoto Tomoko、Jensen Torben Heick、Akimitsu Nobuyoshi
  • Journal Title: EMBO J. Volume: 37
  • DOI: 10.15252/embj.201797723
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] ADAR1-mediated RNA editing is required for thymic self-tolerance and inhibition of autoimmunity. (2018)
  • Author(s): Nakahama T, Kato Y, Kim JI, Vongpipatana T, Suzuki Y, Walkley CR, Kawahara Y.
  • Journal Title: EMBO Reports Volume: 19
  • DOI: 10.15252/embr.201846303
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Genomic Characterization of β-Glucuronidase?Positive Escherichia coli O157:H7 Producing Stx2a (2018)
  • Author(s): Ogura Y, Seto K, Morimoto Y, Nakamura K, Sato MP, Gotoh Y, Itoh T, Toyoda A, Ohnishi M, Hayashi T.
  • Journal Title: Emerg Infect Dis. Volume: 24 Pages: 2219-2227
  • DOI: 10.3201/eid2412.180404
  • Peer Reviewed / Open Access
• [Journal Article] Control of directionality of chromatin folding for the inter- and intra-domain contacts at the Tfap2c-Bmp7 locus. (2018)
  • Author(s): Taro Tsujimura, Osamu Takase, Masahiro Yoshikawa, Etsuko Sano, Matsuhiko Hayashi, Tsuyoshi Takato, Atsushi Toyoda, Hideyuki Okano, Keiichi Hishikawa
  • Journal Title: Epigenetics & Chromatin Volume: 11 Pages: 51-51
  • DOI: 10.1186/s13072-018-0221-1
  • Peer Reviewed / Open Access
• [Journal Article] Current understanding and management of Helicobacter pylori infection : an updated appraisal. (2018)
  • Author(s): Ansari S, Yamaoka Y.
  • Journal Title: F1000Res. Volume: 7
  • DOI: 10.12688/f1000research.14149.1
  • Peer Reviewed / Open Access
• [Journal Article] Bolidophyceae, a Sister Picoplanktonic Group of Diatoms-A Review (2018)
  • Author(s): Kuwata Akira、Yamada Kazumasa、Ichinomiya Mutsuo、Yoshikawa Shinya、Tragin Margot、Vaulot Daniel、Lopes dos Santos Adriana
  • Journal Title: Frontiers in Marine Science Volume: 5 Pages: 1-17
  • DOI: 10.3389/fmars.2018.00370
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Exogenous induction of thermogenesis in Arum concinnatum by salicylic acid (2018)
  • Author(s): Laina D, Oikonomou I, Koutroumpa K, Bariotakis M, Kotzabasis K, Ito K, Seymour RS, Pirintsos S
  • Journal Title: Functional Plant Biology Volume: 45 Pages: 1195-1195
  • DOI: 10.1071/fp17247
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] A statistical method for observing personal diploid methylomes and transcriptomes with single-molecule real-time sequencing (2018)
  • Author(s): Yuta Suzuki, Yunhao Wang, Kin Au, Shinichi Morishita
  • Journal Title: Genes Volume: 9
  • DOI: 10.3390/genes9090460
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Novel MXD4-NUTM1 fusion transcript identified in primary ovarian undifferentiated small round cell sarcoma. (2018)
  • Author(s): Tamura R, Nakaoka H, Yoshihara K, Mori Y, Yachida N, Nishikawa N, Motoyama T, Okuda S, Inoue I, Enomoto T
  • Journal Title: Genes Chromosomes Cancer Volume: 57 Pages: 557-563
  • DOI: 10.1002/gcc.22668
  • Peer Reviewed / Open Access
• [Journal Article] Exploring the limits and causes of plastid genome expansion in volvocine green algae. (2018)
  • Author(s): Gaouda, H., Hamaji, T., Yamamoto, K., Kawai-Toyooka, H., Suzuki, M., Noguchi, H., Minakuchi, Y. Toyoda, A., Fujiyama, A., Nozaki, H. and Smith, D. R.
  • Journal Title: Genome Biol. Evol. Volume: 10 Pages: 2248-2254
  • DOI: 10.1093/gbe/evy175
  • NAID: 120006531169
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Characterizing <i>Helicobacter pylori cagA</i> in Myanmar. (2018)
  • Author(s): Myint T, Miftahussurur M, Vilaichone RK, Ni N, Aye TT, Subsomwong P, Uchida T, Mahachai V, Yamaoka Y.
  • Journal Title: Gut Liver Volume: 12 Issue: 1 Pages: 51-57
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Pathogenesis of Helicobacter pylori infection. (2018)
  • Author(s): Waskito LA, Salama NR, Yamaoka Y.
  • Journal Title: Helicobacter. Volume: 23 Issue: Suppl 1
  • DOI: 10.1111/hel.12516
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Refining the clinical phenotype of Okur-Chung neurodevelopmental syndrome. (2018)
  • Author(s): Akahira-Azuma M, Tsurusaki Y, Enomoto Y, Mitsui J, Kurosawa K.
  • Journal Title: Hum Genome Var. Volume: 5 Pages: 18011-18011
  • DOI: 10.1038/hgv.2018.11
  • Peer Reviewed / Open Access
• [Journal Article] Genetic populations and virulence factors of Helicobacter pylori. (2018)
  • Author(s): Kabamba ET, Tuan VP, Yamaoka Y.
  • Journal Title: Infect Genet Evol. Volume: 60 Pages: 109-116
  • DOI: 10.1016/j.meegid.2018.02.022
  • Peer Reviewed / Int'l Joint Research
• [Journal Article] Diffuse Gastric Cancer : A Summary of Analogous Contributing Factors for Its Molecular Pathogenicity. (2018)
  • Author(s): Ansari S, Gantuya B, Tuan VP, Yamaoka Y.
  • Journal Title: Int J Mol Sci. Volume: 19 Issue: 8
  • DOI: 10.3390/ijms19082424
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] The role of integrating conjugative elements in Helicobacter pylori : a review. (2018)
  • Author(s): Waskito LA, Yih-Wu J, Yamaoka Y.
  • Journal Title: J Biomed Sci. Volume: 25 Issue: 1 Pages: 86-86
  • DOI: 10.1186/s12929-018-0489-2
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] HIF2α in the uterine stroma permits embryo invasion and luminal epithelium detachment (2018)
  • Author(s): Matsumoto L, Hirota Y, Saito-Fujita T, Takeda N, Tanaka T, Hiraoka T, Akaeda S, Fujita H, Shimizu-Hirota R, Igaue S, Matsuo M, Haraguchi H, Saito-Kanatani M, Fujii T, Osuga Y.
  • Journal Title: J Clin Invest Volume: 128 Pages: 3186-3197
  • DOI: 10.1172/jci98931
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Surface microstructures are associated with mutational intratumoral heterogeneity in colorectal tumors (2018)
  • Author(s): Harada T., Yamamoto E., Yamano H. O., Aoki H., Matsushita H. O., Yoshikawa K., Takagi R., Harada E., Tanaka Y., Yoshida Y., Eizuka M., Yorozu A., Sudo G., Kitajima H., Niinuma T., Kai M., Sasaki Y., Tokino T., Sugai T., Nakase H., Suzuki H.
  • Journal Title: J Gastroenterol Volume: 53 Pages: 1241-1252
  • DOI: 10.1007/s00535-018-1481-z
  • Peer Reviewed / Open Access
• [Journal Article] Response to Letter to the Editor Regarding "Genetic Analysis of Ring Finger Protein 213(RNF213)c. 14576G>A in Intracranial Atherosclerosis of the Anterior and Posterior Circulations". (2018)
  • Author(s): Miyawaki S, Shinya Y, Imai H, Hongo H, Ono H, Takenobu A, Nakatomi H, Teraoka A, Saito N.
  • Journal Title: J Stroke Cerebrovasc Dis Volume: 27 Pages: 2894-2895
  • DOI: 10.1016/j.jstrokecerebrovasdis.2018.07.009
  • Peer Reviewed / Open Access
• [Journal Article] High-quality overlapping paired-end reads for the detection of A-to-I editing on small RNA. (2018)
  • Author(s): Galipon J, Ishii R, Ishiguro S, Suzuki Y, Kondo S, Okada-Hatakeyama M, Tomita M, Ui-Tei K.
  • Journal Title: Methods Mol. Biol. Volume: 1823 Pages: 167-183
  • DOI: 10.1007/978-1-4939-8624-8_13
• [Journal Article] A Single Pheromone Receptor Gene Conserved across 400 My of Vertebrate Evolution. (2018)
  • Author(s): Suzuki H, Nishida H, Kondo H, Yoda R, Iwata T, Nakayama K, Enomoto T, Wu J, Moriya-Ito K, Miyazaki M, Wakabayashi Y, Kishida T, Okabe M, Suzuki Y, Ito T, Hirota J, Nikaido M
  • Journal Title: Mol. Biol. Evol. Volume: 35 Issue: 12 Pages: 2928-2939
  • DOI: 10.1093/molbev/msy186
  • Peer Reviewed
• [Journal Article] Retained plsticity and substantial recovery of rod-mediated visual acuity at the visual cortex in blind adult mice with retinal dystrophy (2018)
  • Author(s): Nishiguchi KM, Fujita K, Tokashiki N, Komamura H, Takemoto-Kimura S, Okuno H, Bito H, Nakazawa T.
  • Journal Title: Mol Ther Volume: 26 Pages: 2397-2406
  • DOI: 10.1016/j.ymthe.2018.07.012
  • Peer Reviewed
• [Journal Article] MitoFish and MiFish pipeline : a mitochondrial genome database of fish with an analysis pipeline for environmental DNA metabarcoding. (2018)
  • Author(s): Yukuto Sato, Masaki Miya, Tsukasa Fukunaga, Tetsuya Sado, and Wataru Iwasaki.
  • Journal Title: Molecular Biology and Evolution Volume: 35 Pages: 1553-1555
  • DOI: 10.1093/molbev/msy074
  • Peer Reviewed / Open Access
• [Journal Article] Functional domains of NEATI architectural lncRNA induce paraspeckle assembly through phase separation (2018)
  • Author(s): Tomohiro Yamazaki, Sylvie Souquere, Takeshi Chujo, Simon Kobelke, Yee Seng Chong, Archa H, Fox, Charles S, Bond, Shinichi Nakagawa, Gerard Pierron, Tetsuro Hirose
  • Journal Title: Molecular Cell Volume: 70 Pages: 1038-1053
  • DOI: 10.1016/j.molcel.2018.05.019
  • NAID: 120006648349
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Lanthanide-Dependent Regulation of Methylotrophy in Methylobacteriumaquaticum Strain 22A. (2018)
  • Author(s): Masuda S, Suzuki Y, Fujitani Y, Mitsui R, Nakagawa T, Shintani M, Tani A.
  • Journal Title: mSphere Volume: 3 Issue: 1
  • DOI: 10.1128/msphere.00462-17
  • Peer Reviewed / Open Access
• [Journal Article] Pulmonary Regnase-1 orchestrates the interplay of epithelium and adaptive immune systems to protect against pneumonia. (2018)
  • Author(s): Nakatsuka, Y., Vandenbon, A., Mino, T., Yoshinaga, M., Uehata, T., Cui, X., Sato, A., Tsujimura, T., Suzuki, Y., Sato, A., Handa, T., Chin, K., Sawa, T., Hirai, T., Takeuchi, O.
  • Journal Title: Mucosal Immunology Volume: AOP Pages: 1203-1218
  • DOI: 10.1038/s41385-018-0024-5
  • Peer Reviewed / Int'l Joint Research
• [Journal Article] Transcription factor DUOI generated by neo-functionalization is associated with evolution of sperm differentiation in plants. (2018)
  • Author(s): Higo, A., Kawashima, T., Borg, M., Zhao, M., Lopez-Vidriero, I., Sakayama, H., et al. (他18名)
  • Journal Title: Nat Commun. Volume: 9 Issue: 1 Pages: 5283-5283
  • DOI: 10.1038/s41467-018-07728-3
  • NAID: 120006543439
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Ligand-receptor co-evolution shaped the jasmonate pathway in land plants. (2018)
  • Author(s): Monte, I., Ishida, S., Zamarreno, A. M., Hamberg, M., Franco-Zorrilla, J. M., Garcia-Casado, G., Gouhier-Darimont, C., Reymond, P., Takahashi, K., Garcia-Mina, J. M., Nishihama, R., Kohchi, T., and Solano, R.
