Publication

Kawasaki S, Ono H, Hirosawa M, Kuwabara T, Sumi S, Lee S, Woltjen K, Saito H

Programmable mammalian translational modulators by CRISPR-associated proteins Nature Communications, 2023 Apr 19;14(1):2243.

Gao J, Makiyama T, Yamamoto Y, Kobayashi T, Aoki H, Maurissen T, Wuriyanghai Y, Kashiwa A, Imamura T, Aizawa T, Huang H, Kohjitani H, Nishikawa M, Chonabayashi K, Fukuyama M, Manabe H, Nakau K, Wada T, Kato K, Toyoda F, Yoshida Y, Makita N, Woltjen K, Ohno S, Kurebayashi N, Murayama T, Sakurai T, Horie M, Kimura T

Novel calmodulin variant p.E46K associated with severe CPVT produces robust arrhythmogenicity in human iPSC- derived cardiomyocytes Circulation: Arrhythmia and Electrophysiology, 2023 Mar;16(3):e011387. Epub 2023 Mar 3.

Ueda T, Shiina S, Iriguchi S, Terakura S, Kawai Y, Kabai R, Sakamoto S, Watanabe A, Ohara K, Wang B, Xu H, Minagawa A, Hotta A, Woltjen K, Uemura Y, Kodama Y, Seno H, Nakatsura T, Tamada K, Kaneko S.

Optimization of the proliferation and persistency of CAR T cells derived from human induced pluripotent stem cells Nature Biomedical Engineering, 2023 Jan;7(1):24-37. Epub 2022 Dec 12.

Fabian Oceguera-Yanez, Alfonso Avila-Robinson and Knut Woltjen

Differentiation of pluripotent stem cells for modeling human skin development and potential applications Frontiers in Cell and Developmental Biology, 2022 Nov 23;10:1030339

Kashiwa A, Makiyama T, Kohjitani H, Maurissen TL, Ishikawa T, Yamamoto Y, Wuriyanghai Y, Gao J, Huang H, Imamura T, Aizawa T, Nishikawa M, Chonabayashi K, Mishima H, Ohno S, Toyoda F, Sato S, Yoshiura KI, Takahashi K, Yoshida Y, Woltjen K, Horie M, Makita N, Kimura T.

Disrupted Cav1.2 selectivity causes overlapping long QT and Brugada syndrome phenotypes in the CACNA1C-E1115K iPS cell model Heart Rhythm, 2023 Jan;20(1):89-99. Epub 2022 Aug 23.

Ito K, Nagata K, Ohta S, Matsuda Y, Ukai T, Yasuda I, Ota A, Kobayashi R, Kabata M, Sankoda N, Maeda T, Woltjen K, Yang L, Maruyama R, Katayama R, Yamamoto T, Yamada Y.

The oncogene-dependent resistance to reprogramming unveils cancer therapeutic targets Cell Reports, 2022 Apr 26;39(4):110721.

Takahashi K, Okubo C, Nakamura M, Iwasaki M, Kawahara Y, Tabata T, Miyamoto Y, Woltjen K, Yamanaka S

A stress-reduced passaging technique improves the viability of human pluripotent cells Cell Reports Methods, 2021 2(2):100155

Taguchi J, Shibata H, Kabata M, Kato M, Fukuda K, Tanaka A, Ohta S, Ukai T, Mitsunaga M, Yamada Y, Nagaoka S, Yamazawa S, Ohnishi K, Woltjen K, Ushiku T, Ozawa M, Saitou M, Shinkai Y, Yamamoto T, Yamada Y

DMRT1-mediated reprogramming drives development of cancer resembling human germ cell tumors with features of totipotency Nature Communications, 2021 12(1):5041

Io, S., Kabata, M., Iemura, Y., Semi, K., Morone, N., Minagawa, A., Wang, B., Okamoto, I., Nakamura, T., Kojima, Y., Iwatani, C., Tsuchiya, H., Kaswandy, B., Kondoh, E., Kaneko, S., Woltjen, K., Saitou, M., Yamamoto, T., Mandai, M. and Takashima, Y.

