ArticleScientific reports2016
dRHP-PseRA: detecting remote homology proteins using profile-based pseudo protein sequence and rank aggregation.
Article in Scientific reports, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.
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Who cites it
25 citing papers in PubMed.
- Article
- Importance of Inter-residue Contacts for Understanding Protein Folding and Unfolding Rates, Remote Homology, and Drug Design.Molecular biotechnology · 2025Review
- Improving structure-based protein-ligand affinity prediction by graph representation learning and ensemble learning.PloS one · 2024Article
- Genetic Mining of Newly Isolated Salmophages for Phage Therapy.International journal of molecular sciences · 2022Article
- Protein Structure Prediction: Conventional and Deep Learning Perspectives.The protein journal · 2021Review
- Identification of 4-carboxyglutamate residue sites based on position based statistical feature and multiple classification.Scientific reports · 2020Article
- miRNALoc: predicting miRNA subcellular localizations based on principal component scores of physico-chemical properties and pseudo compositions of di-nucleotides.Scientific reports · 2020Article
- PredDBP-Stack: Prediction of DNA-Binding Proteins from HMM Profiles using a Stacked Ensemble Method.BioMed research international · 2020Article
- A Linear Regression Predictor for Identifying NMolecular therapy. Nucleic acids · 2019Article
- RAFTSBMC bioinformatics · 2019Article
- iRO-PsekGCC: Identify DNA Replication Origins Based on Pseudo k-Tuple GC Composition.Frontiers in genetics · 2019Article
- Reconstructing evolutionary trees in parallel for massive sequences.BMC systems biology · 2017Article
- Protein remote homology detection based on bidirectional long short-term memory.BMC bioinformatics · 2017Article
- iATC-mHyb: a hybrid multi-label classifier for predicting the classification of anatomical therapeutic chemicals.Oncotarget · 2017Article
- Prediction of the aquatic toxicity of aromatic compounds to tetrahymena pyriformis through support vector regression.Oncotarget · 2017Article
- Prediction of presynaptic and postsynaptic neurotoxins by combining various Chou's pseudo components.Scientific reports · 2017Article
- iRNAm5C-PseDNC: identifying RNA 5-methylcytosine sites by incorporating physical-chemical properties into pseudo dinucleotide composition.Oncotarget · 2017Article
- Estimating the effects of transcription factors binding and histone modifications on gene expression levels in human cells.Oncotarget · 2017Article
- iRNA-PseColl: Identifying the Occurrence Sites of Different RNA Modifications by Incorporating Collective Effects of Nucleotides into PseKNC.Molecular therapy. Nucleic acids · 2017Article
- 2L-piRNA: A Two-Layer Ensemble Classifier for Identifying Piwi-Interacting RNAs and Their Function.Molecular therapy. Nucleic acids · 2017Article
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5 authors.
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Abstract
Protein remote homology detection is an important task in computational proteomics. Some computational methods have been proposed, which detect remote homology proteins based on different features and algorithms. As noted in previous studies, their predictive results are complementary to each other. Therefore, it is intriguing to explore whether these methods can be combined into one package so as to further enhance the performance power and application convenience. In view of this, we introduced a protein representation called profile-based pseudo protein sequence to extract the evolutionary information from the relevant profiles. Based on the concept of pseudo proteins, a new predictor, called "dRHP-PseRA", was developed by combining four state-of-the-art predictors (PSI-BLAST, HHblits, Hmmer, and Coma) via the rank aggregation approach. Cross-validation tests on a SCOP benchmark dataset have demonstrated that the new predictor has remarkably outperformed any of the existing methods for the same purpose on ROC50 scores. Accordingly, it is anticipated that dRHP-PseRA holds very high potential to become a useful high throughput tool for detecting remote homology proteins. For the convenience of most experimental scientists, a web-server for dRHP-PseRA has been established at http://bioinformatics.hitsz.edu.cn/dRHP-PseRA/.
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