  • Journal Title: Nat. Chem. Biol. Volume: 14 Pages: 480-488
  • DOI: 10.1038/s41589-018-0033-4
  • Peer Reviewed / Int'l Joint Research
• [Journal Article] Layer-specific morphological and molecular differences in neocortical astrocytes and their dependence on neuronal layers (2018)
  • Author(s): Darin Lanjakornsiripan, Baek-Jun Pior, Daichi Kawaguchi, Shohei Furutachi, Tomoaki Tahara, Yu Katsuyama, Yutaka Suzuki, Yugo Fukazawa & Yukiko Gotoh
  • Journal Title: Nat. Comm. Volume: 9 Pages: 1623-1623
  • DOI: 10.1038/s41467-018-03940-3
  • Peer Reviewed / Open Access
• [Journal Article] Repeated inversions within a pannier intron drive diversification of intraspecific colour patterns of ladybird beetles. (2018)
  • Author(s): Ando Toshiya、Matsuda Takeshi、Goto Kumiko、Hara Kimiko、Ito Akinori、Hirata Junya、Yatomi Joichiro、Kajitani Rei、Okuno Miki、Yamaguchi Katsushi、Kobayashi Masaaki、Takano Tomoyuki、Minakuchi Yohei、Seki Masahide、Suzuki Yutaka、Yano Kentaro、Itoh Takehiko、Shigenobu Shuji、Toyoda Atsushi、Niimi Teruyuki
  • Journal Title: Nature Communications Volume: 9 Pages: 3843-3843
  • DOI: 10.1038/s41467-018-06116-1
  • Peer Reviewed / Open Access
• [Journal Article] Host lignin composition affects haustorium induction in the parasitic plants Phtheirospermum japonicum and Striga hermonthica. (2018)
  • Author(s): Cui S, Wada S, Tobimatsu Y, Takeda Y, Saucet SB, Takano T, Umezawa T, Shirasu K, Yoshida S.
  • Journal Title: New Phytol. Volume: 218 Pages: 710-723
  • DOI: 10.1111/nph.15033
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] LGP2 virus sensor regulates gene expression network mediated by TRBP-bound microRNAs. (2018)
  • Author(s): Takahashi T, Nakano Y, Onomoto K, Murakami F, Komori C, Suzuki Y, Yoneyama M, Ui-Tei.
  • Journal Title: Nucleic Acids Res. Volume: 46 Pages: 9134-9147
  • DOI: 10.1093/nar/gky575
  • Peer Reviewed / Open Access
• [Journal Article] Mutational analysis of uterine cervical cancer that survived multiple rounds of radiotherapy. (2018)
  • Author(s): Nuryadi E, et al
  • Journal Title: Oncotarget Volume: 9 Pages: 32642-32652
  • DOI: 10.18632/oncotarget.25982
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Target amplicon exome-sequencing identifies promising diagnosis and prognostic markers involved in RTK-RAS and PI3K-AKT signaling as central oncopathways in primary central nervous system lymphoma (2018)
  • Author(s): Takashima Y., Sasaki Y., Hayano A., Homma J., Fukai J., Iwadate Y., Kajiwara K., Ishizawa S., Hondoh H., Tokino T., Yamanaka R.
  • Journal Title: Oncotarget Volume: 9 Pages: 27471-27486
  • DOI: 10.18632/oncotarget.25463
  • Peer Reviewed / Open Access
• [Journal Article] Epigenetic silencing of miR-200b is associated with cisplatin resistance in bladder cancer. (2018)
  • Author(s): Shindo T, Niinuma T, Nishiyama N, Shinkai N, Kitajima H, Kai M, Maruyama R, Tokino T, Masumori N, Suzuki H.
  • Journal Title: Oncotarget Volume: 9 Pages: 24457-24469
  • DOI: 10.18632/oncotarget.25326
  • Peer Reviewed / Open Access
• [Journal Article] Molecular dissection of nuclear paraspeckles : towards understanding the emerging world of the RNP milieu (2018)
  • Author(s): Shinichi Nakagawa, Tomohiro Yamazaki, Tetsuro Hirose
  • Journal Title: Open Biology Volume: 8 Pages: 180150-180150
  • DOI: 10.1098/rsob.180150
  • Peer Reviewed / Open Access
• [Journal Article] Effective methods for practical application of gene expression analysis in field-grown rice roots (2018)
  • Author(s): Matsunami, M., Hayashi, H., Tominaga, Y., Nagamura, Y., Murai-Hatano, M., Ishikawa-Sakurai, J., and Kuwagata, T.
  • Journal Title: Plant and Soil Volume: 433 Pages: 173-187
  • DOI: 10.1007/s11104-018-3834-z
  • Peer Reviewed
• [Journal Article] Latent environmental allocation of microbial community data. (2018)
  • Author(s): Higashi K, Suzuki S, Kurosawa S, Mori H, Kurokawa K
  • Journal Title: PLoS Comp. Biol. Volume: 14 Issue: 6
  • DOI: 10.1371/journal.pcbi.1006143
  • Peer Reviewed / Open Access
• [Journal Article] Genomic landscape at a late stage of stickleback speciation : high genomic divergence interspersed by small localized regions of introgression. (2018)
  • Author(s): Ravinet, M., Yoshida, K., Shigenobu, S., Toyoda, A., Fujiyama, A., and Kitano, J.
  • Journal Title: PLoS Genetics Volume: 14 Issue: 5
  • DOI: 10.1371/journal.pgen.1007358
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Prevalence of Helicobacter pylori and its CagA subtypes in gastric cancer and duodenal ulcer at an Austrian tertiary referral center over 25 years. (2018)
  • Author(s): Kamogawa-Schifter Yumiko、Yamaoka Yoshio、Uchida Tomohisa、Beer Andrea、Tribl Barbara、Scheiger-Hekele Maximilian、Trauner Michael、Dolak Werner
  • Journal Title: PLoS One. Volume: 13 Issue: 5
  • DOI: 10.1371/journal.pone.0197695
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Endoribonuclease ENDU-2 regulates multiple traits including cold tolerance via cell autonomous and nonautonomous controls in C. elegans (2018)
  • Author(s): Ujisawa T., Ohta A., Ii T., Minakuchi Y., Toyoda A., Ii M., Kuhara A.
  • Journal Title: Proc Natl Acad Sci U S A Volume: 115, 35 Pages: 8823-8828
  • DOI: 10.1073/pnas.1808634115
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] p53-inducible DPYSL4 associates with mitochondrial supercomplexes and regulates energy metabolism in adpocytes and cancer cells. (2018)
  • Author(s): Nagano H, Hashimoto N, Nakayama A, Suzuki S, Miyabayashi Y, Yamato A, Higuchi S, Fujimoto M, Sakuma I, Beppu M, Yokoyama M, Suzuki Y, Sugano S, Ikeda K, Tatsuno I, Manabe I, Yokote K, Inoue S, Tanaka T.
  • Journal Title: Proc Natl Acad Sci U S A Volume: 115 Issue: 33 Pages: 8370-8375
  • DOI: 10.1073/pnas.1804243115
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Base-pairing probability in the microRNA stem region affects the binding and editing specificity of human A-to-I editing enzyme ADAR1-p110 and ADAR2. (2018)
  • Author(s): Ishiguro S, Galipon J, Ishii R, Suzuki Y, Kondo S, Okada-Hatakeyama M, Tomita M, Ui-Tei K.
  • Journal Title: RNA Biology Volume: 15 Pages: 976-989
  • DOI: 10.1080/15476286.2018.1486658
  • Peer Reviewed / Open Access
• [Journal Article] Genome-wide analysis revealed that DZNep reduces tubulointerstitial fibrosis via down-regulation of pro-fibrotic genes. (2018)
  • Author(s): Mimura I, Hirakawa Y, Kanki Y, Nakaki R, Suzuki Y, Tanaka T, Aburatani H, Nangaku M.
  • Journal Title: Sci Rep Volume: 28 Issue: 1 Pages: 3779-3779
  • DOI: 10.1038/s41598-018-22180-5
  • Peer Reviewed / Open Access
• [Journal Article] Time-Series Analysis of Tumorigenesis in a Murine Skin Carcinogenesis Model. (2018)
  • Author(s): Aoto Y, Okumura K, Hachiya T, Hase S, Wakabayashi Y, Ishikawa F, Sakakibara Y.
  • Journal Title: Sci Rep Volume: 8 Issue: 1 Pages: 12994-12994
  • DOI: 10.1038/s41598-018-31349-x
  • Peer Reviewed / Open Access
• [Journal Article] Distribution and clinical associations of integrating conjugative elements and cag pathogenicity islands of Helicobacter pylori in Indonesia. (2018)
  • Author(s): Waskito LA, Miftahussurur M, Lusida MI, Syam AF, Suzuki R, Subsomwong P, Uchida T, Hamdan M, Nasronudin, Yamaoka Y.
  • Journal Title: Sci Rep. Volume: 8 Issue: 1 Pages: 6073-6073
  • DOI: 10.1038/s41598-018-24406-y
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Naturally occurring a loss of a giant plasmid from Mycobacterium ulcerans subsp. shinshuense makes it non-pathogenic. (2018)
  • Author(s): Nakanaga K, Ogura Y, Toyoda A, Yoshida M, Fukano H, Fujiwara N, Miyamoto Y, Nakata N, Kazumi Y, Maeda S, Ooka T, Goto M, Tanigawa K, Mitarai S, Suzuki K, Ishii N, Ato M, Hayashi T, Hoshino Y.
  • Journal Title: Sci Rep. Volume: 29;8(1) Issue: 1 Pages: 8218-8218
  • DOI: 10.1038/s41598-018-26425-1
  • Peer Reviewed / Open Access
• [Journal Article] The prehistoric peopling of Southeast Asia (2018)
  • Author(s): Hugh McColl, Fernando Racimo, Lasse Vinner, Fabrice Demeter, Takashi Gakuhari, …, Hajime Ishida, … Eske Willerslev
  • Journal Title: Science Volume: 361(6397) Pages: 65-75
  • DOI: 10.1126/science.aat3628
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Epidemiology of Helicobacter pylori and CagA-Positive Infections and Global Variations in Gastric Cancer. (2018)
  • Author(s): Park JY, Forman D, Waskito LA, Yamaoka Y, Crabtree JE.
  • Journal Title: Toxins (Base1) Volume: 10 Issue: 4 Pages: 163-163
  • DOI: 10.3390/toxins10040163
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Targeted next-generation sequencing of 50 cancer-related genes in Japanese patients with oral squamous cell carcinoma (2018)
  • Author(s): Nakagaki T., Tamura M., Kobashi K., Omori A., Koyama R., Idogawa M., Ogi K., Hiratsuka H., Tokino T., Sasaki Y.
  • Journal Title: Tumour Biol Volume: 40 Pages: 0-0
  • DOI: 10.1177/1010428318800180
  • Peer Reviewed / Open Access
• [Journal Article] Molecular characterization of eye pigmentation-related ABC transporter genes in the ladybird beetle Harmonia axyridis reveals striking gene duplication of the white gene. (2018)
  • Author(s): Tsuji, T., Gotoh, H., Morita, S. Hirata, J., Minakuchi, Y., Yaginuma, T., Toyoda, A. and Niimi, T.
