Matsuyuki Shirota

Matsuyuki Shirota

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Matsuyuki Shirota

Matsuyuki Shirota

Publications by authors named "Matsuyuki Shirota"

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38Publications

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Detection of NRAS mutation in cell-free DNA biological fluids from patients with kaposiform lymphangiomatosis.

Orphanet J Rare Dis 2019 Sep 11;14(1):215. Epub 2019 Sep 11.

Department of Pediatrics, Graduate School of Medicine, Gifu University, Yanagido 1-1, Gifu, 501-1194, Japan.

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http://dx.doi.org/10.1186/s13023-019-1191-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6737666PMC
September 2019

Cancer-associated fibroblasts secrete Wnt2 to promote cancer progression in colorectal cancer.

Cancer Med 2019 Aug 29. Epub 2019 Aug 29.

Department of Surgery, Tohoku University Graduate School of Medicine, Sendai, Japan.

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http://dx.doi.org/10.1002/cam4.2523DOI Listing
August 2019

Molecular Mechanism of Depolarization-Dependent Inactivation in W366F Mutant of Kv1.2.

J Phys Chem B 2018 Dec 26;122(48):10825-10833. Epub 2018 Nov 26.

Department of Applied Information Sciences, Graduate School of Information Sciences , Tohoku University , 6-3-09 Aramaki-Aza-Aoba , Aoba-ku, Sendai 980-8579 , Japan.

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http://pubs.acs.org/doi/10.1021/acs.jpcb.8b09446
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http://dx.doi.org/10.1021/acs.jpcb.8b09446DOI Listing
December 2018

Novel IARS2 mutations in Japanese siblings with CAGSSS, Leigh, and West syndrome.

Brain Dev 2018 Nov 2;40(10):934-938. Epub 2018 Jul 2.

Department of Pediatrics, Tohoku University School of Medicine, 2-1 Seiryo-machi, Aoba-ku, Sendai, Miyagi 980-8575, Japan.

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http://dx.doi.org/10.1016/j.braindev.2018.06.010DOI Listing
November 2018

Interethnic analyses of blood pressure loci in populations of East Asian and European descent.

Nat Commun 2018 11 28;9(1):5052. Epub 2018 Nov 28.

Medical Genomics Center, National Center for Global Health and Medicine, Tokyo, 162-8655, Japan.

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http://dx.doi.org/10.1038/s41467-018-07345-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6261994PMC
November 2018

BRCA1-Interacting Protein OLA1 Requires Interaction with BARD1 to Regulate Centrosome Number.

Mol Cancer Res 2018 10 1;16(10):1499-1511. Epub 2018 Jun 1.

Department of Cancer Biology, Institute of Development, Aging and Cancer (IDAC), Tohoku University, Sendai, Japan.

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http://dx.doi.org/10.1158/1541-7786.MCR-18-0269DOI Listing
October 2018

Bone marrow PDGFRα+Sca-1+-enriched mesenchymal stem cells support survival of and antibody production by plasma cells in vitro through IL-6.

Int Immunol 2018 05;30(6):241-253

Department of Experimental Immunology, Institute of Development, Aging and Cancer, Tohoku University, Seiryo-machi, Sendai, Japan.

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http://dx.doi.org/10.1093/intimm/dxy018DOI Listing
May 2018

jMorp: Japanese Multi Omics Reference Panel.

Nucleic Acids Res 2018 01;46(D1):D551-D557

Tohoku Medical Megabank Organization, Tohoku University, 2-1 Seiryo-machi, Aoba-ku, Miyagi 980-8575, Japan.

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http://dx.doi.org/10.1093/nar/gkx978DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5753289PMC
January 2018

Discrepancies between human DNA, mRNA and protein reference sequences and their relation to single nucleotide variants in the human population.

Database (Oxford) 2016 1;2016. Epub 2016 Sep 1.

Tohoku Medical Megabank Organization, Tohoku University, Sendai, Miyagi 9808575, Japan Graduate School of Information Sciences, Tohoku University, Sendai, Miyagi 9808579, Japan Institute for Development, Aging and Cancer, Tohoku University, Sendai, Miyagi 9808575, Japan

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http://dx.doi.org/10.1093/database/baw124DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5009343PMC
November 2017

Ion Concentration- and Voltage-Dependent Push and Pull Mechanisms of Potassium Channel Ion Conduction.

PLoS One 2016 7;11(3):e0150716. Epub 2016 Mar 7.

Graduate School of Information Sciences, Tohoku University, 6-3-09, Aramaki-aza Aoba, Aoba-ku, Sendai, Miyagi 980-8597, Japan.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0150716PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4780791PMC
August 2016

In silico predicted structural and functional insights of all missense mutations on 2B domain of K1/K10 causing genodermatoses.

Oncotarget 2016 Aug;7(33):52766-52780

Department of Cell Biology and Medical Genetics, School of Medicine, Zhejiang University, Hangzhou, China.

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http://dx.doi.org/10.18632/oncotarget.10599DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5288147PMC
August 2016

Lack of Transcription Triggers H3K27me3 Accumulation in the Gene Body.

Cell Rep 2016 07 7;16(3):696-706. Epub 2016 Jul 7.

Department of Cell Proliferation, United Center for Advanced Research and Translational Medicine, Graduate School of Medicine, Tohoku University, 2-1 Seiryo-machi, Aoba-ku, Sendai 980-8575, Japan. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2016.06.034DOI Listing
July 2016

Structural basis for the membrane association of ankyrinG via palmitoylation.

Sci Rep 2016 Apr 5;6:23981. Epub 2016 Apr 5.

Systems Bioinformatics, Graduate School of Information Sciences, Tohoku University, Sendai, JAPAN.