Capturing Human Trophoblast Development with Naive Pluripotent Stem Cells in Vitro. Cell Stem Cell, 2021

Sankoda, N., Tanabe, W., Tanaka, A., Shibata, H., Woltjen, K., Chiba, T., Haga, H., Sakai, Y., Mandai, M., Yamamoto, T., Yamada, Y., Uemoto, S. and Kawaguchi, Y.

Epithelial Expression of Gata4 and Sox2 Regulates Specification of the Squamous-Columnar Junction via MAPK/ERK Signaling in Mice. Nature communications, 2021; 12, 560.

Maurissen, T.L. and Woltjen, K.

Synergistic Gene Editing in Human iPS Cells via Cell Cycle and DNA Repair Modulation. Nature communications, 2020; 11, 2876.

Matsuda, M., Yamanaka, Y., Uemura, M., Osawa, M., Saito, M.K., Nagahashi, A., Nishio, M., Guo, L., Ikegawa, S., Sakurai, S., Kihara, S., Maurissen, T.L., Nakamura, M., Matsumoto, T., Yoshitomi, H., Ikeya, M., Kawakami, N., Yamamoto, T., Woltjen, K., Ebisuya, M., Toguchida, J. and Alev, C.

Recapitulating the Human Segmentation Clock with Pluripotent Stem Cells. Nature, 2020; 580, 124-129.

Reinhardt, A., Kagawa, H. and Woltjen, K.

N-Terminal Amino Acids Determine KLF4 Protein Stability in 2A Peptide-Linked Polycistronic Reprogramming Constructs. Stem Cell Reports, 2020; 14, 520-527.

Sakakura M, Ohta S, Yagi M, Tanaka A, Norihide J, Woltjen K, Yamamoto T, Yamada Y.

Smarcb1 maintains the cellular identity and the chromatin landscapes of mouse embryonic stem cells. Biochem Biophys Res Commun., 2019 519(4):705-713

Grajcarek, J., Monlong, J., Nishinaka-Arai, Y., Nakamura, M., Nagai, M., Matsuo, S., Lougheed, D., Sakurai, H., Saito, M.K., Bourque, G. and Woltjen, K.

Genome-Wide Microhomologies Enable Precise Template-Free Editing of Biologically Relevant Deletion Mutations. Nature communications, 2019; 10, 4856.

Arai, H.N., Sato, F., Yamamoto, T., Woltjen, K., Kiyonari, H., Yoshimoto, Y., Shukunami, C., Akiyama, H., Kist, R. and Sehara-Fujisawa, A.

Metalloprotease-Dependent Attenuation of BMP Signaling Restricts Cardiac Neural Crest Cell Fate. Cell Reports, 2019; 29, 603-616.e5.

Komura, S., Ito, K., Ohta, S., Ukai, T., Kabata, M., Itakura, F., Semi, K., Matsuda, Y., Hashimoto, K., Shibata, H., Sone, M., Jo, N., Sekiguchi, K., Ohno, T., Akiyama, H., Shimizu, K., Woltjen, K., Ozawa, M., Toguchida, J., Yamamoto, T. and Yamada, Y.

Cell-Type Dependent Enhancer Binding of the EWS/ATF1 Fusion Gene in Clear Cell Sarcomas. Nature communications, 2019; 10, 3999.

Yagi, M., Kabata, M., Ukai, T., Ohta, S., Tanaka, A., Shimada, Y., Sugimoto, M., Araki, K., Okita, K., Woltjen, K., Hochedlinger, K., Yamamoto, T. and Yamada, Y.

De Novo DNA Methylation at Imprinted Loci During Reprogramming Into Naive and Primed Pluripotency. Stem Cell Reports, 2019; 12, 1113-1128.

Jo, N., Sogabe, Y., Yamada, Y., Ukai, T., Kagawa, H., Mitsunaga, K., Woltjen, K. and Yamada, Y.

