Publications

1. Kelly RL, Huehls AM, Venkatachalam A, Huntoon CJ, Machida YJ, Karnitz LM. Intra-S phase checkpoint kinase Chk1 dissociates replication proteins Treslin and TopBP1 through multiple mechanisms during replication stress. J Biol Chem. 2022 Apr; 298 (4):101777 Epub 2022 Feb 26
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2. Welter AL, Machida YJ. Functions and evolution of FAM111 serine proteases. Front Mol Biosci. 2022; 9:1081166 Epub 2022 Dec 15
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3. Popay TM, Wang J, Adams CM, Howard GC, Codreanu SG, Sherrod SD, McLean JA, Thomas LR, Lorey SL, Machida YJ, Weissmiller AM, Eischen CM, Liu Q, Tansey WP. MYC regulates ribosome biogenesis and mitochondrial gene expression programs through its interaction with host cell factor-1. Elife. 2021 Jan 8; 10 Epub 2021 Jan 08
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4. Huang J, Zhou Q, Gao M, Nowsheen S, Zhao F, Kim W, Zhu Q, Kojima Y, Yin P, Zhang Y, Guo G, Tu X, Deng M, Luo K, Qin B, Machida Y, Lou Z. Tandem Deubiquitination and Acetylation of SPRTN Promotes DNA-Protein Crosslink Repair and Protects against Aging. Mol Cell. 2020 Sep 3; 79 (5):824-835.e5 Epub 2020 July 09
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5. Kojima Y, Machida YJ. DNA-protein crosslinks from environmental exposure: Mechanisms of formation and repair. Environ Mol Mutagen. 2020 Aug; 61 (7):716-729 Epub 2020 July 09
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6. Kojima Y, Machida Y, Palani S, Caulfield TR, Radisky ES, Kaufmann SH, Machida YJ. FAM111A protects replication forks from protein obstacles via its trypsin-like domain. Nat Commun. 2020 Mar 12; 11 (1):1318
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7. Kurmi K, Hitosugi S, Yu J, Boakye-Agyeman F, Wiese EK, Larson TR, Dai Q, Machida YJ, Lou Z, Wang L, Boughey JC, Kaufmann SH, Goetz MP, Karnitz LM, Hitosugi T. Tyrosine Phosphorylation of Mitochondrial Creatine Kinase 1 Enhances a Druggable Tumor Energy Shuttle Pathway. Cell Metab. 2018 Dec 4; 28 (6):833-847.e8 Epub 2018 Aug 30
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8. Maskey RS, Flatten KS, Sieben CJ, Peterson KL, Baker DJ, Nam HJ, Kim MS, Smyrk TC, Kojima Y, Machida Y, Santiago A, van Deursen JM, Kaufmann SH, Machida YJ. Spartan deficiency causes accumulation of Topoisomerase 1 cleavage complexes and tumorigenesis. Nucleic Acids Res. 2017 May 5; 45 (8):4564-4576
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9. Okino Y, Machida Y, Frankland-Searby S, Machida YJ. BRCA1-associated protein 1 (BAP1) deubiquitinase antagonizes the ubiquitin-mediated activation of FoxK2 target genes. J Biol Chem. 2015 Jan 16; 290 (3):1580-91 Epub 2014 Dec 01
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10. Maskey RS, Kim MS, Baker DJ, Childs B, Malureanu LA, Jeganathan KB, van Deursen JM, Machida YJ. Spartan deficiency causes genomic instability and progeroid phenotypes. Nat Commun. 2014 Dec 11; 5:5744
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11. Kim MS, Machida Y, Vashisht AA, Wohlschlegel JA, Pang YP, Machida YJ. Regulation of error-prone translesion synthesis by Spartan/C1orf124. Nucleic Acids Res. 2013 Feb 1; 41 (3):1661-8 Epub 2012 Dec 18
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12. Machida Y, Kim MS, Machida YJ. Spartan/C1orf124 is important to prevent UV-induced mutagenesis. Cell Cycle. 2012 Sep 15; 11 (18):3395-402 Epub 2012 Aug 16
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13. Shereda RD, Machida Y, Machida YJ. Human KIAA1018/FAN1 localizes to stalled replication forks via its ubiquitin-binding domain. Cell Cycle. 2010 Oct 1; 9 (19):3977-83 Epub 2010 Oct 01
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14. Machida Y, Vashisht AA, Wohlschlegel JA, Dutta A. The deubiquitinating enzyme BAP1 regulates cell growth via interaction with HCF-1. J Biol Chem. 2009 Dec 4; 284 (49):34179-88 Epub 2009 Oct 08
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15. Alpi A, Langevin F, Mosedale G, Machida YJ, Dutta A, Patel KJ. UBE2T, the Fanconi anemia core complex, and FANCD2 are recruited independently to chromatin: a basis for the regulation of FANCD2 monoubiquitination. Mol Cell Biol. 2007 Dec; 27(24):8421-30. Epub 2007 Oct 15.
