PUBLICATIONS

Article & Review

2023

Cell Stem Cell | 5 October
We developed an infection-competent human vascular organoid from pluripotent stem cells for modeling endotheliopathy. Longitudinal serum proteome analysis identified aberrant complement signature in critically ill patients driven by the amplification cycle regulated by complement factor B and D (CFD).
Kawakami E, Saiki N, Yoneyama Y, Takayama K, Nio Y, Takebe T
Cell | 27 October
We report a production protocol that overcomes these hurdles and that allows for mass production of HPCs from hiPSCs via the induction of yolk sac-like organoids without addition of exogenous factors.
Tamaoki N, Siebert S, Maeda T, Ha NH, Good ML, Huang Y, Vodnala SK, Haro-Mora JJ, Uchida N, Tisdale JF, Sweeney CL, Choi U, Brault J, Koontz S, Malech HL, Yamazaki Y, Isonaka R, Goldstein DS, Kimura M, Takebe T, Zou J, Stroncek DF, Robey PG, Kruhlak MJ, Restifo NP, Vizcardo R
STAR protocols | 28 July
We present a protocol for preparing hydrogels with mechanical patterns. We describe steps for hydrogel synthesis, mechanical evaluation of the substrate, and time-lapse imaging of cell self-organization.
Matsuzaki T, Kawano Y, Horikiri M, Shimokawa Y, Yamazaki T, Okuma N, Koike H, Kimura M, Kawamura R, Yoneyama Y, Furuichi Y, Hakuno F, Takahashi SI, Nakabayashi S, Okamoto S, Nakauchi H, Taniguchi H, Takebe T, Yoshikawa HY.

2022

iScience | 13 February
We assessed the enteral ventilation approach in hypoxic porcine models under controlled mechanical ventilation.
Fujii T, Yoneyama Y, Kinebuchi A, Ozeki N, Maeda S, Saiki N, Fengshi Chen-Yoshikawa T.F., Date H, Nishiwaki K, Takebe T
Cell | 27 October

We devised a pooled human organoid-panel of steatohepatitis to investigate the impact of metabolic status on genotype-phenotype association.

Kimura M, Iguchi T, Iwasawa K, Dunn A, Thompson W, Yoneyama Y, Chaturvedi P, Zorn A, Wintzinger M, Quattrocelli M, Watanabe-Chailland M, Zhu G, Fujimoto M, Kumbaji M, Kodaka A, Gindin Y, Chung C, Myers R, Subramanian G, Hwa V, Takebe T
iScience | 27 September
We have developed a mechanically patterned hydrogel for controlling self-condensation process to generate multi-cellular organoids.
Matsuzaki T, Shimokawa Y, Koike H, Kimura M, Kawano Y, Okuma N, Kawamura R, Yoneyama Y, Furuichi Y, Hakuno F, Takahashi S, Nakabayashi S, Okamoto S, Nakauchi H, Taniguchi H, Takebe T, Yoshikawa H
Stem cell research & therapy | 03 May

This study aimed to identify the biological and physical factors involved in the differences in freeze–thaw tolerance between MSCs and HUVECs.

Mizuno M, Matsuzaki T, Ozeki N, Katano H, Koga H, Takebe T, Yoshikawa HY & Sekiya I

Inflammatory Bowel Diseases | 08 March
We developed a patient-specific human intestinal organoid (HIO) model system to test small molecule regulation of mitochondrial and wound-healing functions implicated in stricturing behavior.

Ingrid Jurickova et al

Current Opinion in Genetics & Development | August
Lee and Takebe discuss advancements in liver organoid technology through the lens of ‘narrative engineering’ in an attempt to synergize evolving understanding around molecular and cellular landscape governing hepatogenesis with engineering-inspired approaches for organoidgenesis in this review.
Inkyu S Lee, Takanori Takebe
Nature Communications | 20 January
In this work, Lansing et al. present designer-recombinases as an efficient and specific means towards treatment of monogenic diseases caused by large gene inversions.

Lansing F, Mukhametzyanova L, Rojo-Romanos T. et al.

2021

Cells | 21 September
Naraoka et al. screened 246 cell-surface antibodies by fluorescence-activated cell sorting for their capacity to form colonies and their suitability to construct spheroid “meat buds”.

Naraoka Y, Mabuchi Y, Yoneyama Y, Suto EG, Hisamatsu D, Ikeda M, Ito R, Nakamura T, Takebe T, Akazawa C
STAR Protocols | 24 December
Dunn et al. updated the protocol for POLYseq using inexpensive, commercially available reagents.