Platforms of in Vivo Genome Editing with Inducible Cas9 for Advanced Cancer Modeling. Cancer science, 2019; 110, 926-938.

Kagawa, H., Shimamoto, R., Kim, S.-I., Oceguera-Yanez, F., Yamamoto, T., Schroeder, T. and Woltjen, K.

OVOL1 Influences the Determination and Expansion of iPSC Reprogramming Intermediates. Stem Cell Reports, 2019; 12, 319-332.

Shibata, H., Komura, S., Yamada, Y., Sankoda, N., Tanaka, A., Ukai, T., Kabata, M., Sakurai, S., Kuze, B., Woltjen, K., Haga, H., Ito, Y., Kawaguchi, Y., Yamamoto, T. and Yamada, Y.

In Vivo Reprogramming Drives Kras-Induced Cancer Development. Nature communications, Springer US, 2018; 9, 1-16.

Ikeda, T., Hikichi, T., Miura, H., Shibata, H., Mitsunaga, K., Yamada, Y., Woltjen, K., Miyamoto, K., Hiratani, I., Yamada, Y., Hotta, A., Yamamoto, T., Okita, K. and Masui, S.

Srf Destabilizes Cellular Identity by Suppressing Cell- Type-Specific Gene Expression Programs. Nature communications, Springer US, 2018; 1-15.

Kim SI, Matsumoto T, Kagawa H, Nakamura M, Hirohata R, Ueno A, Ohnishi M, Sakuma T, Soga T, Yamamoto T and Woltjen K.

Microhomology-assisted scarless genome editing in human iPSCs. Nature Communications, 2018; 9, 939.

Kieffer TJ, Woltjen K, Osafune K, Yabe D, Inagaki N.

Beta-cell replacement strategies for diabetes. J Diabetes Investig., 2017

Kondo T, Imamura K, Funayama M, Tsukita K, Miyake M, Ohta A, Woltjen K, Nakagawa M, Asada T, Arai T, Kawakatsu S, Izumi Y, Kaji R, Iwata N and Inoue H.

iPSC-Based Compound Screening and in Vitro Trials Identify a Synergistic Anti-Amyloid Β Combination for Alzheimer's Disease. Cell Reports, 2017; 21, 2304-2312.

Kojima Y, Sasaki K, Yokobayashi S, Sakai Y, Nakamura T, Yabuta Y, Nakaki F, Nagaoka S, Woltjen K, Hotta, A, Yamamoto T and Saitou M.

Evolutionarily Distinctive Transcriptional and Signaling Programs Drive Human Germ Cell Lineage Specification From Pluripotent Stem Cells. Cell Stem Cell, 2017; 21, 517-532.e5.

Hirosawa M, Fujita Y, Parr CJC, Hayashi K, Kashida S, Hotta A, Woltjen K and Saito H.

Cell-Type-Specific Genome Editing with a microRNA-Responsive CRISPR-Cas9 Switch. Nucleic Acids Research, 2017; 45, e118.

Imamura K, Izumi Y, Watanabe A, Tsukita K, Woltjen K, Yamamoto T, Hotta A, Kondo T, Kitaoka S, Ohta A, Tanaka A, Watanabe D, Morita M, Takuma H, Tamaoka A, Kunath T, Wray S, Furuya H, Era T, Makioka K, Okamoto K, Fujisawa T, Nishitoh H, Homma K, Ichijo H, Julien JP, Obata N, Hosokawa M, Akiyama H, Kaneko S, Ayaki T, Ito H, Kaji R, Takahashi R, Yamanaka S and Inoue H.

The Src/C-Abl Pathway Is a Potential Therapeutic Target in Amyotrophic Lateral Sclerosis. Science Translational Medicine, 2017; 9 (391).

Sone M, Morone N, Nakamura T, Tanaka A, Okita K, Woltjen K, Nakagawa M, Heuser JE, Yamada Y, Yamanaka S and Yamamoto T.

Hybrid Cellular Metabolism Coordinated by Zic3 and Esrrb Synergistically Enhances Induction of Naive Pluripotency. Cell Metabolism, 2017; 25, 1103-1117.e6.