  • Journal Title: Zool. Sci. Volume: 35 Pages: 260-267
  • DOI: 10.2108/zs170166
  • NAID: 40021616750
  • Peer Reviewed
• [Journal Article] Tissue network underlying cold tolerance (2018)
  • Author(s): Mayu Fujita, Kohei Ohnishi, Akane Ohta, Atsushi Kuhara
  • Journal Title: 細胞 Volume: 50 Pages: 8-11
  • Peer Reviewed
• [Journal Article] ネギ萎凋病の抵抗性に関与する遺伝子群の特定に成功 -近縁種シャロットがもつ抵抗性をネギに導入することで国内初の抗性品種育成を目指す- (2018)
  • Author(s): 執行正義
  • Journal Title: 農耕と園芸 Volume: 7 Pages: 16-20
• [Journal Article] DFAST : a flexible prokaryotic genome annotation pipeline for faster genome publication (2018)
  • Author(s): Y Tanizawa, T Fujisawa, Y Nakamura
  • Journal Title: Bioinformatics Volume: 34 Issue: 6 Pages: 1037-1039
  • DOI: 10.1093/bioinformatics/btx713
  • Peer Reviewed / Open Access
• [Journal Article] Capturing alternative secondary structures of RNA by decomposition of base-pairing probabilities (2018)
  • Author(s): Taichi Hagio, Shun Sakuraba, Junichi Iwakiri, Ryota Mori and Kiyoshi Asai
  • Journal Title: BMC Bioinformatics Volume: 19 Issue: Suppl 1 Pages: 38-38
  • DOI: 10.1186/s12859-018-2018-4
  • Peer Reviewed / Open Access
• [Journal Article] Introducing difference recurrence relations for faster semi-global alignment of long sequences (2018)
  • Author(s): Hajime Suzuki and Masahiro Kasahara.
  • Journal Title: BMC Bioinformatics Volume: 19 Issue: Suppl 1 Pages: 45-45
  • DOI: 10.1186/s12859-018-2014-8
  • Peer Reviewed / Open Access
• [Journal Article] Identifying statistically significant combinatorial markers for survival analysis. (2018)
  • Author(s): Relator R, Terada A, Sese J.
  • Journal Title: BMC Medical Genomics Volume: 11 Issue: Suppl 2 Pages: 31-31
  • DOI: 10.1186/s12920-018-0346-x
  • Peer Reviewed / Open Access
• [Journal Article] EAGLE : Explicit Alternative Genome Likelihood Evaluator. (2018)
  • Author(s): Kuo T, Frith M C, Sese J, and Horton P.
  • Journal Title: BMC Medical Genomics. Volume: 11 Issue: Suppl 2 Pages: 28-28
  • DOI: 10.1186/s12920-018-0342-1
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] VITCOMIC2 : visualization tool for the phylogenetic composition of microbial communities based on 16SrRNA gene amplicons and metagenomic shotgun sequencing (2018)
  • Author(s): Mori H, Maruyama T, Yano M, Yamada T, Kurokawa K.
  • Journal Title: BMC Systems Biology Volume: 12 Pages: 30-30
  • DOI: 10.1186/s12918-018-0545-2
  • Peer Reviewed / Open Access
• [Journal Article] Combined mutation of Apc, Kras and Tgfbr2 effectively drives metastasis of intestinal cancer. (2018)
  • Author(s): Sakai E, Nakayama M, Oshima H, Kouyama Y, Niida A, Fujii S, Ochiai A, Nakayama KI, Mimori K, Suzuki Y, Hong CP, Ock CY, Kim SJ, and Oshima M.
  • Journal Title: Cancer Research Volume: 78 Pages: 1334-1346
  • DOI: 10.1158/0008-5472.can-17-3303
  • NAID: 120006452378
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Transcription factor IRF8 governs enhancer landscape dynamics in mononuclear phagocyte progenitors (2018)
  • Author(s): Kurotaki D, Nakabayashi J, Nishiyama A, Sasaki H, Kawase W, Kaneko N, Ochiai K, Igarashi K, Ozato K, Suzuki Y, Tamura T
  • Journal Title: Cell Reports Volume: 22 Pages: 2628-2641
  • DOI: 10.1016/j.celrep.2018.02.048
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Anisogamy evolved with a reduced sex-determining region in volvocine green algae. (2018)
  • Author(s): Hamaji, T., Kawai-Toyooka, H., Uchimura, H., Suzuki, M., Noguchi, H., Minakuchi, Y., Toyoda, A., Fujiyama, A., Miyagishima, S., Umen, J. G. And Nozaki, H.
  • Journal Title: Communications Biology Volume: 1 Pages: 17-17
  • DOI: 10.1038/s42003-018-0019-5
  • NAID: 120006601539
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Identification of DNA methylated regions by using methylated DNA immunoprecipitation sequencing in Brassica rapa (2018)
  • Author(s): Takahashi S, Fukushima N, Osabe K, Itabashi E, Shimizu M, Miyaji N, Takasaki-Yasuda T, Suzuki Y, Seki M, Fujimoto R
  • Journal Title: Crop & Pasture Science Volume: 69 Pages: 107-107
  • DOI: 10.1071/cp17394
  • NAID: 120006546778
  • Peer Reviewed
• [Journal Article] Molecular and Cellular Network Systems Underlying Cold Tolerance of Caenorhabditis elegans (2018)
  • Author(s): Kohei OHNISHI, Natsune TAKAGAKI, Misaki OKAHATA, Mayu FUJITA, Akane OHTA, Atsushi KUHARA
  • Journal Title: Cryobiology and Cryotechnology
  • Description: in press 未定
  • Peer Reviewed / Open Access
• [Journal Article] Subtypes of the Type II Pit Pattern Reflect Distinct Molecular Subclasses in the Serrated Neoplastic Pathway. (2018)
  • Author(s): Aoki H, Yamamoto E, Yamano HO, Sugai T, Kimura T, Tanaka Y, Matsushita HO, Yoshikawa K, Takagi R, Harada E, Nakaoka M, Yoshida Y, Harada T, Sudo G, Eizuka M, Yorozu A, Kitajima H, Niinuma T, Kai M, Nojima M, Suzuki H, Nakase H.
  • Journal Title: Digestive Diseases and Sciences Volume: 15 Pages: 1920-1928
  • DOI: 10.1007/s10620-018-5016-5
  • Description: not yet
  • Peer Reviewed / Open Access
• [Journal Article] Diminished nuclear RNA decay upon Salmonella infection upregulates antibacterial noncoding RNAs (2018)
  • Author(s): Imamura K, Takaya A, Ishida Y, Fukuoka Y, Taya T, Nakaki R, Kakeda M, Imamachi N, Sato A, Yamada T, Onoguchi-Mizutani R, Akizuki G, Tanu T, Tao K, Miyao S, Suzuki Y, Nagahama M, Yamamoto T, Jensen TH, Akimitsu N.
  • Journal Title: EMBO Journal
  • Description: accepted
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Mice with endogenous TDP-43 mutations exhibit gain of splicing function and characteristics of amyotrophic lateral sclerosis. (2018)
  • Author(s): Fratta P, Sivakumar P, Humphrey J, Lo K, Ricketts T, Oliveira H, Brito JM, Kalmar B, Ule A, Yu Y, Gondo Y, 他18名, Buratti E, Plagnol V, Fisher EM, Acevedo A
  • Journal Title: EMBO Journal Volume: 37
  • DOI: 10.15252/embj.201798684
  • Description: in press
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Targeted sequencing reveals genetic variants associated with sensitivity of 79 human cancer xenografts to anticancer drugs. (2018)
  • Author(s): Udagawa C, Sasaki Y, Suemizu H, Ohnishi Y, Ohnishi H, Tokino T, Zembutsu H.
  • Journal Title: Exp Ther Med Volume: 15 Pages: 1339-1359
  • DOI: 10.3892/etm.2017.5533
  • Peer Reviewed / Open Access
• [Journal Article] Identification of Minimal p53 Promoter Region Regulated by MALAT1 in Human Lung Adenocarcinoma Cells. (2018)
  • Author(s): Tano K, Onoguchi-Mizutani R, Yeasmin F, Uchiumi F, Suzuki Y, Yada T, Akimitsu N.
  • Journal Title: Frontier in Genetics Volume: なし Pages: 208-208
  • DOI: 10.3389/fgene.2017.00208
  • Peer Reviewed / Open Access
• [Journal Article] Delayed Degradation and Impaired Dondritic Delivery of Intron-Lacking EGFP-Arc/Arg3.1 mRNA in EGFP-Arc Transgenic Mice. (2018)
  • Author(s): Steward O, Matsudaira Yee K, Farris S, Pirbhoy PS, Worley P, Okamura K, Okuno H, Bito H.
  • Journal Title: Front Mol Neurosci Volume: 10 Pages: 1-1
  • DOI: 10.3389/fnmol.2017.00435
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Identification of transposable elements contributing to tissue-specific expression of long non-coding RNAs (2018)
  • Author(s): Takashi Chishima, Junichi Iwakiri, Michiaki Hamada
  • Journal Title: Genes Volume: 9 Issue: 1 Pages: 23-23
  • DOI: 10.3390/genes9010023
  • Peer Reviewed / Open Access
• [Journal Article] Increasing canopy photosynthesis in rice can be achieved without a large increase in water use-a model based on free-air CO2 enrichment (2018)
  • Author(s): Ikawa, H., Chen, C.P., Sikma, M., Yoshimoto, M., Sakai, H., Tokida, T., Usui, Y., Nakamura, H., Ono, K., Maruyama, M., Watanabe, T., Kuwagata, T., and Hasegawa, T.
  • Journal Title: Global Change Biology Volume: 24 Pages: 1321-1341
  • DOI: 10.1111/gcb.13981
  • Peer Reviewed / Int'l Joint Research
• [Journal Article] A Common variant of MAF/c-MAF, transcriptional factor genc in the kidney, is associated with gout susceptjbility. (2018)
  • Author(s): Toshihide Higashino, Hirotaka Matsuo, Yukinori Okada, Hiroshi Nakashima, Seiko Shimizu, Masayuki Sakiyama, Shin Tadokoro, Akiyoshi Nakayama, Makoto Kawaguchi, Mako Komatsu, Asahi Hishida, Masahiro Nakatochi, Hiroshi Ooyama, Junko Imaki, Nariyoshi Shinomiy
  • Journal Title: Hum Cell. Volume: 31 Pages: 10-13
  • DOI: 10.1007/s13577-017-0186-6
  • Peer Reviewed / Open Access
• [Journal Article] Tropomyosin isoforms differentially affect muscle contractility in the head and body regions in the nematode Caenorhabditis elegans. (2018)
  • Author(s): Dawn E. Barnes, Eichi Watabe, Kanako Ono, Euiyoung Kwak, Hidehito Kuroyanagi, Shoichiro Ono
  • Journal Title: Mol Biol Cell Volume: 29 Pages: 1075-1088
  • DOI: 10.1091/mbc.e17-03-0152
  • Description: 未定
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Molecular insights into the non-recombining nature of the spinach male-determining region. (2018)
  • Author(s): Kudoh T., M. Takahashi, T. Osabe, A. Toyoda, H. Hirakawa, Y. Suzuki, N. Ohmido, Y. Onodera
  • Journal Title: Molecular Genetics and Genomics Volume: 293 Issue: 2 Pages: 557-568
  • DOI: 10.1007/s00438-017-1405-2
  • Peer Reviewed
• [Journal Article] Expansions of intronic TTTCA and TTTTA repeats in benign adult familial myoclonic epilepsy (2018)
  • Author(s): Ishiura Hiroyuki、Doi Koichiro、Mitsui Jun、Yoshimura Jun、Matsukawa Miho Kawabe、Takahashi Yuji、Date Hidetoshi、Matsukawa Takashi、Shimizu Jun、Koh Kishin、Takiyama Yoshihisa、Goto Jun、Morishita Shinichi、Tsuji Shoji
  • Journal Title: nature genetics Volume: 50 Pages: 581-590
  • DOI: 10.1038/s41588-018-0067-2
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Dynamically and epigenetically coordinated GATA/ETS/SOX transcription factor expression is indispensable for endothelial cell differentiation. (2018)
  • Author(s): Kanki Y, Nakaki R, Shimamura T, Matsunaga T, Yamamizu K, Katayama S, Suehiro JI, Osawa T, Aburatani H, Kodama T, Wada Y, Yamashita JK, Minami T.
