The Usage of ACCLUSTER for Peptide Binding Site Prediction.
Sign Up to like & getrecommendations! Published in 2017 at "Methods in molecular biology"
DOI: 10.1007/978-1-4939-6798-8_1
Abstract: Peptides mediate up to 40 % of protein-protein interactions in a variety of cellular processes and are also attractive drug candidates. Thus, predicting peptide binding sites on the given protein structure is of great importance… read more here.
Keywords: peptide binding; accluster; accluster peptide; binding site ... See more keywords
Uncovering the Dominant Motion Modes of Allosteric Regulation Improves Allosteric Site Prediction
Sign Up to like & getrecommendations! Published in 2022 at "Journal of chemical information and modeling"
DOI: 10.1021/acs.jcim.1c01267
Abstract: Allostery is an important mechanism that biological systems use to regulate function at a distant site. Allosteric drugs have attracted much attention in recent years due to their high specificity and the possibility of overcoming… read more here.
Keywords: site prediction; motion; prediction; allosteric site ... See more keywords
MusiteDeep: a deep‐learning framework for general and kinase‐specific phosphorylation site prediction
Sign Up to like & getrecommendations! Published in 2017 at "Bioinformatics"
DOI: 10.1093/bioinformatics/btx496
Abstract: Motivation: Computational methods for phosphorylation site prediction play important roles in protein function studies and experimental design. Most existing methods are based on feature extraction, which may result in incomplete or biased features. Deep learning… read more here.
Keywords: deep learning; phosphorylation site; site prediction; phosphorylation ... See more keywords
SpliceRover: interpretable convolutional neural networks for improved splice site prediction
Sign Up to like & getrecommendations! Published in 2018 at "Bioinformatics"
DOI: 10.1093/bioinformatics/bty497
Abstract: Motivation: During the last decade, improvements in high‐throughput sequencing have generated a wealth of genomic data. Functionally interpreting these sequences and finding the biological signals that are hallmarks of gene function and regulation is currently… read more here.
Keywords: splicerover; site prediction; splice site; prediction ... See more keywords
Evaluation of the Effectiveness of Derived Features of AlphaFold2 on Single-Sequence Protein Binding Site Prediction
Sign Up to like & getrecommendations! Published in 2022 at "Biology"
DOI: 10.3390/biology11101454
Abstract: Simple Summary With the development of artificial intelligence, researchers can roughly predict the crystal structure of a protein by computer without the need for biological experiments, which provides new ideas and solutions to problems, such… read more here.
Keywords: protein binding; site prediction; prediction; deep learning ... See more keywords
TransPhos: A Deep-Learning Model for General Phosphorylation Site Prediction Based on Transformer-Encoder Architecture
Sign Up to like & getrecommendations! Published in 2022 at "International Journal of Molecular Sciences"
DOI: 10.3390/ijms23084263
Abstract: Protein phosphorylation is one of the most critical post-translational modifications of proteins in eukaryotes, which is essential for a variety of biological processes. Plenty of attempts have been made to improve the performance of computational… read more here.
Keywords: phosphorylation; deep learning; phosphorylation site; site prediction ... See more keywords
PITHIA: Protein Interaction Site Prediction Using Multiple Sequence Alignments and Attention
Sign Up to like & getrecommendations! Published in 2022 at "International Journal of Molecular Sciences"
DOI: 10.3390/ijms232112814
Abstract: Cellular functions are governed by proteins, and, while some proteins work independently, most work by interacting with other proteins. As a result it is crucially important to know the interaction sites that facilitate the interactions… read more here.
Keywords: interaction; site prediction; protein interaction; sequence ... See more keywords
Multi-dimensional feature recognition model based on capsule network for ubiquitination site prediction
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DOI: 10.7717/peerj.14427
Abstract: Ubiquitination is an important post-translational modification of proteins that regulates many cellular activities. Traditional experimental methods for identification are costly and time-consuming, so many researchers have proposed computational methods for ubiquitination site prediction in recent… read more here.
Keywords: capsule network; site prediction; ubiquitination site; feature ... See more keywords