Daron M. Standley

18 papers Misc 1Journal 17
YearRankTypeTitle / Venue / Authors
2024 J jnl
Robust detection of infectious disease, autoimmunity, and cancer from the paratope networks of adaptive immune receptors.
Briefings Bioinform.
Zichang Xu, Hendra S. Ismanto, Dianita S. Saputri, Soichiro Haruna, Guanqun Sun, Jan Wilamowski, Shunsuke Teraguchi, Ayan Sengupta, Songling Li, Daron M. Standley
2022 J jnl
Advances in antibody discovery from human BCR repertoires.
Frontiers Bioinform.
Zichang Xu, Hendra S. Ismanto, Hao Zhou, Dianita S. Saputri, Fuminori Sugihara, Daron M. Standley
2019 J jnl
MAFFT-DASH: integrated protein sequence and structural alignment.
Nucleic Acids Res.
John Rozewicki, Songling Li, Karlou Mar Amada, Daron M. Standley, Kazutaka Katoh
2016 J jnl
A simple method to control over-alignment in the MAFFT multiple sequence alignment program.
Bioinform.
Kazutaka Katoh, Daron M. Standley
2014 J jnl
Kotai Antibody Builder: automated high-resolution structural modeling of antibodies.
Bioinform.
Kazuo Yamashita, Kazuyoshi Ikeda, Karlou Mar Amada, Shide Liang, Yuko Tsuchiya, Haruki Nakamura, Hiroki Shirai, Daron M. Standley
2013 J jnl
A Parzen window-based approach for the detection of locally enriched transcription factor binding sites.
BMC Bioinform.
Alexis Vandenbon, Yutaro Kumagai, Shunsuke Teraguchi, Karlou Mar Amada, Shizuo Akira, Daron M. Standley
2013 J jnl
A novel function prediction approach using protein overlap networks.
BMC Syst. Biol.
Shide Liang, Dandan Zheng, Daron M. Standley, Huarong Guo, Chi Zhang
2012 Misc conf
Functional Annotation of Intrinsically Disordered Domains by Their Amino Acid Content Using IDD Navigator.
Pacific Symposium on Biocomputing
Ashwini Patil, Shunsuke Teraguchi, Huy Dinh, Kenta Nakai, Daron M. Standley
2012 J jnl
Protein Data Bank Japan (PDBj): maintaining a structural data archive and resource description framework format.
Nucleic Acids Res.
Akira R. Kinjo, Hirofumi Suzuki, Reiko Yamashita, Yasuyo Ikegawa, Takahiro Kudou, Reiko Igarashi, Yumiko Kengaku, Hasumi Cho, Daron M. Standley, Atsushi Nakagawa, Haruki Nakamura
2011 J jnl
Fast and accurate prediction of protein side-chain conformations.
Bioinform.
Shide Liang, Dandan Zheng, Chi Zhang, Daron M. Standley
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
2011 J jnl
Protein side chain modeling with orientation-dependent atomic force fields derived by series expansions.
J. Comput. Chem.
Shide Liang, Yaoqi Zhou, Nick V. Grishin, Daron M. Standley
2010 J jnl
EPSVR and EPMeta: prediction of antigenic epitopes using support vector regression and multiple server results.
BMC Bioinform.
Shide Liang, Dandan Zheng, Daron M. Standley, Bo Yao, Martin Zacharias, Chi Zhang
2010 J jnl
Intrinsically disordered domains deviate significantly from random sequences in mammalian proteins.
BMC Bioinform.
Shunsuke Teraguchi, Ashwini Patil, Daron M. Standley
2010 J jnl
The DBCLS BioHackathon: standardization and interoperability for bioinformatics web services and workflows.
J. Biomed. Semant.
Toshiaki Katayama, Kazuharu Arakawa, Mitsuteru Nakao, Keiichiro Ono, Kiyoko F. Aoki-Kinoshita, Yasunori Yamamoto, Atsuko Yamaguchi, Shuichi Kawashima, Hong-Woo Chun, Jan Aerts, Bruno Aranda, Lord H. Barboza, Raoul Jean Pierre Bonnal, Richard M. Bruskiewich, Jan Christian Bryne, José María Fernández, Akira Funahashi, Paul M. K. Gordon, Naohisa Goto, Andreas Groscurth, Alex Gutteridge, Richard C. G. Holland, Yoshinobu Kano, Edward A. Kawas, Arnaud Kerhornou, Eri Kibukawa, Akira R. Kinjo, Michael Kuhn, Hilmar Lapp, Heikki Lehväslaiho, Hiroyuki Nakamura, Yasukazu Nakamura, Tatsuya Nishizawa, Chikashi Nobata, Tamotsu Noguchi, Thomas M. Oinn, Shinobu Okamoto, Stuart Owen, Evangelos Pafilis, Matthew R. Pocock, Pjotr Prins, René Ranzinger, Florian Reisinger, Lukasz Salwínski, Mark J. Schreiber, Martin Senger, Yasumasa Shigemoto, Daron M. Standley, Hideaki Sugawara, Toshiyuki Tashiro, Oswaldo Trelles, Rutger A. Vos, Mark D. Wilkinson, William S. York, Christian M. Zmasek, Kiyoshi Asai, Toshihisa Takagi
2008 J jnl
Protein structure databases with new web services for structural biology and biomedical research.
Briefings Bioinform.
Daron M. Standley, Akira R. Kinjo, Kengo Kinoshita, Haruki Nakamura
2007 J jnl
ASH structure alignment package: Sensitivity and selectivity in domain classification.
BMC Bioinform.
Daron M. Standley, Hiroyuki Toh, Haruki Nakamura
2005 J jnl
GASH: An improved algorithm for maximizing the number of equivalent residues between two protein structures.
BMC Bioinform.
Daron M. Standley, Hiroyuki Toh, Haruki Nakamura