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Publisher Correction: Integrated analysis of a compendium of RNA-Seq datasets for splicing factors

Scientific data 2020年第1期7卷 267页

作者： Peng Yu Jin Li Su-Ping Deng Feiran Zhang Petar N Grozdanov Eunice W M Chin Sheree D Martin Laurent Vergnes M Saharul Islam Deqiang Sun Janine M LaSalle Sean L McGee Eyleen Goh Clinton C MacDonald Peng Jin West China Biomedical Big Data Center West China Hospital Sichuan University Chengdu China. pengyu.bio@***. Medical Big Data Center Sichuan University Chengdu China. pengyu.bio@***. Center for Epigenetics & Disease Prevention Institute of Biosciences and Technology College of Medicine Texas A&M University Houston TX 77030 USA. School of Electronic and Information Engineering Suzhou University of Science and Technology Suzhou Jiangsu 215009 China. Department of Human Genetics Emory University School of Medicine Atlanta Georgia USA. Department of Cell Biology & Biochemistry Texas Tech University Health Sciences Center Lubbock Texas 79430 USA. Neuroscience Academic Clinical Programme Duke-NUS Medical School NA Singapore. Metabolic Reprogramming Laboratory Metabolic Research Unit School of Medicine and Centre for Molecular and Medical Research Deakin University Geelong Victoria Australia. Department of Human Genetics David Geffen School of Medicine University of California-Los Angeles Los Angeles CA USA. Department of Medical Microbiology and Immunology Genome Center and MIND Institute University of California Davis Davis CA USA.

An amendment to this paper has been published and can be accessed via a link at the top of the paper.

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Spermatogenic cell-Specific Gene Mutation in Mice via CRISPR-Cas9

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Journal of Genetics and Genomics 2016年第5期43卷 289-296页

作者： Meizhu Bai Dan Liang Yinghua Wang Qing Li Yuxuan Wu Jinsong Li School of Life Science and Technology Shanghai Tech University Group of Epigenetic Reprogramming State Key Laboratory of Cell BiologyCAS Center for Excellence in Molecular Cell ScienceInstitute of Biochemistry and Cell BiologyShanghai Institutes for Biological SciencesChinese Academy of Sciences Shanghai Key Laboratory of Molecular Andrology Institute of Biochemistry and Cell BiologyShanghai Institutes for Biological SciencesChinese Academy of Sciences

Tissue-specific knockout technology enables the analysis of the gene function in specific tissues in adult ***,conventional strategy for producing tissue-specific knockout mice is a time- and labor-consuming process,restricting rapid study of the gene function in ***-Cas9 system from bacteria is a simple and efficient gene-editing technique,which has enabled rapid generation of gene knockout lines in mouse by direct injection of CRISPR-Cas9 into ***,we demonstrate CRISPR-Cas9-mediated spermatogenic cell-specific disruption of Scp3 gene in testes in one *** first generated transgenic mice by pronuclear injection of a plasmid containing Hspa2 promoter driving Cas9 expression and showed Cas9 specific expression in spermatogenic *** then produced transgenic mice carrying Hspa2 promoter driven Cas9 and constitutive expressed sgRNA targeting Scp3 *** founders were infertile due to developmental arrest of spermatogenic cells while female founders could produce progeny ***,male progeny from female founders were infertile and females could transmit the transgenes to the next *** study establishes a CRISPR-Cas9-based one-step strategy to analyze the gene function in adult tissues by a temporal-spatial pattern.

关键词： CRISPR-Cas9 Tissue-specific knockout Spermatogenesis Mouse

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Parthenogenetic haploid embryonic stem cells efficiently support mouse generation by oocyte injection

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细胞研究（英文版） 2016年第1期26卷 131-134页

作者： Cuiqing Zhong Zhenfei Xie Qi Yin Rui Dong Suming Yang Yuxuan Wu Li Yang Group of Epigenetic Reprogramming State Key Laboratory of Cell Biology Institute of Biochemistry and Cell Biology Shanghai Institutes for Biological Sciences Chinese Academy of Sciences Shanghai 200031 China Shanghai Key Laboratory of Molecular Andrology Institute of Biochemistry and Cell Biology Shanghai Institutes for Biological Sciences Chinese Academy of Sciences Shanghai 200031 China University of Chinese Academy of Sciences Beijing 100049 China University of Chinese Academy of Sciences Beijing 100049 China Key Laboratory of Computational Biology CAS-MPG Partner Institute for Computational Biology CAS Center for Excellence in Brain Science Shanghai Institutes for Biological Sciences Chinese Academy of Sciences Shanghai 200031 China Group of Epigenetic Reprogramming State Key Laboratory of Cell Biology Institute of Biochemistry and Cell Biology Shanghai Institutes for Biological Sciences Chinese Academy of Sciences Shanghai 200031 China Shanghai Key Laboratory of Molecular Andrology Institute of Biochemistry and Cell Biology Shanghai Institutes for Biological Sciences Chinese Academy of Sciences Shanghai 200031 China Key Laboratory of Computational Biology CAS-MPG Partner Institute for Computational Biology CAS Center for Excellence in Brain Science Shanghai Institutes for Biological Sciences Chinese Academy of Sciences Shanghai 200031 China