  • Journal Title: Nucleic Acids Res. Volume: 印刷中 Pages: 4344-4358
  • DOI: 10.1093/nar/gkx159
  • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
• [Journal Article] DBTSS/DBKERO for integrated analysis of transcriptional regulation (2018)
  • Author(s): Suzuki A, Kawano S, Mitsuyama T, Suyama M, Kanai Y, Shirahige K, Sasaki H, Tokunaga K, Tsuchihara K, Sugano S, Nakai K, Suzuki Y.
  • Journal Title: Nucleic Acids Research Volume: 46 Issue: (D1)
  • DOI: 10.1093/nar/gkx1001
  • Peer Reviewed / Open Access
• [Journal Article] Mining of the Uncharacterized Cytochrome P450 Genes Involved in Alkaloid Biosynthesis in California Poppy Using a Draft Genome Sequence. (2018)
  • Author(s): Hori K, Yamada Y, Purwanto R, Minakuchi Y, Toyoda A, Hirakawa H, Sato F.
  • Journal Title: Plant Cell Physiol. Volume: 59 Issue: 2 Pages: 222-233
  • DOI: 10.1093/pcp/pcx210
  • NAID: 120006384165
  • Peer Reviewed / Open Access
• [Journal Article] Impaired diversity of the lung microbiome predicts progression of idiopathic pulmonary fibrosis. (2018)
  • Author(s): Takahashi Y, Saito A, Chiba H, Kuronuma K. Ikeda K. Kobayashi T, Ariki S, Takahashi M, Sasaki Y, Takahashi H.
  • Journal Title: Respiratory Research Volume: 19 Pages: 34-34
  • DOI: 10.1186/s12931-018-0736-9
  • Description: 印刷中
  • Peer Reviewed / Open Access
• [Journal Article] The CCR4-NOT deadenylase complex controls Atg7-dependent cell death and heart function. (2018)
  • Author(s): Yamaguchi Tomokazu et al
  • Journal Title: Sci. Signal. Volume: 11 Issue: 516 Pages: 3638-3638
  • DOI: 10.1126/scisignal.aan3638
  • NAID: 120006707526
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Identification of potential regulatory mutations using multi-omics analysis and haplotyping of lung adenocarcinoma cell lines (2018)
  • Author(s): Sarun Sereewattanawoot, Ayako Suzuki, Masahide Seki, Yoshitaka Sakamoto, Takashi Kohno, Sumio Sugano, Katsuya Tsuchihara & Yutaka Suzuki
  • Journal Title: Scientific Reports Volume: 8 Issue: 1 Pages: 4926-4926
  • DOI: 10.1038/s41598-018-23342-1
  • Peer Reviewed / Open Access
• [Journal Article] Combinatory use of distinct single-cell RNA-seq analytical platforms reveals the heterogeneous transcriptome response. (2018)
  • Author(s): Kashima Y, Suzuki A, Liu Y, Hosokawa M, Matsunaga H, Shirai M, Arikawa K, Sugano S, Suzuki Y., et al
  • Journal Title: Scientific Reports Volume: volume 8 Pages: 3482-3482
  • DOI: 10.1038/s41598-018-21161-y
  • NAID: 130007556165
  • Peer Reviewed / Open Access
• [Journal Article] Solar-panel and parasol strategies shape the proteorhodopsin distribution pattern in marine Flavobacteriia. (2018)
  • Author(s): Kumagai Y, Yoshizawa S, Nakajima Y, Watanabe M, Fukunaga T, Ogura Y, Hayashi T, Oshima K, Hattori M, Ikeuchi M, Kogure K, DeLong EF, Iwasaki W
  • Journal Title: The ISME Journal Volume: in press Pages: 1329-1343
  • DOI: 10.1038/s41396-018-0058-4
  • Description: Early access
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] ナノポアリードのアライメントツール (2018)
  • Author(s): 鈴木 創, 笠原雅弘
  • Journal Title: 実験医学 Volume: 36 Issue: 1
• [Journal Article] イチゴ新品種‘恋みのり’が有する炭疽病抵抗性-Colletotrichum gloeosporioides種複合体の菌種による差異の一例- (2018)
  • Author(s): 遠藤(飛川)みのり
  • Journal Title: 植物防疫 Volume: 72 Pages: 236-240
  • Peer Reviewed / Open Access
• [Journal Article] Function and evolution of a Lotus japonicus AP2/ERF family transcription factor that is required for development of infection threads. (2018)
  • Author(s): Koji Yano, Seishiro Aoki, Meng Liu, Yosuke Umehara, Norio Suganuma, Wataru Iwasaki, Shusei Sato, Takashi Soyano, Hiroshi Kouchi and Masayoshi Kawaguchi.
  • Journal Title: DNA Res. Volume: 印刷中 Pages: 193-203
  • DOI: 10.1093/dnares/dsw052
  • Peer Reviewed / Open Access
• [Journal Article] Long-term expansion of alveolar stem cells derived from human iPS cells by forming organoids. (2018)
  • Author(s): Yamamoto Y, Gotoh S, Korogi Y, Seki M, Konishi S, Ikeo S, Sone N, Nagasaki T, Matsumoto H, Muro S, Hirai T, Ito I, Kohno T, Suzuki Y, Mishima M.
  • Journal Title: Nat Methods. Volume: 14 Issue: 11 Pages: 1097-1106
  • DOI: 10.1038/nmeth.4448
  • Peer Reviewed / Open Access
• [Journal Article] Epigenetic silencing of SMOCI in traditional serrated adenoma and colorectal cancer. (2018)
  • Author(s): Aoki H, Yamamoto E, Takasawa A, Niinuma T, Yamano HO, Harada T, Matsushita HO, Yoshikawa K, Takagi R, Harada E, Tanaka Y, Yoshida Y, Aoyama T, Eizuka M, Yorozu A, Kitajima H, Kai M, Sawada N, Sugai T, Nakase H, Suzuki H.
  • Journal Title: Oncotarget Volume: 9 Pages: 4707-4721
  • DOI: 10.18632/oncotarget.23523
  • Peer Reviewed / Open Access
• [Journal Article] Significance of measurement of serum trough level and anti-drug antibody of adalimumab as personalised pharmacokinetics in patients with Crohn's disease : a subanalysis of the DIAMOND trial. (2017)
  • Author(s): Nakase H, Motoya S, Matsumoto T, Watanabe K, Hisamatsu T, Yoshimura N, Ishida T, Kato S, Nakagawa T, Esaki M, Nagahori M, Matsui T, Naito Y, Kanai T, Suzuki Y, Nojima M, Watanabe M, Hibi T; DIAMOND study group.
  • Journal Title: Aliment Pharmacol Ther. Volume: 46 Pages: 873-882
  • DOI: 10.1111/apt.14318
  • Peer Reviewed / Open Access
• [Journal Article] GWAS of clinically defined gout and subtypes identifies multiple susceptibility loci that include urate transporter genes (2017)
  • Author(s): Nakayama A, Nakaoka H, Yamamoto K, Sakiyama M, Shaukat A, Toyoda Y, Okada Y, Kamatani Y, Nakamura T. Takada T, Inoue K, Yasujima T, Yuasa H, Shirahama Y, Wakai K. Kubo M. Matsuo H.
  • Journal Title: Ann Rheum Dis Volume: 76 Pages: 869-877
  • DOI: 10.1136/annrheumdis-2016-209632
  • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
• [Journal Article] Training alignment parameters for arbitrary sequencers with last-train, (2017)
  • Author(s): Michiaki Hamada, Yukiteru Ono, Kiyoshi Asai, Martin C, Frith
  • Journal Title: Bioinformatics Volume: 33 Issue: 6 Pages: 926-928
  • DOI: 10.1093/bioinformatics/btw742
  • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
• [Journal Article] Computational prediction of lncRNA-mRNA interactions by integrating tissue (2017)
  • Author(s): Junichi Iwakiri, Goro Terai, Michiaki Hamada
  • Journal Title: Biology Direct Volume: 12 Pages: 15-15
  • DOI: 10.1186/s13062-017-0183-4
  • Peer Reviewed / Open Access
• [Journal Article] Genomic characterization reconfirms the taxonomic status of Lactobacillus parakefiri (2017)
  • Author(s): Yasuhiro TANIZAWA, Hisami KOBAYASHI, Eli KAMINUMA, Mitsuo SAKAMOTO, Moriya OHKUMA, Yasukazu NAKAMURA, Masanori ARITA, Masanori TOHNO
  • Journal Title: Biosci Microbiota Food Health. Volume: 36 Issue: 3 Pages: 129-134
  • DOI: 10.12938/bmfh.16-026
  • NAID: 130005759236
  • Peer Reviewed / Open Access
• [Journal Article] Global gene expression reveals stress-responsive genes in Aspergillus fumigatus mycelia. (2017)
  • Author(s): Takahashi H, Kusuya Y, Hagiwara D, Takahashi-Nakaguchi A, Sakai K, Gonoi T.
  • Journal Title: BMC Genomics Volume: 18 Issue: 1 Pages: 942-942
  • DOI: 10.1186/s12864-017-4316-z
  • Peer Reviewed / Open Access
• [Journal Article] Evolutionary acquisition of promoter-associated non-coding RNA (pancRNA) repertoires diversifies species-dependent gene activation mechanisms in mammals. (2017)
  • Author(s): Masahiro Uesaka, Kiyokazu Agata, Takao Oishi, Kinichi Nakashima, Takuya Imamura
  • Journal Title: BMC Genomics Volume: 18 Pages: 285-285
  • DOI: 10.1186/s12864-017-3662-1
  • NAID: 120006305760
  • Peer Reviewed / Open Access / Acknowledgement Compliant
• [Journal Article] Comprehensive evaluation of non-hybrid genome assembly tools for third-generation PacBio long-read sequence data (2017)
  • Author(s): Vasanthan Jayakumar and Yasubumi Sakakibara
  • Journal Title: Briefings in Bioinformatics
  • DOI: 10.1093/bib/bbx147
  • Peer Reviewed / Open Access
• [Journal Article] Identification and characterization of a metastatic suppressor BRMSIL as target gene of p53. (2017)
  • Author(s): Koyama R, Tamura M, Nakagaki T, Ohashi T, Idogawa M, Suzuki H, Tokino T, Sasaki Y.
  • Journal Title: Cancer Science Volume: 108 Pages: 2413-2421
  • DOI: 10.1111/cas.13420
  • Peer Reviewed / Open Access
• [Journal Article] Insights into land plant evolution garnered from the Marchantia polymorpha genome (2017)
  • Author(s): Bowman J, Kouchi T,..(106名）..Yokoyama R, ..(4名)
  • Journal Title: Cell. Volume: 171 Pages: 287-304
  • DOI: 10.1016/j.cell.2017.09.030
  • NAID: 120006353839
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Light controls protein localization through phytochrome-mediated alternative promoter selection. (2017)
  • Author(s): Ushijima T, Hanada K, Gotoh E, Yamori W, Kodama Y, Tanaka H, Kusano M, Fukushima A, Tokizawa M, Yamamoto YY, Tada Y, Suzuki Y, and Matsushita T
  • Journal Title: Cell Volume: 171 Pages: 1316-1325
  • DOI: 10.1016/j.cell.2017.10.018
  • Peer Reviewed
• [Journal Article] Regnase-1 Maintains Iron Homeostasis via the Degradation of Transferrin Receptor 1 and Prolyl-Hydroxylase-Domain-Containing Protein 3 mRNAs. (2017)
  • Author(s): Yoshinaga, M., Nakatsuka, Y., Vandenbon, A., Ori, D., Uehata, T., Tsujimura, T., Suzuki, Y., Mino, T., Takeuchi, O.
  • Journal Title: Cell Reports Volume: 19 Issue: 8 Pages: 1614-1630
  • DOI: 10.1016/j.celrep.2017.05.009
  • NAID: 120006305989
  • Peer Reviewed / Open Access
• [Journal Article] DNA methylome analysis identifies transcription factor-based epigenomic signatures of multilineage competence in neural stem/progenitor cells. (2017)
  • Author(s): Sanosaka T, Imamura T, Hamazaki N, Chai M, Igarashi K, Ideta-Otsuka M, Miura F, Ito T, Fujii N, Ikeo K, Nakashima K.
