DNA-binding proteintransfer learningmeta learningdeep learningneural networkattention mechanism.Background: In recent years, the rapid development of deep learning technology has had a significant impact on the prediction of DNA-binding proteins. Deep neural networks can automatically learn complex features...
In addition, these methods are not accurate enough in prediction of the DNA-protein binding sites from the DNA sequence. In this study, we employ the bidirectional long short-term memory (BLSTM) and CNN to capture long-term dependencies between the sequence motifs in DNA, which is called ...
HMMBinder uses monogram and bigram features extracted from the HMM profiles of the protein sequences. To the best of our knowledge, this is the first application of HMM profile based features for the DNA-binding protein prediction problem. We applied Support Vector Machines (SVM) as a ...
Predicting the three-dimensional structure that a protein will adopt based solely on its amino acid sequence—the structure prediction component of the ‘protein folding problem’ 8 —has been an important open research problem for more than 50 years 9 . Despite recent progress 10 – 14 , ...
To achieve highly accurate protein 3D structure prediction, the original ESM2 is constructed on ∼65 million protein sequences, which are almost 382 times the training set of this study. To fit such a large amount of data, the largest ESM2 model has a parameter count of 15 billion. Altho...
摘要: Increased knowledge of DNA-binding proteins would enhance our understanding of protein functions in cellular biological processes. To handle the explosive growth of protein sequenc... 查看全部>>关键词: DNA-binding protein prediction Random forest Local evolutionary information Machine learning-based...
Prediction of DNA Binding Residues and DNA Binding Proteins The binding of DNA to the protein is very specific where DNA binds to a particular region of the protein usually termed as the binding site, defined by the group of residues that are essential for the biological function and whose mut...
Protein phosphorylation has an important role in both egress and invasion in addition to cell cycle control16,17. A total of 30 out of 105 genes involved in protein phosphorylation were significantly down-regulated (Extended Data Fig. 4c and Supplementary Data 2), including 10 out of 21 genes...
Protein modulation and biochemical effects in zebrafish embryos exposed to three water-soluble polymers Binelli A Nigro L Sbarberi R et al.See more Science of the Total Environment 8Citations 58Readers Add to library View PDF Improved datasets and evaluation methods for the automatic prediction of...
Keywords:DNA-bindingsite;prediction;machinelearningmethod;bioinformatics OPENACCESS Int.J.Mol.Sci.2015,165195 1.Introduction Protein–DNAinteractionsarewidelydistributedinalllivingorganisms.Previousreportshave estimatedthat2%–3%ofaprokaryoticgenomeand6%–7%ofaeukaryoticgenomeencodes ...