Publications
Selected publications
@Hokkaido University （Bold: graduate/undergraduate student in RNA Biology Lab/Hokkaido Univ）
Yoshimoto R, Nakayama Y, Nomura I, Yamamoto I, Nakagawa Y, Tanaka S, Kurihara M, Suzuki Y, Kobayashi T, Kozuka-Hata H, Oyama M, Mito M, Iwasaki S, Yamazaki T, Hirose T, Araki K, Nakagawa S. (2023) 4.5SH RNA counteracts deleterious exonization of SINE B1 in mice. Mol Cell 83, 4479-4493.
Yamada A, Toya H, Tanahashi M, Kurihara M, Mito M, Iwasaki S, Kurosaka S, Takumi T, Fox A, Kawamura Y, Miura K, Nakagawa, S (2022) Species-specific formation of paraspeckles in intestinal epithelium revealed by characterization of NEAT1 in naked mole-rat. RNA 28, 1128-1143.
Takahashi O, Tanahashi M, Yokoi S, Kaneko M, Yanaka K, Nakagawa S, Maita H (2022) The cell type-specific ER membrane protein UGS148 is not essential in mice. Genes Cells 27, 43-60.
Maita H, Nakagawa S. (2020) What is the switch for coupling transcription and splicing? RNA Polymerase II C-terminal domain phosphorylation, phase separation and beyond. Wiley Interdiscip Rev RNA 11, e1574. (review)
Yokoi S, Naruse K, Kamei Y, Ansai S, Kinoshita M, Mito M, Iwakai S, Inoue S, Okuyama T, Nakagawa S, Young LJ, Takeuchi H. (2020) Sexually dimorphic role of oxytocin in medaka mate choice. PNAS 117, 4802-4808.
Isobe, M., Toya, H., Mito, M., Chiba, T., Asahara, H., Hirose, T. & Nakagawa, S. (2020) Forced isoform switching of Neat1_1 to Neat1_2 leads to the loss of Neat1_1 and the hyperformation of paraspeckles but does not affect the development and growth of mice. RNA 26 251-264.
Komatsu, T., Yokoi, S., Mito, M., Fujii, K., Kimura, Y., Iwasaki, S. & Nakagawa, S. (2018) UPA-Seq: Prediction of Functional LncRNAs Using Differential Sensitivity to UV Crosslinking. RNA 24, 1785-1802. [open access]
@RIKEN
Mito, M., Kadota, M., Tanaka, K., Furuta, Y., Abe, K., Iwasaki, S. & Nakagawa, S. (2018) Cell Type-Specific Survey of Epigenetic Modifications by Tandem Chromatin Immunoprecipitation Sequencing. Sci Rep 8, 1143. [open access]
Sakaguchi T, Hasegawa, Y, Brockdorff, N, Tsutsui K, Tsutsui KM, Sado, T, and Nakagawa, S (2016) Control of chromosomal localization of Xist by hnRNP U family molecules. Dev Cell. 39: 11-12
Chiba M, Ariga H, Maita H (2016) A Splicing Reporter Tuned to Non-AG Acceptor Sites Reveals that Luteolin Enhances the Recognition of Non-canonical Acceptor Sites. Chem Biol Drug Des 87: 275-82
West, JA, Mito, M, Kurosaka, S, Takumi, T, Tanegashima, C, Chujo, T, Yanaka, K, Kingston, RE, Hirose, T, Bond, C, Fox, A, and Nakagawa, S (2016) Structural, super-resolution microscopy analysis of paraspeckle nuclear body organization. J Cell Biol. 214: 817-830 [open access]
Ip JY, Sone M, Nashiki C, Pan Q, Kitaichi K, Yanaka K, Abe T, Takao K, Miyakawa T, Blencowe BJ, Nakagawa S (2016) Gomafu lncRNA knockout mice exhibit mild hyperactivity with enhanced responsiveness to the psychostimulant methamphetamine. Sci Rep 6: 27204 [open access]
Mito M, Kawaguchi T, Hirose T, Nakagawa S (2016) Simultaneous multicolor detection of RNA and proteins using super-resolution microscopy. Methods 98: 158-65 [open access]
Ishida K, Miyauchi K, Kimura Y, Mito M, Okada S, Suzuki T, Nakagawa S (2015) Regulation of gene expression via retrotransposon insertions and the noncoding RNA 4.5SH RNA. Genes Cells 20: 887-901 [open access]
Maita H, Tomita K, Ariga H (2014) A split luciferase-based reporter for detection of a cellular macromolecular complex. Anal Biochem 452: 1-9
Nakagawa S, Shimada M, Yanaka K, Mito M, Arai T, Takahashi E, Fujita Y, Fujimori T, Standaert L, Marine JC, Hirose T (2014) The lncRNA Neat1 is required for corpus luteum formation and the establishment of pregnancy in a subpopulation of mice. Development 141: 4618-27 [open access]
Ishizuka A, Hasegawa Y, Ishida K, Yanaka K, Nakagawa S (2014) Formation of nuclear bodies by the lncRNA Gomafu-associating proteins Celf3 and SF1. Genes Cells 19: 704-21 [open access]
Nakagawa S, Ip JY, Shioi G, Tripathi V, Zong X, Hirose T, Prasanth KV (2012) Malat1 is not an essential component of nuclear speckles in mice. RNA 18: 1487-99 [open access]
Tsuiji H, Yoshimoto R, Hasegawa Y, Furuno M, Yoshida M, Nakagawa S (2011) Competition between a noncoding exon and introns: Gomafu contains tandem UACUAAC repeats and associates with splicing factor-1. Genes Cells 16: 479-90 [open access]
Nakagawa S, Naganuma T, Shioi G, Hirose T (2011) Paraspeckles are subpopulation-specific nuclear bodies that are not essential in mice. J Cell Biol 193: 31-9 [open access]
Hasegawa Y, Brockdorff N, Kawano S, Tsutui K, Tsutui K, Nakagawa S (2010) The matrix protein hnRNP U is required for chromosomal localization of Xist RNA. Dev Cell 19: 469-76 [open access]
Sone M, Hayashi T, Tarui H, Agata K, Takeichi M, Nakagawa S (2007) The mRNA-like noncoding RNA Gomafu constitutes a novel nuclear domain in a subset of neurons. J Cell Sci 120: 2498-506 [open access]