All Publication List (since 1990)

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    2017


  1. Kline AD, Krantz ID, Deardorff MA, Shirahige K, Dorsett D, Gerton JL, Wu M, Mehta D, Mills JA, Carrico CS, Noon S, Herrera PS, Horsfield JA, Bettale C, Morgan J, Huisman SA, Moss J, McCleery J, Grados M, Hansen BD, Srivastava S, Taylor-Snell E, Kerr LM, Katz O, Calof AL, Musio A, Egense A, Haaland RE.

        Cornelia de Lange syndrome and molecular implications of the cohesin complex: Abstracts from the 7th biennial scientific and educational symposium 2016.
        Am J Med Genet A.2017 Feb 12. doi: 10.1002/ajmg.a.38161. [Epub ahead of print] [PubMed]

  2. ↑Back to menu


    2016


  3. Sakata T, Shirahige K, Sutani T.

        ChIP-seq Analysis of Condensin Complex in Cultured Mammalian Cells.
        Methods Mol Biol.2016 Oct 29;1515:257-71. doi: 10.1007/978-1-4939-6545-8_16. [PubMed]

  4. Abrignani S, Adams D, de Almeida M, Altucci L, Amin V, Amit I, Antonarakis SE, Aparicio S, Arima T, Arrigoni L, Arts R, Asnafi V, Esteller M, Bae JB, Bassler K, Beck S, Berkman B, Bernstein BE, Bilenky M, Bird A, Bock C, Boehm B, Bourque G, Breeze CE, Brors B, Bujold D, Burren O, Bussemakers MJ, Butterworth A, Campo E, Carrillo-de-Santa-Pau E, Chadwick L, Chan KM, Chen W, Cheung TH, Chiapperino L, Choi NH, Chung HR, Clarke L, Connors JM, Cronet P, Danesh J, Dermitzakis M, Drewes G, Durek P, Dyke S, Dylag T, Eaves CJ, Ebert P, Eils R, Eils J, Ennis CA, Enver T, Feingold EA, Felder B, Ferguson-Smith A, Fitzgibbon J, Flicek P, Foo RS, Fraser P, Frontini M, Furlong E, Gakkhar S, Gasparoni N, Gasparoni G, Geschwind DH, Glažar P, Graf T, Grosveld F, Guan XY, Guigo R, Gut IG, Hamann A, Han BG, Harris RA, Heath S, Helin K, Hengstler JG, Heravi-Moussavi A, Herrup K, Hill S, Hilton JA, Hitz BC, Horsthemke B, Hu M, Hwang JY, Ip NY, Ito T, Javierre BM, Jenko S, Jenuwein T, Joly Y, Jones SJ, Kanai Y, Kang HG, Karsan A, Kiemer AK, Kim SC, Kim BJ, Kim HH, Kimura H, Kinkley S, Klironomos F, Koh IU, Kostadima M, Kressler C, Kreuzhuber R, Kundaje A, Küppers R, Larabell C, Lasko P, Lathrop M, Lee DH, Lee S, Lehrach H, Leitão E, Lengauer T, Lernmark Å, Leslie RD, Leung GK, Leung D, Loeffler M, Ma Y, Mai A, Manke T, Marcotte ER, Marra MA, Martens JH, Martin-Subero JI, Maschke K, Merten C, Milosavljevic A, Minucci S, Mitsuyama T, Moore RA, Müller F, Mungall AJ, Netea MG, Nordström K, Norstedt I, Okae H, Onuchic V, Ouellette F, Ouwehand W, Pagani M, Pancaldi V, Pap T, Pastinen T, Patel R, Paul DS, Pazin MJ, Pelicci PG, Phillips AG, Polansky J, Porse B, Pospisilik JA, Prabhakar S, Procaccini DC, Radbruch A, Rajewsky N, Rakyan V, Reik W, Ren B, Richardson D, Richter A, Rico D, Roberts DJ, Rosenstiel P, Rothstein M, Salhab A, Sasaki H, Satterlee JS, Sauer S, Schacht C, Schmidt F, Schmitz G, Schreiber S, Schröder C, Schübeler D, Schultze JL, Schulyer RP, Schulz M, Seifert M, Shirahige K, Siebert R, Sierocinski T, Siminoff L, Sinha A, Soranzo N, Spicuglia S, Spivakov M, Steidl C, Strattan JS, Stratton M, Südbeck P, Sun H, Suzuki N, Suzuki Y, Tanay A, Torrents D, Tyson FL, Ulas T, Ullrich S, Ushijima T, Valencia A, Vellenga E, Vingron M, Wallace C, Wallner S, Walter J, Wang H, Weber S, Weiler N, Weller A, Weng A, Wilder S, Wiseman SM, Wu AR, Wu Z, Xiong J, Yamashita Y, Yang X, Yap DY, Yip KY, Yip S, Yoo JI, Zerbino D, Zipprich G.

        The International Human Epigenome Consortium: A Blueprint for Scientific Collaboration and Discovery.
        Cell.2016 Nov 17;167(5):1145-1149. doi: 10.1016/j.cell.2016.11.007. [PubMed]

  5. Nishi E, Masuda K, Arakawa M, Kawame H, Kosho T, Kitahara M, Kubota N, Hidaka E, Katoh Y, Shirahige K, Izumi K.

        Exome sequencing-based identification of mutations in non-syndromic genes among individuals with apparently syndromic features.
        Am J Med Genet A.2016 Aug 26;170(11):2889-2894. doi: 10.1002/ajmg.a.37826. [PubMed]

  6. Taniue K, Kurimoto A, Takeda Y, Nagashima T, Okada-Hatakeyama M, Katou Y, Shirahige K, Akiyama T.

        ASBEL-TCF3 complex is required for the tumorigenicity of colorectal cancer cells.
        Proc Natl Acad Sci U S A.2016 Oct 21;pii: 201605938. [Epub ahead of print] [PubMed]

  7. Abe T, Kawasumi R, Arakawa H, Hori T, Shirahige K, Losada A, Fukagawa T, Branzei D.

        Chromatin determinants of the inner-centromere rely on replication factors with functions that impart cohesion.
        Oncotarget.2016 Oct 18;7(42):67934-67947. doi: 10.18632/oncotarget.11982. [PubMed]

  8. Kawasaki Y, Komiya M, Matsumura K, Negishi L, Suda S, Okuno M, Yokota N, Osada T, Nagashima T, Hiyoshi M, Okada-Hatakeyama M, Kitayama J, Shirahige K, Akiyama T.

        MYU, a Target lncRNA for Wnt/c-Myc Signaling, Mediates Induction of CDK6 to Promote Cell Cycle Progression.
        Cell Rep.2016 Sep 6;16(10):2554-64. doi: 10.1016/j.celrep.2016.08.015. [PubMed]

  9. Pakchuen S, Ishibashi M, Takakusagi E, Shirahige K, Sutani T.

        Physical Association of Saccharomyces cerevisiae Polo-like Kinase Cdc5 with Chromosomal Cohesin Facilitates DNA Damage Response.
        J Biol Chem.2016 Aug 12;291(33):17228-46. doi: 10.1074/jbc.M116.727438. [PubMed]

  10. Izumi K, Brett M, Nishi E, Drunat S, Tan ES, Fujiki K, Lebon S, Cham B, Masuda K, Arakawa M, Jacquinet A, Yamazumi Y, Chen ST, Verloes A, Okada Y, Katou Y, Nakamura T, Akiyama T, Gressens P, Foo R, Passemard S, Tan EC, El Ghouzzi V, Shirahige K.

        ARCN1 Mutations Cause a Recognizable Craniofacial Syndrome Due to COPI-Mediated Transport Defects.
        Am J Hum Genet.2016 Aug 4;99(2):451-9. doi: 10.1016/j.ajhg.2016.06.011. [PubMed]

  11. Sutani T, Shirahige K.

        Attaching Accessory Devices to the Replisome.
        Mol Cell.2016 Aug 4;63(3):347-8. doi: 10.1016/j.molcel.2016.07.017. [PubMed]

  12. Koya J, Kataoka K, Sato T, Bando M, Kato Y, Tsuruta-Kishino T, Kobayashi H, Narukawa K, Miyoshi H, Shirahige K, Kurokawa M.

