IFOM Publications Yasuhiro Murakawa
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Selected Publications Yasuhiro Murakawa

  1. Hirabayashi S., Bhagat S., Matsuki Y., Takegami Y., Uehata T., Kanemaru A., Itoh M., Shirakawa K., Takaori-Kondo A., Takeuchi O., Carninci P., Katayama S., Hayashizaki Y., Kere J., Kawaji H., Murakawa Y.
    NET-CAGE Characterizes Dynamics and Topology of Human Transcribed Cis-regulatory Elements.
    Nature Genetics 51(9):1369-1379 (2019)

  2. Hia F., Fan Yang S., Shichino Y., Yoshinaga M., Murakawa Y., Vandenbon A., Fukao A., Fujiwara T., Landthaler M., Natsume T., Adachi S., Iwasaki S., Takeuchi O.
    Codon Optimality Confers GC-Rich-Induced Stability to mRNAs in Humans
    EMBO Reports :e48220. doi: 10.15252/embr.201948220 (2019)

  3. Yamazaki H., Shirakawa K., Matsumoto T., Hirabayashi S., .Murakawa Y., Kobayashi M., Sarca AD., Kazuma Y., Matsui H., Maruyama W., Fukuda H., Shirakawa R., Shindo K., Ri M., Iida S., Takaori-Kondo A.
    Endogenous APOBEC3B Overexpression Constitutively Generates DNA Substitutions and Deletions in Myeloma Cells.
    Scietific Reports 9, 7122 (2019)

  4. Bardales J., Wieser E., Kawaji H., Murakawa M., Darzacq X.
    Selective activation of alternative MYC core promoters by Wnt-responsive enhancers.
    Genes, 23, E270 (2018)

  5. Yoshihara M., Araki A., Kasama Y., Sunayama M., Abe M., Nishida K., Kawaji H., Hayashizaki Y., Murakawa Y.
    Hotspots of de novo point mutations in induced pluripotent stem cells.
    Cell Reports, 21:308-315. (2017)

  6. Takiuchi Y, Kobayashi M, Tada K, Iwai F, Sakurada M, Hirabayashi S, Nagata K, Shirakawa K, Shindo K, Yasunaga JI, Murakawa Y., Rajapakse V, Pommier Y, Matsuoka M, Takaori-Kondo A.
    HTLV-1 bZIP factor suppresses TDP1 expression through inhibition of NRF-1 in adult T-cell leukemia.
    Scientific Reports. 7:12849 (2017)

  7. Yoshihara M., Hayashizaki Y., Murakawa Y.
    Genomic stability of iPSCs: challenges towards their clinical applications.
    Stem Cell Reviews and Reports 13:7-16 (2016)

  8. Murakawa, Y., Yoshihara, M., Kawaji H., Nishikawa M., Zayed H., Suzuki H.
    Fantom Consortium, Hayashizaki Y. Enhanced identification of transcriptinal enhancers provides mechanistic insights into diseases.
    Trends in Genetics 32:76-88. (2016)

  9. Daniele Hasler D., Lehmann G., Murakawa Y., Klironomos F., Jakob L., Grässer F., Rajewsky N., Landthaler M., Meister G.
    The Lupus autoantigen La prevents mis-channeling of tRNA fragments into the human microRNA pathway.
    Molecular Cell 63:110-124. (2016)

  10. Murakawa, Y., Hinz, M., Mothes, J., Schuetz, A., Yasuda, T., Mastrobuoni, G., Friedel, C.C., Dölken, L., Kempa, S., Schmidt-Supprian, M., Heinemann, U., Wolf, J, Scheidereit, C., Landthaler, M.
    RC3H1 represses the IKK/NF-κB negative feedback regulator A20 by binding to a 3’UTR composite structure-sequence element.
    Nature Communications, 6:7367. (2015)

  11. Mino, T., Murakawa, Y., Fukao, A., Vandenbon, A., Wessels, H., Ori, D., Uehata, T., Tartey, S., Akira, S., Suzuki, Y., Vinueesa, GG., Ohler, U., Standley, DM., Landthaler, M., Fujiwara, T., Takeuchi, O.
    Regnase-1 and Roquin Regulate a Common Element in Inflammatory mRNAs by Spatiotemporally Distinct Mechanisms.
    Cell, 161 1058-1073. (2015)

  12. Kuespert, M., Murakawa, Y., Schäffler, K., Vanselow, J., Wolf, E., Juranek, S., Schlosser, A., Landthaler, M. and Fischer, U.
    LARP4B is an AU-rich sequence associated factor that promotes mRNA accumulation and translation.
    RNA, 21 1294-1305. (2015)

  13. Adachi, S., Murakawa, Y., and Hiraga, S.
    Dynamic nature of SecA and its associated proteins in Escherichia coli.
    Frontiers in Microbiology, 6 75. (2015).

