Akinori Sarai

According to our database, Akinori Sarai authored at least 30 papers between 1998 and 2012.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2012

Analysis of the relationships between evolvability, thermodynamics, and the functions of intrinsically disordered proteins/regions.

He Huang, Akinori Sarai

Comput. Biol. Chem., 2012

2011

Prediction of dinucleotide-specific RNA-binding sites in proteins.

Michael Fernández, Yutaro Kumagai, Daron M. Standley, Akinori Sarai, Kenji Mizuguchi, Shandar Ahmad

BMC Bioinform., 2011

2010

CCRXP: exploring clusters of conserved residues in protein structures.

Shandar Ahmad, Ozlem Keskin, Kenji Mizuguchi, Akinori Sarai, Ruth Nussinov

Nucleic Acids Res., 2010

Proteochemometric Recognition of Stable Kinase Inhibition Complexes Using Topological Autocorrelation and Support Vector Machines.

Michael Fernández, Shandar Ahmad, Akinori Sarai

J. Chem. Inf. Model., 2010

2009

Recognition of Drug-Target Interaction Patterns using Genetic Algorithm-optimized Bayesian-regularized Neural Networks and Support Vector Machines.

Michael Fernández, Akinori Sarai, Shandar Ahmad

Proceedings of the IEEE International Conference on Systems, 2009

2007

AUG_hairpin: prediction of a downstream secondary structure influencing the recognition of a translation start site.

Alexey V. Kochetov, Andrey Palyanov, Igor I. Titov, Dmitry A. Grigorovich, Akinori Sarai, Nikolay A. Kolchanov

BMC Bioinform., 2007

2006

ProTherm and ProNIT: thermodynamic databases for proteins and protein-nucleic acid interactions.

M. D. Shaji Kumar, K. Abdulla Bava, M. Michael Gromiha, Ponraj Prabakaran, Koji Kitajima, Hatsuho Uedaira, Akinori Sarai

Nucleic Acids Res., 2006

ReadOut: structure-based calculation of direct and indirect readout energies and specificities for protein-DNA recognition.

Shandar Ahmad, Hidetoshi Kono, Marcos J. Araúzo-Bravo, Akinori Sarai

Nucleic Acids Res., 2006

Dimensionality of amino acid space and solvent accessibility prediction with neural networks.

Marcos J. Araúzo-Bravo, Shandar Ahmad, Akinori Sarai

Comput. Biol. Chem., 2006

Disentangling the Role of Tetranucleotide in the Sequence-Dependence of DNA Conformation: A Molecular Dynamics Approach.

Marcos J. Araúzo-Bravo, Satoshi Fujii, Hidetoshi Kono, Akinori Sarai

Proceedings of 4th Asia-Pacific Bioinformatics Conference. 13-16 February 2006, 2006

2005

The Diamond STING server.

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

Nucleic Acids Res., 2005

Integration of Bioinformatics and Computational Biology to Understand Protein-dna Recognition Mechanism.

Akinori Sarai, Jorg Siebers, Samuel Selvaraj, M. Michael Gromiha, Hidetoshi Kono

J. Bioinform. Comput. Biol., 2005

PSSM-based prediction of DNA binding sites in proteins.

Shandar Ahmad, Akinori Sarai

BMC Bioinform., 2005

2004

ProTherm, version 4.0: thermodynamic database for proteins and mutants.

K. Abdulla Bava, M. Michael Gromiha, Hatsuho Uedaira, Koji Kitajima, Akinori Sarai

Nucleic Acids Res., 2004

Qgrid: clustering tool for detecting charged and hydrophobic regions in proteins.

Shandar Ahmad, Akinori Sarai

Nucleic Acids Res., 2004

<i>ASAView</i>: Database and tool for solvent accessibility representation in proteins.

Shandar Ahmad, M. Michael Gromiha, Hamed Fawareh, Akinori Sarai

BMC Bioinform., 2004

Translational polymorphism as a potential source of plant proteins variety in <i>Arabidopsis thaliana</i>.

Alexey V. Kochetov, Akinori Sarai

Bioinform., 2004

Analysis and prediction of DNA-binding proteins and their binding residues based on composition, sequence and structural information.

Shandar Ahmad, M. Michael Gromiha, Akinori Sarai

Bioinform., 2004

Structure-Function Relationship in DNA Sequence Recognition by Transcription Factors.

Akinori Sarai, Samuel Selvaraj, M. Michael Gromiha, Hidetoshi Kono

Proceedings of the Second Asia-Pacific Bioinformatics Conference (APBC 2004), 2004

2003

RVP-net: online prediction of real valued accessible surface area of proteins from single sequences.

Shandar Ahmad, M. Michael Gromiha, Akinori Sarai

Bioinform., 2003

2002

ProTherm, Thermodynamic Database for Proteins and Mutants: developments in version 3.0.

M. Michael Gromiha, Hatsuho Uedaira, Jianghong An, Samuel Selvaraj, Ponraj Prabakaran, Akinori Sarai

Nucleic Acids Res., 2002

2001

rSNP_Guide, a database system for analysis of transcription factor binding to target sequences: application to SNPs and site-directed mutations.

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

Nucleic Acids Res., 2001

ACTIVITY: a database on DNA/RNA sites activity adapted to apply sequence-activity relationships from one system to another.

Julia V. Ponomarenko, Dagmara P. Furman, Anatoly S. Frolov, Nikolay L. Podkolodny, Galina Orlova, Mikhail P. Ponomarenko, Nikolay A. Kolchanov, Akinori Sarai

Nucleic Acids Res., 2001

Thermodynamic database for protein-nucleic acid interactions (ProNIT).

Ponraj Prabakaran, Jianghong An, M. Michael Gromiha, Samuel Selvaraj, Hatsuho Uedaira, Hidetoshi Kono, Akinori Sarai

Bioinform., 2001

ORI-GENE: gene classification based on the evolutionary tree.

Hideaki Mizuno, Yoshimasa Tanaka, Kenta Nakai, Akinori Sarai

Bioinform., 2001

2000

ProTherm, version 2.0: thermodynamic database for proteins and mutants.

M. Michael Gromiha, Jianghong An, Hidetoshi Kono, Motohisa Oobatake, Hatsuho Uedaira, Ponraj Prabakaran, Akinori Sarai

Nucleic Acids Res., 2000

Multicanonical Monte Carlo calculation of the free-energy map of the base-amino acid interaction.

Kenji Sayano, Hidetoshi Kono, M. Michael Gromiha, Akinori Sarai

J. Comput. Chem., 2000

1999

ProTherm: Thermodynamic Database for Proteins and Mutants.

M. Michael Gromiha, Jianghong An, Hidetoshi Kono, Motohisa Oobatake, Hatsuho Uedaira, Akinori Sarai

Nucleic Acids Res., 1999

Methods for Predicting Target Sites of Transcription Factors.

Akinori Sarai

Proceedings of the German Conference on Bioinformatics, 1999

1998

3DinSight: an integrated relational database and search tool for the structure, function and properties of biomolecules.

Jianghong An, T. Nakama, Y. Kubota, Akinori Sarai

Bioinform., 1998