        DNMT3A R882 mutants interact with polycomb proteins to block haematopoietic stem and leukaemic cell differentiation.
        Nat Commun.2016 Mar 24;7:10924. doi: 10.1038/ncomms10924. [PubMed]

  13. Nakato R, Shirahige K.

        Recent advances in ChIP-seq analysis: from quality management to whole-genome annotation.
        Brief Bioinform.2016 Mar 15. pii: bbw023. [Epub ahead of print] [PubMed]

  14. Fujiki K, Shirahige K, Kaur M, Deardorff MA, Conlin LK, Krantz ID, Izumi K.

        Mosaic ratio quantification of isochromosome 12p in Pallister-Killian syndrome using droplet digital PCR.
        Mol Genet Genomic Med.2016 Jan 20;4(3):257-61. doi: 10.1002/mgg3.200. [PubMed]

  15. ↑Back to menu


    2015


  16. Leonard J, Sen N, Torres R, Sutani T, Jarmuz A, Shirahige K, Aragón L.

        Condensin Relocalization from Centromeres to Chromosome Arms Promotes Top2 Recruitment during Anaphase.
        Cell Rep.2015 Dec 22;13(11):2336-44. doi: 10.1016/j.celrep.2015.11.041. [PubMed]

  17. Yoshida K, Renard-Guillet C, Inoue K, Shirahige K, Okada-Hatakeyama M, Ishii S.

        Microarray expression analysis of genes involved in innate immune memory in peritoneal macrophages.
        Genom Data.2015 Dec 1;7:90-1. doi: 10.1016/j.gdata.2015.11.028. [PubMed]

  18. Kanoh Y, Matsumoto S, Fukatsu R, Kakusho N, Kono N, Renard-Guillet C, Masuda K, Iida K, Nagasawa K, Shirahige K, Masai H.

        Rif1 binds to G quadruplexes and suppresses replication over long distances.
        Nat Struct Mol Biol.2015 Nov;22(11):889-97. doi: 10.1038/nsmb.3102. [PubMed]

  19. Yoshida K, Maekawa T, Zhu Y, Renard-Guillet C, Chatton B, Inoue K, Uchiyama T, Ishibashi K, Yamada T, Ohno N, Shirahige K, Okada-Hatakeyama M, Ishii S.

        The transcription factor ATF7 mediates lipopolysaccharide-induced epigenetic changes in macrophages involved in innate immunological memory.
        Nat Immunol.2015 Oct;16(10):1034-43. doi: 10.1038/ni.3257. [PubMed]

  20. Chen ST, Okada M, Nakato R, Izumi K, Bando M, Shirahige K.

        The Deubiquitinating Enzyme USP7 Regulates Androgen Receptor Activity by Modulating Its Binding to Chromatin.
        J Biol Chem.2015 Aug 28;290(35):21713-23. doi: 10.1074/jbc.M114.628255. [PubMed]

  21. Balint A, Kim T, Gallo D, Cussiol JR, Bastos de Oliveira FM, Yimit A, Ou J, Nakato R, Gurevich A, Shirahige K, Smolka MB, Zhang Z, Brown GW.

        Assembly of Slx4 signaling complexes behind DNA replication forks.
        EMBO J.2015 Aug 13;34(16):2182-97. doi: 10.15252/embj.201591190. [PubMed]

  22. Kubota T, Katou Y, Nakato R, Shirahige K, Donaldson AD.

        Replication-Coupled PCNA Unloading by the Elg1 Complex Occurs Genome-wide and Requires Okazaki Fragment Ligation.
        Cell Rep.2015 Aug 4;12(5):774-87. doi: 10.1016/j.celrep.2015.06.066. [PubMed]

  23. Sutani T, Sakata T, Nakato R, Masuda K, Ishibashi M, Yamashita D, Suzuki Y, Hirano T, Bando M, Shirahige K.

        Condensin targets and reduces unwound DNA structures associated with transcription in mitotic chromosome condensation.
        Nat Commun.2015 Jul 23;6:7815. doi: 10.1038/ncomms8815. [PubMed] [Overview]

  24. Ikeda A, Muneoka T, Murakami S, Hirota A, Yabuki Y, Karashima T, Nakazono K, Tsuruno M, Pichler H, Shirahige K, Kodama Y, Shimamoto T, Mizuta K, Funato K.

        Sphingolipids regulate telomere clustering by affecting the transcription of genes involved in telomere homeostasis.
        J Cell Sci.2015 Jul 15;128(14):2454-67. doi: 10.1242/jcs.164160. Epub 2015 Jun 4. [PubMed]

  25. Masuda K, Akiyama K, Arakawa M, Nishi E, Kitazawa N, Higuchi T, Katou Y, Shirahige K, Izumi K.

        Exome Sequencing Identification of EP300 Mutation in a Proband with Coloboma and Imperforate Anus: Possible Expansion of the Phenotypic Spectrum of Rubinstein-Taybi Syndrome.
        Mol Syndromol. 2015 Jul;6(2):99-103. doi: 10.1159/000375542. Epub 2015 Mar 3. [PubMed]

  26. Minamino M, Ishibashi M, Nakato R, Akiyama K, Tanaka H, Kato Y, Negishi L, Hirota T, Sutani T, Bando M, Shirahige K.

        Esco1 Acetylates Cohesin via a Mechanism Different from That of Esco2.
        Curr Biol.2015 Jun 29;25(13):1694-706. doi: 10.1016/j.cub.2015.05.017. Epub 2015 Jun 4. [PubMed] [Overview]

  27. Izumi K, Kellogg E, Fujiki K, Kaur M, Tilton RK, Noon S, Wilkens A, Shirahige K, Krantz ID.

        Elevation of insulin-like growth factor binding protein-2 level in Pallister-Killian syndrome: implications for the postnatal growth retardation phenotype.
        Am J Med Genet A.2015 Jun;167(6):1268-74. doi: 10.1002/ajmg.a.36976. [PubMed]

  28. Kline AD, Calof AL, Lander AD, Gerton JL, Krantz ID, Dorsett D, Deardorff MA, Blagowidow N, Yokomori K, Shirahige K, Santos R, Woodman J, Megee PC, O'Connor JT, Egense A, Noon S, Belote M, Goodban MT, Hansen BD, Timmons JG, Musio A, Ishman SL, Bryan Y, Wu Y, Bettini LR, Mehta D, Zakari M, Mills JA, Srivastava S, Haaland RE.

        Clinical, developmental and molecular update on Cornelia de Lange syndrome and the cohesin complex: abstracts from the 2014 Scientific and Educational Symposium.
        Am J Med Genet A.2015 Jun;167(6):1179-92. doi: 10.1002/ajmg.a.37056. [PubMed]

  29. Kurimoto K, Yabuta Y, Hayashi K, Ohta H, Kiyonari H, Mitani T, Moritoki Y, Kohri K, Kimura H, Yamamoto T, Katou Y, Shirahige K, Saitou M.

        Quantitative Dynamics of Chromatin Remodeling during Germ Cell Specification from Mouse Embryonic Stem Cells.
        Cell Stem Cell.2015 Mar 18. pii: S1934-5909(15)00113-7. doi: 10.1016/j.stem.2015.03.002. [Epub ahead of print] [PubMed]

  30. Tsujioka H, Kunieda T, Katou Y, Shirahige K, Kubo T.

        Unique Gene Expression Profile of the Proliferating Xenopus Tadpole Tail Blastema Cells Deciphered by RNA-Sequencing Analysis.
        PLoS One.2015 Mar 16;10(3):e0111655. doi: 10.1371/journal.pone.0111655. eCollection 2015. [PubMed]

  31. Izumi K, Nakato R, Zhang Z, Edmondson AC, Noon S, Dulik MC, Rajagopalan R, Venditti CP, Gripp K, Samanich J, Zackai EH, Deardorff MA, Clark D, Allen JL, Dorsett D, Misulovin Z, Komata M, Bando M, Kaur M, Katou Y, Shirahige K, Krantz ID.

        Germline gain-of-function mutations in AFF4 cause a developmental syndrome functionally linking the super elongation complex and cohesin.
        Nat Genet.2015 Mar 2. doi: 10.1038/ng.3229. [Epub ahead of print] [PubMed] [Overview]

  32. Park SJ, Shirahige K, Ohsugi M, Nakai K.

        DBTMEE: a database of transcriptome in mouse early embryos.
        Nucleic Acids Res.2015 Jan;43(Database issue):D771-6. doi: 10.1093/nar/gku1001. Epub 2014 Oct 21. [PubMed]

  33. Takii R, Fujimoto M, Tan K, Takaki E, Hayashida N, Nakato R, Shirahige K, Nakai A.

        ATF1 modulates the heat shock response by regulating the stress-inducible heat shock factor 1 transcription complex.
        Mol Cell Biol.2015 Jan;35(1):11-25. doi: 10.1128/MCB.00754-14. Epub 2014 Oct 13. [PubMed]

  34. ↑Back to menu


    2014


  35. Jeppsson K, Carlborg KK, Nakato R, Berta DG, Lilienthal I, Kanno T, Lindqvist A, Brink MC, Dantuma NP, Katou Y, Shirahige K, Sjögren C.