  • Journal Title: Cell Reports Volume: 20 Pages: 2992-2992
  • DOI: 10.1016/j.celrep.2017.08.086
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] An efficient method to generate conditional knockout cell lines for essential genes by combination of auxin-inducible degron tag and CRISPR/Cas9. (2017)
  • Author(s): Nishimura, K and Fukagawa T
  • Journal Title: Chromosome Res. Volume: 25 Pages: 253-260
  • DOI: 10.1007/s10577-017-9559-7
  • Peer Reviewed / Open Access
• [Journal Article] Association of M18BP1/KNL2 with CENP-A Nucleosome Is Essential for Centromere Formation in Non-mammalian Vertebrates. (2017)
  • Author(s): Hori T, Shang WH, Hara M, Ariyoshi M, Arimura Y, Fujita R, Kurumizaka H, Fukagawa T.
  • Journal Title: Dev Cell Volume: 42 Pages: 181-189
  • DOI: 10.1016/j.devcel.2017.06.019
  • Peer Reviewed / Int'l Joint Research
• [Journal Article] Sequencing and phasing cancer mutations in lung cancers using a long-read portable sequencer (2017)
  • Author(s): Ayako Suzuki, Mizuto Suzuki, Junko Mizushima-Sugano, Martin C Frith, Wojciech Makatowski, Takashi Kohno, Sumio Sugano, Katsuya Tsuchihara & Yutaka Suzuki
  • Journal Title: DNA Research Volume: 24 Issue: 6 Pages: 585-596
  • DOI: 10.1093/dnares/dsx027
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Locus-specific ChIP combined with NGS analysis reveals genomic regulatory regions that physically interact with the Pax5 promoter in a chicken B cell line. (2017)
  • Author(s): Fujita, T., Kitaura, F., Yuno, M., Suzuki, Y., Sugano, S., and Fujii, H.
  • Journal Title: DNA Research Volume: 24 Pages: 537-548
  • DOI: 10.1093/dnares/dsx023
  • NAID: 120006583339
  • Peer Reviewed / Open Access
• [Journal Article] F4/80+ macrophages contribute to clearance of senescent cells in the mouse postpartum uterus. (2017)
  • Author(s): Mahiro Egashira,Yasushi Hirota,Ryoko Shimizu-Hirota,Tomoko Saito-Fujita,Hirofumi Haraguchi,Leona Matsumoto,Mitsunori Matsuo,Takehiro Hiraoka,Tomoki Tanaka,Shun Akaeda,Chiaki Takehisa, Mayuko Saito-Kanatani, Kei-ichiro Maeda, Tomoyuki Fujii,Yutaka Osuga
  • Journal Title: Endocrinology Volume: 158 Pages: 2344-2353
  • DOI: 10.1210/en.2016-1886
  • Peer Reviewed / Open Access
• [Journal Article] Hypomethylated domain-enriched DNA motifs prepattern the accessible nucleosome organization in teleosts (2017)
  • Author(s): Ryohei Nakamura, Ayako Uno, Masahiko Kumagai, Shinichi Morishita and Hiroyuki Takeda
  • Journal Title: Epigenetics & Chromatin Volume: 10 Pages: 44-44
  • DOI: 10.1186/s13072-017-0152-2
  • Peer Reviewed / Open Access
• [Journal Article] Different contributions of local- and distant-regulatory changes to transcriptome divergence between stickleback ecotypes. (2017)
  • Author(s): Ishikawa, A., Kusakabe, M., Ravinet, M., Yoshida, K., Makino, T., Toyoda, A. Fujiyama, A., and Kitano, J.
  • Journal Title: Evolution Volume: 71 Pages: 565-581
  • DOI: 10.1111/evo.13175
  • Peer Reviewed / Int'l Joint Research
• [Journal Article] An ENU-induced p. C225S missense mutation in the mouse Tgfb1 gene does not cause Camurati-Engelmann disease-like skeletal phenotypes. (2017)
  • Author(s): Ichimura S, Sasaki S, Murata T, Fukumura R, Gondo Y, Ikegawa S, Furuichi T
  • Journal Title: Exp. Anim. Volume: 66 Issue: 2 Pages: 137-144
  • DOI: 10.1538/expanim.16-0085
  • NAID: 130005635560
  • ISSN: 0007-5124, 1341-1357, 1881-7122
  • Peer Reviewed / Open Access
• [Journal Article] Seasonal analysis of microbial communities in precipitation in the Greater Tokyo Area, Japan. (2017)
  • Author(s): Satoshi Hiraoka, Masaya Miyahara, Kazushi Fujii, Asako Machiyama, and Wataru Iwasaki.
  • Journal Title: Frontiers in Microbiology Volume: 8 Pages: 1506-1506
  • DOI: 10.3389/fmicb.2017.01506
  • Peer Reviewed / Open Access
• [Journal Article] Differential Binding of Three Major Human ADAR Isoforms to Coding and Long Non-Coding Transcripts. (2017)
  • Author(s): Josephine Galipon, Rintaro Ishii, Yutaka Suzuki, Masaru Tomita, and Kumiko Ui-Tei.
  • Journal Title: Genes(Basel) Volume: 8 Issue: 2 Pages: 68-68
  • DOI: 10.3390/genes8020068
  • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
• [Journal Article] Identification of physical interactions between genomic regions by enChIP-Seq. (2017)
  • Author(s): Fujita, T., Yuno, M., Suzuki, Y., Sugano, S., and Fujii, H.
  • Journal Title: Genes to Cells Volume: 22 Pages: 506-520
  • DOI: 10.1111/gtc.12492
  • Peer Reviewed / Open Access
• [Journal Article] Complete Genome Sequence of Super Biofilm-Elaborating Staphylococcus aureus Isolated in Japan. (2017)
  • Author(s): Yu L, Hisatsune J, Hirakawa H, Mizumachi E, Toyoda A, Yahara K, Sugai M.
  • Journal Title: Genome Announc. Volume: 5 Issue: 41
  • DOI: 10.1128/genomea.01043-17
  • Peer Reviewed / Open Access
• [Journal Article] Multiple Independent Changes in Mitochondrial Genome Conformation in Chlamydomonadalean Algae. (2017)
  • Author(s): Takashi Hamaji, Hiroko Kawai Toyooka, Atsushi Toyoda, Yohei Minakuchi, Masahiro Suzuki, Asao Fujiyama, Hisayoshi Nozaki and David Roy Smith.
  • Journal Title: Genome Biology and Evolution Volume: 9 Issue: 4 Pages: 993-999
  • DOI: 10.1093/gbe/evx060
  • NAID: 120006358595
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] A novel UBE2A mutation causes X-linked intellectual disability type Nascimento. (2017)
  • Author(s): Tsurusaki Y, Ohashi I, Enomoto Y, Naruto T, Mitsui J, Aida N, Kurosawa K.
  • Journal Title: Hum Genome Var. Volume: 4 Pages: 17019-17019
  • DOI: 10.1038/hgv.2017.19
  • Peer Reviewed / Open Access
• [Journal Article] The Phagocytic Function of Macrophage-Enforcing Innate Immunity and Tissue Homeostasis. (2017)
  • Author(s): Hirayama D, Iida T, Nakase H.
  • Journal Title: Int J Mol Sci. Volume: 19 Pages: 92-92
  • DOI: 10.3390/ijms19010092
  • Peer Reviewed / Open Access
• [Journal Article] Evaluation of a novel fluorescent nanobeacon for targeted imaging of Thomsen-Friedenreich associated colorectal cancer. (2017)
  • Author(s): Nakase H, Sakuma S, Fukuchi T, Yoshino T, Mohri K, Miyata K, Kumagai H, Hiwatari KI, Tsubaki K, Ikejima T, Tobita E, Zhu M, Wilson KJ, Washington K, Gore JC, Pham W.
  • Journal Title: Int J Nanomedicine. Volume: 12 Pages: 1747-1755
  • DOI: 10.2147/ijn.s124174
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Constitutive centromere-associated network controls centromere drift in vertebrate cells. (2017)
  • Author(s): Hori T, Kagawa N, Toyoda A, Fujiyama A, Misu S, Monma N, Makino F, Ikeo K, Fukagawa T.
  • Journal Title: J Cell Biol. Volume: 1 Pages: 101-113
  • DOI: 10.1083/jcb.201605001
  • Peer Reviewed / Open Access / Acknowledgement Compliant
• [Journal Article] Phylogeography of the yellowfin goby Acanthogobius flavimanus in native and non-native distributions. (2017)
  • Author(s): Shotaro Hirase, Sherrie Chambers, Kathryn Hassell, Melissa Carew, Vincent Pettigrove, Kiyoshi Soyano, Masaki Nagae, and Wataru Iwasaki.
  • Journal Title: Marine Biology Volume: 164 Pages: 106-106
  • DOI: 10.1007/s00227-017-3137-6
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Population structure of Escherichia coli 026 : HII with recent and repeated stx2 acquisition in multiple lineages (2017)
  • Author(s): Ogura Yoshitoshi、Gotoh Yasuhiro、Itoh Takehiko、et al.
  • Journal Title: Microb Genom Volume: 3
  • DOI: 10.1099/mgen.0.000141
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] The complete mitochondrial genome sequence and phylogenetic analysis of Luciola lateralis, one of the most famous firefly in Japan (Coleoptera : Lampyridae) (2017)
  • Author(s): Maeda J, Kato D, Arima K, Ito Y, Toyoda A, Noguchi H
  • Journal Title: Mitochondrial DNA Part B Volume: 2 Pages: 546-547
  • DOI: 10.1080/23802359.2017.1365640
  • Peer Reviewed / Open Access
• [Journal Article] The complete mitogenome and phylogenetic analysis of Japanese firefly ‘Genji Botaru’ Luciola cruciata (Coleoptera : Lampyridae) (2017)
  • Author(s): Maeda J, Kato D, Arima K, Ito Y, Toyoda A, Noguchi H
  • Journal Title: Mitochondrial DNA Part B Volume: 2 Pages: 522-523
  • DOI: 10.1080/23802359.2017.1365641
  • Peer Reviewed / Open Access
• [Journal Article] Centromere evolution and CpG methylation during vertebrate speciation (2017)
  • Author(s): Ichikawa K, Tomioka S, Suzuki Y, Nakamura R, Doi K, Yoshimura J, Kumagai M, Inoue Y, Uchida Y, Irie N, Takeda H, Morishita S.
  • Journal Title: Nature Communications Volume: 1833 Pages: 1722-1730
  • DOI: 10.1038/s41467-017-01982-7
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Generalist species drive microbial dispersion and evolution. (2017)
  • Author(s): Sira Sriswasdi, Ching-chia Yang, and Wataru Iwasaki.
  • Journal Title: Nature Communications Volume: 8 Pages: 1162-1162
  • DOI: 10.1038/s41467-017-01265-1
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Complete fusion of a transposon and herpesvirus created the Teratorn mobile element in medaka fish (2017)
  • Author(s): Inoue Y, Saga T, Aikawa T, Kumagai M, Shimada A, Kawaguchi Y, Naruse K, Morishita S, Koga A, Takeda H.
  • Journal Title: Nature Communications Volume: 8 Pages: 551-551
  • DOI: 10.1038/s41467-017-00527-2
  • Peer Reviewed / Open Access
• [Journal Article] Novel GBEI mutation in a Japanese family with adult polyglucosan body disease (2017)
  • Author(s): Harigaya Y, Matsukawa T, Fujita Y, Mizushima K, Ishiura H, Mitsui J, Morishita S, Shoji M, Ikeda Y, Tsuji S.
  • Journal Title: Neurology Genetics Volume: 3 Issue: 2
  • DOI: 10.1212/nxg.0000000000000138
  • Peer Reviewed / Open Access
• [Journal Article] Profiling cancer-related gene mutations in oral squamous cell carcinoma from Japanese patients by targeted amplicon sequencing. (2017)
  • Author(s): Nakagaki T, Tamura M, Kobashi K, Kobashi K, Koyama R, Fukushima H, Ohashi T, Idogawa M, Ogi K, Hiratsuka H, Tokino T, Sasaki Y.
