RNA-binding proteins (RBPs) play crucial roles in various biological processes. Deep learning-based methods have been demonstrated powerful on predicting RBP sites on RNAs. However, the training of deep learning models is very time-intensive and computat
预测工具,用于预测RNA-蛋白互作关系。使用者输入Protein/RNA序列,在“Example”中选择预测类型:只预测RNA上Protein的靶位点/预测RNA(Protein)在Protein(RNA)上的靶位点,结果展示中序列下方为“+”处为可能存在的靶位点。 4、DeepBind:a tool for predicting the sequence specificities of DNA- and RNA-binding prote...
the proteins in the ELAVL protein family prefer binding to stem structures, which is consistent with the in vivo and in vitro binding data [36]. iDeepS also discovers that the protein hnRNPC prefers to bind to U-
DeepBind [45] was one of the first methods which employed deep learning for the prediction of protein-binding from nucleotide sequences, demonstrating ground-break on bothin vitroandin vivoprotein-RNA interaction datasets. DeepBind makes use of a single 1D Convolutional layer, which consists of a ...
and stress granule enriched or depleted proteins and mRNAs in yeast, mouse, and human, the Drosophila homologs of genes in the non-Drosophila datasets were obtained using the DRSC Integrative Ortholog Prediction Tool (DIOPT) web server (https://www.flyrnai.org/cgi-bin/DRSC_orthologs.pl) (Hu...
stand-alone software tool that is fully automatic and handles millions of sequences per experiment. Specificities determined by DeepBind are readily visualized as a weighted ensemble of position weight matrices or as a 'mutation map' that indicates how variations affect binding within a specific ...
protein-RNA binding predictor (DPRBP) stage. We developed a multi-layer feature selector module to capture significant context-sensitive information on the sequence before giving a final prediction.eA variety of functional genomic analyses are carried out to shed new light on the interpretation of ...
To lower these limitations in lncRNA annotation, we present a novel tool TERIUS that provides a two-step filtration process to distinguish between bona fide and false lncRNAs. The first step successfully separates lncRNAs from protein-coding genes showing enhanced sensitivity compared to other methods...
A unique circulating microRNA pairs signature serves as a superior tool for early diagnosis of pan-cancer 2024, Cancer Letters Citation Excerpt : Prediction models based on such pair-wise methods have been commonly employed, however utilization of pair-wise miRNA for such diagnostic models are relat...
In this article, we proposed the prediction framework “ProteRNA” with the combination of SVM-based classifier with evolutionary profiles and conserved residues discovery by sequence conservation for identifying RNA-interacting residues in a RNA-binding protein. In the SVM-based classifier, we use fea...