        The chromosomal association of the Smc5/6 complex depends on cohesion and predicts the level of sister chromatid entanglement.
        PLoS Genet.2014 Oct 16;10(10):e1004680. doi: 10.1371/journal.pgen.1004680. eCollection 2014 Oct. [PubMed]

  36. Takai H, Masuda K, Sato T, Sakaguchi Y, Suzuki T, Suzuki T, Koyama-Nasu R, Nasu-Nishimura Y, Katou Y, Ogawa H, Morishita Y, Kozuka-Hata H, Oyama M, Todo T, Ino Y, Mukasa A, Saito N, Toyoshima C, Shirahige K, Akiyama T.

        5-Hydroxymethylcytosine plays a critical role in glioblastomagenesis by recruiting the CHTOP-methylosome complex.
        Cell Rep.2014 Oct 9;9(1):48-60. doi: 10.1016/j.celrep.2014.08.071. Epub 2014 Oct 2. [PubMed]

  37. Jeppsson K, Kanno T, Shirahige K, Sjögren C.

        The maintenance of chromosome structure: positioning and functioning of SMC complexes.
        Nat Rev Mol Cell Biol.2014 Sep;15(9):601-14. doi: 10.1038/nrm3857. Review. [PubMed]

  38. Suda N, Itoh T, Nakato R, Shirakawa D, Bando M, Katou Y, Kataoka K, Shirahige K, Tickle C, Tanaka M.

        Dimeric combinations of MafB, cFos and cJun control the apoptosis-survival balance in limb morphogenesis.
        Development.2014 Jul;141(14):2885-94. doi: 10.1242/dev.099150. [PubMed]

  39. Komata M, Katou Y, Tanaka H, Nakato R, Shirahige K, Bando M.

        Chromatin immunoprecipitation protocol for mammalian cells.
        Methods Mol Biol.2014;1164:33-8. doi: 10.1007/978-1-4939-0805-9_4. [PubMed]

  40. Yata K, Bleuyard JY, Nakato R, Ralf C, Katou Y, Schwab RA, Niedzwiedz W, Shirahige K, Esashi F.

        BRCA2 coordinates the activities of cell-cycle kinases to promote genome stability.
        Cell Rep.2014 Jun 12;7(5):1547-59. doi: 10.1016/j.celrep.2014.04.023. Epub 2014 May 15. [PubMed]

  41. Renard-Guillet C, Kanoh Y, Shirahige K, Masai H.

        Temporal and spatial regulation of eukaryotic DNA replication: from regulated initiation to genome-scale timing program.
        Semin Cell Dev Biol.2014 Jun;30:110-20. doi: 10.1016/j.semcdb.2014.04.014. Epub 2014 Apr 13. Review. [PubMed]

  42. Aoi Y, Sato M, Sutani T, Shirahige K, Kapoor TM, Kawashima SA.

        Dissecting the first and the second meiotic divisions using a marker-less drug-hypersensitive fission yeast.
        Cell Cycle.2014;13(8):1327-34. doi: 10.4161/cc.28294. Epub 2014 Mar 3. [PubMed]

  43. Murakami-Tonami Y, Kishida S, Takeuchi I, Katou Y, Maris JM, Ichikawa H, Kondo Y, Sekido Y, Shirahige K, Murakami H, Kadomatsu K.

        Inactivation of SMC2 shows a synergistic lethal response in MYCN-amplified neuroblastoma cells.
        Cell Cycle.2014;13(7):1115-31. doi: 10.4161/cc.27983. Epub 2014 Feb 7. [PubMed]

  44. Shinagawa T, Takagi T, Tsukamoto D, Tomaru C, Huynh LM, Sivaraman P, Kumarevel T, Inoue K, Nakato R, Katou Y, Sado T, Takahashi S, Ogura A, Shirahige K, Ishii S.

        Histone variants enriched in oocytes enhance reprogramming to induced pluripotent stem cells.
        Cell Stem Cell.2014 Feb 6;14(2):217-27. doi: 10.1016/j.stem.2013.12.015. [PubMed]

  45. Suzuki T, Muto N, Bando M, Itoh Y, Masaki A, Ri M, Ota Y, Nakagawa H, Iida S, Shirahige K, Miyata N.

        Design, Synthesis, and Biological Activity of NCC149 Derivatives as Histone Deacetylase 8-Selective Inhibitors.
        ChemMedChem. 2014 Jan 8. doi: 10.1002/cmdc.201300414. [PubMed]

  46. Kaiser FJ, Ansari M, Braunholz D, Concepción Gil-Rodríguez M, Decroos C, Wilde JJ, Fincher CT, Kaur M, Bando M, Amor DJ, Atwal PS, Bahlo M, Bowman CM, Bradley JJ, Brunner HG, Clark D, Del Campo M, Di Donato N, Diakumis P, Dubbs H, Dyment DA, Eckhold J, Ernst S, Ferreira JC, Francey LJ, Gehlken U, Guillén-Navarro E, Gyftodimou Y, Hall BD, Hennekam R, Hudgins L, Hullings M, Hunter JM, Yntema H, Innes AM, Kline AD, Krumina Z, Lee H, Leppig K, Lynch SA, Mallozzi MB, Mannini L, McKee S, Mehta SG, Micule I; Care4Rare Canada Consortium, Mohammed S, Moran E, Mortier GR, Moser JA, Noon SE, Nozaki N, Nunes L, Pappas JG, Penney LS, Pérez-Aytés A, Petersen MB, Puisac B, Revencu N, Roeder E, Saitta S, Scheuerle AE, Schindeler KL, Siu VM, Stark Z, Strom SP, Thiese H, Vater I, Willems P, Williamson K, Wilson LC; University of Washington Center for Mendelian Genomics, Hakonarson H, Quintero-Rivera F, Wierzba J, Musio A, Gillessen-Kaesbach G, Ramos FJ, Jackson LG, Shirahige K, Pié J, Christianson DW, Krantz ID, Fitzpatrick DR, Deardorff MA..

        Loss-of-function HDAC8 mutations cause a phenotypic spectrum of Cornelia de Lange syndrome-like features, ocular hypertelorism, large fontanelle and X-linked inheritance.
        Hum Mol Genet. 2014 Jan 31. [PubMed]

  47. ↑Back to menu


    2013-1990


  48. Park SJ, Komata M, Inoue F, Yamada K, Nakai K, Ohsugi M, Shirahige K.

        Inferring the choreography of parental genomes during fertilization from ultralarge-scale whole-transcriptome analysis.
        Genes Dev. 2013 Dec 15;27(24):2736-48. doi: 10.1101/gad.227926.113. [PubMed]

  49. Aramaki S, Hayashi K, Kurimoto K, Ohta H, Yabuta Y, Iwanari H, Mochizuki Y, Hamakubo T, Kato Y, Shirahige K, Saitou M.

        A mesodermal factor, T, specifies mouse germ cell fate by directly activating germline determinants.
        Dev Cell. 2013 Dec 9;27(5):516-29. doi: 10.1016/j.devcel.2013.11.001. [PubMed]

  50. Hattori Y, Usui T, Satoh D, Moriyama S, Shimono K, Itoh T, Shirahige K, Uemura T.

        Sensory-Neuron Subtype-Specific Transcriptional Programs Controlling Dendrite Morphogenesis: Genome-wide Analysis of Abrupt and Knot/Collier.
        Dev Cell. 2013 Dec 9;27(5):530-44. doi: 10.1016/j.devcel.2013.10.024. Epub 2013 Nov 27. [PubMed]

  51. Gallego-Paez LM, Tanaka H, Bando M, Takahashi M, Nozaki N, Nakato R, Shirahige K, Hirota T.

        Smc5/6-mediated regulation of replication progression contributes to chromosome assembly during mitosis in human cells.
        Mol Biol Cell.2013 Nov 20. [PubMed]

  52. Muller CA, Hawkins M, Retkute R, Malla S, Wilson R, Blythe MJ, Nakato R, Komata M, Shirahige K, de Moura AP, Nieduszynski CA.

