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: 657665-657665
  • 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 Volume: 36
  • 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 / Int'l Joint Research
• [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 / Int'l Joint Research
• [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 reports 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 Volume: 22 Pages: 2365-2382
  • 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: Exp Cell Res. Volume: 印刷中 Pages: 111898-111898
  • DOI: 10.1016/j.yexcr.2020.111898
  • Peer Reviewed / Open Access
• [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 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 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: in press Pages: 479-492
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  • Description: 未定 in press
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• [Journal Article] Assessment of Polygala paniculata (Polygalaceae) characteristics for evolutionary studies of legume-rhizobia symbiosis. (2020)
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• [Journal Article] Characterization of a novel Helicobacter pylori East Asian-type CagA ELISA for detecting patients infected with various cagA genotypes. (2020)
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  • 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
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• [Journal Article] FuncTree2 : an interactive radial tree for functional hierarchies and omics data visualization (2019)
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• [Journal Article] The mimetic wing pattern of Papilio polytes butterflies is regulated by a doublesex-orchestrated gene network (2019)
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• [Journal Article] The role of Zhx2 transcription factor in bipolar cell differentiation during mouse retinal development (2018)
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• [Journal Article] Unexpected role of the IMD pathway in Drosophila gut defense against Staphylococcus aureus (2018)
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  • 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
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• [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
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• [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
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  • 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
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• [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
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• [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
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• [Journal Article] Genomic Characterization of β-Glucuronidase?Positive Escherichia coli O157:H7 Producing Stx2a (2018)
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  • Journal Title: Emerg Infect Dis. Volume: 24 Pages: 2219-2227
  • DOI: 10.3201/eid2412.180404
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• [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)
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  • Journal Title: F1000Res. Volume: 7
  • DOI: 10.12688/f1000research.14149.1
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• [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
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  • 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
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  • Journal Title: Genes Chromosomes Cancer Volume: 57 Pages: 557-563
  • DOI: 10.1002/gcc.22668
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• [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
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• [Journal Article] Characterizing <i>Helicobacter pylori cagA</i> in Myanmar. (2018)
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  • Journal Title: Gut Liver Volume: 12 Issue: 1 Pages: 51-57
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• [Journal Article] Pathogenesis of Helicobacter pylori infection. (2018)
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  • Journal Title: Helicobacter. Volume: 23 Issue: Suppl 1
  • DOI: 10.1111/hel.12516
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  • 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)
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  • Journal Title: J Stroke Cerebrovasc Dis Volume: 27 Pages: 2894-2895
  • DOI: 10.1016/j.jstrokecerebrovasdis.2018.07.009
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• [Journal Article] High-quality overlapping paired-end reads for the detection of A-to-I editing on small RNA. (2018)
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  • Journal Title: Methods Mol. Biol. Volume: 1823 Pages: 167-183
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• [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)
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  • Journal Title: Mol Ther Volume: 26 Pages: 2397-2406
  • DOI: 10.1016/j.ymthe.2018.07.012
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• [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)
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  • Journal Title: mSphere Volume: 3 Issue: 1
  • DOI: 10.1128/msphere.00462-17
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• [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
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• [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
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• [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
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  • Peer Reviewed / Open Access
• [Journal Article] Host lignin composition affects haustorium induction in the parasitic plants Phtheirospermum japonicum and Striga hermonthica. (2018)
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  • Journal Title: New Phytol. Volume: 218 Pages: 710-723
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• [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
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• [Journal Article] Mutational analysis of uterine cervical cancer that survived multiple rounds of radiotherapy. (2018)
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• [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)
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  • Journal Title: Oncotarget Volume: 9 Pages: 27471-27486
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• [Journal Article] Epigenetic silencing of miR-200b is associated with cisplatin resistance in bladder cancer. (2018)
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  • Journal Title: Oncotarget Volume: 9 Pages: 24457-24469
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• [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
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  • 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)
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  • Journal Title: PLoS Comp. Biol. Volume: 14 Issue: 6
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  • 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)
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  • 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
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  • 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)
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  • Journal Title: Proc Natl Acad Sci U S A Volume: 115, 35 Pages: 8823-8828
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  • 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
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• [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
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• [Journal Article] An ENU-induced p. C225S missense mutation in the mouse Tgfb1 gene does not cause Camurati-Engelmann disease-like skeletal phenotypes. (2017)
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  • Journal Title: Exp. Anim. Volume: 66 Issue: 2 Pages: 137-144
  • DOI: 10.1538/expanim.16-0085
  • NAID: 130005635560
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  • 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
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• [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
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• [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
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  • 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
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  • 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
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• [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
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• [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
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• [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
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• [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)
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  • 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)
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  • 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)
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  • 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
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  • 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
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• [Journal Article] A Comprehensive Mouse Transcriptomic BodyMap across 17 Tissues by RNA-seq. (2017)
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  • Peer Reviewed / Open Access / Int'l Joint Research
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  • 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
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  • Journal Title: Scientific Reports Volume: 7 Pages: 13561-13561
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  • NAID: 120006358802
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• [Journal Article] Independent effects of ADH1B and ALDH2 common dysfunctional variants on gout risk. (2017)
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  • Journal Title: Sci Rep. Volume: 7 Pages: 2500-2500
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  • Peer Reviewed / Open Access
• [Journal Article] Regnase-1 and Roquin Nonredundantly Regulate Thl Differentiation Cansing Cardiac Inflammation and Fibrosis. (2017)
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  • 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
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  • 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
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  • 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)
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  • 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)
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  • Journal Title: 放射線生物研究 Volume: 52 Issue: 4 Pages: 402-415
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• [Journal Article] Comprehensive genetic exploration of selective tooth agenesis of mandibular incisors by exome sequencing. (2017)
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  • Journal Title: Human Genom Variation Volume: 印刷中 Pages: 1005-1005
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  • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
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• [Journal Article] Phylogenomics and Morphology of Extinct Paleognaths Reveal the Origin and Evolution of the Ratites. (2017)
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  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] ADARB1 catalyzes circadian A-to-I editing and regulates RNA rhythm. (2017)
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  • Journal Title: Nature Genetics Volume: 7 Pages: 12926-12926
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  • 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)
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  • 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)
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  • Journal Title: BMC Res Notes Volume: 10 Pages: 147-147
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  • NAID: 120006473604
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Germline variants of prostate cancer in Japanese families. (2017)
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  • Journal Title: PLOS ONE Volume: 印刷中
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• [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)
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  • 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. (2020)
  • Author(s): 村中智明、小山時隆、工藤洋
  • Organizer: 生態学会
• [Presentation] Lack of whey-four disulphide core (WFDC2)