Dunn A, Cai Y, Iwasawa K, Kimura M, Takebe T
bioRxiv
Tamaoki et al. showed that hiPSCs co-cultured with various types of stromal cells as spheroids self-organize into yolk sac-like organoids without the addition of exogenous factors.

Tamaoki N, Siebert S, Maeda T, Ngoc-H Ha, Good M L, Huang Y, Vodnala S K, Haro-Mora J J, Uchida N, Tisdale J F, Sweeney C L, Choi U, Brault J, Koontz S, Malech H L, Yamazaki Y, Isonaka R, Goldstein D S, Kimura M, Takebe T, Zou J, Stroncek D F, Robey P G, Kruhlak M J, Restifo N P, Vizcardo R
Stem Cell Reports | 26 August
Dunn et al. developed a novel poly(β-amino) ester labeling system synthesized with inexpensive, common reagents, termed POLYseq, capable of efficiently delivering fluorescent molecules or sample-distinguishing DNA barcodes through non-covalent binding enabling rapid creation of custom sample pools. Andrew Dunn, Yuqi Cai, Kentaro Iwasawa, Masaki Kimura, Takanori Takebe.
Med | 14 May
Okabe el al. showed the effectiveness of an enteral ventilation approach in attaining systemic oxygenation in both rodent and porcine models, inspired by organisms such as loaches that use intestinal air breathing.

Ryo Okabe, Toyofumi F. Chen-Yoshikawa, Yosuke Yoneyama. Eiji Kobayashi, Hiroshi Date, Takanori Takebe.

Selected as Cover Article

Highlighted in Med Viewpoint, NYTimes, Economist, Science, Smithsonian Magazine, NYPost, National Geographic, TrontoStar the others.
Stem Cell Reports | 9 March

Dobrindt et al. applied human induced pluripotent stem cell (hiPSC)-based models and CRISPR engineering to explore the host genetics of SARS-CoV-2.

Dobrindt K, Hoagland DA, Seah C, Kassim B, O’Shea CP, Murphy A, Iskhakova M, Fernando MB, Powell SK, Deans PJM, Javidfar B, Peter C, Møller R, Uhl SA, Garcia MF, Kimura M, Iwasawa K, Crary JF, Kotton DN, Takebe T, Huckins LM, tenOever BR, Akbarian S, Brennand KJ

Stem Cell Reports | 9 February

Hayashi el al. developed a human induced pluripotent stem cell-based model of isogenic BSEP-deficient hepatocytes in a Transwell culture system.

Hayashi H, Osaka S, Sakabe K, Fukami A, Kishimoto E, Aihara E, Sabu Y, Mizutani A, Kusuhara H, Naritaka N, Zhang W, Huppert SS, Sakabe M, Nakamura T, Hu YC, Mayhew C, Setchell K, Takebe T, Asai A

Nature Protocol | 11 January

Koike et al. describe a protocol for the continuous patterning of hepatic, biliary and pancreatic (HBP) structures from a 3D culture of human pluripotent stem cells (PSCs).

Koike H, Iwasawa K, Ouchi R, Maezawa M, Kimura M, Kodaka A, Nishii S, Thompson WL, Takebe T

Nature Communications | 4 January

Fang et al. developed a new turn-on Zn2+ fluorescent probe, NapBu-BPEA, to ensure SIM imaging quality for organelle identification.

Fang H, Geng S, Hao M, Chen Q, Liu M, Liu C, Tian Z, Wang C, Takebe T, Guan JL, Chen Y, Guo Z, He W, Diao J

2020

Scientific reports | 21 October

CD-AOF media and supplements ensure the quality and reproducibility of culture systems. This protocol will facilitate the clinical applicability of all iPSC-LBs in the treatment of liver diseases.

Sekine K, Ogawa S, Tsuzuki S, Kobayashi T, Ikeda K, Nakanishi N, Takeuchi K, Kanai E, Otake Y, Okamoto S, Kobayashi T, Takebe T, Taniguchi H

Nature Medicine | 7 September

Koido et al. revealed genetically defined hepatocyte vulnerability mechanisms to currently unpredictable drug induced liver injury supported by cell-, organoid- and patient-level datasets.

