ArticleNucleic acids research2003
PSORT-B: Improving protein subcellular localization prediction for Gram-negative bacteria.
Article in Nucleic acids research, 2003. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 178 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
178 citing papers in PubMed.
- Reverse vaccinology for development of vaccine against Aeromonas hydrophila infection in nile tilapia (Oreochromis niloticus).Brazilian journal of microbiology : [publication of the Brazilian Society for Microbiology] · 2026Article
- A pangenome-based strategy for designing a multi-epitope vaccine against non-toxin antigens of necrotic enteritis-associated Clostridium perfringens.Brazilian journal of microbiology : [publication of the Brazilian Society for Microbiology] · 2026Article
- Article
- Immunoinformatics-based design of a next generation multi-epitope vaccine candidate against Shigella boydii using a hierarchical subtractive proteomics approach.Scientific reports · 2025Article
- AnaToc75 (Alr2269) mediates calcium uptake across the outer membrane inJournal of bacteriology · 2025Article
- A comprehensive computer-based assessment of Deacetylnomilin as an inhibitor for antibiotic-resistant genes identified from the whole genome sequence of the multidrug-resistant Enterobacter cloacae isolate 1382.Molecular diversity · 2025Article
- Proteome-wide identification of druggable targets and inhibitors for multidrug-resistantHeliyon · 2025Article
- An integrated immunoinformatic approach to design a novel multiepitope chimeric vaccine againstFrontiers in immunology · 2025Article
- Combatting antibiotic resistance in Gardnerella vaginalis: A comparative in silico investigation for drug target identification.PloS one · 2025Article
- Practical Applications of Language Models in Protein Sorting Prediction: SignalP 6.0, DeepLoc 2.1, and DeepLocPro 1.0.Methods in molecular biology (Clifton, N.J.) · 2025Article
- In Silico Subtractive Proteome Analysis to Design Multi-Epitope-Based Subunit Vaccine againstJournal of microbiology and biotechnology · 2024Article
- Reliability of plastid and mitochondrial localisation prediction declines rapidly with the evolutionary distance to the training set increasing.PLoS computational biology · 2024Article
- The predicted secreted proteome of activated sludge microorganisms indicates distinct nutrient niches.mSystems · 2024Article
- Advanced vaccinomic, immunoinformatic, and molecular modeling strategies for designing Multi- epitope vaccines against theFrontiers in immunology · 2024Article
- Protein Sorting Prediction.Methods in molecular biology (Clifton, N.J.) · 2024Article
- SignalP: The Evolution of a Web Server.Methods in molecular biology (Clifton, N.J.) · 2024Article
- Pangenome diversification and resistance gene characterization in Salmonella Typhi prioritized RfaJ as a significant therapeutic marker.Journal, genetic engineering & biotechnology · 2023Article
- Roles for theJournal of biological rhythms · 2023Article
- A review from biological mapping to computation-based subcellular localization.Molecular therapy. Nucleic acids · 2023Review
- Vaxi-DL: An Artificial Intelligence-Enabled Platform for Vaccine Development.Methods in molecular biology (Clifton, N.J.) · 2023Article
118 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
11 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Automated prediction of bacterial protein subcellular localization is an important tool for genome annotation and drug discovery. PSORT has been one of the most widely used computational methods for such bacterial protein analysis; however, it has not been updated since it was introduced in 1991. In addition, neither PSORT nor any of the other computational methods available make predictions for all five of the localization sites characteristic of Gram-negative bacteria. Here we present PSORT-B, an updated version of PSORT for Gram-negative bacteria, which is available as a web-based application at http://www.psort.org. PSORT-B examines a given protein sequence for amino acid composition, similarity to proteins of known localization, presence of a signal peptide, transmembrane alpha-helices and motifs corresponding to specific localizations. A probabilistic method integrates these analyses, returning a list of five possible localization sites with associated probability scores. PSORT-B, designed to favor high precision (specificity) over high recall (sensitivity), attained an overall precision of 97% and recall of 75% in 5-fold cross-validation tests, using a dataset we developed of 1443 proteins of experimentally known localization. This dataset, the largest of its kind, is freely available, along with the PSORT-B source code (under GNU General Public License).
Indexed as
Identifiers
What OpenQuestion holds
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.