Kentaro Tomii

According to our database, Kentaro Tomii authored at least 17 papers between 1999 and 2023.

Collaborative distances:

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

2023

PoSSuM v.3: A Major Expansion of the PoSSuM Database for Finding Similar Binding Sites of Proteins.

Yuko Tsuchiya, Tomoki Yonezawa, Yu Yamamori, Hiroko Inoura, Masanori Osawa, Kazuyoshi Ikeda, Kentaro Tomii

J. Chem. Inf. Model., December, 2023

2020

DeepECA: an end-to-end learning framework for protein contact prediction from a multiple sequence alignment.

Hiroyuki Fukuda, Kentaro Tomii

BMC Bioinform., 2020

2019

Protein Properties.

Kentaro Tomii

Proceedings of the Encyclopedia of Bioinformatics and Computational Biology - Volume 2, 2019

Compound-protein interaction prediction with end-to-end learning of neural networks for graphs and sequences.

Masashi Tsubaki, Kentaro Tomii, Jun Sese

Bioinform., 2019

2018

Parallelization of MAFFT for large-scale multiple sequence alignments.

Tsukasa Nakamura, Kazunori D. Yamada, Kentaro Tomii, Kazutaka Katoh

Bioinform., 2018

2017

Simple adjustment of the sequence weight algorithm remarkably enhances PSI-BLAST performance.

Toshiyuki Oda, Kyungtaek Lim, Kentaro Tomii

BMC Bioinform., 2017

2016

Application of the MAFFT sequence alignment program to large data - reexamination of the usefulness of chained guide trees.

Kazunori D. Yamada, Kentaro Tomii, Kazutaka Katoh

Bioinform., 2016

2015

EzCatDB: the enzyme reaction database, 2015 update.

Nozomi Nagano, Naoko Nakayama, Kazuyoshi Ikeda, Masaru Fukuie, Kiyonobu Yokota, Takuo Doi, Tsuyoshi Kato, Kentaro Tomii

Nucleic Acids Res., 2015

PoSSuM v.2.0: data update and a new function for investigating ligand analogs and target proteins of small-molecule drugs.

Jun-Ichi Ito, Kazuyoshi Ikeda, Kazunori D. Yamada, Kenji Mizuguchi, Kentaro Tomii

Nucleic Acids Res., 2015

2014

Revisiting amino acid substitution matrices for identifying distantly related proteins.

Kazunori D. Yamada, Kentaro Tomii

Bioinform., 2014

2012

PoSSuM: a database of similar protein-ligand binding and putative pockets.

Jun-Ichi Ito, Yasuo Tabei, Kana Shimizu, Koji Tsuda, Kentaro Tomii

Nucleic Acids Res., 2012

Convergent evolution in structural elements of proteins investigated using cross profile analysis.

Kentaro Tomii, Yoshito Sawada, Shinya Honda

BMC Bioinform., 2012

2011

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

Chie Motono, Junichi Nakata, Ryotaro Koike, Kana Shimizu, Matsuyuki Shirota, Takayuki Amemiya, Kentaro Tomii, Nozomi Nagano, Naofumi Sakaya, Kiyotaka Misoo, Miwa Sato, Akinori Kidera, Hidekazu Hiroaki, Tsuyoshi Shirai, Kengo Kinoshita, Tamotsu Noguchi, Motonori Ota

Nucleic Acids Res., 2011

2007

Predicting mostly disordered proteins by using structure-unknown protein data.

Kana Shimizu, Yoichi Muraoka, Shuichi Hirose, Kentaro Tomii, Tamotsu Noguchi

BMC Bioinform., 2007

2004

FORTE: a profile-profile comparison tool for protein fold recognition.

Kentaro Tomii, Yutaka Akiyama

Bioinform., 2004

A New Variational Framework for Rigid-Body Alignment.

Tsuyoshi Kato, Koji Tsuda, Kentaro Tomii, Kiyoshi Asai

Proceedings of the Structural, 2004

1999

Systematic Detection of Protein Structural Motifs.

Kentaro Tomii, Minoru Kanehisa

Proceedings of the Pattern Discovery in Biomolecular Data: Tools, 1999