PSORT-B: improving protein subcellular localization prediction for Gram-negative bacteria

No abstract is available for this paper.

• Publication year

  2003

• Venue

  Nucleic Acids Res.

• Publication date

  2003-07-01

• Fields of study

  Biology, Medicine, Computer Science

• Identifiers
  DOI 10.1093/NAR/GKG602PMID 12824378PMCID PMC169008
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

• Extensive feature detection of N-terminal protein sorting signals

  2002cited by this paper
• Predicting Protein Subcellular Localisation From Amino Acid Sequence Information

  2002cited by this paper
• Sequence conserved for subcellular localization

  2002cited by this paper
• The PROSITE database, its status in 2002

  2002cited by this paper
• The HMMTOP transmembrane topology prediction server

  2001cited by this paper
• Support vector machine approach for protein subcellular localization prediction

  2001influential reference
• The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000

  2000cited by this paper
• A comparison of signal sequence prediction methods using a test set of signal peptides

  2000cited by this paper
• Predicting subcellular localization of proteins based on their N-terminal amino acid sequence.

  2000cited by this paper
• Protein sorting signals and prediction of subcellular localization.

  2000cited by this paper
• PSORT: a program for detecting sorting signals in proteins and predicting their subcellular localization.

  1999cited by this paper
• The PROSITE database, its status in 1999

  1999influential reference
• Wanted: subcellular localization of proteins based on sequence.

  1998cited by this paper
• Membrane protein biogenesis: the exception explains the rules.

  1998cited by this paper
• Principles governing amino acid composition of integral membrane proteins: application to topology prediction.

  1998influential reference
• Using neural networks for prediction of the subcellular location of proteins.

  1998cited by this paper
• The SWISS-PROT protein sequence data bank and its supplement TrEMBL

  1997cited by this paper
• Identification of prokaryotic and eukaryotic signal peptides and prediction of their cleavage sites.

  1997cited by this paper
• Signals for protein targeting into and across membranes.

  1994cited by this paper
• Signals for protein targeting into and across membranes.

  1994cited by this paper
• Expert system for predicting protein localization sites in gram‐negative bacteria

  1991cited by this paper

• Structural Characterization and Functional Annotation of a Hypothetical Protein from Salmonella Bongori: An In-Silico Investigation

  2026cites this paper
• Immunoinformatics-based design of a next generation multi-epitope vaccine candidate against Shigella boydii using a hierarchical subtractive proteomics approach

  2025cites this paper
• Combatting antibiotic resistance in Gardnerella vaginalis: A comparative in silico investigation for drug target identification

  2025influential citation
• Computational Modeling and Quality Validation of HMG-CoA Reductase for Drug Design Applications

  2025cites this paper
• Proteome-wide identification of druggable targets and inhibitors for multidrug-resistant Pseudomonas aeruginosa using an integrative subtractive proteomics and virtual screening approach

  2025cites this paper
• Computational investigation of citric acid as a potential inhibitor of Salmonella Typhimurium biofilm formation via regulatory protein cascade

  2025influential citation
• Practical Applications of Language Models in Protein Sorting Prediction: SignalP 6.0, DeepLoc 2.1, and DeepLocPro 1.0.

  2025cites this paper
• AnaToc75 (Alr2269) mediates calcium uptake across the outer membrane in Anabaena sp. PCC 7120

  2025influential citation
• Subtractive Genomics for Identifying Tuberculosis-Linked Bacterial Targets in Type-2 Diabetes and Drug Repurposing Strategies

  2025cites this paper
• An integrated immunoinformatic approach to design a novel multiepitope chimeric vaccine against Mycoplasma phocimorsus as a causal agent of bloodstream infections

  2025cites this paper
• Application of immunoinformatics to develop a novel and effective multiepitope chimeric vaccine against Variovorax durovernensis

  2024cites this paper
• Global proteome of the saprophytic strain Leptospira biflexa and comparative analysis with pathogenic strain Leptospira interrogans uncover new pathogenesis mechanisms.