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http://dx.doi.org/10.1038/srep23981DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4820748PMC
April 2016

Isolated inclusion body myopathy caused by a multisystem proteinopathy-linked hnRNPA1 mutation.

Neurol Genet 2015 Oct 24;1(3):e23. Epub 2015 Sep 24.

Departments of Neurology (R.I., H.W., K.I., A.N., N.S., M.T., M.K., M.A.), Medical Genetics (R.I., A.N., T.N., Y.A.), the Division of Interdisciplinary Medical Science (M.S.), and the Division of Cell Proliferation (R.F., K.N.), United Centers for Advanced Research and Translational Medicine, Tohoku University Graduate School of Medicine, Sendai, Japan; Department of Neurology (T.T.), National Hospital Organization Sendai-Nishitaga National Hospital, Sendai, Japan; Department of Neurology (M.T.), Iwate National Hospital, Ichinoseki, Japan; and Department of Neuromuscular Research, National Institute of Neuroscience, National Center of Neurology and Psychiatry (NCNP) and Department of Genome Medicine Development, Medical Genome Center, NCNP (S.M., I.N.), Tokyo, Japan.

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http://dx.doi.org/10.1212/NXG.0000000000000023DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4809462PMC
October 2015

ATTED-II in 2014: evaluation of gene coexpression in agriculturally important plants.

Plant Cell Physiol 2014 Jan 10;55(1):e6. Epub 2013 Dec 10.

Graduate School of Information Sciences, Tohoku University, 6-3-09, Aramaki-Aza-Aoba, Aoba-ku, Sendai, 980-8679 Japan.

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http://dx.doi.org/10.1093/pcp/pct178DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3894708PMC
January 2014

Ion concentration-dependent ion conduction mechanism of a voltage-sensitive potassium channel.

PLoS One 2013 13;8(2):e56342. Epub 2013 Feb 13.

Department of Applied Information Sciences, Graduate School of Information Sciences, Tohoku University, Miyagi, Japan.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0056342PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3572011PMC
August 2013

[Molecular dynamics simulation, ion channel, dynamic structure, bioinformatics].

Seikagaku 2013 Aug;85(8):656-62

Institute for Protein Research, Osaka University, 3-2, Yamadaoka, Suita-shi, Osaka 565-0871, Japan.

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August 2013

Analyses of the general rule on residue pair frequencies in local amino acid sequences of soluble, ordered proteins.

Protein Sci 2013 Jun 29;22(6):725-33. Epub 2013 Apr 29.

Department of Applied Information Sciences, Graduate School of Information Sciences, Tohoku University, Sendai, Miyagi, Japan.

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http://dx.doi.org/10.1002/pro.2255DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3690712PMC
June 2013

Comprehensive classification and diversity assessment of atomic contacts in protein-small ligand interactions.

J Chem Inf Model 2013 Jan 18;53(1):241-8. Epub 2012 Dec 18.

Department of Applied Information Sciences, Graduate School of Information Sciences, Tohoku University, Miyagi 980-8597, Japan.

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http://dx.doi.org/10.1021/ci300377fDOI Listing
January 2013

Absolute quality evaluation of protein model structures using statistical potentials with respect to the native and reference states.

Proteins 2011 May 1;79(5):1550-63. Epub 2011 Mar 1.

Department of Applied Information Sciences, Graduate School of Information Science, Tohoku University, 6-3-09, Aoba, Aramaki, Aoba-Ku, Sendai, Miyagi 980-8579, Japan.

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http://dx.doi.org/10.1002/prot.22982DOI Listing
May 2011

SAHG, a comprehensive database of predicted structures of all human proteins.

Nucleic Acids Res 2011 Jan 3;39(Database issue):D487-93. Epub 2010 Nov 3.

Computational Biology Research Center, National Institute of Advanced Industrial Science and Technology, Tokyo 135-0064, Japan.

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http://dx.doi.org/10.1093/nar/gkq1057DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3013665PMC
January 2011

Development of a new meta-score for protein structure prediction from seven all-atom distance dependent potentials using support vector regression.

Genome Inform 2009 Oct;23(1):149-58

Human Genome Center, Institute of Medical Science, University of Tokyo, 4-6-1 Shirokanedai, Minato-ku, Tokyo 108-8639, Japan.

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October 2009

Analyses on hydrophobicity and attractiveness of all-atom distance-dependent potentials.

Protein Sci 2009 Sep;18(9):1906-15

Human Genome Center, Institute of Medical Science, The University of Tokyo, 4-6-1 Shirokane-dai, Minato-ku, Tokyo 108-8639, Japan.

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http://dx.doi.org/10.1002/pro.201DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2777365PMC
September 2009

Effects of surface-to-volume ratio of proteins on hydrophilic residues: decrease in occurrence and increase in buried fraction.

Protein Sci 2008 Sep 12;17(9):1596-602. Epub 2008 Jun 12.

Institute of Medical Science, The University of Tokyo, Minato-ku, Tokyo 108-8639, Japan.

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http://dx.doi.org/10.1110/ps.035592.108DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2525519PMC
September 2008

Large-scale collection and characterization of promoters of human and mouse genes.

In Silico Biol 2004 ;4(4):429-44

Human Genome Center, The Institute of Medical Science, The University of Tokyo: 4-6-1 Shirokanedai, Tokyo, 108-8639, Japan.

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June 2005

Sequence comparison of human and mouse genes reveals a homologous block structure in the promoter regions.

Genome Res 2004 Sep;14(9):1711-8

Human Genome Center, The Institute of Medical Science, The University of Tokyo, Minato-ku, Tokyo, 108-8639, Japan.

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http://dx.doi.org/10.1101/gr.2435604DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC515316PMC
September 2004