  • Journal Title: Oncotarget Volume: 8 Pages: 59113-59122
  • DOI: 10.18632/oncotarget.19262
  • Peer Reviewed / Open Access
• [Journal Article] Quinone oxidoreductase 2 is involved in haustorium development of the parasitic plant Phtheirospermum japonicum. (2017)
  • Author(s): Ishida JK, Yoshida S, Shirasu K.
  • Journal Title: Plant Signal Behav Volume: 12
  • DOI: 10.1080/15592324.2017.1319029
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Unlinking the methylome pattern from nucleotide sequence, revealed by large-scale in vivo genome engineering and methylome editing in medaka fish (2017)
  • Author(s): Napo K. M. Cheung, Ryohei Nakamura, Ayako Uno, Masahiko Kumagai, Hiroto S, Fukushima, Shinichi Morishita, Hiroyuki Takeda
  • Journal Title: PLOS Genetics Volume: 13 Issue: 12
  • DOI: 10.1371/journal.pgen.1007123
  • Peer Reviewed / Open Access
• [Journal Article] RNA-sequencing-based transcriptome and biochemical analyses of steroidal saponin pathway in a completeset of Allium fistulosum-A. cepa monosomic addition lines (2017)
  • Author(s): Abdelrahman M, El-Sayed M, Sato S, Hirakawa H, Ito SI, Tanaka K, Mine Y, Sugiyama N, Suzuki Y, Yamauchi N, Shigyo M.
  • Journal Title: PLoS One Volume: 12 Issue: 8
  • DOI: 10.1371/journal.pone.0181784
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] DEclust : A statistical approach for obtaining differential expression profiles of multiple conditions (2017)
  • Author(s): Aoto Y, Hachiya T, Okumura K, Hase S, Sato K, Wakabayashi Y, and Sakakibara Y.
  • Journal Title: PLoS One Volume: 12 (11)
  • DOI: 10.1371/journal.pone.0188285
  • Peer Reviewed / Open Access
• [Journal Article] Assessment of the quality of DNA from various formalin-fixed paraffin-embedded (FFPE) tissues and the use of this DNA for next-generation sequencing (NGS) with no artifactual mutation. (2017)
  • Author(s): Einaga N, Yoshida A, Noda H, Suemitsu M, Nakayama Y, Sakurada A, Kawaji Y, Yamaguchi H, Sasaki Y, Tokino T, Esumi M.
  • Journal Title: PLoS One Volume: 12
  • DOI: 10.1371/journal.pone.0176280
  • Peer Reviewed / Open Access
• [Journal Article] Inter-species hormonal control of host root morphology by parasitic plants (2017)
  • Author(s): Spallek, T., Melnyk, C. W., Wakatake, T., Zhang, J., Sakamoto, Y., Kiba, T., Yoshida, S., Matsunaga, S., Sakakibara, H., Shirasu, K.
  • Journal Title: PNAS Volume: 印刷中 Pages: 5283-5288
  • DOI: 10.1073/pnas.1619078114
  • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
• [Journal Article] Multiple common and rare variants of ABCG2 cause gout. (2017)
  • Author(s): Higashino Toshihide、Takada Tappei、Nakaoka Hirofumi、Toyoda Yu、Stiburkova Blanka、Miyata Hiroshi、Ikebuchi Yuki、Nakashima Hiroshi、Shimizu Seiko、Kawaguchi Makoto、Sakiyama Masayuki、Nakayama Akiyoshi、Akashi Airi、Tanahashi Yuki、Kawamura Yusuke、Nakamura Takahiro、Wakai Kenji、Hosomichi Kazuyoshi 他
  • Journal Title: RMD Open Volume: 3
  • DOI: 10.1136/rmdopen-2017-000464
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Genomic structure and evolution of the mating type locus in the green seaweed Ulva partita. (2017)
  • Author(s): Yamazaki T, Ichihara K, Suzuki R, Oshima K, Miyamura S, Kuwano K, Toyoda A, Suzuki Y, Sugano S, Hattori M, Kawano S.
  • Journal Title: Scientific Reports Volume: 7 Issue: 1 Pages: 11679-11679
  • DOI: 10.1038/s41598-017-11677-0
  • NAID: 120006380559
  • Peer Reviewed / Open Access
• [Journal Article] A Comprehensive Mouse Transcriptomic BodyMap across 17 Tissues by RNA-seq. (2017)
  • Author(s): Li B, Qing T, Zhu J, Wen Z, Yu Y, Fukumura R, Zheng Y, Gondo Y, Shi L.
  • Journal Title: Scientific Reports Volume: 7 Pages: 4200-4200
  • DOI: 10.1038/s41598-017-04520-z
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] CRISPR/Cas9-based knockouts reveal that CpRLP1 is a negative regulator of the sex pheromone PR-IP in the Closterium peracerosum-strigosum-littorale complex (2017)
  • Author(s): Kanda, N., Ichikawa, M., Ono, A., Toyoda, A., Fujiyama, A., Abe, J., Tsuchikane, Y., Nishiyama, T., Sekimoto, H.
  • Journal Title: Scientific Reports Volume: 7 Pages: 17873-17873
  • DOI: 10.1038/s41598-017-18251-8
  • Peer Reviewed / Open Access
• [Journal Article] Serotyping dengue virus with isothermal amplification and a portable sequencer. (2017)
  • Author(s): Yamagishi Junya、Runtuwene Lucky R.、Hayashida Kyoko、Mongan Arthur E.、Thi Lan Anh Nguyen、Thuy Linh Nguyen、Nhat Cam Nguyen、Limkittikul Kriengsak、Sirivichayakul Chukiat、Sathirapongsasuti Nuankanya、Frith Martin、Makalowski Wojciech、Eshita Yuki、Sugano Sumio、Suzuki Yutaka
  • Journal Title: Scientific Reports Volume: 7 Pages: 3510-3510
  • DOI: 10.1038/s41598-017-03734-5
  • NAID: 120006337766
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Direct estimation of de novo mutation rates in a chimpanzee parent-offspring trio by ultra-deep whole genome sequencing (2017)
  • Author(s): Tatsumoto S, Go Y, Fukuta K, Noguchi H, Hayakawa T, Tomonaga M, Hirai H, Matsuzawa T, Agata K, Fujiyama A
  • Journal Title: Scientific Reports Volume: 7 Pages: 13561-13561
  • DOI: 10.1038/s41598-017-13919-7
  • NAID: 120006358802
  • Peer Reviewed / Open Access
• [Journal Article] Independent effects of ADH1B and ALDH2 common dysfunctional variants on gout risk. (2017)
  • Author(s): Sakiyama M, Matsuo H, Akashi A, Shimizu S, Higashino T, Kawaguchi M, Nakayama A, Naito M, Kawai S, Nakashima H, Sakurai Y, Ichida K, Shimizu T, Ooyama H, Shinomiya N.
  • Journal Title: Sci Rep. Volume: 7 Pages: 2500-2500
  • DOI: 10.1038/s41598-017-02528-z
  • Peer Reviewed / Open Access
• [Journal Article] Regnase-1 and Roquin Nonredundantly Regulate Thl Differentiation Cansing Cardiac Inflammation and Fibrosis. (2017)
  • Author(s): Cui, X., Mino, T., Yoshinaga, M., Nakatsuka, Y., Hia, F., Yamasoba, D., Tsujimura, T., Tomonaga, K., Suzuki, Y., Uehata, T., Takeuchi, O.
  • Journal Title: The Journal of Immunology Volume: 199 Issue: 12 Pages: 4066-4077
  • DOI: 10.4049/jimmunol.1701211
  • Peer Reviewed
• [Journal Article] An emerging model organism Caenorhabditis elegans for alternative pre-mRNA processing in vivo. (2017)
  • Author(s): Shotaro Wani, Hidehito Kuroyanagi
  • Journal Title: Wiley Interdiscip Rev RNA Volume: 印刷中
  • DOI: 10.1002/wrna.1428
  • Peer Reviewed / Open Access / Acknowledgement Compliant
• [Journal Article] A Trichosporonales genome tree based on 27 haploid and three evolutionarily. (2017)
  • Author(s): Masako Takashima, Sira Sriswasdi, Ri-ichiroh Manabe, Moriya Ohkuma, Takashi Sugita, and Wataru Iwasaki.
  • Journal Title: Yeast Volume: 35 Pages: 99-111
  • DOI: 10.1002/yea.3284
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] A sodium binding system alleviates acute salt stress during seawater acclimation in eels. (2017)
  • Author(s): Marty Kwok Shing Wong, Takehiro Tsukada, Nobuhiro Ogawa, Supriya Pipil, Haruka Ozaki, Yutaka Suzuki, Wataru Iwasaki, and Yoshio Takei.
  • Journal Title: Zoological Letters Volume: 3 Pages: 22-22
  • DOI: 10.1186/s40851-017-0081-8
  • Peer Reviewed / Open Access
• [Journal Article] 神経幹細胞の運命制御におけるIncRNAの役割 (2017)
  • Author(s): 木下隆太、岸雄介、後藤由季子
  • Journal Title: 医薬ジャーナル, Clinical Calcium Volume: 27 Issue: 6
• [Journal Article] 変異蓄積モデルを利用した生殖系列変異の後世代影響の解析 (2017)
  • Author(s): 内村有邦、樋口真弓、八木健
  • Journal Title: 放射線生物研究 Volume: 52 Issue: 4 Pages: 402-415
  • Peer Reviewed
• [Journal Article] Comprehensive genetic exploration of selective tooth agenesis of mandibular incisors by exome sequencing. (2017)
  • Author(s): Yamaguchi T, Hosomichi K, Yano K, Kim YI, Nakaoka H, Kimura R, Otsuka H, Nonaka N, Haga S, Takahashi M, Shirota T, Kikkawa Y, Yamada A, Kamijo R, Park SB, Nakamura M, Maki K, Inoue I.
  • Journal Title: Human Genom Variation Volume: 印刷中 Pages: 1005-1005
  • DOI: 10.1038/hgv.2017.5
  • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
• [Journal Article] Clinical implications of SCN1A missense and truncation variants in a large Japanese cohort with Dravet syndrome. (2017)
  • Author(s): Ishii A, Watkins JC, Chen D, Hirose S, Hammer MF.
  • Journal Title: Epilepsia. Volume: 58 Issue: 2 Pages: 282-290
  • DOI: 10.1111/epi.13639
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] A de novo missense mutation of GABRB2 causes early myoclonic encephalopathy. (2017)
  • Author(s): Ishii A, Kang JQ, Schornak CC, Hernandez CC, Shen W, Watkins JC, Macdonald RL, Hirose S.
  • Journal Title: J Med Genet. Volume: 54 Issue: 3 Pages: 202-11
  • DOI: 10.1136/jmedgenet-2016-104083
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Comprehensive microbiome analysis of tonsillar crypts in IgA nephropathy. (2017)
  • Author(s): Watanabe H, Goto S, Mori H, Higashi K, Hosomichi K, Takanashi N, Aizawa N, Yamada T, Inoue I, Kurokawa K, Narita I.
  • Journal Title: Nephrol Dial Transplant. Volume: in press Pages: 2072-2079
  • DOI: 10.1093/ndt/gfw343
  • Peer Reviewed / Open Access / Acknowledgement Compliant
• [Journal Article] Phylogenomics and Morphology of Extinct Paleognaths Reveal the Origin and Evolution of the Ratites. (2017)
  • Author(s): Yonezawa T, Segawa T, Mori H, Campos PF, Hongoh Y, Endo H, Akiyoshi A, Manabe M, Kohno N, Nishida S, Wu J, Jin H, Kishino H, Kurokawa K, Yoshifumi N, Tanabe H, Mukoyama H, Yoshida K, Rasoamiaramanana A, Yamagishi S, Hayashi Y, Yoshida A, Koike H, Akishinonomiya F, Willerslev E, Hasegawa M.
