Deep learning and ensemble deep learning for circRNA-RBP interaction prediction in the last decade: A review
Circular ribonucleic acids (circRNAs) are widely expressed in cells and tissues and play vital
roles in cellular physiological processes. Their expressions are associated with …
roles in cellular physiological processes. Their expressions are associated with …
Protein–RNA interaction prediction with deep learning: structure matters
Protein–RNA interactions are of vital importance to a variety of cellular activities. Both
experimental and computational techniques have been developed to study the interactions …
experimental and computational techniques have been developed to study the interactions …
[PDF][PDF] DRNApred, fast sequence-based method that accurately predicts and discriminates DNA-and RNA-binding residues
Protein-DNA and protein-RNA interactions are part of many diverse and essential cellular
functions and yet most of them remain to be discovered and characterized. Recent research …
functions and yet most of them remain to be discovered and characterized. Recent research …
HybridDBRpred: improved sequence-based prediction of DNA-binding amino acids using annotations from structured complexes and disordered proteins
Current predictors of DNA-binding residues (DBRs) from protein sequences belong to two
distinct groups, those trained on binding annotations extracted from structured protein-DNA …
distinct groups, those trained on binding annotations extracted from structured protein-DNA …
BindN: a web-based tool for efficient prediction of DNA and RNA binding sites in amino acid sequences
Abstract BindN (http://bioinformatics. ksu. edu/bindn/) takes an amino acid sequence as
input and predicts potential DNA or RNA-binding residues with support vector machines …
input and predicts potential DNA or RNA-binding residues with support vector machines …
Improved structure-related prediction for insufficient homologous proteins using MSA enhancement and pre-trained language model
In recent years, protein structure problems have become a hotspot for understanding protein
folding and function mechanisms. It has been observed that most of the protein structure …
folding and function mechanisms. It has been observed that most of the protein structure …
Comprehensive review and empirical analysis of hallmarks of DNA-, RNA-and protein-binding residues in protein chains
Proteins interact with a variety of molecules including proteins and nucleic acids. We review
a comprehensive collection of over 50 studies that analyze and/or predict these interactions …
a comprehensive collection of over 50 studies that analyze and/or predict these interactions …
DP-Bind: a web server for sequence-based prediction of DNA-binding residues in DNA-binding proteins
S Hwang, Z Gou, IB Kuznetsov - Bioinformatics, 2007 - academic.oup.com
This article describes DP-Bind, a web server for predicting DNA-binding sites in a DNA-
binding protein from its amino acid sequence. The web server implements three machine …
binding protein from its amino acid sequence. The web server implements three machine …
BindN+ for accurate prediction of DNA and RNA-binding residues from protein sequence features
Background Understanding how biomolecules interact is a major task of systems biology. To
model protein-nucleic acid interactions, it is important to identify the DNA or RNA-binding …
model protein-nucleic acid interactions, it is important to identify the DNA or RNA-binding …
A deep learning framework for robust and accurate prediction of ncRNA-protein interactions using evolutionary information
The interactions between non-coding RNAs (ncRNAs) and proteins play an important role in
many biological processes, and their biological functions are primarily achieved by binding …
many biological processes, and their biological functions are primarily achieved by binding …