        The dynamics of genome replication using deep sequencing.
        Nucleic Acids Res.2013 Oct 1. [Epub ahead of print] [PubMed]

  53. Kon A, Shih LY, Minamino M, Sanada M, Shiraishi Y, Nagata Y, Yoshida K, Okuno Y, Bando M, Nakato R, Ishikawa S, Sato-Otsubo A, Nagae G, Nishimoto A, Haferlach C, Nowak D, Sato Y, Alpermann T, Nagasaki M, Shimamura T, Tanaka H, Chiba K, Yamamoto R, Yamaguchi T, Otsu M, Obara N, Sakata-Yanagimoto M, Nakamaki T, Ishiyama K, Nolte F, Hofmann WK, Miyawaki S, Chiba S, Mori H, Nakauchi H, Koeffler HP, Aburatani H, Haferlach T, Shirahige K, Miyano S, Ogawa S.

        Recurrent mutations in multiple components of the cohesin complex in myeloid neoplasms.
        Nat Genet.2013 Oct;45(10):1232-7. doi: 10.1038/ng.2731. Epub 2013 Aug 18. [PubMed]

  54. Fujiki K, Shinoda A, Kano F, Sato R, Shirahige K, Murata M.

        PPARγ-induced PARylation promotes local DNA demethylation by production of 5-hydroxymethylcytosine.
        Nat Commun.2013;4:2262. doi: 10.1038/ncomms3262. [PubMed]

  55. Chan KL, Gligoris T, Upcher W, Kato Y, Shirahige K, Nasmyth K, Beckouet F.

        Pds5 promotes and protects cohesin acetylation.
        Proc Natl Acad Sci U S A.2013 Jul 18;110(32):13020-5. doi: 10.1073/pnas.1306900110. Epub 2013 Jul 22. [PubMed]

  56. Natsume T, Muller CA, Katou Y, Retkute R, Gierli?ski M, Araki H, Blow JJ, Shirahige K, Nieduszynski CA, Tanaka TU.

        Kinetochores coordinate pericentromeric cohesion and early DNA replication by cdc7-dbf4 kinase recruitment.
        Mol Cell. 2013 Jun 6;50(5):661-74. doi: 10.1016/j.molcel.2013.05.011. [PubMed]

  57. Koyama-Nasu R, Haruta R, Nasu-Nishimura Y, Taniue K, Katou Y, Shirahige K, Todo T, Ino Y, Mukasa A, Saito N, Matsui M, Takahashi R, Hoshino-Okubo A, Sugano H, Manabe E, Funato K, Akiyama T.

        The pleiotrophin-ALK axis is required for tumorigenicity of glioblastoma stem cells.
        Oncogene. 2013 May 20. doi: 10.1038/onc.2013.168. [PubMed]

  58. Nakato R, Itoh T, Shirahige K.

        DROMPA: easy-to-handle peak calling and visualization software for the computational analysis and validation of ChIP-seq data.
        Genes Cells. 2013 Jul;18(7):589-601. doi: 10.1111/gtc.12058. Epub 2013 May 15. [PubMed]

  59. Foltman M, Evrin C, De Piccoli G, Jones RC, Edmondson RD, Katou Y, Nakato R, Shirahige K, Labib K.

        Eukaryotic Replisome Components Cooperate to Process Histones During Chromosome Replication.
        Cell Rep.2013 Mar 28;3(3):892-904. doi: 10.1016/j.celrep.2013.02.028. Epub 2013 Mar 14. [PubMed]

  60. Yamaji M, Ueda J, Hayashi K, Ohta H, Yabuta Y, Kurimoto K, Nakato R, Yamada Y, Shirahige K, Saitou M.

        PRDM14 Ensures Naive Pluripotency through Dual Regulation of Signaling and Epigenetic Pathways in Mouse Embryonic Stem Cells.
        Cell Stem Cell. 2013 Jan 15. doi:pii: S1934-5909(12)00754-0. 10.1016/j.stem.2012.12.012. [PubMed]

  61. Enervald E, Lindgren E, Katou Y, Shirahige K, Strom L.

        Importance of Polη for damage-induced cohesion reveals differential regulation of cohesion establishment at the break site and genome-wide.
        PLoS Genet. 2013 Jan;9(1):e1003158. doi: 10.1371/journal.pgen.1003158. Epub 2013 Jan 10. [PubMed]

  62. Suzuki T, Ota Y, Ri M, Bando M, Gotoh A, Itoh Y, Tsumoto H, Tatum PR, Mizukami T, Nakagawa H, Iida S, Ueda R, Shirahige K, Miyata N.
        Rapid discovery of highly potent and selective inhibitors of histone deacetylase 8 using click chemistry to generate candidate libraries.
        J Med Chem. 2012 Nov 26;55(22):9562-75. doi: 10.1021/jm300837y. Epub 2012 Nov 12. [PubMed]

  63. Tazumi A, Fukuura M, Nakato R, Kishimoto A, Takenaka T, Ogawa S, Song JH, Takahashi TS, Nakagawa T, Shirahige K, Masukata H.
        Telomere-binding protein Taz1 controls global replication timing through its localization near late replication origins in fission yeast.
        Genes Dev.2012 Sep 15;26(18):2050-62. doi: 10.1101/gad.194282.112. [PubMed]

  64. Song J, Lafont A, Chen J, Wu FM, Shirahige K, Rankin S.
        Cohesin acetylation promotes sister chromatid cohesion only in association with the replication machinery.
        J Biol Chem. 2012 Oct 5;287(41):34325-36. doi: 10.1074/jbc.M112.400192. Epub 2012 Aug 15. [PubMed]

  65. Deardorff MA, Bando M, Nakato R, Watrin E, Itoh T, Minamino M, Saitoh K, Komata M, Katou Y, Clark D, Cole KE, De Baere E, Decroos C, Di Donato N, Ernst S, Francey LJ, Gyftodimou Y, Hirashima K, Hullings M, Ishikawa Y, Jaulin C, Kaur M, Kiyono T, Lombardi PM, Magnaghi-Jaulin L, Mortier GR, Nozaki N, Petersen MB, Seimiya H, Siu VM, Suzuki Y, Takagaki K, Wilde JJ, Willems PJ, Prigent C, Gillessen-Kaesbach G, Christianson DW, Kaiser FJ, Jackson LG, Hirota T, Krantz ID, Shirahige K.
        HDAC8 mutations in Cornelia de Lange syndrome affect the cohesin acetylation cycle.
        Nature.2012 Sep 13;489(7415):313-7. [PubMed]

  66. Higashi TL, Ikeda M, Tanaka H, Nakagawa T, Bando M, Shirahige K, Kubota Y, Takisawa H, Masukata H, Takahashi TS.
        The prereplication complex recruits XEco2 to chromatin to promote cohesin acetylation in Xenopus egg extracts.
         Curr Biol. 2012 Jun 5;22(11):977-88. Epub 2012 May 3. [PubMed]

  67. De Piccoli G, Katou Y, Itoh T, Nakato R, Shirahige K, Labib K.
        Replisome stability at defective DNA replication forks is independent of S phase checkpoint kinases.
         Mol Cell. 2012 Mar 9;45(5):696-704. Epub 2012 Feb 9. [PubMed]

  68. Bustard DE, Menolfi D, Jeppsson K, Ball LG, Dewey SC, Shirahige K, Sjogren C, Branzei D, Cobb JA.
        During replication stress Non-Smc-Element 5 is required for Smc5/6 complex functionality at stalled forks.
        J Biol Chem. 2012 Feb 9. [PubMed]

  69. Hayano M, Kanoh Y, Matsumoto S, Renard-Guillet C, Shirahige K, Masai H.
        Rif1 is a global regulator of timing of replication origin firing in fission yeast.
        Genes Dev. 2012 Jan 15;26(2):137-50. [PubMed]

  70. Davidson MB, Katou Y, Keszthelyi A, Sing TL, Xia T, Ou J, Vaisica JA, Thevakumaran N, Marjavaara L, Myers CL, Chabes A, Shirahige K, Brown GW.
        Endogenous DNA replication stress results in expansion of dNTP pools and a mutator phenotype.
        EMBO J.2012 Jan 10;31(4):895-907. doi: 10.1038/emboj.2011.485. [PubMed]

  71. Tanaka S, Nakato R, Katou Y, Shirahige K, Araki H.
        Origin association of sld3, sld7, and cdc45 proteins is a key step for determination of origin-firing timing.
         Curr Biol. 2011 Dec 20;21(24):2055-63. Epub 2011 Dec 8.

  72. Kagami A, Sakuno T, Yamagishi Y, Ishiguro T, Tsukahara T, Shirahige K, Tanaka K, Watanabe Y.
        Acetylation regulates monopolar attachment at multiple levels during meiosis I in fission yeast.
        EMBO Rep.2011 Oct 28;12(11):1189-95. doi: 10.1038/embor.2011.188.