  14. Rybak-Wolf, A.*, Jens, M. *, Murakawa, Y. *, Herzog, M., Landthaler, M., Rajewsky, N.
    A variety of Dicer substrates in human and C.elegans.
    Cell, 159 1153-1167. (2014) (* equally contributing first author)

  15. Schuetz, A., Murakawa, Y., Rosenbaum, E., Landthaler, M., Heinemann, U.
    Roquin binding to stem-loop mRNAs induces protein dimerization and involves a winged helix-turn-helix motif.
    Nature Communications, 5 5701. (2014)

  16. Adachi, S., Murakawa, Y., and Hiraga, S.
    SecA? defects are accompanied by dysregulation of MukB, DNA gyrase, chromosome partitioning and DNA superhelicity in Escherichia coli.
    Microbiology, 160 1648-1658. (2014)

  17. Wang, Y., Gogol-Doring, A., Hu, H., Frohler, S., Ma, Y., Jens, M., Maaskola, J., Murakawa, Y., Quedenau, C., Landthaler, M., Kalscheuer, V., Wieczorek, D., Wang, Y., Hu, Y., Chen, W.
    Integrative analysis revealed the molecular mechanism underlying RBM10-mediated splicing regulation.
    EMBO molecular medicine, 5 1431-1442. (2013)

  18. Liu, Y., Hu, W., Murakawa, Y., Yin, J., Wang, G., Landthaler, M., and Yan, J.
    Cold-induced RNA-binding proteins regulate circadian gene expression by controlling alternative polyadenylation.
    Scientific reports, 3 2054. (2013)

  19. Baltz, AG., Munschauer, M., Schwanhäusser, B., Vasile, A., Murakawa, Y., Schueler, M., Youngs, N., Penfold-Brown, D., Drew, K., Milek, M., Wyler, E., Bonneau, R., Selbach, M., Dieterich, C., Landthaler, M.
    The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts.
    Molecular Cell, 46 674-690. (2012)

  20. Murakawa, Y., Miyagawa-Hayashino, A., Ogura, Y., Egawa, H., Okamoto, S., Soejima, Y., Kurosawa, M., Sumiyoshi, S., Uemoto, S., and Haga, H.
    Liver transplantation for severe hepatitis in patients with common variable immunodeficiency.
    Pediatric transplantation, 16, E210-216. (2012)

  21. Motegi, A., Murakawa, Y., and Takeda, S.
    The vital link between the ubiquitin-proteasome pathway and DNA repair: impact on cancer therapy.
    Cancer letters, 283, 1-9. (2009)

  22. Murakawa, Y., Sonoda, E., Barber, L.J., Zeng, W., Yokomori, K., Kimura, H., Niimi, A., Lehmann, A., Zhao, G.Y., Hochegger, H., Boulton, SJ., Takeda, S.
    Inhibitors of the proteasome suppress homologous DNA recombination in mammalian cells.
    Cancer research, 67, 8536-8543. (2007)

  23. Zhao, G.Y., Sonoda, E., Barber, L.J., Oka, H., Murakawa, Y., Yamada, K., Ikura, T., Wang, X., Kobayashi, M., Yamamoto, K., Boulton, S.J., Takeda, S.
    A critical role for the ubiquitin-conjugating enzyme Ubc13 in initiating homologous recombination.
    Molecular Cell, 25, 663-675. (2007)

  24. Saberi A., Hochegger H., Szuts D., Lan L., Yasui A., Sale J.E., Taniguchi Y., Murakawa Y., Zeng W., Yokomori K., Helleday T., Teraoka H., Arakawa H., Buerstedde J.M., Takeda S.
    RAD18 and poly(ADP-ribose) polymerase independently suppress the access of nonhomologous end joining to double-strand breaks and facilitate homologous recombination-mediated repair.
    Molecular and cellular biology, 27, 2562-2571. (2007)
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