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ORCIDAkinori Sarai
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Journal Articles
- 2012
[j26]He Huang, Akinori Sarai:
Analysis of the relationships between evolvability, thermodynamics, and the functions of intrinsically disordered proteins/regions. Comput. Biol. Chem. 41: 51-57 (2012)- 2011
- [j25]Michael Fernández
, Yutaro Kumagai, Daron M. Standley, Akinori Sarai, Kenji Mizuguchi, Shandar Ahmad:
Prediction of dinucleotide-specific RNA-binding sites in proteins. BMC Bioinform. 12(S-13): S5 (2011) - 2010
- [j24]Michael Fernández, Shandar Ahmad, Akinori Sarai:
Proteochemometric Recognition of Stable Kinase Inhibition Complexes Using Topological Autocorrelation and Support Vector Machines. J. Chem. Inf. Model. 50(6): 1179-1188 (2010) - [j23]Shandar Ahmad, Ozlem Keskin, Kenji Mizuguchi, Akinori Sarai, Ruth Nussinov:
CCRXP: exploring clusters of conserved residues in protein structures. Nucleic Acids Res. 38(Web-Server-Issue): 398-401 (2010) - 2007
- [j22]Alexey V. Kochetov, Andrey Palyanov, Igor I. Titov, Dmitry A. Grigorovich, Akinori Sarai, Nikolay A. Kolchanov:
AUG_hairpin: prediction of a downstream secondary structure influencing the recognition of a translation start site. BMC Bioinform. 8 (2007) - 2006
- [j21]Marcos J. Araúzo-Bravo, Shandar Ahmad, Akinori Sarai:
Dimensionality of amino acid space and solvent accessibility prediction with neural networks. Comput. Biol. Chem. 30(2): 160-168 (2006) - [j20]M. D. Shaji Kumar, K. Abdulla Bava, M. Michael Gromiha, Ponraj Prabakaran, Koji Kitajima, Hatsuho Uedaira, Akinori Sarai:
ProTherm and ProNIT: thermodynamic databases for proteins and protein-nucleic acid interactions. Nucleic Acids Res. 34(Database-Issue): 204-206 (2006) - [j19]Shandar Ahmad, Hidetoshi Kono, Marcos J. Araúzo-Bravo, Akinori Sarai:
ReadOut: structure-based calculation of direct and indirect readout energies and specificities for protein-DNA recognition. Nucleic Acids Res. 34(Web-Server-Issue): 124-127 (2006) - 2005
- [j18]Shandar Ahmad, Akinori Sarai:
PSSM-based prediction of DNA binding sites in proteins. BMC Bioinform. 6: 33 (2005) - [j17]Akinori Sarai, Jorg Siebers, Samuel Selvaraj, M. Michael Gromiha, Hidetoshi Kono:
Integration of Bioinformatics and Computational Biology to Understand Protein-dna Recognition Mechanism. J. Bioinform. Comput. Biol. 3(1): 169-183 (2005) - [j16]Goran Neshich, Luiz C. Borro, Roberto H. Higa, Paula R. Kuser, Michel E. B. Yamagishi, Eduardo H. Franco, João N. Krauchenco, Renato Fileto, André A. Ribeiro, George B. P. Bezerra, Thiago M. Velludo, Tomás S. Jimenez, Noboru Furukawa, Hirofumi Teshima, Koji Kitajima, K. Abdulla Bava, Akinori Sarai, Roberto C. Togawa, Adauto L. Mancini:
The Diamond STING server. Nucleic Acids Res. 33(Web-Server-Issue): 29-35 (2005) - 2004
- [j15]Alexey V. Kochetov, Akinori Sarai:
Translational polymorphism as a potential source of plant proteins variety in Arabidopsis thaliana. Bioinform. 20(4): 445-447 (2004) - [j14]Shandar Ahmad, M. Michael Gromiha, Akinori Sarai:
Analysis and prediction of DNA-binding proteins and their binding residues based on composition, sequence and structural information. Bioinform. 20(4): 477-486 (2004) - [j13]Shandar Ahmad, M. Michael Gromiha, Hamed Fawareh, Akinori Sarai:
ASAView: Database and tool for solvent accessibility representation in proteins. BMC Bioinform. 5: 51 (2004) - [j12]K. Abdulla Bava, M. Michael Gromiha, Hatsuho Uedaira, Koji Kitajima, Akinori Sarai:
ProTherm, version 4.0: thermodynamic database for proteins and mutants. Nucleic Acids Res. 32(Database-Issue): 120-121 (2004) - [j11]Shandar Ahmad, Akinori Sarai:
Qgrid: clustering tool for detecting charged and hydrophobic regions in proteins. Nucleic Acids Res. 32(Web-Server-Issue): 104-107 (2004) - 2003
- [j10]Shandar Ahmad, M. Michael Gromiha, Akinori Sarai:
RVP-net: online prediction of real valued accessible surface area of proteins from single sequences. Bioinform. 19(14): 1849-1851 (2003) - 2002
- [j9]M. Michael Gromiha, Hatsuho Uedaira, Jianghong An, Samuel Selvaraj, Ponraj Prabakaran, Akinori Sarai:
ProTherm, Thermodynamic Database for Proteins and Mutants: developments in version 3.0. Nucleic Acids Res. 30(1): 301-302 (2002) - 2001
- [j8]Hideaki Mizuno, Yoshimasa Tanaka, Kenta Nakai, Akinori Sarai:
ORI-GENE: gene classification based on the evolutionary tree. Bioinform. 17(1): 167-173 (2001) - [j7]Ponraj Prabakaran, Jianghong An, M. Michael Gromiha, Samuel Selvaraj, Hatsuho Uedaira, Hidetoshi Kono, Akinori Sarai:
Thermodynamic database for protein-nucleic acid interactions (ProNIT). Bioinform. 17(11): 1027-1034 (2001) - [j6]Julia V. Ponomarenko, Dagmara P. Furman, Anatoly S. Frolov, Nikolay L. Podkolodny, Galina Orlova, Mikhail P. Ponomarenko, Nikolay A. Kolchanov, Akinori Sarai:
ACTIVITY: a database on DNA/RNA sites activity adapted to apply sequence-activity relationships from one system to another. Nucleic Acids Res. 29(1): 284-287 (2001) - [j5]Julia V. Ponomarenko, Tatyana I. Merkulova, Gennady V. Vasiliev, Zoya B. Levashova, Galina Orlova, Sergey V. Lavryushev, Oleg N. Fokin, Mikhail P. Ponomarenko, Anatoly S. Frolov, Akinori Sarai:
rSNP_Guide, a database system for analysis of transcription factor binding to target sequences: application to SNPs and site-directed mutations. Nucleic Acids Res. 29(1): 312-316 (2001) - 2000
- [j4]Kenji Sayano, Hidetoshi Kono, M. Michael Gromiha, Akinori Sarai:
Multicanonical Monte Carlo calculation of the free-energy map of the base-amino acid interaction. J. Comput. Chem. 21(11): 954-962 (2000) - [j3]M. Michael Gromiha, Jianghong An, Hidetoshi Kono, Motohisa Oobatake, Hatsuho Uedaira, Ponraj Prabakaran, Akinori Sarai:
ProTherm, version 2.0: thermodynamic database for proteins and mutants. Nucleic Acids Res. 28(1): 283-285 (2000) - 1999
- [j2]M. Michael Gromiha, Jianghong An, Hidetoshi Kono, Motohisa Oobatake, Hatsuho Uedaira, Akinori Sarai:
ProTherm: Thermodynamic Database for Proteins and Mutants. Nucleic Acids Res. 27(1): 286-288 (1999) - 1998
- [j1]Jianghong An, T. Nakama, Y. Kubota, Akinori Sarai:
3DinSight: an integrated relational database and search tool for the structure, function and properties of biomolecules. Bioinform. 14(2): 188-195 (1998)
Conference and Workshop Papers
- 2009
- [c4]Michael Fernández, Akinori Sarai, Shandar Ahmad:
Recognition of Drug-Target Interaction Patterns using Genetic Algorithm-optimized Bayesian-regularized Neural Networks and Support Vector Machines. SMC 2009: 498-503 - 2006
- [c3]Marcos J. Araúzo-Bravo, Satoshi Fujii, Hidetoshi Kono, Akinori Sarai:
Disentangling the Role of Tetranucleotide in the Sequence-Dependence of DNA Conformation: A Molecular Dynamics Approach. APBC 2006: 227-236 - 2004
- [c2]Akinori Sarai, Samuel Selvaraj, M. Michael Gromiha, Hidetoshi Kono:
Structure-Function Relationship in DNA Sequence Recognition by Transcription Factors. APBC 2004: 233-238 - 1999
- [c1]Akinori Sarai:
Methods for Predicting Target Sites of Transcription Factors. German Conference on Bioinformatics 1999: 57-58
Coauthor Index
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