Hashimoto K, Yamada Y, Semi K, Yagi M, Tanaka A, Itakura F, Aoki H, Kunisada T, Woltjen K, Haga H, Sakai Y, Yamamoto T and Yamada Y.

Cellular Context-Dependent Consequences of Apc Mutations on Gene Regulation and Cellular Behavior. Proceedings of the National Academy of Sciences, 2017; 114, 758-763.

Komura S, Semi K, Itakura F, Shibata H, Ohno T, Hotta A, Woltjen K, Yamamoto T, Akiyama H and Yamada Y.

An EWS-FLI1-Induced Osteosarcoma Model Unveiled a Crucial Role of Impaired Osteogenic Differentiation on Osteosarcoma Development. Stem Cell Reports, 2016; 6, 592-606.

Oceguera-Yanez F, Kim SI, Matsumoto T, Tan GW, Xiang L, Hatani T, Kondo T, Ikeya M, Yoshida Y, Inoue H and Woltjen K.

Engineering the AAVS1 Locus for Consistent and Scalable Transgene Expression in Human iPSCs and Their Differentiated Derivatives. Methods. 2016 May 15;101:43-55. doi: 10.1016/j.ymeth.2015.12.012. Epub 2015 Dec 18.

Kim SI, Oceguera-Yanez F, Sakurai C, Nakagawa M, Yamanaka S, Woltjen K.

Inducible Trangene Expression in Human iPS Cells Usind Versatile All-in-One piggyBac Transposons. Methods in Molecular Biology, 2016;1357:111-31. doi: 10.1007/7651_2015_251.

Kim SI, Oceguera-Yanez F, Hirohata R, Linker S, Okita K, Yamada Y, Yamamoto T, Yamanaka S and Woltjen K.

KLF4 N-terminal variance modulates induced reprogramming to pluripotency. Stem Cell Reports, 2015; 4, 1-17.

Chantzoura E, Skylaki S, Menendez S, Kim SI, Johnsson A, Linnarsson S, Woltjen K, Chambers I and Kaji K.

Reprogramming Roadblocks Are System Dependent. Stem Cell Reports, 2015; 5(3), 350-364.

Sasaki K, Yokobayashi S, Nakamura T, Okamoto I, Yabuta Y, Kurimoto K, Ohta H, Moritoki Y, Iwatani C, Tsuchiya H, Nakamura S, Sekiguchi K, Sakuma T, Yamamoto T, Mori T, Woltjen K, Nakagawa M, Yamamoto T, Takahashi K, Yamanaka S and Saitou M.

Robust In Vitro Induction of Human Germ Cell Fate from Pluripotent Stem Cells. Cell Stem Cell, 2015; 17(2), 178-194.

Jin Y, Elalaf H, Watanabe M, Tamaki S, Hineno S, Matsunaga K, Woltjen K, Kobayashi Y, Nagata S, Ikeya M, Kato T, Okamoto T, Matsuda S and Toguchida J.

Mutant IDH1 Dysregulates the Differentiation of Mesenchymal Stem Cells in Association with Gene-Specific Histone Modifications to Cartilage- and Bone-Related Genes. PLoS ONE, 2015; 10(7), e0131998.

Tamaki S, Fukuta M, Sekiguchi K, Jin Y, Nagata S, Hayakawa K, Hineno S, Okamoto T, Watanabe M, Woltjen K, Ikeya M, Kato T and Toguchida J.

SS18-SSX, the Oncogenic Fusion Protein in Synovial Sarcoma, Is a Cellular Context-Dependent Epigenetic Modifier. PLoS ONE, 2015; 10(11), e0142991.

Matsuda M, Koga M, Woltjen K, Nishida E and Ebisuya M.

Synthetic lateral inhibition governs cell-type bifurcation with robust ratios. Nature Communications, 2015; 6, 6195.

Sakuma T and Woltjen K.

Nuclease-mediated genome editing: At the front-line of functional genomics technology. Development, growth and differentiation, 2014; 56, 2-13.