  73. Panizza S, Mendoza MA, Berlinger M, Huang L, Nicolas A, Shirahige K, Klein F.
        Spo11-accessory proteins link double-strand break sites to the chromosome axis in early meiotic recombination.
        Cell.2011 Aug 5;146(3):372-83.

  74. Bermejo R, Capra T, Jossen R, Colosio A, Frattini C, Carotenuto W, Cocito A, Doksani Y, Klein H, Gomez-Gonzalez B, Aguilera A, Katou Y, Shirahige K, Foiani M.
        The replication checkpoint protects fork stability by releasing transcribed genes from nuclear pores.
        Cell.2011 Jul 22;146(2):233-46.

  75. Gomez-Gonzalez B, Garcia-Rubio M, Bermejo R, Gaillard H, Shirahige K, Marin A, Foiani M, Aguilera A.
        Genome-wide function of THO/TREX in active genes prevents R-loop-dependent replication obstacles.
        EMBO J.2011 Jun 24;30 (15):3106-19. doi: 10.1038/emboj.2011.206.

  76. Leung GP, Lee L, Schmidt TI, Shirahige K, Kobor MS.
        Rtt107 is required for recruitment of the SMC5/6 complex to DNA double strand breaks.
        J Biol Chem.2011 Jul 22;286(29):26250-7. Epub 2011 Jun 3.

  77. Kegel A, Betts-Lindroos H, Kanno T, Jeppsson K, Strom L, Katou Y, Itoh T, Shirahige K, Sjogren C.
        Chromosome length influences replication-induced topological stress.
        Nature.2011 Mar 17;471(7338):392-6. Epub 2011 Mar 2.

  78. Hu B, Itoh T, Mishra A, Katoh Y, Chan KL, Upcher W, Godlee C, Roig MB, Shirahige K, Nasmyth K.
        ATP hydrolysis is required for relocating cohesin from sites occupied by its Scc2/4 loading complex.
        Curr Biol. 2011 Jan 11;21(1):12-24. Epub 2010 Dec 23.

  79. Maruyama H, Shin M, Oda T, Matsumi R, Ohniwa RL, Itoh T, Shirahige K, Imanaka T, Atomi H, Yoshimura SH, Takeyasu K.
        Histone and TK0471/TrmBL2 form a novel heterogeneous genome architecture in the hyperthermophilic archaeon Thermococcus kodakarensis.
        Mol Biol Cell. 2011 Feb 1;22(3):386-98.

  80. Kurze A, Michie KA, Dixon SE, Mishra A, Itoh T, Khalid S, Strmecki L, Shirahige K, Haering CH, Lowe J, Nasmyth K.
        A positively charged channel within the Smc1/Smc3 hinge required for sister chromatid cohesion.
        EMBO J.2011 Jan 19;30(2):364-78. Epub 2010 Dec 7.

  81. K. Ohtsuki, K. Kasahara, K. Shirahige, and T. Kokubo.
        Genome-wide localization analysis of a complete set of Tafs reveals a specific effect of the taf1 mutation on Taf2 occupancy and provides indirect evidence for different TFIID conformations at different promoters.
        Nucleic Acids Res. 38, 1805-1820 (2010).

  82. A. Mishra, B. Hu, F. Beckouet, A. F. Kurze, A. M. Farcas, S.E. Dixon, Y. Katou, S. Khalid, K. Shirahige, and K. Nasmyth.
        Both interaction surfaces within cohesin's hinge domain are essential for its stable chromosomal association.
        Curr Biol.20:279-289. (2010)

  83. J. Liu, Z. Zhang, M. Bando, T. Itoh, M.A. Deardorff, J.R. Li, D. Clark, M. Kaur, K. Tatsuro, A.D. Kline, C. Chang, H. Vega, L. G. Jackson, N. B. Spinner, K. Shirahige, and I. D. Krantz
        Genome-wide DNA methylation analysis in cohesin mutant human cell lines.
        Nucleic Acids Res.38:5657-5671. (2010)

  84. D. Fachinetti, R. Bermejo, A. Cocito, S. Minardi, Y. Katou, Y. Kanoh, K. Shirahige, A. Azvolinsky, V. A. Zakian, M. Foiani.
        Replication termination at eukaryotic chromosomes is mediated by Top2 and occurs at genomic loci containing pausing elements.
        Mol Cell.39:595-605.(2010)

  85. F. Beckouet, B. Hu, M.B. Roing, T. Sutani, M. Komata, P. Uluocak, V. L. Katis, K. Shirahige, and K. Nasmyth.
        An Smc3 acetylation cycle is essential for establishment of sister chromatid cohesion.
        Mol Cell.39:689-699 (2010)

  86. A. Pauli, J. G. van Bemmel , T. Itoh, K. Shirahige, B. van Steensel, and K. Nasmyth.
        A direct role for cohesin in gene regulation and ecdysone response in Drosophila salivary glands.
        Curr Biol.20:1787-1798 (2010)

  87. K. Kuroha, M. Akamatsu, L. Dimitroya, T. Itoh, Y. Kato, K. Shirahige, and T. Inada.
        Receptor for activated C kinase 1 stimulates nascent polypeptide-dependent translation arrest.
        EMBO Rep. 11:956-961 (2010)

  88. V. Rossio, E. Galati, M. Ferrari, A. Pellicioli, T. Sutani, K. Shirahige, G. Luccini, and S. Piatti.
        The RSC chromatin-remodeling complex influences mitotic exit and adaptation to the spindle assembly checkpoint by controlling the Cdc14 phosphatase.
        J Cell Biol. 191:981-997 (2010)

  89. T. Nishiyama, R. Ladurner, J. Schmitz, E. Kreidl, A. Scheleiffer, V. Bhaskara, M. Bando, K. Shirahige, A.A. Hyman, K. Mechtler, and J.M. Peters.
        Sororin mediates sister chromatid cohesion by antagonizing Wapl.
        Cell. 143:737-749 (2010)

  90. A. Kurze , K.A.Michie, S.E.Dixon, A. Mishra, T. Itoh, S. Khalid, L. Strmecki, K. Shirahige, C. H. Hearing, J. Lowe, and K. Nasmyth.
        A positively charged channel within the Smc1/Smc3 hinge required for sister chromatid cohesion.
        EMBO J.2010 Dec 7. [Epub ahead of print]

  91. H. Maruyama, M. Shin, T. Oda, R. Matsumi, R.L. Ohniwa, T. Itoh, K. Shirahige, T. Imanaka, H. Atomi, S. H. Yoshimura, and K. Takeyasu.
        Histone and TK0471/TrmBL2 form a novel heterogeneous genome architecture in the hyperthermophilic archaeon Thermococcus kodakarensis.
        Mol Biol Cell.2010 Dec 9. [Epub ahead of print]

  92. B. Hu#, T. Itoh#, A. Mishra, Y. Katoh, K-L. Chan, W. Upcher, C. Godlee, M. B. Roig, K. Shirahige*, and K. Nasmyth*.
        ATP Hydrolysis Is Required for Relocating Cohesin from Sites Occupied by Its Scc2/4 Loading Complex.
        Curr. Biol.in press (*Shared Corresponding Author) (#Equally contributed author)

  93. A. Kegel, H. B. Lindroos, T. Kanno, K. Jeppsson, L. Strom, Y. Katou, T. Itoh, K. Shirahige*, and C. Sjogren.
        Chromosome length influences replication-induced topological stress.
        Nature in press

  94. K. Ohtsuki, K. Kasahara, K. Shirahige, and T. Kokubo.
        Genome-wide localization analysis of a complete set of Tafs reveals a specific effect of the taf1 mutation on Taf2 occupancy and provides indirect evidence for different TFIID conformations at different promoters.
        Nucleic Acids Res.2009

  95. S. Mimura, M. Komata, T. Kishi, K. Shirahige, and T. Kamura.
        SCF(Dia2) regulates DNA replication forks during S-phase in budding yeast.
        EMBO J.28, 3693-3705 (2009)

  96. Y. Wada, Y. Ohta, M. Xu, S. Tsutsumi, T. Minami, K. Inoue, D. Komura, J. Kitakami, N. Oshida, A. Papantonis, A. Izumi, M. Kobayashi, H. Meguro, Y. Kanki, I. Mimura, K. Yamamoto, C. Mataki, T. Hamakubo, K. Shirahige, H. Aburatani, H. Kimura, T. Kodama, P.R.Cook, and S. Ihara.
        A wave of nascent transcription on activated human genes.
        Proc Natl Acad Sci U S A. 106, 18357-18361 (2009)

  97. M. Bando, Y.M. Katou, M. Komata, H. Tanaka, T. Itoh, T. Sutani, and K. Shirahige.
        Csm3, Tof1, and Mrc1 form a heterotrimeric mediator complex that associates with DNA replication forks.
        J Biol Chem. 284, 34355-34365 (2009)

