Akinori Sarai

29 papers B 3Journal 25Unranked 1
YearRankTypeTitle / Venue / Authors
2012 J jnl
Analysis of the relationships between evolvability, thermodynamics, and the functions of intrinsically disordered proteins/regions.
Comput. Biol. Chem.
He Huang, Akinori Sarai
2011 J jnl
Prediction of dinucleotide-specific RNA-binding sites in proteins.
BMC Bioinform.
Michael Fernández, Yutaro Kumagai, Daron M. Standley, Akinori Sarai, Kenji Mizuguchi, Shandar Ahmad
2010 J jnl
CCRXP: exploring clusters of conserved residues in protein structures.
Nucleic Acids Res.
Shandar Ahmad, Ozlem Keskin, Kenji Mizuguchi, Akinori Sarai, Ruth Nussinov
2010 J jnl
Proteochemometric Recognition of Stable Kinase Inhibition Complexes Using Topological Autocorrelation and Support Vector Machines.
J. Chem. Inf. Model.
Michael Fernández, Shandar Ahmad, Akinori Sarai
2009 B conf
Recognition of Drug-Target Interaction Patterns using Genetic Algorithm-optimized Bayesian-regularized Neural Networks and Support Vector Machines.
SMC
Michael Fernández, Akinori Sarai, Shandar Ahmad
2007 J jnl
AUG_hairpin: prediction of a downstream secondary structure influencing the recognition of a translation start site.
BMC Bioinform.
Alexey V. Kochetov, Andrey Palyanov, Igor I. Titov, Dmitry A. Grigorovich, Akinori Sarai, Nikolay A. Kolchanov
2006 J jnl
Dimensionality of amino acid space and solvent accessibility prediction with neural networks.
Comput. Biol. Chem.
Marcos J. Araúzo-Bravo, Shandar Ahmad, Akinori Sarai
2006 B conf
Disentangling the Role of Tetranucleotide in the Sequence-Dependence of DNA Conformation: A Molecular Dynamics Approach.
APBC
Marcos J. Araúzo-Bravo, Satoshi Fujii, Hidetoshi Kono, Akinori Sarai
2006 J jnl
ProTherm and ProNIT: thermodynamic databases for proteins and protein-nucleic acid interactions.
Nucleic Acids Res.
M. D. Shaji Kumar, K. Abdulla Bava, M. Michael Gromiha, Ponraj Prabakaran, Koji Kitajima, Hatsuho Uedaira, Akinori Sarai
2006 J jnl
ReadOut: structure-based calculation of direct and indirect readout energies and specificities for protein-DNA recognition.
Nucleic Acids Res.
Shandar Ahmad, Hidetoshi Kono, Marcos J. Araúzo-Bravo, Akinori Sarai
2005 J jnl
Integration of Bioinformatics and Computational Biology to Understand Protein-dna Recognition Mechanism.
J. Bioinform. Comput. Biol.
Akinori Sarai, Jorg Siebers, Samuel Selvaraj, M. Michael Gromiha, Hidetoshi Kono
2005 J jnl
PSSM-based prediction of DNA binding sites in proteins.
BMC Bioinform.
Shandar Ahmad, Akinori Sarai
2005 J jnl
The Diamond STING server.
Nucleic Acids Res.
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
2004 J jnl
Analysis and prediction of DNA-binding proteins and their binding residues based on composition, sequence and structural information.
Bioinform.
Shandar Ahmad, M. Michael Gromiha, Akinori Sarai
2004 J jnl
ProTherm, version 4.0: thermodynamic database for proteins and mutants.
Nucleic Acids Res.
K. Abdulla Bava, M. Michael Gromiha, Hatsuho Uedaira, Koji Kitajima, Akinori Sarai
2004 J jnl
Qgrid: clustering tool for detecting charged and hydrophobic regions in proteins.
Nucleic Acids Res.
Shandar Ahmad, Akinori Sarai
2004 B conf
Structure-Function Relationship in DNA Sequence Recognition by Transcription Factors.
APBC
Akinori Sarai, Samuel Selvaraj, M. Michael Gromiha, Hidetoshi Kono
2004 J jnl
Translational polymorphism as a potential source of plant proteins variety in
Bioinform.
Alexey V. Kochetov, Akinori Sarai
2003 J jnl
RVP-net: online prediction of real valued accessible surface area of proteins from single sequences.
Bioinform.
Shandar Ahmad, M. Michael Gromiha, Akinori Sarai
2002 J jnl
ProTherm, Thermodynamic Database for Proteins and Mutants: developments in version 3.0.
Nucleic Acids Res.
M. Michael Gromiha, Hatsuho Uedaira, Jianghong An, Samuel Selvaraj, Ponraj Prabakaran, Akinori Sarai
2001 J jnl
ACTIVITY: a database on DNA/RNA sites activity adapted to apply sequence-activity relationships from one system to another.
Nucleic Acids Res.
Julia V. Ponomarenko, Dagmara P. Furman, Anatoly S. Frolov, Nikolay L. Podkolodny, Galina Orlova, Mikhail P. Ponomarenko, Nikolay A. Kolchanov, Akinori Sarai
2001 J jnl
ORI-GENE: gene classification based on the evolutionary tree.
Bioinform.
Hideaki Mizuno, Yoshimasa Tanaka, Kenta Nakai, Akinori Sarai
2001 J jnl
Thermodynamic database for protein-nucleic acid interactions (ProNIT).
Bioinform.
Ponraj Prabakaran, Jianghong An, M. Michael Gromiha, Samuel Selvaraj, Hatsuho Uedaira, Hidetoshi Kono, Akinori Sarai
2001 J jnl
rSNP_Guide, a database system for analysis of transcription factor binding to target sequences: application to SNPs and site-directed mutations.
Nucleic Acids Res.
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
2000 J jnl
Multicanonical Monte Carlo calculation of the free-energy map of the base-amino acid interaction.
J. Comput. Chem.
Kenji Sayano, Hidetoshi Kono, M. Michael Gromiha, Akinori Sarai
2000 J jnl
ProTherm, version 2.0: thermodynamic database for proteins and mutants.
Nucleic Acids Res.
M. Michael Gromiha, Jianghong An, Hidetoshi Kono, Motohisa Oobatake, Hatsuho Uedaira, Ponraj Prabakaran, Akinori Sarai
1999 — conf
Methods for Predicting Target Sites of Transcription Factors.
German Conference on Bioinformatics
Akinori Sarai
1999 J jnl
ProTherm: Thermodynamic Database for Proteins and Mutants.
Nucleic Acids Res.
M. Michael Gromiha, Jianghong An, Hidetoshi Kono, Motohisa Oobatake, Hatsuho Uedaira, Akinori Sarai
1998 J jnl
3DinSight: an integrated relational database and search tool for the structure, function and properties of biomolecules.
Bioinform.
Jianghong An, T. Nakama, Y. Kubota, Akinori Sarai