  2024cites this paper
• Pangenome analysis of five representative Tropheryma whipplei strains following multiepitope-based vaccine design via immunoinformatic approaches

  2024cites this paper
• The predicted secreted proteome of activated sludge microorganisms indicates distinct nutrient niches

  2024cites this paper
• Membrane vesicles in Acidithiobacillia class extreme acidophiles: influence on collective behaviors of ‘Fervidacidithiobacillus caldus’

  2024influential citation
• An integrated in silico reverse vaccinology approach for multi-epitope vaccine designing against Shigellosis caused by Shigella flexneri serotype X

  2024influential citation
• SignalP: The Evolution of a Web Server.

  2024cites this paper
• Identification of therapeutic drug target of Shigella Flexneri serotype X through subtractive genomic approach and in-silico screening based on drug repurposing.

  2024cites this paper
• Advanced vaccinomic, immunoinformatic, and molecular modeling strategies for designing Multi- epitope vaccines against the Enterobacter cloacae complex

  2024cites this paper
• Protein Sorting Prediction.

  2024cites this paper
• In Silico Subtractive Proteome Analysis to Design Multi-Epitope-Based Subunit Vaccine against Eikenella corrodens

  2024cites this paper
• 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

  2024cites this paper
• Performance of localization prediction algorithms decreases rapidly with the evolutionary distance to the training set increasing

  2024cites this paper
• Reliability of plastid and mitochondrial localisation prediction declines rapidly with the evolutionary distance to the training set increasing

  2024cites this paper
• Design and characterization of a multi-epitope vaccine against Clostridium botulinum A3 Loch Maree intoxication in humans.

  2023cites this paper
• Pangenome diversification and resistance gene characterization in Salmonella Typhi prioritized RfaJ as a significant therapeutic marker

  2023influential citation
• Vaxi-DL: An Artificial Intelligence-Enabled Platform for Vaccine Development.

  2023cites this paper
• A review from biological mapping to computation-based subcellular localization

  2023cites this paper
• Recognition of outer membrane proteins using multiple feature fusion

  2023cites this paper
• Genome-wide identification, characterization and evolutionary dynamic of invertase gene family in apple, and revealing its roles in cold tolerance.

  2023cites this paper
• Roles for the Synechococcus elongatus RNA-Binding Protein Rbp2 in Regulating the Circadian Clock

  2023influential citation
• LightGBM-LncLoc: A LightGBM-Based Computational Predictor for Recognizing Long Non-Coding RNA Subcellular Localization

  2023cites this paper
• Convolutional ProteinUnetLM competitive with long short‐term memory‐based protein secondary structure predictors

  2022cites this paper
• Adaptations to high pressure of Nautilia sp. strain PV‐1, a piezophilic Campylobacterium (aka Epsilonproteobacterium) isolated from a deep‐sea hydrothermal vent

  2022cites this paper
• Pan genome based reverse vaccinology approach to explore Enterococcus faecium (VRE) strains for identification of novel multi-epitopes vaccine candidate.

  2022cites this paper
• Investigating the Functional Role of Hypothetical Proteins From an Antarctic Bacterium Pseudomonas sp. Lz4W: Emphasis on Identifying Proteins Involved in Cold Adaptation

  2022cites this paper
• Convolutional ProteinUnetLM competitive with LSTM-based protein secondary structure predictors

  2022cites this paper
• Manganese oxidation counteracts the deleterious effect of low temperatures on biofilm formation in Pseudomonas sp. MOB-449

  2022cites this paper
• Design of a Multi-Epitope Vaccine against Tropheryma whipplei Using Immunoinformatics and Molecular Dynamics Simulation Techniques

  2022cites this paper
• Designing a novel chimeric multi-epitope vaccine against Burkholderia pseudomallei, a causative agent of melioidosis