Masaru Koido, Eri Kawakami, Junko Fukumura, Yui Noguchi, Momoko Ohori, Yasunori Nio, Paola Nicoletti, Guruprasad P Aithal, Ann K Daly, Paul B Watkins, Hisashi Anayama, Yvonne Dragan, Tadahiro Shinozawa, Takanori Takebe

Applied Physics Express | 27 August

Kobayashi et al. proposed a method to statistically analyze stiffness distribution in indentation depth direction from multiple force curves measured by AFM.

Kobayashi N, Togo S, Matsuzaki T, Hashiseko K, Kawamura R, Suganuma M, Nakabayashi S, Yoneyama Y, Ouchi R, Takebe T, Yoshikawa H

Methods in Cell Biology | 22 May

Wendy elaborated a human liver organoid culture protocol based on Ouchi et al. Cell Metabolism paper in 2019.

Wendy L. Thompson, Takanori Takebe

Nature Communications | 27 August

Han et al. identified  unexpected diversity in mesoderm-derivatives during early foregut organogenesis. This study is highly collaborative work with  Aaron Zorn group and Mitsuru Morimoto group at RIKEN.

Lu Han, Praneet Chaturvedi, Keishi Kishimoto, Hiroyuki Koike, Talia Nasr, Kentaro Iwasawa, Kirsten Giesbrecht, Phillip C Witcher, Alexandra Eicher, Lauren Haines, Yarim Lee, John M Shannon, Mitsuru Morimoto, James M Wells, Takanori Takebe,  Aaron M Zorn

European Journal of Cardio-Thoracic Surgery | 7 April

Okabe et al., in collaboration with thoracic surgeons at Kyoto, extended fetal organ bud transplantation approach towards acute lung injury protection in mouse model.

Ryo Okabe, Toyofumi F Chen-Yoshikawa, Akihiko Yoshizawa, Tsuyoshi Hirashima, Masao Saito, Hiroshi Date, Takanori Takebe

International Conference on Human-Computer Interaction | 19 July

Shigeyoshi Iizuka, Shozo Nishii, Eriko Tanimoto, Hiro Nakazawa, Asuka Kodaka, Takanori Takebe

2019

Cell Metabolism | May 30
Ouchi, R., Togo, S., Kimura, M., Shinozawa, T., Koido, M., Koike, H., Thompson, W., Karns, R. A., Mayhew, C. N., McGrath, P. S., McCauley, H. A., Zhang, R. R., Lewis, K., Hakozaki, S., Ferguson, A., Saiki, N., Yoneyama, Y., Takeuchi, I., Mabuchi, Y., Akazawa, C., Yoshikawa, H. Y., Wells, J. M., Takebe, T.*
Ouchi et al. established a method to generate multicellular organoid models of inflammation and fibrosis that can be used for genetic steatohepatitis modeling.
Nature | 25 September

Koike et al. established a multi-organ connection in human stem cell derived organoid model amongst liver, biliary, pancreatic and duodenal tissues.

Koike, H., Iwasawa, K., Ouchi, R., Maezawa, M., Giesbrecht, K., Saiki, N., Ferguson A., Kimura, M., Thompson, W., Wells, J. M., Zorn, A. M. & Takebe, T.

Science | June 2019

Discussed current and future of designing complex organoids.

Takanori Takebe*, James M. Wells

Nature Medicine | 2019

Invited mini-personal story. 

Takanori Takebe

ACS Nano | 4 December

Fang et al. designed a low-toxicity, photostable, near-infrared small molecule fluorescence probe HD-Br for use in the super-resolution imaging of lysosomes.

Fang, H., Yao, S., Chen,Q., Liu, C., Cai, Y., Geng, S., Bai, Y., Tian, Z., Zacharias, A. L., Takebe, T., Chen, Y., Guo, Z., He, W., and Diao, J.

Signal transduction and targeted therapy | 24 December

T Liu, L Zhou, K Yang, K Iwasawa, AL Kadekaro, T Takebe, T Andl, Y Zhang.