Ohnishi K, Semi K, Yamamoto T, Shimizu M, Tanaka A, Mitsunaga K, Okita K, Osafune K, Arioka Y, Maeda T, Soejima H, Moriwaki H, Yamanaka S, Woltjen K, Yamada Y.

Premature Termination of Reprogramming In Vivo Leads to Cancer Development through Altered Epigenetic Regulation. Cell, 2014; 156(4), 663-677.

Gallagher D, Norman AA, Woodard CL, Yang G, Gauthier-Fisher A, Fujitani M, Vessey JP, Cancino GI, Sachewsky N, Woltjen K, Fatt MP, Morshead CM, Kaplan DR and Miller FD.

Transient maternal IL-6 mediates long-lasting changes in neural stem cell pools by deregulating an endogenous self-renewal pathway. Cell Stem Cell, 2013; 13(5), 564-576.

Yamashita A, Liu S, Woltjen K, Thomas B, Meng G, Hotta A, Takahashi K, Ellis J, Yamanaka S and Rancourt DE.

Cartilage tissue engineering identifies abnormal human induced pluripotent stem cells. Scientific Reports, 2013; 3(1978).

Tanaka A, Woltjen K, Miyake K, Hotta A, Ikeya M, Yamamoto T, Nishino T, Shoji E, Sehara-Fujisawa A, Manabe Y, Fujii N, Hanaoka K, Era T, Yamashita S, Isobe K, Kimura E and Sakurai H.

Efficient and reproducible myogenic differentiation from human iPS cells: prospects for modeling Miyoshi Myopathy in vitro. PLoS One, 2013; 8(4), e61540.

Sakuma T, Hosoi S, Woltjen K, Suzuki KI, Kashiwagi K, Wada H, Ochiai H, Miyamoto T, Kawai N, Sasakura Y, Matsuura S, Okada Y, Kawahara A, Hayashi S and Yamamoto T.

Efficient TALEN construction and evaluation methods for human cell and animal applications. Genes to Cells, 2013; 18(4), 315-326.

Hayakawa K, Ikeya M, Fukuta M, Woltjen K, Tamaki S, Takahara N, Kato T, Sato S, Otsuka T and Toguchida J.

Identification of target genes of synovial sarcoma-associated fusion oncoprotein using human pluripotent stem cells. Biochem. Biophys. Research Communications, 2013; 432(4), 713-719.

Hochedlinger K, Takahashi K, Plath K, Ng HH, Clark A, Martin U, Hanna JH, Deng H, Silva JCR, Woltjen K, Boyer L and Wernig M.

Reprogramming: The Next Generation. Cell Stem Cell, 2012; 11(6), 740-743.

Michael IP, Monetti C, Chiu AC, Zhang P, Baba T, Nishino K, Agha-Mohammadi S, Woltjen K, Sung HK and Nagy A.

Highly efficient site-specific transgenesis in cancer cell lines. Molecular Cancer, 2012; 11(1), 89-100.

Gabut M, Samavarchi-Tehrani P, Wang X, Slobodeniuc V, O'Hanlon D, Sung HK, Alvarez M, Talukder S, Pan Q, Mazzoni EO, Nedelec S, Wichterle H, Woltjen K, Hughes TR, Zandstra P.W, Nagy A, Wrana JL and Blencowe BJ.

An alternative splicing switch regulates embryonic stem cell pluripotency and reprogramming. Cell, 2011; 147(1), 132-146.

Nagy K, Sung H, Zhang P, Laflamme S, Vincent P, Agha-Mohammadi S, Woltjen K, Monetti C, Michael IP, Smith LC and Nagy A.

Induced Pluripotent Stem Cell Lines Derived from Equine Fibroblasts. Stem Cell Reviews and Reports, 2011; doi:10.1007/s12015-011-9239-5

Monetti C, Nishino K, Biechele S, Zhang P, Baba T, Woltjen K and Nagy A.

PhiC31 integrase facilitates genetic approaches combining multiple recombinases. Methods, 2011; 53(4), 380-385.