Dear Editor,Mammalian haploid embryonic stem cells (haESCs) have been recently generated from parthenogenetic and androgenetic embryos [1, 2].Both parthenogenetic haESCs (PG-haESCs) and androgenetic haESCs (AG-haESCs) can be used for cell-based reverse and forward genetic screens on a whole-genome scale [3, 4].AG-haESCs, after intracytoplasmic injection into oocytes (referred to as ICAHCI), can be used as a sperm replacement to produce healthy semi-cloned (SC) mice at a rateof～2％ of transferred embryos [5, 6].

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Establishment and characterization of iPS cells derived from XPA patients

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Journal of Dermatological Science 2016年第1期84卷 e77-e77页

作者： Chihiro Shimizuhira Hidaka Yokota Shinichi Moriwaki Yoshinori Yoshida Yoshiki Miyachi Shinya Yamanaka Kenji Kabashima Department of Dermatology Graduate School of Medicine Kyoto University Kyoto Japan Department of Reprogramming Science Center for iPS Cell Research and Application Kyoto University Japan Department of Dermatology Osaka Medical College Japan

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Correction of a genetic disease by CRISPR-Cas9-mediated gene editing in mouse spermatogonial stem cells

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细胞研究（英文版） 2015年第1期25卷 67-79页

作者： Yuxuan Wu Hai Zhou Xiaoying Fan Ying Zhang Man Zhang Yinghua Wang Zhenfei Xie Group of Epigenetic Reprogramming State Key Laboratory of Cell Biology Institute of Biochemistry and Cell Biology Shanghai Institutes for Biological Sciences Chinese Academy of Sciences Shanghai 200031 China Shanghai Key Laboratory of Molecular Andrology Institute of Biochemistry and Cell Biology Shanghai Institutes for Biological Sciences Chinese Academy of Sciences Shanghai 200031 China Group of Epigenetic Reprogramming State Key Laboratory of Cell Biology Institute of Biochemistry and Cell Biology Shanghai Institutes for Biological Sciences Chinese Academy of Sciences Shanghai 200031 China Shanghai Key Laboratory of Molecular Andrology Institute of Biochemistry and Cell Biology Shanghai Institutes for Biological Sciences Chinese Academy of Sciences Shanghai 200031 China College of Life Science China West Normal University Nanchong Sichuan 637002 China Biodynamic Optical Imaging Center Ministry of Education Key Laboratory of Cell Proliferation and Differentiation College of Life Sciences Peking University Beijing 100871 China Shanghai Key Laboratory of Molecular Andrology Institute of Biochemistry and Cell Biology Shanghai Institutes for Biological Sciences Chinese Academy of Sciences Shanghai 200031 China State Key Laboratory of Molecular Biology Shanghai Key Laboratory of Molecular Andrology Institute of Biochemistry and Cell Biology Shanghai Institutes for Biological Sciences Chinese Academy of Sciences Shanghai 200031 China

Spermatogonial stem cells (SSCs) can produce numerous male gametes after transplantation into recipient testes, presenting a valuable approach for gene therapy and continuous production of gene-modified animals. However, successful genetic manipulation of SSCs has been limited, partially due to complexity and low efficiency of currently available genetic editing techniques. Here, we show that efficient genetic modifications can be introduced into SSCs using the CRISPR-Cas9 system. We used the CRISPR-Cas9 system to mutate an EGFP transgene or the endogenous Crygc gene in SCCs. The mutated SSCs underwent spermatogenesis after transplantation into the seminiferous tubules of infertile mouse testes. Round spermatids were generated and, after injection into mature oocytes, supported the production of heterozygous offspring displaying the corresponding mutant phenotypes. Furthermore, a disease-causing mutation in Crygc (Crygc^−/−) that pre-existed in SSCs could be readily repaired by CRISPR-Cas9-induced nonhomologous end joining (NHEJ) or homology-directed repair (HDR), resulting in SSC lines carrying the corrected gene with no evidence of off-target modifications as shown by whole-genome sequencing. Fertilization using round spermatids generated from these lines gave rise to offspring with the corrected phenotype at an efficiency of 100%. Our results demonstrate efficient gene editing in mouse SSCs by the CRISPR-Cas9 system, and provide the proof of principle of curing a genetic disease via gene correction in SSCs.