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16. Machida YJ, Dutta A. The APC/C inhibitor, Emi1, is essential for prevention of rereplication. Genes Dev. 2007 Jan 15; 21(2):184-94.
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17. Sivaprasad U, Machida YJ, Dutta A. APC/C--the master controller of origin licensing? Cell Div. 2007; 2:8. Epub 2007 Feb 23.
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18. Machida YJ, Chen Y, Machida Y, Malhotra A, Sarkar S, Dutta A. Targeted comparative RNA interference analysis reveals differential requirement of genes essential for cell proliferation. Mol Biol Cell. 2006 Nov; 17(11):4837-45. Epub 2006 Sep 06.
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19. Machida YJ, Machida Y, Chen Y, Gurtan AM, Kupfer GM, D'Andrea AD, Dutta A. UBE2T is the E2 in the Fanconi anemia pathway and undergoes negative autoregulation. Mol Cell. 2006 Aug; 23(4):589-96.
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20. Teer JK, Machida YJ, Labit H, Novac O, Hyrien O, Marheineke K, Zannis-Hadjopoulos M, Dutta A. Proliferating human cells hypomorphic for origin recognition complex 2 and pre-replicative complex formation have a defect in p53 activation and Cdk2 kinase activation. J Biol Chem. 2006 Mar 10; 281(10):6253-60. Epub 2006 Jan 10.
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21. Inayoshi Y, Miyake K, Machida Y, Kaneoka H, Terajima M, Dohda T, Takahashi M, Iijima S. Mammalian chromatin remodeling complex SWI/SNF is essential for enhanced expression of the albumin gene during liver development. J Biochem. 2006 Feb; 139(2):177-88.
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22. Machida YJ, Hamlin JL, Dutta A. Right place, right time, and only once: replication initiation in metazoans. Cell. 2005 Oct 7; 123(1):13-24.
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23. Inayoshi Y, Kaneoka H, Machida Y, Terajima M, Dohda T, Miyake K, Iijima S. Repression of GR-mediated expression of the tryptophan oxygenase gene by the SWI/SNF complex during liver development. J Biochem. 2005 Oct; 138(4):457-65.
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24. Machida YJ, Teer JK, Dutta A. Acute reduction of an origin recognition complex (ORC) subunit in human cells reveals a requirement of ORC for Cdk2 activation. J Biol Chem. 2005 Jul 29; 280(30):27624-30 Epub 2005 Jun 7.
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25. Machida YJ, Dutta A. Cellular checkpoint mechanisms monitoring proper initiation of DNA replication. J Biol Chem. 2005 Feb 25; 280(8):6253-6. Epub 2004 Dec 09.
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26. Vaziri C, Saxena S, Jeon Y, Lee C, Murata K, Machida Y, Wagle N, Hwang DS, Dutta A. A p53-dependent checkpoint pathway prevents rereplication. Mol Cell. 2003 Apr; 11(4):997-1008.
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27. Dhar SK, Yoshida K, Machida Y, Khaira P, Chaudhuri B, Wohlschlegel JA, Leffak M, Yates J, Dutta A. Replication from oriP of Epstein-Barr virus requires human ORC and is inhibited by geminin. Cell. 2001 Aug 10; 106(3):287-96.
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28. Machida Y, Murai K, Miyake K, Iijima S. Expression of chromatin remodeling factors during neural differentiation. J Biochem. 2001 Jan; 129(1):43-9.
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29. Machida Y, Miyake K, Hattori K, Yamamoto S, Kawase M, Iijima S. Structure and function of a novel coliphage-associated sialidase. FEMS Microbiol Lett. 2000 Jan 15; 182(2):333-7.
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30. Machida Y, Hattori K, Miyake K, Kawase Y, Kawase M, Iijima S. Molecular cloning and characterization of a novel bacteriophage associated sialidase. J Biosci Bioeng. 2000; 90(1):62-8.
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31. Yamamoto S, Miyake K, Koike Y, Watanabe M, Machida Y, Ohta M, Iijima S. Molecular characterization of type-specific capsular polysaccharide biosynthesis genes of Streptococcus agalactiae type Ia. J Bacteriol. 1999 Sep; 181(17):5176-84.
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32. Miyake K, Machida Y, Hattori K, Iijima S. Characterization of a multidomain cellulase from an extremely thermophilic anaerobe strain NA10. J Ferment Bioeng. 1998; 85:289-96.
    
33. Miyake K, Muraki T, Hattori K, Machida Y, Watanabe M, Kawase M, Yoshida Y, Iijima S. Screening of bacteriophages producing Endo-N-acetylneuraminidase. J Ferment Bioeng. 1997; 84:90-3.