Articles

*: corresponding author.
⚓: equal contribution.
bold: team member

ORCID https://orcid.org/0000-0002-6280-7446
Google Scholar https://scholar.google.com/citations?user=KK62oqkAAAAJ&hl=en

—2021—

Ishii N, Tajika Y*, Murakami T, Galipon J, Shirahata H, Mukai R, Uehara D, Kaneko R, Yamazaki Y, Yoshimoto Y, Iwasaki H*. Correlative microscopy and block-face imaging (CoMBI) method for both paraffin-embedded and frozen specimens.  Scientific Reports, 2021 Jun 23;11(1):13108. doi: 10.1038/s41598-021-92485-5. PMID:34162961

Danko D, Bezdan D, Afshinnekoo E, Ahsanuddin S, Bhattacharya C, Butler DJ, Chng KR, Donnellan D, Hecht J, Jackson K, Kuchin K, Karasikov M, Lyons A, Mak L, Meleshko D, Mustafa H, Mutai B, Neches RY, Ng A, Nikolayeva O, Nikolayeva T, Png E, Ryon K, Sanchez JL, Shaaban H, Sierra MA, Thomas D, Young B, Abudayyeh OO, Alicea J, Bhattacharyya M, Blekhman R, Castro-Nallar E, Cañas AM, Chatziefthimiou AD, Crawford RW, De Filippis F, Deng Y, Desnues C, Dias-Neto E, Dybwad M, Elhaik E, Ercolini D, Frolova A, Gankin D, Gootenberg JS, Graf AB, Green DC, Hajirasouliha I, Hernandez M, Iraola G, Jang S, Kahles A, Kelly FJ, Knights K, Kyrpides NC, Łabaj PP, Lee PKH, Leung MHY, Ljungdahl P, Mason-Buck G, McGrath K, Meydan C, Mongodin EF, Ozorio Moraes M, Nagarajan N, Nieto-Caballero M, Noushmehr H, Oliveira M, Ossowski S, Osuolale OO, Özcan O, Paez-Espino D, Rascovan N, Richard H, Rätsch G, Schriml LM, Semmler T, Sezerman OU, Shi L, Shi T, Song LH, Suzuki H, Court DS, Tighe SW, Tong X, Udekwu KI, Ugalde JA, Valentine B, Vassilev DI, Vayndorf E, Velavan TP, Wu J, Zambrano MM, Zhu J, Zhu S, Mason CE*, The International MetaSUB Consortium✝. Global Genetic Cartography of Urban Metagenomes and Anti-Microbial Resistance, Cell, Volume 184, Issue 13, 24 June 2021, Pages 3376-3393.e17 PMID:34043940(Galipon J is a Consortium Author)

Guo P, Zhang K, Yasuda Y, Yang W*, Galipon J*, Rival DE. On the influence of biomimetic shark skin in dynamic flow separation (2021). Bioinspiration & Biomimetics  PMID:33482662
→ Featured in “New Scientist” ! see here

Nishimura K, Ikarashi M, Yasuda Y, Sato M, Cano Guerrero M, Galipon J*, Arakawa K. Complete genome sequence of Sphingomonas paucimobilis Strain Kira, isolated from human neuroblastoma SH-SY5Y cell cultures supplemented with retinoic acid (2021). Microbiology Resource Announcements 9 (20) PMID:33574107
Most accessed non-Covid-19 paper of the journal in the first quarter of 2021

—2020—

Kurihara Y, Kawai S, Sakai A, Galipon J, Arakawa K*. Complete genome sequence of Halomonas meridiana Strain Eplume2, isolated from a hydrothermal plume in the Northeast Pacific ocean (2020). Microbiology Resource Announcements 9 (20) PMID:32409541

Takahashi Y, Takahashi H, Galipon J, Arakawa K*. Complete genome sequence of Halomonas meridiana Strain Slthf1, Isolated from a deep-sea thermal vent (2020). Microbiology Resource Announcements 9 (16) PMID:32299885

Takeyama N, Huang M, Sato K, Galipon J, Arakawa K*. Complete genome sequence of Halomonas hydrothermalis Strain Slthf2, a halophilic bacterium isolated from a deep-sea hydrothermal-vent environment (2020). Microbiology Resource Announcements 9 (15) PMID:32273366

—2019—

Yasuda Y, Zhang K, Sasaki O, Tomita M, Rival D*, Galipon J*. Manufacturing of biomimetic silicone rubber films for experimental fluid mechanics: 3D printed shark skin molds (2019). Journal of The Electrochemical SocietyLink
→ Featured in “Yahoo! News” !
→ Featured in “山形新聞” (prefectural newspaper) !

