ArticleProtein science : a publication of the Protein Society2023
VirulentPred 2.0: An improved method for prediction of virulent proteins in bacterial pathogens.
Article in Protein science : a publication of the Protein Society, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
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Who cites it
19 citing papers in PubMed, 32 citations in OpenAlex.
- Structure-based virulence factor classification using a dual-driven graph transformer with a pretrained language model.Briefings in bioinformatics · 2026Article
- Molecular and computational analysis of conserved outer membranes (oprI and oprL) in MDR clinical isolates of Pseudomonas aeruginosa as potential vaccine targets from Lahore, Pakistan.International microbiology : the official journal of the Spanish Society for Microbiology · 2026Article
- Evolutionary interplay: virulence, endolysin-like hydrolases, and defense correlations in the Erwinia amylovora pangenome.BMC microbiology · 2026Article
- Strategies for integrating whole-genome sequencing into antimicrobial resistance surveillance.BMC genomics · 2026Review
- Article
- DeepVIC: modular prediction and classification of bacterial virulence factors using protein language model embeddings.Bioinformatics advances · 2026Article
- Generative and Contrastive Self-Supervised Learning for Virulence Factor Identification Based on Protein-Protein Interaction Networks.Microorganisms · 2025Article
- VirulentHunter: deep learning-based virulence factor predictor illuminates pathogenicity in diverse microbial contexts.Briefings in bioinformatics · 2025Article
- De novo virulence feature discovery and risk assessment in Klebsiella pneumoniae based on microbial genome vectorization.Communications biology · 2025Article
- Functional and Structure Prediction of Hypothetical Proteins FromBioMed research international · 2025Article
- Genomic insights into a Proteus mirabilis strain inducing avian cellulitis.Brazilian journal of microbiology : [publication of the Brazilian Society for Microbiology] · 2024Article
- Review
- Article
- Article
- Artificial intelligence-driven reverse vaccinology forFrontiers in molecular biosciences · 2024Article
- New insights into the putative role of leucine-rich repeat proteins ofFrontiers in cellular and infection microbiology · 2024Review
- Identification and Functional Annotation of Hypothetical Proteins of Pan-Drug-ResistantBioinformatics and biology insights · 2024Article
- Comprehensive in silico analyses of fifty-one uncharacterized proteins from Vibrio cholerae.PloS one · 2024Article
- VirulentPred 2.0: An improved method for prediction of virulent proteins in bacterial pathogens.Protein science : a publication of the Protein Society · 2023Article
Corrections and comments
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Authors and funding
4 authors at 1 institution in 1 country.
Funding
Abstract
Virulence proteins in pathogens are essential for causing disease in a host. They enable the pathogen to invade, survive and multiply within the host, thus enhancing its potential to cause disease while also causing evasion of host defense mechanisms. Identifying these factors, especially potential vaccine candidates or drug targets, is critical for vaccine or drug development research. In this context, we present an improved version of VirulentPred 1.0 for rapidly identifying virulent proteins. The VirulentPred 2.0 is based on training machine learning models with experimentally validated virulent protein sequences. VirulentPred 2.0 achieved 84.71% accuracy with the validation dataset and 85.18% on an independent test dataset. The models are trained and evaluated with the latest sequence datasets of virulent proteins, which are three times greater in number than the proteins used in the earlier version of VirulentPred. Moreover, a significant improvement of 11% in the prediction accuracy over the earlier version is achieved with the best position-specific scoring matrix (PSSM)-based model for the latest test dataset. VirulentPred 2.0 is available as a user-friendly web interface at https://bioinfo.icgeb.res.in/virulent2/ and a standalone application suitable for bulk predictions. With higher efficiency and availability as a standalone tool, VirulentPred 2.0 holds immense potential for high throughput yet efficient identification of virulent proteins in bacterial pathogens.
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Registered trials
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.