关键词： CRISPR-Cas9 spermatogonial stem cell gene therapy

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Synthetic RNA technologies to control molecular information and structure

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Kobunshi 2014年第6期63卷 386-387页

作者： Saito, Hirohide Department of Reprogramming Science Center for iPS Cell Research and Application Kyoto University Japan

Research in the synthetic biology field, which attempts to bring about new technologies by understanding life through the process of "artificially creating" biomolecules and biological systems, is becoming established worldwide. Creating artificial biomolecules that freely control the functions of living cells and applying them to examinations and medical treatments is one of the research goals of this new field. We will use the unique synthetic RNA technologies to tackle these issues. For example, we have succeeded in developing "synthetic RNA switches" that can control translation of desired genes in target mammalian cells. We have also developed a method to control cell fate by using protein-responsive RNA translational ON/OFF switches. Moreover, for the first time we have succeeded in designing and constructing synthetic RNA-protein complexes (RNP) -based nanostructures, providing great potential for nanomedicine and biotechnology applications. ©2014 The Society of Polymer Science.

关键词： Proteins

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RETRACTED ARTICLE: Bidirectional developmental potential in reprogrammed cells with acquired pluripotencyEditorial SummaryAssociated Content

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Nature 2014年第7485期505卷 676-680页

作者： Haruko Obokata Yoshiki Sasai Hitoshi Niwa Mitsutaka Kadota Munazah Andrabi Nozomu Takata Mikiko Tokoro Yukari Terashita Shigenobu Yonemura Charles A. Vacanti Teruhiko Wakayama Laboratory for Cellular Reprogramming RIKEN Center for Developmental Biology Kobe 650-0047 Japan Laboratory for Genomic Reprogramming RIKEN Center for Developmental Biology Kobe 650-0047 Japan Laboratory for Tissue Engineering and Regenerative Medicine Brigham and Women’s Hospital Harvard Medical School Boston USA Laboratory for Organogenesis and Neurogenesis RIKEN Center for Developmental Biology Kobe 650-0047 Japan Laboratory for Pluripotent Stem Cell Studies RIKEN Center for Developmental Biology Kobe 650-0047 Japan Genome Resource and Analysis Unit RIKEN Center for Developmental Biology Kobe 650-0047 Japan Electron Microscopy Laboratory RIKEN Center for Developmental Biology Kobe 650-0047 Japan Faculty of Life and Environmental Sciences University of Yamanashi Yamanashi 400-8510 Japan

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RETRACTED ARTICLE: Stimulus-triggered fate conversion of somatic cells into pluripotencyEditorial SummaryAssociated Content

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Nature 2014年第7485期505卷 641-647页

作者： Haruko Obokata Teruhiko Wakayama Yoshiki Sasai Koji Kojima Martin P. Vacanti Hitoshi Niwa Masayuki Yamato Charles A. Vacanti Laboratory for Tissue Engineering and Regenerative Medicine Brigham and Women’s Hospital Harvard Medical School Boston USA Laboratory for Cellular Reprogramming RIKEN Center for Developmental biology Kobe 650-0047 Japan Laboratory for Genomic Reprogramming RIKEN Center for Developmental biology Kobe 650-0047 Japan Present address: Faculty of Life and Environmental Sciences University of Yamanashi Yamanashi 400-8510 Japan. Laboratory for Organogenesis and Neurogenesis RIKEN Center for Developmental biology Kobe 650-0047 Japan Department of Pathology Irwin Army Community Hospital Fort Riley USA Laboratory for Pluripotent Stem Cell Studies RIKEN Center for Developmental biology Kobe 650-0047 Japan Institute of Advanced Biomedical Engineering and Science Tokyo Women’s Medical University Tokyo 162-8666 Japan

Here we report a unique cellular reprogramming phenomenon, called stimulus-triggered acquisition of pluripotency (STAP), which requires neither nuclear transfer nor the introduction of transcription factors. In STAP, strong external stimuli such as a transient low-pH stressor reprogrammed mammalian somatic cells, resulting in the generation of pluripotent cells. Through real-time imaging of STAP cells derived from purified lymphocytes, as well as gene rearrangement analysis, we found that committed somatic cells give rise to STAP cells by reprogramming rather than selection. STAP cells showed a substantial decrease in DNA methylation in the regulatory regions of pluripotency marker genes. Blastocyst injection showed that STAP cells efficiently contribute to chimaeric embryos and to offspring via germline transmission. We also demonstrate the derivation of robustly expandable pluripotent cell lines from STAP cells. Thus, our findings indicate that epigenetic fate determination of mammalian cells can be markedly converted in a context-dependent manner by strong environmental cues.

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Comprehensive Comparison Of Gene Expression, Genomic DNA Methylation, and In Vitro Hematopoietic Differentiation Among Many Human iPS and ES cell Lines

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BLOOD 2013年第21期122卷 1187-1187页

作者： Nishizawa, Masatoshi Chonabayashi, Kazuhisa Oishi, Akiko Takei, Ikue Nishikawa, Misato Morioka, Yoko Takaori-Kondo, Akifumi Yamanaka, Shinya Yoshida, Yoshinori Department of Reprogramming Science Center for iPS Cell Research and Application Kyoto University Kyoto Japan Department of Hematology and Oncology Graduate School of Medicine Kyoto University Kyoto Japan

1187

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