Search Results 1-20 of 112

  • Millefy: visualizing cell-to-cell heterogeneity in read coverage of single-cell RNA sequencing datasets

    尾崎 遼 , Haruka OZAKI , Tetsutaro Hayashi , Mana Umeda , Itoshi Nikaido

    … Single-cell RNA sequencing (scRNA-seq) methods, particularly "full-length" ones, provide read coverage of many individual cells and have the potential to reveal cellular heterogeneity in RNA transcription and processing. … However, visualization tools suited to highlighting cell-to-cell heterogeneity in read coverage are still lacking.ResultsHere, we have developed Millefy, a tool for visualizing read coverage of scRNA-seq data in genomic contexts. …

    BMC genomics (21), 177, 2020-03

    IR 

  • CiApex1 has AP endonuclease activity and abrogated AP site repair disrupts early embryonic development in <i>Ciona intestinalis</i>

    Igarashi Kento , Funakoshi Masafumi , Kato Seiji , Moriwaki Takahito , Kato Yuichi , Zhang-Akiyama Qiu-Mei

    … Since AP sites inhibit DNA replication and transcription, repairing them is critical for cell growth. … However, the significance of repairing AP sites during early embryonic development has not yet been clearly determined. … (CiApex1), a homolog of human AP endonuclease 1 (APEX1), and examined its role in early embryonic development. … Next, the effects of abnormal AP site repair on embryonic development were investigated. …

    Genes & Genetic Systems 94(2), 81-93, 2019

    J-STAGE  Ichushi Web 

  • Hypoxia epigenetically bestows astrocytic differentiation potential on human pluripotent cell-derived neural stem/precursor cells  [in Japanese]

    Yasui Tetsuro , Nakashima Kinichi

    … <p>The central nervous system (CNS) is composed of three major cell types, neurons, astrocytes, and oligodendrocytes, which differentiate from common multipotent neural stem/precursor cells (NS/PCs). …

    Folia Pharmacologica Japonica 153(2), 54-60, 2019

    J-STAGE  Ichushi Web 

  • A somatic role for the histone methyltransferase Setdb1 in endogenous retrovirus silencing

    Kato Masaki , Takemoto Keiko , Shinkai Yoichi

    … Subsets of endogenous retroviruses (ERVs) are derepressed in mouse embryonic stem cells (mESCs) deficient for Setdb1, which catalyzes histone H3 lysine 9 trimethylation (H3K9me3). … Most of those ERVs, including IAPs, remain silent if Setdb1 is deleted in differentiated embryonic cells; … However, H3K9me3 enrichment on ERVs is maintained in differentiated cells and is mostly diminished in mouse embryonic fibroblasts (MEFs) lacking Setdb1. …

    Nature Communications (9), 2018-04-27

    IR 

  • Combined Loss of JMJD1A and JMJD1B Reveals Critical Roles for H3K9 Demethylation in the Maintenance of Embryonic Stem Cells and Early Embryogenesis

    Kuroki Shunsuke , Nakai Yuji , Maeda Ryo , Okashita Naoki , Akiyoshi Mika , Yamaguchi Yutaro , Kitano Satsuki , Miyachi Hitoshi , Nakato Ryuichiro , Ichiyanagi Kenji , Shirahige Katsuhiko , Kimura Hiroshi , Shinkai Yoichi , Tachibana Makoto

    … JMJD1A/JMJD1B-deficient embryos died soon after implantation accompanying epiblast cell death. … Furthermore, combined loss of JMJD1A and JMJD1B caused perturbed expression of metabolic genes and rapid cell death in embryonic stem cells (ESCs). … Finally, genetic rescue experiments clarified that H3K9 overmethylation by G9A was the cause of the cell death and perturbed gene expression of JMJD1A/JMJD1B-depleted ESCs. …

    Stem Cell Reports 10(4), 1340-1354, 2018-04-10

    IR 

  • Regulation of c-MYC transcriptional activity by transforming growth factor-beta 1-stimulated clone 22

    Zheng Ling , Suzuki Hiroyuki , Nakajo Yuka , Nakano Akinobu , Kato Mitsuyasu , 鈴木 裕之 , 加藤 光保

    … c‐MYC stimulates cell proliferation through the suppression of cyclin‐dependent kinase (CDK) inhibitors including P15 (CDKN2B) and P21 (CDKN1A). … It also activates E‐box‐mediated transcription of various target genes including telomerase reverse transcriptase (TERT) that is involved in cellular immortality and tumorigenesis. … TSC‐22 inhibits cell growth in mammalian cells and in Xenopus embryos. …