2018

Stem Cell Reports | 9 October

Takahisa Matsuzaki, Shinya Matsumoto, Toshiharu Kasai, Hiroshi Y. Yoshikawa, Hideki Taniguchi, Takanori Takebe

Stem Cell Reports | September 2019

Hiroaki Ayabe, Takahisa Anada, Takuo Kamoya, Tomoya Sato, Masaki Kimura, Emi Yoshizawa, Shunyuu Kikuchi,  Yasuharu Ueno, Keisuke Sekine,  Gray Camp, Barbara Treutlein, Autumn Ferguson, Osamu Suzuki, Takanori Takebe, Hideki Taniguchi

iScience | 31 May

Masaki Kimura, Momoko Azuma, Ran-Ran Zhang, Wendy Thompson, Christopher N. Mayhew, Takanori Takebe

Cell Reports | 8 May

Yoshinobu Takahashi, Keisuke Sekine, Tatsuya Kin, Takanori Takebe, Hideki Taniguchi

Selected as cover article

Stem Cell Reports | 13 March

Ran-Ran Zhang, Masaru Koido, Tomomi Tadokoro, Rie Ouchi, Tatsuya Matsuno, Yasuharu Ueno, Keisuke Sekine, Takanori Takebe, Hideki Taniguchi

Hepatology | 19 February

Kyle Lewis, Takanori Takebe

2017

Cell Reports | 5 December

Takanori Takebe, Keisuke Sekine, Masaki Kimura, Satoshi Okamoto, Yasuharu Ueno, Hideki Taniguchi

Cell Stem Cell | 7 September

Takanori Takebe, Boyang Zhang, Milica Radisic

Cell Stem Cell | Q&A | 1 June

Hans Clevers, Madeline Lancaster, and Takanori Takebe

Development | 14 March

Hiroyuki Koike, Ran-Ran Zhang, Yasuharu Ueno, Keisuke Sekine, Yun-Wen Zheng, Takanori Takebe, Hideki Taniguchi

Nature | 14 June

J. Gray Camp, Keisuke Sekine, Tobias Gerber, Henry Loeffler-Wirth, Hans Binder, Malgorzata Gac, Sabina Kanton, Jorge Kageyama, Georg Damm, Daniel Seehofer, Lenka Belicova, Marc Bickle, Rico Barsacchi, Ryo Okuda, Emi Yoshizawa, Masaki Kimura, Hiroaki Ayabe, Hideki Taniguchi, Takanori Takebe & Barbara Treutlein

Featured in Science
Featured in Cell Systems

2016

Developmental Biology | 15 December

Tadahiro Shinozawa, Hiroshi Y. Yoshikaw, Takanori Takebe

Reviews in Cell Biology and Molecular Medicine | November

Hiroyuki Koike, Tamir Rashid, Takanori Takebe

Cell Transplantation | 1 May

Shintaro Kagimoto, Takanori Takebe, Shinji Kobayashi, Yuichiro Yabuki, Ayaka Hori, Koichi Hirotomi, Taro Mikami, Toshimasa Uemura, Jiro Maegawa, Hideki Taniguchi

Regenerative Therapy | March

Yoshinobu Takahashi, Takanori Takebe, Hideki Taniguchi

Current Pathobiology Reports | 11 April

Hiroyuki Koike & Takanori Takebe

2015

Cell Stem Cell | 7 May

TakanoriTakebe, Masahiro Enomura, Emi Yoshizawa, Masaki Kimura, Hiroyuki Koike, Yasuharu Ueno, Takahisa Matsuzaki, Takashi Yamazaki, Takafumi Toyohara, Kenji Osafune, Hiromitsu Nakauchi, Hiroshi Y.Yoshikawa, Hideki Taniguchi

Selected as Cover Article
Best of Cell Stem Cell, 2015
News and Views in Cell Stem Cell
Featured in Nature Methods

Nature | News Feature | 29 July

Cassandra Willyard

2014

Journal of Clinical Investigation | 9 September

Takanori Takebe, Shinji Kobayashi, Hiromu Suzuki, Mitsuru Mizuno, Yu-Min Chang, Emi Yoshizawa, Masaki Kimura, Ayaka Hori, Jun Asano, Jiro Maegawa, and Hideki Taniguchi

Stem Cells and Development | 2 September

Rashid T, Takebe T, Nakauchi H.

STEM CELLS | 23 August

Mitsuru Mizuno, Shinji Kobayashi, Takanori Takebe, Hiroomi Kan, Yuichiro Yabuki, Takahisa Matsuzaki, Hiroshi Y. Yoshikawa, Seiichiro Nakabayashi, Lee Jeong Ik, Jiro Maegawa, Hideki Taniguchi

Organ Biology | 10 July

Yoshinobu Takahashi, Takanori Takebe, Hideki Taniguchi.

