Yuedong Yang
Yuedong Yang
School of Data and Computer Science, Sun Yat-sen University
Verified email at mail.sysu.edu.cn - Homepage
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Improving protein fold recognition and template-based modeling by employing probabilistic-based matching between predicted one-dimensional structural properties of query and …
Y Yang, E Faraggi, H Zhao, Y Zhou
Bioinformatics 27 (15), 2076-2082, 2011
Improving prediction of secondary structure, local backbone angles, and solvent accessible surface area of proteins by iterative deep learning
R Heffernan, K Paliwal, J Lyons, A Dehzangi, A Sharma, J Wang, A Sattar, ...
Scientific reports 5, 11476, 2015
SPINE X: Improving protein secondary structure prediction by multistep learning coupled with prediction of solvent accessible surface area and backbone torsion angles
E Faraggi, T Zhang, Y Yang, L Kurgan, Y Zhou
Journal of computational chemistry 33 (3), 259-267, 2012
Specific interactions for ab initio folding of protein terminal regions with secondary structures
Y Yang, Y Zhou
Proteins: Structure, Function, and Bioinformatics 72 (2), 793-803, 2008
Structural insights into the histone H1-nucleosome complex
BR Zhou, H Feng, H Kato, L Dai, Y Yang, Y Zhou, Y Bai
Proceedings of the National Academy of Sciences 110 (48), 19390-19395, 2013
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, 2011
Predicting continuous local structure and the effect of its substitution for secondary structure in fragment-free protein structure prediction
E Faraggi, Y Yang, S Zhang, Y Zhou
Structure 17 (11), 1515-1527, 2009
Ab initio folding of terminal segments with secondary structures reveals the fine difference between two closely related all‐atom statistical energy functions
Y Yang, Y Zhou
Protein science 17 (7), 1212-1219, 2008
Capturing non-local interactions by long short-term memory bidirectional recurrent neural networks for improving prediction of protein secondary structure, backbone angles …
R Heffernan, Y Yang, K Paliwal, Y Zhou
Bioinformatics 33 (18), 2842-2849, 2017
Predicting backbone Cα angles and dihedrals from protein sequences by stacked sparse auto‐encoder deep neural network
J Lyons, A Dehzangi, R Heffernan, A Sharma, K Paliwal, A Sattar, Y Zhou, ...
Journal of computational chemistry 35 (28), 2040-2046, 2014
Improving protein disorder prediction by deep bidirectional long short-term memory recurrent neural networks
J Hanson, Y Yang, K Paliwal, Y Zhou
Bioinformatics 33 (5), 685-692, 2017
Structure-based prediction of RNA-binding domains and RNA-binding sites and application to structural genomics targets
H Zhao, Y Yang, Y Zhou
Nucleic acids research 39 (8), 3017-3025, 2011
Sixty-five years of the long march in protein secondary structure prediction: the final stretch?
Y Yang, J Gao, J Wang, R Heffernan, J Hanson, K Paliwal, Y Zhou
Briefings in bioinformatics 19 (3), 482-494, 2018
SPIDER2: A Package to Predict Secondary Structure, Accessible Surface Area, and Main-Chain Torsional Angles by Deep Neural Networks
Y Yang, R Heffernan, K Paliwal, J Lyons, A Dehzangi, A Sharma, J Wang, ...
Prediction of Protein Secondary Structure, 55-63, 2017
Structure-based prediction of DNA-binding proteins by structural alignment and a volume-fraction corrected DFIRE-based energy function
H Zhao, Y Yang, Y Zhou
Bioinformatics 26 (15), 1857-1863, 2010
Energy Functions in De Novo Protein Design: Current Challenges and Future Prospects
Z Li, Y Yang, J Zhan, L Dai, Y Zhou
Annual Review of Biophysics 42 (1), 2013
Highly accurate sequence-based prediction of half-sphere exposures of amino acid residues in proteins
R Heffernan, A Dehzangi, J Lyons, K Paliwal, A Sharma, J Wang, A Sattar, ...
Bioinformatics 32 (6), 843-849, 2016
A new size‐independent score for pairwise protein structure alignment and its application to structure classification and nucleic‐acid binding prediction
Y Yang, J Zhan, H Zhao, Y Zhou
Proteins: Structure, Function, and Bioinformatics 80 (8), 2080-2088, 2012
An all‐atom knowledge‐based energy function for protein‐DNA threading, docking decoy discrimination, and prediction of transcription‐factor binding profiles
B Xu, Y Yang, H Liang, Y Zhou
Proteins: Structure, Function, and Bioinformatics 76 (3), 718-730, 2009
Highly accurate and high-resolution function prediction of RNA binding proteins by fold recognition and binding affinity prediction.
H Zhao, Y Yang, Y Zhou
RNA biology 8 (6), 2011
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