    Cancer science 109(2), 395-402, 2018-02

    IR  Ichushi Web 

  • Time-course transcriptome analysis of human cellular reprogramming from multiple cell types reveals the drastic change occurs between the mid phase and the late phase

    Kuno Akihiro , Nishimura Ken , Takahashi Satoru , 高橋 智 , 西村 健

    … BackgroundHuman induced pluripotent stem cells (hiPSCs) have been attempted for clinical application with diverse iPSCs sources derived from various cell types. … This proposes that there would be a shared reprogramming route regardless of different starting cell types. … To understand molecular mechanisms of cellular reprogramming, the investigation of the conserved reprogramming routes from various cell types is needed. …

    BMC genomics (19), 9, 2018-01

    IR 

  • Stem cells are the most sensitive screening tool to identify toxicity of GATA4- targeted small-molecule compounds

    Karhu Tuuli , Talman Virpi , Valimaki Mika , Jumppanen Mikael , Pohjolainen Lotta , Leigh Robert , Foldes Gabor , Boije Af Gennas Gustav , Yli-Kauhaluoma Jari , Ruskoaho Heikki

    … <p>Background</p><p>Cardiac transcription factors, such as GATA4, NKX2-5, and TBX5, are key regulators of cardiac development. …

    Proceedings for Annual Meeting of The Japanese Pharmacological Society WCP2018(0), PO4-9-32, 2018

    J-STAGE 

  • Chemical Cocktails Enable Hepatic Reprogramming of Mouse Fibroblasts with a Single Transcription Factor

    Guo Ren , Tang Wei , Yuan Qianting , Hui Lijian , Wang Xin , Xie Xin

    … MEFs (mouse embryonic fibroblasts) from E12.5 or TTFs (tail tip fibroblasts) from adult mice were isolated and transduced with Foxa1, Foxa2 or Foxa3 by viral infection and then treated with the chemical cocktail CRVPTD (C, CHIR99021; … We found that transcription factor Foxa1, Foxa2 or Foxa3 could reprogram mouse fibroblasts into iHeps in the presence of the chemical cocktail CRVPTD. …

    Proceedings for Annual Meeting of The Japanese Pharmacological Society WCP2018(0), PO4-4-14, 2018

    J-STAGE 

  • The de novo Q1042R POGZ mutation in sporadic ASD disrupts the neuronal differentiation

    Matsumura Kensuke , Hashimoto Ryota , Hashimoto Hitoshi , Nakazawa Takanobu , Okada Shota , Nagayasu Kazuki , Miura Hiroki , Kasai Atsushi , Takuma Kazuhiro , Yamamori Hidenaga , Yasuda Yuka

    … Here we present the role of POGZ in the neuronal differentiation and the functional characterization of de novo POGZ mutations.</p><p>We found that Pogz was highly expressed in the developing mouse cerebral cortex during embryonic neurogenesis and that POGZ knockdown impaired the neuronal differentiation. …

    Proceedings for Annual Meeting of The Japanese Pharmacological Society WCP2018(0), PO4-1-67, 2018

    J-STAGE 

  • Chemical-Mediated Somatic Cell Reprogramming and Transdifferentiation

    Xie Xin , Huang Chenwen , Fu Yanbin , Yuan Long , Wang Quan

    … <p>The revolutionizing somatic cell reprogramming/transdifferentiation technologies provide a new path for cell replacement therapies and drug screening. … The original method for reprogramming involves the delivery of exogenous transcription factors, leading to the safety concerns about the possible genome integration. …

    Proceedings for Annual Meeting of The Japanese Pharmacological Society WCP2018(0), OR19-1, 2018

    J-STAGE 

  • Adrenergic receptor agonists induce the differentiation of pluripotent stem cell-derived hepatoblasts into hepatocyte-like cells

    Kotaka Maki , Toyoda Taro , Yasuda Katsutaro , Kitano Yuko , Okada Chihiro , Ohta Akira , Watanabe Akira , Uesugi Motonari , Osafune Kenji

    … Current induction methods of hepatocytes from human induced pluripotent stem cells (hiPSCs) are neither low cost nor stable. … We also confirmed that treatment with methoxamine hydrochloride activates the signal transducer and activator of transcription 3 (STAT3) pathway downstream of IL-6 family cytokines including OsM. …

    Scientific Reports (7), 2017-12-01

    IR 

  • StemCell Keep^TM Is Effective for Cryopreservation of Human Embryonic Stem Cells by Vitrification

    Ota Akemi , Matsumura Kazuaki , Lee Jun-Jae , Sumi Shoichiro , Hyon Soung-Hyu

    … Safe and stable cryopreservation is critical for research involving human embryonic stem cells (hESCs). … We reported previously that a novel cryopreservation reagent, StemCell Keep™ (SCK), was effective for cryopreserving human induced pluripotent stem cells (hiPSCs) by vitrification. … hESCs cryopreserved with SCK were thawed and cultured on SNL 76/7 cells, which were derived from a mouse fibroblast STO cell line transformed with neomycin resistance and murine LIF genes. …