Tsurumaki M, Deno S, Galipon J, Arakawa K*. Complete genome sequence of halophilic deep-sea bacterium Halomonas axialensis strain Althf1 (2019). Microbiology Resource Announcements PMID:31371551

Saito M, Nishigata A, Galipon J, Arakawa K*. Complete genome sequence of a Halomonas sulfidaeris strain Esulfide1 from a metal sulfide rock at 2,200 m depth, obtained by nanopore sequencing (2019). Microbiology Resource Annoucements PMID:31171615

⚓Nagata S, ⚓Ii KM, ⚓Tsukimi T, ⚓Miura MC, Galipon J, Arakawa K*. Complete genome sequence of Halomonas olivaria, a moderately halophilic bacterium isolated from olive processing effluents, obtained by nanopore sequencing (2019). Microbiology Resource Annoucements PMID:31048393

—2018—

⚓Galipon J, ⚓Ishii R, Ishiguro S, Suzuki Y, Kondo S, Okada-Hatakeyama M, Tomita M, Ui-Tei K*. High-quality overlapping paired-end reads for the detection of A-to-I editing on small RNA (2018). Methods in Molecular Biology PMID:29959681

⚓Ishiguro S, ⚓Galipon J, ⚓Ishii R, Suzuki Y, Kondo S, Okada-Hatakeyama M, Tomita M, Ui-Tei K*. Base-pairing probability in the microRNA stem region affects the binding and editing specificity of human A-to-I editing enzymes ADAR1-p110 and ADAR2 (2018). RNA Biology  PMID:29950133

—2017—

Galipon J, Ishii R, Suzuki Y, Tomita M, Ui-Tei K*. Differential binding of three major human ADAR isoforms to coding and long non-coding transcripts (2017). Genes PMID:28208661

—2016—

Miki A, Galipon J, Sawai S, Inada T, Ohta K*. RNA decay systems enhance reciprocal switching of sense and antisense transcripts in response to glucose starvation (2016). Genes to Cells PMID:27723196

実験医学別冊『 NGS アプリケーション ─ RNA-Seq 実験ハンドブック』編集:鈴木穣《RNA-Seqによる A-to-I RNA編集の検出》Galipon J石黒宗冨田勝/程久美子 (2016)【Link

生物の科学 遺伝『3Dプリンターにおける電子顕微鏡データの可視化 ─ 見えない世界を手で触れるように』Galipon J(2016)【Link

生物の科学 遺伝『3Dプリンターでミクロの世界を立体化 ─ 先端技術を科学教育に活かす』Galipon J (2016)【Link

Takemata N, Oda A, Yamada T, Galipon J, Miyoshi T, Suzuki Y, Sugano S, Hoffman CS, Hirota K, Ohta K*. Local potentiation of stress-responsive genes by upstream noncoding transcription (2016). Nucleic Acids Research PMID:26945040

—2015 and before—

実験医学『Opinion ─ 研究の現場から ─ 僕らの国籍はサイエンスである』Galipon J (2015)【Link

Kume H, Hino K, Galipon J, Ui-Tei K*. A-to-I editing in the miRNA seed region regulates target mRNA selection and silencing efficiency (2014). Nucleic Acids Research 42 (15): 10050–10060. PMID:25056317

[丸善出版(株)『パスツールと微生物〜伝染病の解明と治療につくした科学者〜』Annick Perrot, Maxime Schwartz著/佐藤直樹・Galipon J 監訳/笹川昇・佐藤直樹・松田良一<ためしてみよう!>監修 (2013)【Link

Galipon J, Miki A, Oda A, Inada T, Ohta K*. Stress-induced lncRNAs evade nuclear degradation and enter the translational machinery (2013). Genes to Cells 18 (5): 353–368. PMID:23489294

