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Daisuke Kihara
Daisuke Kihara
Professor of Biological Sciences and Computer Science, Showalter University Faculty Scholar, Purdue
Verified email at purdue.edu - Homepage
Title
Cited by
Cited by
Year
A large-scale evaluation of computational protein function prediction
P Radivojac, WT Clark, TR Oron, AM Schnoes, T Wittkop, A Sokolov, ...
Nature methods 10 (3), 221-227, 2013
10442013
An expanded evaluation of protein function prediction methods shows an improvement in accuracy
Y Jiang, TR Oron, WT Clark, AR Bankapur, D D’Andrea, R Lepore, ...
Genome biology 17, 1-19, 2016
4132016
The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens
N Zhou, Y Jiang, TR Bergquist, AJ Lee, BZ Kacsoh, AW Crocker, ...
Genome biology 20, 1-23, 2019
3542019
Limitations and potentials of current motif discovery algorithms
J Hu, B Li, D Kihara
Nucleic acids research 33 (15), 4899-4913, 2005
3092005
Development and large scale benchmark testing of the PROSPECTOR_3 threading algorithm
J Skolnick, D Kihara, Y Zhang
Proteins: Structure, Function, and Bioinformatics 56 (3), 502-518, 2004
2132004
Protein-protein docking using region-based 3D Zernike descriptors
V Venkatraman, YD Yang, L Sael, D Kihara
BMC bioinformatics 10, 1-21, 2009
2092009
TOUCHSTONE: An ab initio protein structure prediction method that uses threading-based tertiary restraints
D Kihara, H Lu, A Kolinski, J Skolnick
Proceedings of the National Academy of Sciences 98 (18), 10125-10130, 2001
1832001
Local energy landscape flattening: parallel hyperbolic Monte Carlo sampling of protein folding
Y Zhang, D Kihara, J Skolnick
Proteins: Structure, Function, and Bioinformatics 48 (2), 192-201, 2002
1822002
Enhanced automated function prediction using distantly related sequences and contextual association by PFP
T Hawkins, S Luban, D Kihara
Protein Science 15 (6), 1550-1556, 2006
1752006
Structure and inhibition of EV-D68, a virus that causes respiratory illness in children
Y Liu, J Sheng, A Fokine, G Meng, WH Shin, F Long, RJ Kuhn, D Kihara, ...
Science 347 (6217), 71-74, 2015
1692015
Prediction of homoprotein and heteroprotein complexes by protein docking and template‐based modeling: a CASP‐CAPRI experiment
MF Lensink, S Velankar, A Kryshtafovych, SY Huang, ...
Proteins: Structure, Function, and Bioinformatics 84, 323-348, 2016
1662016
PFP: Automated prediction of gene ontology functional annotations with confidence scores using protein sequence data
T Hawkins, M Chitale, S Luban, D Kihara
Proteins: Structure, Function, and Bioinformatics 74 (3), 566-582, 2009
1582009
Community-wide assessment of protein-interface modeling suggests improvements to design methodology
SJ Fleishman, TA Whitehead, EM Strauch, JE Corn, S Qin, HX Zhou, ...
Journal of molecular biology 414 (2), 289-302, 2011
1572011
Defrosting the frozen approximation: PROSPECTOR—a new approach to threading
J Skolnick, D Kihara
Proteins: Structure, Function, and Bioinformatics 42 (3), 319-331, 2001
1532001
Fast protein tertiary structure retrieval based on global surface shape similarity
L Sael, B Li, D La, Y Fang, K Ramani, R Rustamov, D Kihara
Proteins: Structure, Function, and Bioinformatics 72 (4), 1259-1273, 2008
1482008
The PDB is a covering set of small protein structures
D Kihara, J Skolnick
Journal of molecular biology 334 (4), 793-802, 2003
1482003
Function prediction of uncharacterized proteins
T Hawkins, D Kihara
Journal of bioinformatics and computational biology 5 (01), 1-30, 2007
1342007
The effect of long‐range interactions on the secondary structure formation of proteins
D Kihara
Protein Science 14 (8), 1955-1963, 2005
1202005
Blind prediction of homo‐and hetero‐protein complexes: The CASP13‐CAPRI experiment
MF Lensink, G Brysbaert, N Nadzirin, S Velankar, RAG Chaleil, T Gerguri, ...
Proteins: Structure, Function, and Bioinformatics 87 (12), 1200-1221, 2019
1172019
Potential for protein surface shape analysis using spherical harmonics and 3D Zernike descriptors
V Venkatraman, L Sael, D Kihara
Cell biochemistry and biophysics 54, 23-32, 2009
1142009
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Articles 1–20