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Items: 1 to 20 of 29

1.

Glycosaminoglycan Binding and Non-Endocytic Membrane Translocation of Cell-Permeable Octaarginine Monitored by Real-Time In-Cell NMR Spectroscopy.

Takechi-Haraya Y, Aki K, Tohyama Y, Harano Y, Kawakami T, Saito H, Okamura E.

Pharmaceuticals (Basel). 2017 Apr 15;10(2). pii: E42. doi: 10.3390/ph10020042.

2.

Water based on a molecular model behaves like a hard-sphere solvent for a nonpolar solute when the reference interaction site model and related theories are employed.

Hayashi T, Oshima H, Harano Y, Kinoshita M.

J Phys Condens Matter. 2016 Sep 1;28(34):344003. doi: 10.1088/0953-8984/28/34/344003. Epub 2016 Jul 1.

PMID:
27366886
3.

An accurate and efficient computation method of the hydration free energy of a large, complex molecule.

Yoshidome T, Ekimoto T, Matubayasi N, Harano Y, Kinoshita M, Ikeguchi M.

J Chem Phys. 2015 May 7;142(17):175101. doi: 10.1063/1.4919636.

PMID:
25956125
4.

A morphometric approach for the accurate solvation thermodynamics of proteins and ligands.

Harano Y, Roth R, Chiba S.

J Comput Chem. 2013 Sep 5;34(23):1969-74. doi: 10.1002/jcc.23348. Epub 2013 Jun 18.

PMID:
23775361
5.

Characterization of experimentally determined native-structure models of a protein using energetic and entropic components of free-energy function.

Mishima H, Yasuda S, Yoshidome T, Oshima H, Harano Y, Ikeguchi M, Kinoshita M.

J Phys Chem B. 2012 Jul 12;116(27):7776-86. doi: 10.1021/jp301541z. Epub 2012 Jun 29.

PMID:
22697465
6.

A scoring function based on solvation thermodynamics for protein structure prediction.

Du S, Harano Y, Kinoshita M, Sakurai M.

Biophysics (Nagoya-shi). 2012 Sep 19;8:127-38. doi: 10.2142/biophysics.8.127. eCollection 2012.

7.

Evaluation of protein-ligand binding free energy focused on its entropic components.

Chiba S, Harano Y, Roth R, Kinoshita M, Sakurai M.

J Comput Chem. 2012 Feb 15;33(5):550-60. doi: 10.1002/jcc.22891. Epub 2011 Dec 8. Erratum in: J Comput Chem. 2012 Oct 15;33(27):2210. Harano, Yuich [corrected to Harano, Yuichi].

PMID:
22162031
8.

Morphometric approach to thermodynamic quantities of solvation of complex molecules: extension to multicomponent solvent.

Kodama R, Roth R, Harano Y, Kinoshita M.

J Chem Phys. 2011 Jul 28;135(4):045103. doi: 10.1063/1.3617247.

PMID:
21806161
9.

Free-energy function for discriminating the native fold of a protein from misfolded decoys.

Yasuda S, Yoshidome T, Harano Y, Roth R, Oshima H, Oda K, Sugita Y, Ikeguchi M, Kinoshita M.

Proteins. 2011 Jul;79(7):2161-71. doi: 10.1002/prot.23036. Epub 2011 May 9.

PMID:
21557318
10.

Effects of side-chain packing on the formation of secondary structures in protein folding.

Yasuda S, Yoshidome T, Oshima H, Kodama R, Harano Y, Kinoshita M.

J Chem Phys. 2010 Feb 14;132(6):065105. doi: 10.1063/1.3319509.

PMID:
20151761
11.

Steatosis and hepatic expression of genes regulating lipid metabolism in Japanese patients infected with hepatitis C virus.

Yasui K, Harano Y, Mitsuyoshi H, Tsuji K, Endo M, Nakajima T, Minami M, Itoh Y, Zen Y, Nakanuma Y, Yoshikawa T, Okanoue T.

J Gastroenterol. 2010;45(1):95-104. doi: 10.1007/s00535-009-0133-8. Epub 2009 Sep 30.

PMID:
19789836
12.

Free-energy function based on an all-atom model for proteins.

Yoshidome T, Oda K, Harano Y, Roth R, Sugita Y, Ikeguchi M, Kinoshita M.

Proteins. 2009 Dec;77(4):950-61. doi: 10.1002/prot.22520.

PMID:
19688821
13.

Pressure effects on structures formed by entropically driven self-assembly: illustration for denaturation of proteins.

Yoshidome T, Harano Y, Kinoshita M.

Phys Rev E Stat Nonlin Soft Matter Phys. 2009 Jan;79(1 Pt 1):011912. Epub 2009 Jan 20.

PMID:
19257074
14.

Analysis of hepatic genes involved in the metabolism of fatty acids and iron in nonalcoholic fatty liver disease.

Mitsuyoshi H, Yasui K, Harano Y, Endo M, Tsuji K, Minami M, Itoh Y, Okanoue T, Yoshikawa T.

Hepatol Res. 2009 Apr;39(4):366-73. doi: 10.1111/j.1872-034X.2008.00464.x. Epub 2008 Nov 25.

PMID:
19054139
15.

Molecular mechanism of pressure denaturation of proteins.

Harano Y, Yoshidome T, Kinoshita M.

J Chem Phys. 2008 Oct 14;129(14):145103. doi: 10.1063/1.2991176.

PMID:
19045168
16.

In vivo interferon system assessed by 2'-5' oligoadenylate synthetase activity in chronic hepatitis C virus patients treated with pegylated interferon and ribavirin.

Shindo M, Hamada K, Morikawa T, Harano Y, Nakajima T, Okuno T.

Hepatol Res. 2008 Dec;38(12):1213-20. doi: 10.1111/j.1872-034X.2008.00397.x. Epub 2008 Aug 18.

PMID:
18713278
17.

The severity of ultrasonographic findings in nonalcoholic fatty liver disease reflects the metabolic syndrome and visceral fat accumulation.

Hamaguchi M, Kojima T, Itoh Y, Harano Y, Fujii K, Nakajima T, Kato T, Takeda N, Okuda J, Ida K, Kawahito Y, Yoshikawa T, Okanoue T.

Am J Gastroenterol. 2007 Dec;102(12):2708-15. Epub 2007 Sep 25.

PMID:
17894848
18.

Theoretical analysis on changes in thermodynamic quantities upon protein folding: essential role of hydration.

Imai T, Harano Y, Kinoshita M, Kovalenko A, Hirata F.

J Chem Phys. 2007 Jun 14;126(22):225102.

PMID:
17581082
19.

Changes in thermodynamic quantities upon contact of two solutes in solvent under isochoric and isobaric conditions.

Kinoshita M, Harano Y, Akiyama R.

J Chem Phys. 2006 Dec 28;125(24):244504.

PMID:
17199352
20.

Morphometric approach to the solvation free energy of complex molecules.

Roth R, Harano Y, Kinoshita M.

Phys Rev Lett. 2006 Aug 18;97(7):078101. Epub 2006 Aug 14.

PMID:
17026275

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