    Cell Transplantation 26(5), 773-787, 2017-05-09

    IR 

  • A G-quadruplex structure at the 5′ end of the H19 coding region regulates H19 transcription

    Fukuhara Mitsuko , Ma Yue , Nagasawa Kazuo , Toyoshima Fumiko

    … The H19 gene, one of the best known imprinted genes, encodes a long non-coding RNA that regulates cell proliferation and differentiation. … H19 RNA is widely expressed in embryonic tissues, but its expression is restricted in only a few tissues after birth. …

    Scientific Reports (8), 2017-04-03

    IR 

  • Induced Pluripotent Stem Cell Technology in Regenerative Medicine and Disease Modeling

    AKAMATSU WADO

    … <p>Pluripotent stem cells have the potential to differentiate into all cell types in the mammalian body. … Since human embryonic stem (ES) cells were established in 1998, they were expected to be an ideal cell source for regenerative medicine. … To obtain genetically matched ES cells, somatic cell nuclear transfer (SCNT) was considered to be the most promising technology; …

    Juntendo Medical Journal 63(1), 37-41, 2017

    J-STAGE 

  • Molecular Mechanism Underlying Heterotaxy and Cardiac Isomerism  [in Japanese]

    Yashiro Kenta , Miyagawa Shigeru , Sawa Yoshiki

    … First, the unidirectional leftward flow of extra-embryonic fluid in the node cavity, "Nodal Flow", breaks the symmetry. … Third, this transferred information induces a robust left-side specific expression of <i>Nodal</i>, followed by the unilateral activation of bicoid-type homeodomain transcription factor, <i>Pitx2</i>, in the left lateral plate mesoderm. …

    Pediatric Cardiology and Cardiac Surgery 33(5), 349-361, 2017

    J-STAGE  Ichushi Web 

  • Notch Signaling and Maintenance of SOX2 Expression in Rat Anterior Pituitary Cells

    Batchuluun Khongorzul , Azuma Morio , Fujiwara Ken , Yashiro Takashi , Kikuchi Motoshi

    … <p>After publication of reports describing the presence of stem/progenitor cells among non-hormone-producing cells in the pituitary, the mechanism responsible for proliferation and differentiation generated considerable interest. … In the present study, we examined the histochemical relationship between Notch signaling molecules and the transcription factor SOX2 in rat pituitary. … mRNA and SOX2 were co-expressed at embryonic day 14.5 in most cells in the adenohypophyseal primordium. …

    ACTA HISTOCHEMICA ET CYTOCHEMICA 50(2), 63-69, 2017

    J-STAGE  Ichushi Web 

  • Derivation of Induced Trophoblast Cell Lines in Cattle by Doxycycline-Inducible piggyBac Vectors

    Kawaguchi Takamasa , Cho Dooseon , Hayashi Masafumi , Tsukiyama Tomoyuki , Kimura Koji , Matsuyama Shuichi , Minami Naojiro , Yamada Masayasu , Imai Hiroshi

    … However, the processes involved in trophoblastic differentiation and placental formation in cattle remain unclear due to interspecies differences when compared with other model systems and the small repertoire of available trophoblast cell lines. … Here, we describe the generation of trophoblast cell lines (biTBCs) from bovine amnion-derived cells (bADCs) using an induced pluripotent stem cell technique. …

    PLOS ONE 11(12), 2016-12-01

    IR 

  • Over Expression of NANOS3 and DAZL in Human Embryonic Stem Cells

    Panula Sarita , Reda Ahmed , Stukenborg Jan-Bernd , Ramathal Cyril , Sukhwani Meena , Albalushi Halima , Edsgärd Daniel , Nakamura Michiko , Söder Olle , Orwig Kyle E. , Yamanaka Shinya , Reijo Pera Renee A. , Hovatta Outi

    … The mechanisms underlying human germ cell development are largely unknown, partly due to the scarcity of primordial germ cells and the inaccessibility of the human germline to genetic analysis. … Human embryonic stem cells can differentiate to germ cells in vitro and can be genetically modified to study the genetic requirements for germ cell development. …

    PLOS ONE 11(10), 2016-10-21

    IR 

  • Future of intervertebral disc regeneration with stem cell niche and transcription factor regulation  [in Japanese]

    酒井 大輔 , 額賀 唯至 , 中井 知子 [他]

    日本整形外科学会雑誌 90(1), 24-29, 2016-01

    Ichushi Web 

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