  98. R. Bermejo, Y. M. Katou, K. Shirahige, and M. Foiani.
        ChIP-on-Chip Analysis of DNA Topoisomerases.
        Methods Mol Biol. 582, 103-118, (2009)

  99. K. B. Falbo*, C. Alabert*, Y. Katou*, S. Wu, J. Han, T. Wehr, J. Xiao, X. He, Z. Zhang, Y. Shi, K. Shirahige, P. Pasero, and X. Shen.
        Involvement of a chromatin remodeling complex in damage tolerance during DNA replication.
         Nat. Struct. Mol. Biol.16, 1167-1172 (2009)

  100. R. Bermejo, T. Capra, V. Gonzales-Huici, D. Fachinetti, A. Cocito, G. Natoli, Y. Katou, H. Mori, K. Kurokawa, K. Shirahige, and M. Foiani.
        Genome-Organizing Factors Top2 and Hmo1 Prevent Chromosome Fragility at Sites of S phase Transcription.
        Cell, 138, 870-884, (2009)

  101. T. Kobayashi, H. Mizuno, I. Imayoshi, C. Furusawa, K. Shirahige, and R. Kageyama.
        The cyclic gene Hes1 contributes to diverse differentiation responses of embryonic stem cells.
        Genes Dev. 23, 1870-1875, (2009)

  102. M. Komata, M. Bando, H. Araki, and K. Shirahige.
        The Direct Binding of Mrc1, a Checkpoint Mediator, to Mcm6, a Replication Helicase, is Essential for Replication Checkpoint Against Methyl Methanesulfonate?induced Stress.
        Mol. Cell. Biol.29, 5008-5019 (2009)

  103. K. Kugou, T. Fukuda, S. Yamada, M. Ito, H. Sasanuma, S. Mori, Y. Katou, T. Itoh, K. Matsumoto , T. Shibata, K. Shirahige, and K. Ohta.
        Rec8 guides canonical Spo11 distribution along yeast meiotic chromosomes.
        Mol Biol Cell. 20, 3064-3076, (2009)

  104. H. Tanaka, Y. Katou, M. Yagura, K. Saitoh, T. Itoh, H. Araki, M. Bando#, and K. Shirahige#.
        Ctf4 coordinates the progression of helicase and DNA polymerase alpha.
        Genes Cells.4, 807-820, (2009) (#Shared Corresponding Author)

  105. J. Liu, Z. Zhang, M. Bando, T. Itoh, M.A. Deardorff, D. Clark, M. Kaur, S. Tandy, T. Kondoh, E. Rappaport, N.B.Spinner, H. Vega, L.G.Jackson, K. Shirahige, and I.D.Krantz.
        Transcriptional dysregulation in NIPBL and cohesin mutant human cells.
        PLoS Biol. 7, e1000119. (2009)

  106. K. Takayama, S. Tsutsumi, T. Suzuki, K. Horie-Inoue, K. Ikeda, K. Kaneshiro, T. Fujimura, J. Kumagai, T. Urano, Y. Sakaki, K. Shirahige, H. Sasano, S. Takahashi, T. Kitamura, Y. Ouchi, H. Aburatani, and S. Inoue.
        Amyloid precursor protein is a primary androgen target gene that promotes prostate cancer growth.
        Cancer Res.69, 137-142, (2009)

  107. T. Mishiro, K. Ishihara, S. Hino, S. Tsutsumi, H. Aburatani, K. Shirahige, Y. Kinoshita, and M. Nakao.
        Architectural roles of multiple chromatin insulators at the human apolipoprotein gene cluster.
        EMBO J. 28, 1234-1245, (2009)

  108. T. Sutani, T. Kawaguchi, R. Kanno, T. Itoh, and K. Shirahige.
        Budding Yeast Wpl1(Rad61)-Pds5 Complex Counteracts Sister Chromatid Cohesion- Establishing Reaction.
        Curr. Biol.19, 492-497, (2009)

  109. M. Nishizawa, T. Komai, Y. Katou, K. Shirahige, T. Itoh, and A. Toh-E.
        Nutrient-regulated antisense and intragenic RNAs modulate a signal transduction pathway in yeast.
        PLoS Biol. 6, 2817-2830 (2008).

  110. K. Nakamura, A. Okamoto, Y. Katou, C. Yadani, T. Shitanda, C. Kaweeteerawat, T.S. Takahashi, T. Itoh, K. Shirahige, H. Masukata, and T. Nakagawa.
        Rad51 suppresses gross chromosomal rearrangement at centromere in Schizosaccharomyces pombe.
        EMBO J. 27, 3036-3046 (2008)

  111. M. Sadaie, R. Kawaguchi, Y. Ohtani,F. Arisaka, K. Tanaka, K. Shirahige, J. Nakayama.
        Balance between distinct HP1 family proteins controls heterochromatin assembly in fission yeast.
        Mol Cell Biol. 28, 6973-6988 (2008)

  112. C. D'Ambrosio, C.K.Schmidt, Y. Katou, G. Kelly, T. Itoh, K. Shirahige, and F. Uhlmann.
        Identification of cis-acting sites for condensin loading onto budding yeast chromosomes.
        Genes Dev. 22, 2215-2227 (2008)

  113. H. Lou, M. Komata, Y. Katou, Z. Guan, C. C. Reis, M. Budd, K. Shirahige, J.L. Campbell.
        Mrc1 and DNA polymerase ε function together in linking DNA replication and the S phase checkpoint.
        Mol.Cell 32, 106-117 (2008)

  114. K. S. Wendt*, K. Yoshida*, T. Itoh*, M. Bando, B. Koch, E. Schirghuber, S. Tsutsumi, G. Nagae, K. Ishihara, T. Mishiro, K. Yahata, F. Imamoto, H. Aburatani, M. Nakao, N. Imamoto, K. Maeshima, K. Shirahige#, and J.-M. Peters#.
        Cohesin mediates transcriptional insulation by CCCTC-binding factor.
         Nature (article). 451, 796-801, (2008) (*equally contributed author) (#shared corresponding author)

  115. K. Kaneshiro, S. Tsutsumi, S. Tsuji, K. Shirahige, and H. Aburatani.
        An integrated map of p53-binding sites and histone modification in the human ENCODE regions.
         Genomics, 89, 178-188 (2007)

  116. S. Ide, K. Watanabe, H. Watanabe, K. Shirahige, T. Kobayashi, and H. Maki.
        Abnormality in initiation program of DNA replication is monitored by the highly repetitive rDNA array on chromosome XII in budding yeast.
         Mol. Cell. Biol., 27, 568-578 (2007)

  117. S. Mori and K. Shirahige.
        Perturbation of the activity of replication origin by meiosis specific transcription.
         J. Biol. Chem.,282, 4447-4452 (2007)

  118. K. Takayama, K. Kaneshiro, S. Tsutsumi, K. Horie-Inoue, K. Ikeda, T. Urano, N. Ijichi, Y. Ouchi, K. Shirahige, H. Aburatani, and S. Inoue.
        Identification of novel androgen response genes in prostate cancer cells by coupling chromatin immunoprecipitation and genomic microarray analysis.
         Oncogene. 26, 4453-4463 (2007)

  119. M. Hayashi, Y. Katou, T. Itoh, M. Tazumi, Y. Yamada, T. Takahashi, T. Nakagawa, K. Shirahige, and H. Masukata.
        Genome-wide localization of pre-RC sites and identification of replication origins in fission yeast.
         EMBO J., 26, 1327-1339(2007)

  120. M. Terasawa, H. Ogawa, Y. Tsukamoto, M. Shinohara, K. Shirahige, N. Kleckner, and T. Ogawa.
        Meiotic recombination-related DNA synthesis and its implications for cross-over and non-cross-over recombinant formation.
        Proc Natl Acad Sci U S A. 104, 5965-5970, (2007)

  121. K. Kugou, H. Sasanuma, K. Matsumoto, K. Shirahige, and K. Ohta.
        Mre11 mediates gene regulation in yeast spore development.
        Genes Genet Syst., 82, 21-33 (2007)

  122. L. Strom L, C. Karlsson, H.B.Lindroos, S. Wedahl, Y. Katou, K. Shirahige, and C. Sjogren.
        Postreplicative formation of cohesion is required for repair and induced by a single DNA break.
        Science. 317, 242-245 (2007).