  2022cites this paper
• Capabilities of bioinformatics tools for optimizing physicochemical features of proteins used in Nano biosensors: A short overview of the tools related to bioinformatics

  2021cites this paper
• Deciphering the role of sulfonamides and molecular basis of thioredoxin domain dynamics through comparative simulations

  2021cites this paper
• Learning With Multiclass AUC: Theory and Algorithms

  2021cites this paper
• Vaccine Design and Vaccination Strategies against Rickettsiae

  2021cites this paper
• In Silico Analysis of Potential Outer Membrane Beta-Barrel Proteins in Aeromonas hydrophila Pangenome

  2021cites this paper
• Advanced strategies for development of vaccines against human bacterial pathogens

  2021cites this paper
• Advancements in High-Throughput Omics-Technologies for Understanding the Biology of Neglected and Underutilized Crops

  2021cites this paper
• Computational methods for protein localization prediction

  2021cites this paper
• PSORTm: a bacterial and archaeal protein subcellular localization prediction tool for metagenomics data

  2020cites this paper
• Protein Secretion

  2020cites this paper
• In Silico Subtractive Proteomics Approach for Identification of Potential Drug Targets in Staphylococcus saprophyticus

  2020influential citation
• Characterization and significance of extracellular polymeric substances, reactive oxygen species, and extracellular electron transfer in methanogenic biocathode

  2020cites this paper
• Discovery of fibrillar adhesins across bacterial species

  2020cites this paper
• Significance of extracellular polymeric substances, reactive oxygen species, and expression of extracellular electron transfer genes on methanogenic activity in biocathode

  2020cites this paper
• Tools for the Recognition of Sorting Signals and the Prediction of Subcellular Localization of Proteins From Their Amino Acid Sequences

  2020cites this paper
• New insights into biocathode material as a key determinant of electro-methanogenic activity and significance of extracellular polymeric substances

  2020cites this paper
• PSORTdb 4.0: expanded and redesigned bacterial and archaeal protein subcellular localization database incorporating new secondary localizations

  2020cites this paper
• Genome-wide identification, phylogenetic and expressional analysis of the UXS gene family in cotton

  2020cites this paper
• Deciphering the functional role of hypothetical proteins from Chloroflexus aurantiacs J-10-f1 using bioinformatics approach

  2020cites this paper
• Heterologous expression of a glycosyl hydrolase and cellular reprogramming enable Zymomonas mobilis growth on cellobiose

  2020cites this paper
• Use of Chou’s 5-steps rule to predict the subcellular localization of gram-negative and gram-positive bacterial proteins by multi-label learning based on gene ontology annotation and profile alignment

  2020cites this paper
• Identification of novel vaccine candidate against Salmonella enterica serovar Typhi by reverse vaccinology method and evaluation of its immunization.

  2020cites this paper
• Bird Eye View of Protein Subcellular Localization Prediction

  2020cites this paper
• Functional Annotation and Molecular modeling of Hypothetical Proteins (HPs) from P.aeruginosa plasmid pUM505: An In silico Approach

  2020cites this paper
• Haemophilus influenzae HP1 Bacteriophage Encodes a Lytic Cassette with a Pinholin and a Signal-Arrest-Release Endolysin

  2020cites this paper
• The neglected challenge: Vaccination against rickettsiae

  2020cites this paper
• HumDLoc: Human Protein Subcellular Localization Prediction Using Deep Neural Network

  2020cites this paper
• Heterologous glycosyl hydrolase expression and cellular reprogramming resembling sucrose-induction enable Zymomonas mobilis growth on cellobiose

  2019cites this paper
• EpitoCore: Mining Conserved Epitope Vaccine Candidates in the Core Proteome of Multiple Bacteria Strains

  2019cites this paper
• Detection of single-trial EEG of the neural correlates of familiar faces recognition using machine-learning algorithms

  2019cites this paper
• Genome-Based Bioinformatic Prediction of Major Histocompatibility (MHC).

