iProt-Sub: a comprehensive package for accurately mapping and predicting protease-specific substrates and cleavage sites
Regulation of proteolysis plays a critical role in a myriad of important cellular processes. The
key to better understanding the mechanisms that control this process is to identify the …
key to better understanding the mechanisms that control this process is to identify the …
Large-scale comparative assessment of computational predictors for lysine post-translational modification sites
Lysine post-translational modifications (PTMs) play a crucial role in regulating diverse
functions and biological processes of proteins. However, because of the large volumes of …
functions and biological processes of proteins. However, because of the large volumes of …
Optimal classifier for imbalanced data using Matthews Correlation Coefficient metric
Data imbalance is frequently encountered in biomedical applications. Resampling
techniques can be used in binary classification to tackle this issue. However such solutions …
techniques can be used in binary classification to tackle this issue. However such solutions …
Sixty-five years of the long march in protein secondary structure prediction: the final stretch?
Protein secondary structure prediction began in 1951 when Pauling and Corey predicted
helical and sheet conformations for protein polypeptide backbone even before the first …
helical and sheet conformations for protein polypeptide backbone even before the first …
iTerm-PseKNC: a sequence-based tool for predicting bacterial transcriptional terminators
Motivation Transcription termination is an important regulatory step of gene expression. If
there is no terminator in gene, transcription could not stop, which will result in abnormal …
there is no terminator in gene, transcription could not stop, which will result in abnormal …
PROSPER: an integrated feature-based tool for predicting protease substrate cleavage sites
The ability to catalytically cleave protein substrates after synthesis is fundamental for all
forms of life. Accordingly, site-specific proteolysis is one of the most important post …
forms of life. Accordingly, site-specific proteolysis is one of the most important post …
High-resolution structure of the Escherichia coli ribosome
J Noeske, MR Wasserman, DS Terry… - Nature structural & …, 2015 - nature.com
Protein synthesis by the ribosome is highly dependent on the ionic conditions in the cellular
environment, but the roles of ribosome solvation have remained poorly understood …
environment, but the roles of ribosome solvation have remained poorly understood …
PREvaIL, an integrative approach for inferring catalytic residues using sequence, structural, and network features in a machine-learning framework
Determining the catalytic residues in an enzyme is critical to our understanding the
relationship between protein sequence, structure, function, and enhancing our ability to …
relationship between protein sequence, structure, function, and enhancing our ability to …
Prediction of Ubiquitination Sites by Using the Composition of k-Spaced Amino Acid Pairs
As one of the most important reversible protein post-translation modifications, ubiquitination
has been reported to be involved in lots of biological processes and closely implicated with …
has been reported to be involved in lots of biological processes and closely implicated with …
Computational analysis and prediction of lysine malonylation sites by exploiting informative features in an integrative machine-learning framework
As a newly discovered post-translational modification (PTM), lysine malonylation (Kmal)
regulates a myriad of cellular processes from prokaryotes to eukaryotes and has important …
regulates a myriad of cellular processes from prokaryotes to eukaryotes and has important …