Samavarchi-Tehrani P, Golipour A, David L, Sung HK, Beyer TA, Datti A, Woltjen K, Nagy A and Wrana JL.

Functional Genomics Reveals a BMP Driven Mesenchymal-to-Epithelial Transition in the Initiation of Somatic Cell Reprogramming. Cell Stem Cell., 2010; 7, 64-77.

Woltjen K, Stanford W.L.

Inhibition of tgf-Beta signaling improves mouse fibroblast reprogramming. Cell Stem Cell, 2009; Vol.5 (5): p457-458.

O'Malley J, Woltjen K, Kaji K.

New strategies to generate induced pluripotent stem cells. Current Opinions in Biotechnology, 2009; Vol.20: p516-521.

Kaji K, Norrby K, Paca A, Mileikovsky M, Mohseni P, Woltjen K.

Virus-free induction of pluripotency and subsequent excision of reprogramming factors. Nature, 2009; Vol.458 (7239): p771-775.

Woltjen K, Michael I.P, Mohseni P, Desai R, Mileikovsky M, Hämäläinen R, Cowling R, Wang W, Liu P, Gertsenstein M, Kaji K, Sung HK, Nagy A.

piggyBac transposition reprograms fibroblasts to induced pluripotent stem cells. Nature, 2009; Vol.458 (7239): p766-770.

Thomas B, Woltjen K and Rancourt DE.

Deep screening of recombination proficient bacteriophage libraries. Biotechniques, 2003; Vol.34 (1): p36-38, 40.

Aoyama C, Woltjen K, Mansergh FC, Ishidate K and Rancourt DE.

Bacteriophage gene targeting vectors generated by transplacement. Biotechniques, 2002; Vol.33 (4): p806-810, 812.

Woltjen K, Bain G, Rancourt DE.

Retro-recombination screening of a mouse embryonic stem cell genomic library. Nucleic Acids Research, 2002; Vol.28 (9): E41.

Authored Book Chapters

Woltjen, K. and Bortvin, A.

Editorial Overview: Embroidering the Canvas of Life. Current opinion in genetics & development, 2018; 52, ii-iv.

Woltjen K, Yamamoto T, Kokubu C and Takeda J.

Report on the Conference on Transposition and Genome Engineering 2015 (TGE 2015): Advancing Cutting-Edge Genomics Technology in the Ancient City of Nara. Genes to cells, 2015; 392-395.

Kim SI, Oceguera-Yanez F, Sakurai C, Nakagawa M, Yamanaka S and Woltjen K.

Inducible Transgene Expression in Human iPS Cells Using Versatile All-in-One piggyBac Transposons. Methods in Molecular Biology, 2015; (Clifton, NJ).

Woltjen K, Kim SI, and Nagy A.

The piggyBac Transposon as a Platform Technology for Somatic Cell Reprogramming Studies in Mouse. Methods in Molecular Biology, 2015; (Clifton, NJ).

Shoji E, Woltjen K, and Sakurai H.

Directed Myogenic Differentiation of Human Induced Pluripotent Stem Cells. Methods in Molecular Biology, 2015; (Clifton, NJ).

Woltjen K, Hämäläinen R, Kibschull M, Mileikovsky M and Nagy A.

Transgene-free production of pluripotent stem cells using piggyBac transposons. Methods in Molecular Biology, 2011; 767, 87-103.

Sciabica K, Woltjen K, Hotta A.

Multiplex Gene-Expression Assay for Human Induced Pluripotent Stem Cells. Genetic Engineering and Biotechnology News, 2010; Vol.30 (3).

Woltjen K, Ito K, Tsuzuki T, Rancourt DE.

Orpheus recombination: a comprehensive bacteriophage system for murine targeting vector construction by transplacement. Methods in Molecular Biology, 2008; Vol.435: p79-94.

Woltjen K, Unger MW, Rancourt DE

Transplacement mutagenesis. A recombination-based in situ mutagenesis protocol. Methods in Molecular Biology, 2002; Vol.182: p189-207.