  • Journal Title: Current Biology Volume: 27 Issue: 1 Pages: 1-10
  • DOI: 10.1016/j.cub.2016.10.029
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] ADARB1 catalyzes circadian A-to-I editing and regulates RNA rhythm. (2017)
  • Author(s): Hideki Terajima, Hikari Yoshitane, Haruka Ozaki, Yutaka Suzuki, Shigeki Shimba, Shinya Kuroda, Wataru Iwasaki, and Yoshitaka Fukada.
  • Journal Title: Nature Genetics Volume: 7 Pages: 12926-12926
  • DOI: 10.1038/ng.3731
  • Peer Reviewed / Open Access / Acknowledgement Compliant
• [Journal Article] Rapid and cost effective high-throughput sequencing for identification of germline mutation of BRCA1 and BRCA2 (2017)
  • Author(s): Ahmadloo S, Nakaoka H, Hayano T, Hosomichi K, You H, Utsuno E, Sangai T, Nishimura M, Matsushita K, Hata A, Nomura F, Inoue I.
  • Journal Title: J Hum Genet Volume: 印刷中 Pages: 561-567
  • DOI: 10.1038/jhg.2017.5
  • NAID: 40021210379
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Genetic polymorphisms in Plasmodium falciparum chloroquine resistance genes, pfcrt and pfmdr1, in North Sulawesi, Indonesia (2017)
  • Author(s): Patrick Reteng, Visia Vrisca, Inka Sukarno, Ilham Habib Djarkoni, Jane Angela Kalangi, George Eduardo Jacobs, Lucky Ronald Runtuwene, Yuki Eshita, Ryuichiro Maeda, Yutaka Suzuki, Arthur Elia Mongan, Sarah Maria Warouw, Junya Yamagishi and Josef Tuda.
  • Journal Title: BMC Res Notes Volume: 10 Pages: 147-147
  • DOI: 10.1186/s13104-017-2468-1
  • NAID: 120006473604
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Germline variants of prostate cancer in Japanese families. (2017)
  • Author(s): Hayano T, Matsui H, Ohtake N, Hosomichi K, Suzuki K, Inoue I.
  • Journal Title: PLOS ONE Volume: 印刷中
  • DOI: 10.1371/journal.pone.0164233
  • Peer Reviewed / Open Access
• [Journal Article] 改正個人情報保護法でゲノム研究はどう変わるか? (2017)
  • Author(s): 清水佳奈, 山本奈津子, 川嶋実苗, 片山俊明, 荻島創一
  • Journal Title: 実験医学 Volume: 35 Issue: 4 Pages: 600-605
• [Journal Article] Genome evolution in the allotetraploid frog Xenopus laevis. (2016)
  • Author(s): Session AM, Toyoda A, Suzuki Y, Fujiyama A, Taira M, et al.
  • Journal Title: Nature Volume: 538 Pages: 336-343
  • DOI: 10.1038/nature19840
  • NAID: 120006240046
  • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
• [Journal Article] A case of succinic semialdehyde dehydrogenase deficiency with status epilepticus and rapid regression. (2016)
  • Author(s): Horino A, Kawawaki H, Fukuoka M, Tsuji H, Hattori Y, Inoue T, Nukui M, Kuki I, Okazaki S, Tomiwa K, Hirose S.
  • Journal Title: Brain Dev. Volume: 38 Issue: 9 Pages: 866-70
  • DOI: 10.1016/j.braindev.2016.03.010
  • Peer Reviewed
• [Journal Article] Mitochondrial Genome Sequences of Four Strains of the Bloom-Forming Raphidophyte Heterosigma akashiw (2016)
  • Author(s): Ogura Y, Nakayama N, Hayashi T, Ueki S.
  • Journal Title: Genome Announc. Volume: 4 Issue: 6
  • DOI: 10.1128/genomea.01288-16
  • Peer Reviewed / Open Access
• [Journal Article] Complete Genome Sequence of a Phycodnavirus, Heterosigma akashiwo Virus Strain 53. (2016)
  • Author(s): Ogura Y, Hayashi T, Ueki S.
  • Journal Title: Genome Announc. Volume: 4 Issue: 6
  • DOI: 10.1128/genomea.01279-16
  • Peer Reviewed / Open Access
• [Journal Article] Complete Genome Sequence of Klebsiella oxytoca Strain JKo3. (2016)
  • Author(s): Iwase T, Ogura Y, Hayashi T, Mizunoe Y.
  • Journal Title: Genome Announc. Volume: 4 Issue: 6
  • DOI: 10.1128/genomea.01221-16
  • Peer Reviewed / Open Access / Acknowledgement Compliant
• [Journal Article] Phylogenetic Analysis of Enteroaggregative Escherichia coli Sequence Type 131. (2016)
  • Author(s): Imuta N, Ooka T, Seto K, Kawahara R, Koriyama T, Kojyo T, Iguchi A, Tokuda K, Kawamura H, Yoshiie K, Ogura Y, Hayashi T, Nishi J.
  • Journal Title: J Chin Microbiol. Volume: 54（8） Issue: 8 Pages: 2128-2134
  • DOI: 10.1128/jcm.00711-16
  • Peer Reviewed / Open Access / Acknowledgement Compliant
• [Journal Article] Complete Genome Sequence of Klebsiella pneumoniae YH43. (2016)
  • Author(s): Iwase T, Ogura Y, Hayashi T, Mizunce Y.
  • Journal Title: Genome Announc. Volume: 4 Issue: 2
  • DOI: 10.1128/genomea.00242-16
  • Peer Reviewed / Open Access / Acknowledgement Compliant
• [Journal Article] Genome sequence and analysis of the Japanese morning glory, Ipomoea nil. (2016)
  • Author(s): Hoshino A, Jayakumar V, Toyoda A, Noguchi H, Itoh T, Seki M, Kohara Y, Suzuki Y, Sugano S, Fujiyama A, Sakakibara Y, et al.
  • Journal Title: Nat Commun, Volume: 7 Pages: 132395-132395
  • DOI: 10.1038/ncomms13295
  • NAID: 120005997914
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Control of transcriptional pausing by biased thermal fluctuations on repetitive genomic sequences. (2016)
  • Author(s): Imashimizu M, Afek A, Takahashi H, Lubkowska L, Lukatsky DB.
  • Journal Title: Proc Natl Acad Sci USA Volume: 113(47) Issue: 47
  • DOI: 10.1073/pnas.1607760113
  • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
• [Journal Article] AgIn : measuring the landscape of CpG methylation ofindividual repetitive elements. (2016)
  • Author(s): Suzuki Y, Korlach J, Turner SW, Tsukahara T, Taniguchi J, Qu W, Ichikawa K, Yoshimura J, Yurino H, Takahashi Y, Mitsui J, Ishiura H, Tsuji S, Takeda H, Morishita S.
  • Journal Title: Bioinformatics Volume: 32(19) Issue: 19 Pages: 2911-2919
  • DOI: 10.1093/bioinformatics/btw360
  • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
• [Journal Article] Assessing Cell-to-Cell DNA Methylation Variability on Individual Long Reads. (2016)
  • Author(s): Qu W, Tsukahara T, Nakamura R, Yurino H, Hashimoto S, Tsuji S, Takeda H, Morishita S.
  • Journal Title: Sci Rep. Volume: 6 Pages: 21317-21317
  • DOI: 10.1038/srep21317
  • Peer Reviewed / Open Access
• [Journal Article] Parallel mitogenome sequencing alleviates random rooting effect in phylogeography. (2016)
  • Author(s): Shotaro Hirase, Hirohiko Takeshima, Mutsumi Nishida, and Wataru Iwasaki.
  • Journal Title: Genome Biology and Evolution Volume: - Pages: 1267-1278
  • DOI: 10.1093/gbe/evw063
  • Peer Reviewed / Open Access / Acknowledgement Compliant
• [Journal Article] Structural mechanism for light-driven transport by a new type of chloride ion pump, Nonlabens marinus rhodopsin-3. (2016)
  • Author(s): Toshiaki Hosaka, Susumu Yoshizawa, Yu Nakajima, Noboru Ohsawa, Masakatsu Hato, Edward F, DeLong, Kazuhiro Kogure, Shigeyuki Yokoyama, Tomomi Kimura-Someya, Wataru Iwasaki, and Mikako Shirouzu.
  • Journal Title: Journal of Biological Chemistry Volume: 291 Pages: 17488-17495
  • DOI: 10.1074/jbc.m116.728220
  • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
• [Journal Article] Metagenomics and bioinformatics in microbial ecology : Current status and beyond. (2016)
  • Author(s): Satoshi Hiraoka, Ching-chia Yang, and Wataru Iwasaki.
  • Journal Title: Microbes and Environments Volume: 31 Pages: 204-212
  • NAID: 130005265061
  • Peer Reviewed / Open Access
• [Journal Article] Flexible selection of diversified Na(+)/K(+)-ATPase α-subunit isoforms for osmoregulation in teleosts. (2016)
  • Author(s): Marty Kwok-Shing Wong, Supriya Pipil, Haruka Ozaki, Yutaka Suzuki, Wataru Iwasaki, and Yoshio Takei.
  • Journal Title: Zoological Letters Volume: 2 Pages: 15-15
  • DOI: 10.1186/s40851-016-0050-7
  • Peer Reviewed / Open Access
• [Journal Article] Global deceleration of gene evolution following recent genome hybridizations in fungi. (2016)
  • Author(s): Sira Sriswasdi, Masako Takashima, Ri-ichiroh Manabe, Moriya Ohkuma, Takashi Sugita, and Wataru Iwasaki.
  • Journal Title: Genome Research Volume: 26 Pages: 1081-1090
  • DOI: 10.1101/gr.205948.116
  • Peer Reviewed / Open Access / Acknowledgement Compliant
• [Journal Article] Allelic imbalance in regulation of ANRIL through chromatin interaction at 9p21 endometriosis risk locus. (2016)
  • Author(s): Nakaoka H, Gurumurthy A, Hayano T, Ahmadloo S, Omer WH, Yoshihara K, Yamamoto A, Kurose K, Enomoto T, Akira S, Hosomichi K, Inoue I.
  • Journal Title: PLOS Genet Volume: 1 Issue: 4 Pages: 1-23
  • DOI: 10.1371/journal.pgen.1005893
  • Peer Reviewed / Open Access / Acknowledgement Compliant
• [Journal Article] Rtools : a web server for various secondary structural analyses on single RNA sequences. (2016)
  • Author(s): Michiaki Hamada, Yukiteru Ono, Hisanori Kiryu, Kengo Sato, Yuki Kato, Tsukasa Fukunaga, Ryota Mori, Kiyoshi Asai.
  • Journal Title: Nucleic Acids Res Volume: 44
  • DOI: 10.1093/nar/gkw337
  • NAID: 120006346257
  • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
• [Journal Article] Improved Aocuracy in RNA-Protein Rigid Body Docking by Incorporating Force Field for Molecular Dynamics Simulation into the Scoring Function. (2016)
  • Author(s): Junichi Iwakiri, Michiaki Hamada, Kiyoshi Asai, Tomoshi Kameda.
  • Journal Title: J. Chem Theory Comput. Volume: 12(9) Issue: 9 Pages: 4688-4697
  • DOI: 10.1021/acs.jctc.6b00254
  • Peer Reviewed / Acknowledgement Compliant
• [Journal Article] DFAST and DAGA : web-based integrated genome annotation tools and resources (2016)
  • Author(s): Tanizawa Y, Fujisawa T, Kamimuma E, Nakamura Y, Arita M.
  • Journal Title: Bioscience of Microbiota, Food and Health Volume: 35 Issue: 4 Pages: 173-184
  • DOI: 10.12938/bmfh.16-003
  • NAID: 130005250038
  • ISSN: 2186-3342
  • Peer Reviewed / Open Access
• [Journal Article] An algorithm for aligning and clustering read mapping profiles of deep sequencing in non-coding RNA processing. (2016)
  • Author(s): Tsuchiya M, Amano K, Abe M, Seki M, Hase S, Sato K, Sakakibara Y.