実験医学7月号『長鎖ncRNAによるクロマチン・転写活性化の制御』太田邦史/小田有沙/Galipon J/竹俣直道/三好知一郎/廣田耕志 (2011)【Link

Daubriac J, Fleury-Feith J, Kheuang L, Galipon J, Saint-Albin A, Renier A, Giovannini M, Galateau-Sallé F, Jaurand MC*. Malignant pleural mesothelioma cells resist anoikis as quiescent pluricellular aggregates (2009). Cell Death & Differentiation 16 (8): 1146–1155. PMID:19343038


Oral Presentations

★: invited speaker
☆: invited panelist

[2021.12] The 44th Annual Meeting of the Molecular Biology Society of Japan (to be announced) ★ [link]

[2021.7] The 22nd Annual Meething of the RNA Society of Japan (session chair + oral presentation) [link]

[2021.5] The 1st French-Japanese Additive Manufacturing Workshop (Bioprinting session chair + presenter) ★ [link]

[2020.9] The 93rd Annual Meeting of the Japanese Biochemical Society, Session 1S05e, Presentation title: “Post-transcriptional gene regulation networks in glucose starvation by direct RNA sequencing” ★

[2020.8] AIKOC-4, Presentation title: “Molecular biology anytime, anywhere – designing portable and affordable solutions for environmental science” ★

[2019.12] Nagoya University, Graduate Program of Transformative Chem-Bio Research, Biomimetics seminar ★ [link]

[2019.12] Interdisciplinary Workshop “Technological Basis for Analyzing Complex Dynamic Structures of Plants” at NAIST ★ [link]

[2019.11] Institute of Mathematics and Information Science, Mongolian Academy of Sciences, Mongolia, Presentation: Recent applications of machine learning in the biosciences

[2019.3] Ritsumeikan Super Science High School, Special Lecture (90 minutes, attended by 405 students) + poster judge

[2019.2] JAIST World Conference @Nomi, Ishikawa, Japan (in English) “Design of an affordable single-cell 3D mapping system based on ultrathin serial sections” [link]

[2018.8] 1st International Conference on 4D Materials and Systems (4DMS) @Yonezawa, Yamagata, Japan (in English) “Data acquisition and 3D printing of enlarged biomimetic microstructures with applications in haptics and experimental fluid dynamics” Yasuda Y, Zhang K, Rival D, Tomita M, [link]

[2018.6] 18th Japan RNA Society Meeting, Luncheon Seminar, Diversity in Science Discussion Panel, ☆

[2018.2] JAIST World Conference @Nomi, Ishikawa, Japan (in English) “3D acquisition and physical replication of biological microstructures” [link]

[2018.2] 東根市民立大学「タントまなべ学園」T(テクノロジー)コース講座 @Higashine, Yamagata, Japan (in Japanese) 「ミクロの世界から学ぶ技術開発」★ ※山形新聞に記事あり

[2018.1] 12th 長野ミーティング @Hakuba, Nagano, Japan (in Japanese) “Prediction of eukaryotic protein steady-state abundances using mRNA property-focused machine learning”

[2017.10] The 5th International Conference on Smart Systems Engineering 2017 (SmaSys2017) @Yonezawa, Yamagata, Japan (in English) “Deep Learning-assisted 3D Reconstruction from Misaligned 2D Slices” Chauvin A, Tomita M, ★ [link]

[2017.7] 山形県倫理法人会・モーニングセミナー @Sakata, Yamagata, Japan (in Japanese)「機械学習を用いて未来のものづくりを実現する」★

[2017.7] Queen’s University, Distinguished Speaker Series @Kingston, Ontario, Canada (in English) “The Biomimetics of 3D Microstructures” ★ [link]

[2017.4] 山形県倫理法人会・モーニングセミナー @Tsuruoka, Yamagata, Japan (in Japanese)「機械学習を用いて未来のものづくりを実現する」★

[2016.12] 東北公益文科大学・第6回 知の拠点庄内シンポジウム「海外からみた庄内~SHONAI はいいのぉ~」@Tsuruoka, Yamagata, Japan (in Japanese)「僕らの国籍はサイエンスである」☆ ※荘内日報、山形新聞に記事あり

[2014.7] The 16th Annual Meeting of the RNA Society of Japan. Presentation title: “Specificity of miRNA A-to-I editing by different human ADAR isoforms”.

[2013.3] The 12th Tokyo RNA Club, presented PhD thesis work ★ [link]