Stem Cells and Development | 26 June

Yun-Wen Zheng, Tomonori Tsuchida, Taiki Shimao, Bin Li, Takanori Takebe, Ran-Ran Zhang, Yu Sakurai, Yasuharu Ueno, Keisuke Sekine, Naoto Ishibashi, Makiko Imajima, Takuji Tanaka, and Hideki Taniguchi

Clinical Pharmacology & Therapeutics | 21 May

T Takebe, H Taniguchi.

Hepatology | 4 February

Hiroyuki Koike, Yasuharu Ueno, Takako Naito, Tomoya Shiina, Susumu Nakata, Rie Ouchi, Yuta Obana, Keisuke Sekine, Yun‐Wen Zheng, Takanori Takebe, Kyo‐ichi Isono, Haruhiko Koseki, Hideki Taniguchi

Nature Protocols | 23 January

Takanori Takebe, Ran-Ran Zhang, Hiroyuki Koike, Masaki Kimura, Emi Yoshizawa, Masahiro Enomura, Naoto Koike, Keisuke Sekine & Hideki Taniguchi

Organogenesis | 22 January

Takanori Takebe, Naoto Koike, Keisuke Sekine, Ryoji Fujiwara, Takeru Amiya, Yun-Wen Zheng  & Hideki Taniguchi

2013

Nature | 03 July

Takanori Takebe, Keisuke Sekine, Masahiro Enomura, Hiroyuki Koike, Masaki Kimura, Takunori Ogaeri, Ran-Ran Zhang, Yasuharu Ueno, Yun-Wen Zheng, Naoto Koike, Shinsuke Aoyama, Yasuhisa Adachi & Hideki Taniguchi

Selected as Breakthrough of the Year, 2013 in Science

Selected as World top 5 discovery in Discover magazineNews and Views in NatureFeatured in Science, Nature Medicine, Cell Stem Cell, Hepatology, Gastroenterology, Cell Research, etc…

Press in BBC, The Economist, Scientific American, The Guardian, etc…​

Biomaterials | July

Hiroyasu Tanaka, Shin Tanaka, Keisuke Sekine, Sayaka Kita, Ai Okamura, Takanori Takebe, Yun-Wen Zheng, Yasuharu Ueno, Junzo Tanaka, Hideki Taniguchi

Organ Biology | 10 July

Takanori Takebe, Hideki Taniguchi.

2012

BMC Biotechnology | November

Hiroyuki Koike, Koji Kubota, Keisuke Sekine, Takanori Takebe, Rie Ouchi, Yun-Wen Zheng, Yasuharu Ueno, Naoki Tanigawa, Hideki Taniguchi

Transplantation Proceedings | July

T Takebe, N Koike, K Sekine, M Enomura, Y Chiba, Y Ueno, Y-W Zheng, H Taniguchi

Nature | News Feature | 20 June

David Cyranoski

Transplantation Proceedings | May

T Takebe, K Sekine, Y Suzuki, M Enomura, S Tanaka, Y Ueno, Y-W Zheng, H Taniguchi

2011

PLOS ONE | 19 October

Shinji Kobayashi ,Takanori Takebe ,Yun-Wen Zheng,Mitsuru Mizuno,Yuichiro Yabuki,Jiro Maegawa,Hideki Taniguchi

PNAS | 30 August

Shinji Kobayashi, Takanori Takebe, Midori Inui, Sayaka Iwai, Hiroomi Kan, Yun-Wen Zheng, Jiro Maegawa, and Hideki Taniguchi

Featured

Cell Stem Cell | 2 June 2022

Lancaster M, Morris S, Takebe T, Qian L, Gao S, Huch M

Book

2019 | Takanori Takebe . Japan, Yodosha Co., Ltd.ISBN 978-4-7581-2239-9

2019 |Takanori Takebe (2019) , Japan, Yodosha, ISBN 978-4-7581-2500-0

November 2016 | Koike H, Takebe T*. Growing Mini-Organs from Stem Cells. Wiley-VCH. Volume 2
Issue 4.

July 2015 | Ran-Ran Zhang, Hiroyuki Koike, Takanori Takebe, ‘The Visualization of Human Organogenesis from Stem Cells by Recapitulating Multicellular Interactions’, p. 275-283, 15

Media

June 2020 | Takanori Takebe. Japan. PRESIDENT Inc.

February 2020 | Takanori Takebe . Japan. The Asahi Shimbun Company.

January 2020 | Takanori Takebe. Japan. Newton Press Ltd.

November 2019 | Takanori Takebe, Ken Iwasawa. Japan. Medical Principle Co., Ltd.