  123. J. Gregan, C. G. Riedel, A. L. Pidoux, Y. Katou, C. Rumpf, A. Schleiffer, S. E. Kearsey, K. Shirahige, R.C. Allshire, and K. Nasmyth.
        The Kinetochore Proteins Pcs1 and Mde4 and Heterochromatin Are Required to Prevent Merotelic Orientation.
        Curr Biol 17, 1190-200 (2007)

  124. K. Kasahara, K. Ohtsuki, S. Ki, K. Aoyama, H. Takahashi, T. Kobayashi, K. Shirahige, and T. Kokubo.
        Assembly of regulatory factors on rRNA and ribosomal protein genes in Saccharomyces cerevisiae.
        Mol Cell Biol. 27, 6686-6705 (2007)

  125. R. Bermejo, Y. Doksani, T. Capra, Y. M. Katou, H. Tanaka, K. Shirahige*, and M. Foiani*.
        Top1- and Top2-mediated topological transitions at replication forks ensure fork progression and stability and prevent DNA damage checkpoint activation.
        Genes Dev.21, 1921-1936 (2007) (*shared corresponding author).

  126. M. T. Ocampo-Hafalla, Y. Katou, K. Shirahige, F. Uhlmann.
        Displacement and re-accumulation of centromeric cohesin during transient pre-anaphase centromere splitting.
        Chromosoma. 116, 531-544 (2007)

  127. D.Q. Ding, N. Sakurai, Y. Katou, T. Itoh, K. Shirahige, T. Haraguchi, and Y. Hiraoka.
        Meiotic cohesins modulate chromosome compaction during meiotic prophase in fission yeast.
        J Cell Biol.,174, 499-508 (2006)

  128. A. Lengronne, J. McIntyre, Y. Katou, Y. Kanoh, K. P. Hopfner, K. Shirahige, and F. Uhlmann.
        Establishment of Sister Chromatid Cohesion at the S. cerevisiae Replication Fork.
        Mol Cell.,23, 787-799 (2006)

  129. M. Petronczki, J. Matos, S. Mori, J. Gregan, A. Bogdanova, M. Schwickart, K. Mechtler, K. Shirahige, W. Zachariae, and K. Nasmyth.
        Monopolar attachment of sister kinetochores at meiosis I requires casein kinase 1.
        Cell, 126, 1049-1064 (2006)

  130. S. Gruber, P. Arumugam, Y. Katou, D. Kuglitsch, W. Helmhart, K. Shirahige, and K. Nasmyth.
        Evidence that Loading of Cohesin Onto Chromosomes Involves Opening of Its SMC Hinge.
        Cell, 127, 523-537 (2006)

  131. H.Betts Lindroos, L.Strom, T.Itoh, Y.Katou, K. Shirahige*, and C.Sjogren*.
        Chromosomal Association of the Smc5/6 Complex Reveals that It Functions in Differently Regulated Pathways.
        Mol Cell., 22, 755-767 (2006)(*equally contributed author).

  132. K.Matsui, T.Hirayama, K.Kuroda, K. Shirahige, T.Ashikari, and M.Ueda.
        Screening for candidate genes involved in tolerance to organic solvents in yeast.
        Appl Microbiol Biotechnol. 71, 75-79 (2006)

  133. Y.Kanoh, K.Tamai, and K. Shirahige.
        Different requirements for the association of ATR-ATRIP and 9-1-1 to the stalled replication forks.
        Gene., 377, 88-95 (2006)

  134. C. G. Riedel, V. L. Katis, Y.Katou, S. Mori, T. Itoh, W. Helmhart, M. Galova, M. Petronczki, J. Gregan, B. Cetin, I. Mudrak, E. Ogris, K. Mechtler, L.Pelletier, F. Buchholz, K. Shirahige and K. Nasmyth.
        Protein Phosphatase 2A protects centromeric sister chromatid cohesion.
        Nature (Article) 441,53-61(2006)

  135. Y.Katou,K.Kaneshiro,H.Aburatani,and K. Shirahige.
        Genomic Approach for the Understanding of Dynamic Aspect of Chromosome Behavior.
        METHODS IN ENZYMOLOGY vol.409,chapter 23,389-410 in DNA Repair (edited by J.Campbell) (2006)

  136. K. Unno, P .R . Juvvadi, H. Nakajima, K. Shirahige, and K. Kitamoto.
        Identification and characterization of rns4/vps32 mutation in the RNase T1 expression-sensitive strain of Saccharomyces cerevisiae: Evidence for altered ambient response resulting in transportation of the secretory protein to vacuoles.
        FEMS Yeast Res.5, 801-812 (2005)

  137. Y. Tonami, H.Murakami, K. Shirahige, and M. Nakanishi.
        A checkpoint control linking meiotic S phase and recombination initiation in fission yeast.
        Proc.Natl. Acad. Sci. U.S.A.102, 5797-801 (2005)

  138. H. Tamaki, C.W. Yun, T. Mizutani, T. Tsuzuki, Y. Takagi, M. Shinozaki, Y. Kodama, K. Shirahige, and H. Kumagai.
        Glucose-dependent cell size is regulated by a G protein-coupled receptor system in yeast Saccharomyces cerevisiae.
         Genes Cells.10, 193-206 (2005)

  139. V. L. Katis, J. Matos, S. Mori, K. Shirahige, W. Zachariae, and K. Nasmyth.
        Spo13 Facilitates Monopolin Recruitment to Kinetochores and Regulates Maintenance of Centromeric Cohesion during Yeast Meiosis.
         Curr Biol., 14, 2183-2196 (2004)

  140. L. Strom, H. B. Lindroos, K. Shirahigee, and C. Sjogren.
        S Postreplicative recruitment of Cohesin to double-strand breaks is required for DNA repair.
        Mol. Cell, 16, 1003-1015 (2004)

  141. M. Nishizawa, Y. Katou, K. Shirahige, and A. Toh-E.
        Yeast Pho85 kinase is required for proper gene expression during the diauxic shift.
        Yeast, 21, 903-918 (2004)

  142. A. Lengronne, Y. Katou, S. Mori, S. Yokobayashi, G. Kelly, T. Itoh, Y. Watanabe, K. Shirahige*, and F. Uhlmann*.
        Cohesin relocation from sites of chromosomal loading to places of convergent transcriptions.
        Nature, 430, 573-578 (2004) (*equally contributed author)

  143. H. Takata, Y. Kanoh, N. Gunge, K. Shirahige, and Akira Matsuura.
        Reciprocal association of the budding yeast ATM-related proteins Tel1 and Mec1 with telomeres in vivo.
        Mol.Cell,14, 515-522 (2004)

  144. H. Koyama, T.A. Nagao, T. Inai, K. Miyahara, Y. Hayasida, K. Shirahige and E. Tsuchiya.
        RSC Nucleosome-remodeling complex plays prominent roles in transcriptional regulation throughout budding yeast gametogenesis.
        Biosci Biotechnol Biochem., 68, 909-919 (2004)

  145. Y. Katou, Y. Kanoh, M. Bando, H. Noguchi, H. Tanaka, T. Ashikari, K. Sugimoto, and K. Shirahige.
        S-phase checkpoint proteins Tof1 and Mrc1 form a stable replication pausing complex.
        Nature, 424, 1078-1083, (2003)

  146. A. Marin, M. Gallardo, Y. Kato, K. Shirahige, G. Gutierrez, K. Ohta, and A. Aguilera.
        Relationship between G+C content, ORF-length and mRNA concentration in Saccharomyces cerevisiae.
        Yeast. 20, 703-711, (2003)

  147. K. Ohkuni, K. Shirahige, and A. Kikuchi.
        Genome-wide expression analysis of NAP1 in Saccharomyces cerevisiae.
        Biochem Biophys Res Commun 306, 5-9, (2003)

  148. Y.Kodama, F.Omura, K.Takahashi, K. Shirahige, and T. Ashikari.
        Genome-wide expression analysis of genes affected by amino acid sensor Ssy1p in Saccharomyces cerevisiae.
        Curr.Genetics, 41, 63-72, (2002)

  149. K.-I. Watanabe, J. Morishita, K. Umezu, K. Shirahige and H. Maki.
        Involvement of RAD9-dependent damage checkpoint control in arrest of cell cycle, induction of cell death, and chromosome instability caused by defects in the origin recognition complex in Saccharomyces cerevisiae.
        Eukaryotic Cells, 1, 200-212 (2002)

  150. R.Tadokoro, M.Fujita, H.Miura, K. Shirahige, H.Yoshikawa, T.Tsurimoto, and C.Obuse.
        Scheduled conversion of replication complex architecture at replication origins of S. cerevisiae during the cell cycle.
        J Biol Chem. 277, 15881-15889 (2002)

