ArticlePloS one2015
iDPF-PseRAAAC: A Web-Server for Identifying the Defensin Peptide Family and Subfamily Using Pseudo Reduced Amino Acid Alphabet Composition.
Article in PloS one, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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20 citing papers in PubMed, 54 citations in OpenAlex.
- Recent development of machine learning-based methods for the prediction of defensin family and subfamily.EXCLI journal · 2022Review
- Research progress of reduced amino acid alphabets in protein analysis and prediction.Computational and structural biotechnology journal · 2022Review
- IHEC_RAAC: a online platform for identifying human enzyme classes via reduced amino acid cluster strategy.Amino acids · 2021Article
- Amino Acid Reduction Can Help to Improve the Identification of Antimicrobial Peptides and Their Functional Activities.Frontiers in genetics · 2021Article
- ANPrAod: Identify Antioxidant Proteins by Fusing Amino Acid Clustering Strategy andComputational and mathematical methods in medicine · 2021Article
- Article
- Identification of Disease-Related 2-Oxoglutarate/Fe (II)-Dependent Oxygenase Based on Reduced Amino Acid Cluster Strategy.Frontiers in cell and developmental biology · 2021Article
- Deep-AmPEP30: Improve Short Antimicrobial Peptides Prediction with Deep Learning.Molecular therapy. Nucleic acids · 2020Article
- A Brief Survey for MicroRNA Precursor Identification Using Machine Learning Methods.Current genomics · 2020Review
- Self-Weighted Multi-Kernel Multi-Label Learning for Potential miRNA-Disease Association Prediction.Molecular therapy. Nucleic acids · 2019Article
- Automatic classification of IgA endomysial antibody test for celiac disease: a new method deploying machine learning.Scientific reports · 2019Article
- RAACBook: a web server of reduced amino acid alphabet for sequence-dependent inference by using Chou's five-step rule.Database : the journal of biological databases and curation · 2019Article
- iDEF-PseRAAC: Identifying the Defensin Peptide by Using Reduced Amino Acid Composition Descriptor.Evolutionary bioinformatics online · 2019Article
- Prediction of Metal Ion Binding Sites in Proteins from Amino Acid Sequences by Using Simplified Amino Acid Alphabets and Random Forest Model.Genomics & informatics · 2017Article
- Rama: a machine learning approach for ribosomal protein prediction in plants.Scientific reports · 2017Article
- Predicting Protein Submitochondrial Locations: The 10th Anniversary.Current genomics · 2017Review
- Prediction of presynaptic and postsynaptic neurotoxins by combining various Chou's pseudo components.Scientific reports · 2017Article
- Sequence-based predictive modeling to identify cancerlectins.Oncotarget · 2017Article
- Convergent evolution of defensin sequence, structure and function.Cellular and molecular life sciences : CMLS · 2017Review
- Competence Classification of Cumulus and Granulosa Cell Transcriptome in Embryos Matched by Morphology and Female Age.PloS one · 2016Article
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Authors and funding
6 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Defensins as one of the most abundant classes of antimicrobial peptides are an essential part of the innate immunity that has evolved in most living organisms from lower organisms to humans. To identify specific defensins as interesting antifungal leads, in this study, we constructed a more rigorous benchmark dataset and the iDPF-PseRAAAC server was developed to predict the defensin family and subfamily. Using reduced dipeptide compositions were used, the overall accuracy of proposed method increased to 95.10% for the defensin family, and 98.39% for the vertebrate subfamily, which is higher than the accuracy from other methods. The jackknife test shows that more than 4% improvement was obtained comparing with the previous method. A free online server was further established for the convenience of most experimental scientists at http://wlxy.imu.edu.cn/college/biostation/fuwu/iDPF-PseRAAAC/index.asp. A friendly guide is provided to describe how to use the web server. We anticipate that iDPF-PseRAAAC may become a useful high-throughput tool for both basic research and drug design.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.