  • Journal Title: Bioinformatics Volume: 32 Issue: 12
  • DOI: 10.1093/bioinformatics/btw273
  • Peer Reviewed / Open Access
• [Journal Article] Challenges raised by gene editing. (2016)
  • Author(s): Kazuto Kato.
  • Journal Title: Issues in Science and Technoogy, Volume: XXXⅡ Issue: 4
• [Journal Article] ヒトゲノムデータの保護と利用に向けた仕組みづくり (2016)
  • Author(s): 加藤和人, 山本奈津子
  • Journal Title: 実験医学 Volume: 34 Issue: 16 Pages: 2670-2671
• [Journal Article] <b>Methods for analyzing next-generation sequencing dataVI. genome assembly </b> (2016)
  • Author(s): 谷澤 靖洋、神沼 英里、中村 保一、清水 謙多郎、門田 幸二
  • Journal Title: Japanese Journal of Lactic Acid Bacteria Volume: 27 Issue: 1 Pages: 41-52
  • DOI: 10.4109/jslab.27.41
  • NAID: 130005628247
  • ISSN: 1343-327X, 2186-5833
  • Open Access
• [Presentation] CD69 Biology and Pathology (2020)
  • Author(s): Kimura M. Y., Koyama-Nasu, R., Mita Y., Hayashizaki, K. and Nakayama T.
  • Organizer: 11th International Symposium of IFReC, Immunology at the Forefront
  • Int'l Joint Research / Invited
• [Presentation] Epigenetic regulation of neural stem-progenitor cell fate in the developing mouse neocortex (2020)
  • Author(s): Yukiko Gotoh
  • Organizer: 2nd Neuroepigenetics & Neuroepitranscriptomics' Conference
  • Int'l Joint Research / Invited
• [Presentation] First line defense mechanisms against viral infection (2020)
  • Author(s): Yukiko Gotoh
  • Organizer: AMED International Symposium
  • Int'l Joint Research / Invited
• [Presentation] Epigenetic regulation of mononuclear phagocyte development (2020)
  • Author(s): Daisuke Kurotaki
  • Organizer: Meeting of Leukemic and Hematopoietic Stem Cells in Kumamoto
  • Int'l Joint Research / Invited
• [Presentation] Whole genome assembly in hexaploid sweetpotato and comparison with diploid wild species (2020)
  • Author(s): TRAS sweetpotato genome sequencing cnsortium (Sachiko Isobe)
  • Organizer: Plant and Animal Genome XXVIII
  • Int'l Joint Research / Invited
• [Presentation] Chromosome Organization in Living Human Cells Revealed by Single Nucleosome Imaging. (2020)
  • Author(s): Maeshima K.
  • Organizer: Telluride Workshop on Physical Genomics and Transcriptional Engineering
  • Int'l Joint Research / Invited
• [Presentation] Mechanistic insights of metronidazole resistance revealed by Next-Generation Sequencing of whole genome of Helicobacter pylori clinical isolates from the Democratic Republic of Congo (2020)
  • Author(s): Tshibangu Evariste
  • Organizer: 10th Kenya Medical Research Institute Annual Scientific and Health Conference
  • Int'l Joint Research
• [Presentation] Integration of the Panel Sequencing and In-Depth Single Cell Analyses Reveals the Clonal Evolution of Adult T Cell Leukemia Cells (2020)
  • Author(s): Yutaka Suzuki
  • Organizer: Advances in Genome Biology and Technology (AGBT)
  • Int'l Joint Research
• [Presentation] Single plasma cell transcriptome analysis in POEMS syndrome (2020)
  • Author(s): Yusuke Isshiki, Naoya Mimura, Motohiko Oshima, Kensuke Kayamori, Masahide Seki, Kiyomi Imamura, Terumi Horiuchi, Yurie Nagai, Shokichi Tsukamoto, Yusuke Takeda, Chikako Ohwada, Sonoko Misawa, Satoshi Kuwabara, Yutaka Suzuki, Emiko Sakaida, Chiaki Nakaseko, Atsushi Iwama
  • Organizer: Annual Meeting of European Hematology Association
  • Int'l Joint Research
• [Presentation] Impact of structure and property changes of aging choroid plexus on neural stem cell regulation and brain functions (2020)
  • Author(s): SAYAKO KATADA
  • Organizer: Keystone Symposia on cerebrospinal fluid
  • Int'l Joint Research
• [Presentation] Update of Platanus-allee, a de novo haplotype assembler, and its application to the organisms with highly divergent haplotypes (2020)
  • Author(s): Rei Kajitani, Miki Okuno, Hiroyuki Tanaka, Atsushi Toyoda, Takehiko Itoh
  • Organizer: Plant & animal genome conference XXVIII
  • Int'l Joint Research
• [Presentation] Whole-genome sequencing and comparative analysis of emu provides insights into sex chromosome evolution of the Palaeognathae clade (2020)
  • Author(s): Miki Okuno, Rei Kajitani, Hiroyuki Tanaka, Shuhei Mizushima, Asato Kuroiwa, Takehiko Itoh
  • Organizer: Plant & animal genome conference XXVIII
  • Int'l Joint Research
• [Presentation] genome Assembly and Characterization of Medicinal Plant Sophora Flavescens (2020)
  • Author(s): Amit Rai, Yohei Shimizu, Hideki Hirakawa, Mami Yamazaki, Kazuki Saito
  • Organizer: Plant and Animal Genome Conference XXVIII ; San Diego, USA
  • Int'l Joint Research
• [Presentation] Chromosome-level assembly of liverwort Marchantia polymorpha and updates of the genome database MarpolBase. (2020)
  • Author(s): Yasuhiro Tanizawa, Masaru Yagura, Mika Sakamoto, Takako Mochizuki, Sean A. Montgomery, Bence Galik, Shohei Yamaoka, Ryuichi Nishihama, Katsuyuki T. Yamato, Takayuki Kohchi, Yasukazu Nakamura, Chang Liu, and Freédéric Berger
  • Organizer: Plant and Animal Genomics 2020
  • Int'l Joint Research
• [Presentation] Homeostasis through neural control of gut microbiota in Drosophila (2020)
  • Author(s): Kentaro Ishibashi, Takuro Suzuki, Naoyuki Fuse, Shoichiro Kurata
  • Organizer: The 8th Global Network Forum on Infection and Immunity
  • Int'l Joint Research
• [Presentation] 自己内在性リガンドを介したミクログリア活性化に起因するレット症候群発症機構の解明と治療法の確立 (2020)
  • Author(s): 中嶋秀行、中島欽一
  • Organizer: 2020レット症候群とMeCP2重複症候群
  • Invited
• [Presentation] Chromatin regulation during neural development (2020)
  • Author(s): Yusuke Kishi
  • Organizer: The 97th Annual meeting of Physiological Society of Japan(誌上開催)
  • Invited
• [Presentation] ゲノム規模解析で紐解く転写因子によるミエロイド細胞の分化系譜決定機構 (2020)
  • Author(s): 田村 智彦
  • Organizer: 横浜市立大学先端医科学研究センター 共同利用・共同研究拠点「マルチオミックスによる遺伝子発現制御の先端医学共同尾研究拠点」シンポジウム
  • Invited
• [Presentation] ゲノム解析技術の進展 (2020)
  • Author(s): 鈴木 穣
  • Organizer: 共同利用・共同研究拠点「マルチオミックスによる遺伝子発現制御の先端的医学共同研究拠点」シンポジウム
  • Invited
• [Presentation] 昆虫翅の起源を探る研究から害虫防除へ (2020)
  • Author(s): 新美輝幸
  • Organizer: 昆虫科学・新産業創生研究センター 第2回シンポジウム「昆虫多様性と生態の理解と応用」
  • Invited
• [Presentation] ショウジョウバエにおける性染色体の進化 (2020)
  • Author(s): 野澤 昌文
  • Organizer: 総合研究大学院大学先導科学考究
  • Invited
• [Presentation] RNAi法を用いた非モデル昆虫研究の新展開 (2020)
  • Author(s): 新美輝幸
  • Organizer: 第31回 生物学技術研究会・第42回 生理学技術研究会 研修講演
  • Invited
• [Presentation] URAT2/OAT10遺伝子の機能低下型ミスセンスSNPは血清尿酸値と痛風のリスクを共に低下させる (2020)
  • Author(s): 河村優輔、東野俊英、清水聖子、中山昌喜、大山恵子、大山博司、清水徹、川口真、高尾幹也、市田公美、四ノ宮成祥、高田龍平、松尾洋孝
  • Organizer: 第53回日本痛風・尿酸核酸学会
  • Invited
• [Presentation] Differential regulation of RNA unloading from phloem (2020)
  • Author(s): Koh Aoki, Subhankar Bera, Kohki Shimizu
  • Organizer: 第61回日本植物生理学会年会
  • Invited
• [Presentation] 病原真菌Aspergillus fumigatusの環境応答能の数理モデル化による理解の試み (2020)
  • Author(s): 高橋弘喜
  • Organizer: 第93回日本細菌学会総会
  • Invited
• [Presentation] 肺炎球菌の菌体表層タンパク質群に着目した病態形成機構の解明. (2020)
  • Author(s): 山口雅也
  • Organizer: 第93回日本細菌学会総会
  • Invited
• [Presentation] 根圏微生物叢による植物生長促進機構の理解およびその活用に向けて (2020)
  • Author(s): 晝間敬
  • Organizer: 日本植物生理学会
  • Invited
• [Presentation] カイコおよび昆虫の雄特異的形質に関与する遺伝子の単離と機能解析 (2020)
  • Author(s): 新美輝幸
  • Organizer: 令和2年度蚕糸・昆虫利用学術講演会(日本蚕糸学会第90回大会) 日本蚕糸学会賞受賞記念講演
  • Invited
• [Presentation] Chromosomal-level assembly of the pufferfish genomes provides insights into sex-chromosome evolution (2020)
  • Author(s): Kabir Ahammad
  • Organizer: 令和2年度日本水産学会春季大会
  • Invited
• [Presentation] Acceleration of leaf development in the mutants of Arabidopsis deadenylases, AtCCR4a/b (2020)
  • Author(s): Taku Tokunaka
  • Organizer: Annual Meeting of JSPP
• [Presentation] IgA腎症患者の扁桃陰窩におけるIgAレパトアと細菌叢の関連 (2020)
  • Author(s): 山口浩毅、後藤眞、山本卓, 金子佳賢、成田一衛
  • Organizer: IgA腎症研究会
• [Presentation] The nutritional basis of Drosophila associated yeasts and bacteria for larval growth (2020)
  • Author(s): Ayumi Mure
  • Organizer: Kyoto Biomolecular Mass Spectrometry Society(KBMSS)
• [Presentation] トウガラシ(Capsicum chinense)の高温期の着果率および花粉発芽率と相関のある遺伝子マーカーの作出 (2020)
  • Author(s): 山崎 彬・白澤健太・細川宗孝
  • Organizer: 園芸学会
• [Presentation] トウガラシ(Capsicum chinense)雑種第一代(F1)が持つ高温着果性と花粉発芽率の関係 (2020)
  • Author(s): 山崎 彬・細川宗孝
  • Organizer: 園芸学会
• [Presentation] トウガラシの交雑不親和性に関わるエピスタシス遺伝子座 (2020)
  • Author(s): 梅林綾香・白澤健太・安井康夫・細川宗孝
  • Organizer: 園芸学会
• [Presentation] ホウレンソウ性決定候補遺伝子の特徴付け (2020)
  • Author(s): 小野寺康之・須藤有紀・平川英樹・鈴木穣
  • Organizer: 園芸学会 令和2年度春季大会
• [Presentation] Mechanoreceptor-mediated circuit regulates cold tolerance in Caenorhabditis elegans (2020)
  • Author(s): Natsune Takagaki, Akane Ohta, Kohei Ohnishi, Akira Kawanabe, Yohei Minakuchi, Atsushi Toyoda, Yuichiro Fujiwara & Atsushi Kuhara
  • Organizer: 関西線虫勉強会
• [Presentation] Why the circadian clock is circadian : the local adaptation of circadian periods in the photoperiodic flowering of a Japanese short-day duckweed.