  2019cites this paper
• Genome Investigation of a Cariogenic Pathogen with Implications in Cardiovascular Diseases

  2019cites this paper
• Genetic Similarity of Gonococcal Homologs to Meningococcal Outer Membrane Proteins of Serogroup B Vaccine

  2019cites this paper
• pLoc_bal-mGpos: Predict subcellular localization of Gram-positive bacterial proteins by quasi-balancing training dataset and PseAAC.

  2019cites this paper
• Nucleotide Second Messenger-Based Signaling in Extreme Acidophiles of the Acidithiobacillus Species Complex: Partition Between the Core and Variable Gene Complements

  2019influential citation
• Biofilm development and computational screening for new putative inhibitors of a homolog of the regulatory protein BrpA in Streptococcus dysgalactiae subsp. dysgalactiae.

  2019cites this paper
• Computational Intelligence

  2019cites this paper
• Advance in predicting subcellular localization of multi-label proteins and its implication for developing multi-target drugs.

  2019cites this paper
• A Brief History of Protein Sorting Prediction

  2019cites this paper
• Entry Exclusion of Conjugative Plasmids of the IncA, IncC, and Related Untyped Incompatibility Groups

  2019cites this paper
• pLoc_bal-mHum: Predict subcellular localization of human proteins by PseAAC and quasi-balancing training dataset.

  2019cites this paper
• Understanding molecular mechanisms of disease through spatial proteomics.

  2019cites this paper
• Integrating images from multiple microscopy screens reveals diverse patterns of change in the subcellular localization of proteins

  2018cites this paper
• Understanding the intracellular-to-extracellular localization switch of polyhydroxybutyrate polymerase in pseudomonas backgrounds as a microevolutionary process.

  2018cites this paper
• Targeting isoprenoid biosynthesis pathway in Staphylococcus lugdunensis: Comparative docking and simulation studies of conventional and allosteric sites

  2018cites this paper
• Prediction of Protein Subcellular Location Using the Information Entropy and the Auto Covariance Transformation

  2018cites this paper
• IN SILICO IDENTIFICATION OF NOVEL DRUG TARGETS IN ACINETOBACTER BAUMANNII BY SUBTRACTIVE GENOMIC APPROACH

  2018influential citation
• pLoc_bal-mVirus: predict subcellular localization of multi-label virus proteins by PseAAC and IHTS treatment to balance training dataset.

  2018cites this paper
• UniLoc: A universal protein localization site predictor for eukaryotes and prokaryotes

  2018cites this paper
• Naïve Bayes Domain Adaptation for Biological Sequences

  2018cites this paper
• Global transcriptional analysis of Geobacter sulfurreducens under palladium reducing conditions reveals new key cytochromes involved

  2018cites this paper
• pLoc-mHum: predict subcellular localization of multi-location human proteins via general PseAAC to winnow out the crucial GO information

  2018cites this paper
• The Cytotoxic Necrotizing Factor of Yersinia pseudotuberculosis (CNFy) is Carried on Extracellular Membrane Vesicles to Host Cells

  2018cites this paper
• Context-specific subcellular localization prediction: Leveraging protein interaction networks and scientific texts

  2018cites this paper
• The Making of a Pathogen : Implications of Phage Domestication in Acinetobacter baumannii

  2017influential citation
• Bayesian Collective Markov Random Fields for Subcellular Localization Prediction of Human Proteins

  2017cites this paper
• The Making of a Pathogen: Implications of Phage Domestication in Acinetobacter baumannii

  2017influential citation
• Accurate prediction of subcellular location of apoptosis proteins combining Chou’s PseAAC and PsePSSM based on wavelet denoising

  2017cites this paper
• Quantitative Proteomics for the Comprehensive Analysis of Stress Responses of Lactobacillus paracasei subsp. paracasei F19.

  2017cites this paper
• A bacterial ABC transporter enables import of mammalian host glycosaminoglycans

  2017cites this paper