|iFeature: a python package and web server for features extraction and selection from protein and peptide sequences|
Z Chen, P Zhao, F Li, A Leier, TT Marquez-Lago, Y Wang, GI Webb, ...
|PROSPER: an integrated feature-based tool for predicting protease substrate cleavage sites|
J Song, H Tan, AJ Perry, T Akutsu, GI Webb, JC Whisstock, RN Pike
PloS one 7 (11), e50300, 2012
|ACPred-FL: a sequence-based predictor using effective feature representation to improve the prediction of anti-cancer peptides|
L Wei, C Zhou, H Chen, J Song, R Su
|iLearn: an integrated platform and meta-learner for feature engineering and machine learning analysis and modeling of DNA, RNA and protein sequence data|
Z Chen, P Zhao, F Li, TT Marquez-Lago, A Leier, J Revote, DR Powell, ...
Briefings in Bioinformatics, 2020
|APIS: accurate prediction of hot spots in protein interfaces by combining protrusion index with solvent accessibility|
JF Xia, XM Zhao, J Song, DS Huang
BMC bioinformatics 11 (1), 174, 2010
|iProt-Sub: a comprehensive package for accurately mapping and predicting protease-specific substrates and cleavage sites|
J Song, Y Wang, F Li, T Akutsu, ND Rawlings, GI Webb, KC Chou
Briefings in Bioinformatics 20 (2), 638–658, 2019
|Cascleave: towards more accurate prediction of caspase substrate cleavage sites|
J Song, H Tan, H Shen, K Mahmood, SE Boyd, GI Webb, T Akutsu, ...
Bioinformatics 26 (6), 752-760, 2010
|GlycoMine: a machine learning-based approach for predicting N-, C-and O-linked glycosylation in the human proteome|
F Li, C Li, M Wang, GI Webb, Y Zhang, JC Whisstock, J Song
Bioinformatics 31 (9), 1411-1419, 2015
|POSSUM: a bioinformatics toolkit for generating numerical sequence feature descriptors based on PSSM profiles|
J Wang, B Yang, J Revote, A Leier, TT Marquez-Lago, G Webb, J Song, ...
Bioinformatics 33 (17), 2756-2758, 2017
|PROSPERous: high-throughput prediction of substrate cleavage sites for 90 proteases with improved accuracy|
J Song, F Li, A Leier, TT Marquez-Lago, T Akutsu, G Haffari, KC Chou, ...
Bioinformatics 34 (4), 684-687, 2018
|A prominent subset of HLA-I peptides are not genomically templated: evidence for cis- and trans-spliced peptide ligands|
P Faridi, C Li, SH Ramarathinam, JP Vivian, PT Illing, NA Mifsud, R Ayala, ...
Science Immunology, 2018
|Prediction of protein folding rates from primary sequence by fusing multiple sequential features|
HB Shen, J Song, KC Chou
Journal of Biomedical Science and Engineering (JBiSE) 2, 136-143, 2009
|Production of octenyl succinic anhydride-modified waxy corn starch and its characterization|
Z Liu, Y Li, F Cui, L Ping, J Song, Y Ravee, L Jin, Y Xue, J Xu, G Li, ...
Journal of Agricultural and Food Chemistry 56 (23), 11499-11506, 2008
|Quokka: a comprehensive tool for rapid and accurate prediction of kinase family-specific phosphorylation sites in the human proteome|
F Li, C Li, TT Marquez-Lago, A Leier, T Akutsu, AW Purcell, AI Smith, ...
|PREvaIL, an integrative approach for inferring catalytic residues using sequence, structural, and network features in a machine-learning framework|
J Song, F Li, K Takemoto, G Haffari, T Akutsu, KC Chou, GI Webb
Journal of Theoretical Biology 443, 125-137, 2018
|Resolvins E1 and D1 inhibit interstitial fibrosis in the obstructed kidney via inhibition of local fibroblast proliferation|
X Qu, X Zhang, J Yao, J Song, DJ Nikolic‐Paterson, J Li
The Journal of pathology 228 (4), 506-519, 2012
|hCKSAAP_UbSite: Improved prediction of human ubiquitination sites by exploiting amino acid pattern and properties|
Z Chen, Y Zhou, J Song, Z Zhang
Biochimica et Biophysica Acta (BBA)-Proteins and Proteomics 1834 (8), 1461-1467, 2013
|Prediction of cis/trans isomerization in proteins using PSI-BLAST profiles and secondary structure information|
J Song, K Burrage, Z Yuan, T Huber
BMC bioinformatics 7 (1), 124, 2006
|Bastion6: a bioinformatics approach for accurate prediction of type VI secreted effectors|
J Wang, B Yang, A Leier, M Marquez-Lago, Tatiana T., Hayashida, ...
|Accurate in silico identification of species-specific acetylation sites by integrating protein sequence-derived and functional features|
Y Li, M Wang, H Wang, H Tan, Z Zhang, GI Webb, J Song
Scientific reports 4, 5765, 2014