A review of methods available to estimate solvent-accessible surface areas of soluble proteins in the folded and unfolded states
S Ausaf Ali, M Imtaiyaz Hassan, A Islam… - Current Protein and …, 2014 - benthamdirect.com
Solvent accessible surface area (SASA) of proteins has always been considered as a
decisive factor in protein folding and stability studies. It is defined as the surface …
decisive factor in protein folding and stability studies. It is defined as the surface …
Protein interface prediction using graph convolutional networks
A Fout, J Byrd, B Shariat… - Advances in neural …, 2017 - proceedings.neurips.cc
We consider the prediction of interfaces between proteins, a challenging problem with
important applications in drug discovery and design, and examine the performance of …
important applications in drug discovery and design, and examine the performance of …
Protein–protein interaction site prediction through combining local and global features with deep neural networks
Abstract Motivation Protein–protein interactions (PPIs) play important roles in many
biological processes. Conventional biological experiments for identifying PPI sites are costly …
biological processes. Conventional biological experiments for identifying PPI sites are costly …
Deep learning in preclinical antibody drug discovery and development
Y Zhou, Z Huang, W Li, J Wei, Q Jiang, W Yang… - Methods, 2023 - Elsevier
Antibody drugs have become a key part of biotherapeutics. Patients suffering from various
diseases have benefited from antibody therapies. However, its development process is …
diseases have benefited from antibody therapies. However, its development process is …
[HTML][HTML] Systematic functional prioritization of protein posttranslational modifications
Protein function is often regulated by posttranslational modifications (PTMs), and recent
advances in mass spectrometry have resulted in an exponential increase in PTM …
advances in mass spectrometry have resulted in an exponential increase in PTM …
Protein–protein interaction sites prediction by ensemble random forests with synthetic minority oversampling technique
Motivation The prediction of protein–protein interaction (PPI) sites is a key to mutation
design, catalytic reaction and the reconstruction of PPI networks. It is a challenging task …
design, catalytic reaction and the reconstruction of PPI networks. It is a challenging task …
Edgetic perturbation models of human inherited disorders
Q Zhong, N Simonis, QR Li, B Charloteaux… - Molecular systems …, 2009 - embopress.org
Cellular functions are mediated through complex systems of macromolecules and
metabolites linked through biochemical and physical interactions, represented in …
metabolites linked through biochemical and physical interactions, represented in …
iPPBS-Opt: a sequence-based ensemble classifier for identifying protein-protein binding sites by optimizing imbalanced training datasets
Knowledge of protein-protein interactions and their binding sites is indispensable for in-
depth understanding of the networks in living cells. With the avalanche of protein sequences …
depth understanding of the networks in living cells. With the avalanche of protein sequences …
Sequence-based prediction of protein-protein interaction sites by simplified long short-term memory network
Proteins often interact with each other and form protein complexes to carry out various
biochemical activities. Knowledge of the interaction sites is helpful for understanding …
biochemical activities. Knowledge of the interaction sites is helpful for understanding …
Prediction of protein-protein interaction sites through eXtreme gradient boosting with kernel principal component analysis
X Wang, Y Zhang, B Yu, A Salhi, R Chen… - Computers in biology …, 2021 - Elsevier
Predicting protein-protein interaction sites (PPI sites) can provide important clues for
understanding biological activity. Using machine learning to predict PPI sites can mitigate …
understanding biological activity. Using machine learning to predict PPI sites can mitigate …