  151. Y. Katoh, H. Noguchi, T. Yada, S. Mori, M. Hiraoka, Y. Sakaki, H. Yoshikawa, and K. Shirahige.
        Regulation of initiation of DNA replication from multiple replication origins on a single chromosome.
        Yeast, 18, S43 (2001)

  152. J. M. Kim, H. Yoshikawa and K. Shirahige.
        A member of the YER057c/yjgf/Uk114 family links isoleucine biosynthesis and intact mitochondria maintenance in Saccharomyces cerevisiae.
        Genes Cells, 6, 507-517 (2001)

  153. M. Radji, J.M. Kim, T. Togan, H. Yoshikawa and K. Shirahige.
        The cloning and characterization of the CDC50 gene family in Saccharomyces cerevisiae.
        Yeast, 18, 195-205 (2001)

  154. K. Asami, K. Takahashi and K. Shirahige.
        Progression of cell cycle monitored by dielectric spectroscopy and flow-cytometric analysis of DNA content.
        Yeast, 16, 1359-1363 (2000)

  155. Y. Tatsumi, T. Tsurimoto, K. Shirahige, H. Yoshikawa and C. Obuse.
        Association of Human Origin Recognition Complex 1 with Chromatin DNA and Nuclease-resistant Nuclear Structures
        J. Biol. Chem., 275, 5904-5910 (2000)

  156. Shirahige K , Hori Y, Shiraishi K, Yamashita M, Takahashi K, Obuse C, Tsurimoto T, Yoshikawa H.
        Regulation of DNA-replication origins during cell-cycle progression.
        Nature, 395, 618-621 (1998)

  157. M. Fujita, Y. Hori, K. Shirahige, T. Tsurimoto, H. Yoshikawa and C. Obuse.
        Cell cycle dependent topological changes of chromosomal replication origins in Saccharomyces cerevisiae.
        Genes Cells.,3, 737-749 (1998)

  158. M. Yamashita, Y. Hori, T. Shinomiya, C. Obuse, T. Tsurimoto, H. Yoshikawa, and K. Shirahige.
        The efficiency and timing of initiation of replication of multiple replicons of Saccharomyces cerevisiae chromosome VI.
        Genes Cells.,2, 655-665 (1997)

  159. Y. Hori, K. Shirahige, C. Obuse, T. Tsurimoto and H. Yoshikawa.
        Characterization of a novel CDC gene (ORC1) partly homologous to CDC6 of Saccharomyces cerevisiae.
        Mol Biol Cell.,7, 409-418 (1996)

  160. MB. Rashid, K. Shirahige, N. Ogasawara, and H. Yoshikawa.
        Anatomy of the stimulative sequences flanking the ARS consensus sequence of chromosome VI in Saccharomyces cerevisiae.
        Gene., 150,213-220 (1994)

  161. M. Yamazoe, K. Shirahige, MB. Rashid, Y. Kaneko, T. Nakayama, N. Ogasawara and H. Yoshikawa.
        A protein which binds preferentially to single-stranded core sequence of autonomously replicating sequence is essential for respiratory function in mitochondrial of Saccharomyces cerevisiae.
        Chem., 269, 15244-15252 (1994)

  162. K. Shirahige, T. Iwasaki, MB. Rashid, N. Ogasawara and H. Yoshikawa.
        Location and characterization of autonomously replicating sequences from chromosome VI of Saccharomyces cerevisiae.
        Mol Cell Biol., 13, 5043-5056.(1993)

  163. T. Iwasaki, K. Shirahige, H. Yoshikawa and N. Ogasawara.
        The direct cloning of the yeast genome using the gap-filling method and the complete physical mapping of Saccharomyces cerevisiae chromosome VI.
        Gene., 109, 81-87 (1991)

  164. J.C. Alonso, K. Shirahige and N. Ogasawara.
        Molecular cloning, genetic characterization and DNA sequence analysis of the recM region of Bacillus subtilis.
        Nucleic Acids Res., 18, 6771-6777 (1990)

  165. ↑Back to menu


    review (Japanese)


  1. 須谷尚史、白髭克彦 ChIP-on-chip法によりみえてきたSmc5/6複合体による染色体維持機構 蛋白質核酸酵素 Vol. 52, 25-30 (2007) 共立出版.

  2. 吉田圭介、坂東優篤、加納豊、白髭克彦 ChIP-chip法を用いた高等真核生物の染色体構造の解析 ゲノム情報と生命現象の統合的理解(榊佳之、伊藤隆司、辻省次、小原雄治編) 実験医学増刊 Vol.25, No.2, 178-184,(2007)羊土社

  3. 白髭克彦 タイリングアレイによる真核生物のゲノム構造解析 細胞工学 Vol.25, No.10, 1161-1167, (2006) 秀潤社

  4. 白髭克彦 マイクロアレイ解析の新局面 細胞工学 Vol.25, No.10, 1130-1132, (2006) 秀潤社

  5. 加藤由起、須谷尚史、白髭克彦 複製フォークによる複製と分配の連携 細胞工学 Vol.25, No.5, 492-497,(2006) 秀潤社

  6. 白髭克彦、加藤由起 複製フォークを監視するチェックポイントタンパク-染色体複製装置の危機管理? 細胞周期の最前線(中山敬一編) 実験医学増刊Vol.23, No.9, 165-172,(2005)羊土社

  7. 加藤由起、白髭克彦 ゲノム学的手法による新しい染色体研究の展開 臨床検査 Vol.49, No.5, 491-496,(2005) 医学書院

  8. 加藤由起、白髭克彦 ChIP-chip法による染色体動態の解析法 クロマチン・染色体実験プロトコール(押村光男、平岡泰編) 37-45,(2005)羊土社

  9. 白髭克彦 ゲノムタイリングチップによる染色体動態の解析 DNAチップ実験まるわかり(佐々木博己、青柳一彦編) 102-106,(2005)羊土社

  10. 加藤由起、加納豊、坂東優篤、白髭克彦 複製チェックポイント制御機構のゲノム学 日本農芸化学会誌 Vol.78, No.7, 45-47, (2004)

  11. 加藤由起、坂東優篤、加納 豊、野口英樹、白髭克彦 複製チェックポイント制御機構-ゲノム学からのアプローチ 遺伝子医学(電子媒体)No.4019, 1-6, (2004)株式会社メディカルドゥ

  12. 白髭克彦、加藤由起 TOF1とMRC1 -複製フォークの安全運航装置 実験医学 Vol.22, No.1, 47-50, (2004) 羊土社

  13. 白髭克彦 ゲノム的方法論による複製チェックポイント制御機構の解明 細胞工学 Vol.22, No.12, 1350-1351, (2003) 秀潤社

  14. 加藤由起、白髭克彦 DNAチップテクノロジー 日本農芸化学会誌 Vol.76, No.6, 548-551, (2002)

  15. 白髭克彦 出芽酵母のS/Mチェックポイント 新臨床医のための分子医学シリーズ「細胞周期の新しい展開-チェックポイント制御と癌」(野島博 編)55-68 (1999) 羊土社

  16. 白髭克彦 マイクロアレイが開く酵母研究の新時代 実験医学 17、2544-2549 (1999)  羊土社

  17. 吉川寛、白髭克彦 Rad53による複製開始制御とS期チェック制御の連結 実験医学 17、1122-1124 (1999)  羊土社

  18. 白髭克彦 吉川寛 酵母染色体のマルチレプリコン構造とチェックポイント制御-RAD53を中心として-実験医学 17、131-141(1999)羊土社

  19. 白髭克彦 酵母 ラボマニュアル?酵母分子細胞生物学実験法?「DNA複製」山本 正幸/大矢 禎一 共編、281-297(1998)シュプリンガー・フェアラーク東京(株)

  20. 白髭克彦、小布施力史、吉川寛 複製開始領域の構成と染色体構築-出芽酵母の場合 実験医学 16、31-40 (1998)  羊土社

  21. 白髭克彦,堀 裕治,吉川 寛 出芽酵母のレプリコン構造 ?複製開始点とイニシエータータンパク質 、細胞工学15、32-40 (1996) 秀潤社

  22. 白髭克彦、吉川寛 出芽酵母第VI染色体の複製開始機構 実験医学 11、132-137 (1993) 羊土社


review (English)


  1.   Y. Katou, K. Kaneshiro, H. Aburatani, and K. Shirahige
        Genomic Approach for the Understanding of Dynamic Aspect of Chromosome Behavior.
        Methods in Enzymology, Elsevier Life Sciences (CA), vol.409,chapter 23,389-410 in DNA Repair (edited by J.Campbell) (2006)
  2. ↑Back to menu