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Identification of vaccine targets & design of vaccine against SARS-CoV-2 coronavirus using computational and deep learning-based approaches
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Outgoing claims: the papers this work cites, builds on, or argues with.
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Clinical Characteristics of 138 Hospitalized Patients With 2019 Novel Coronavirus–Infected Pneumonia in Wuhan, China
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European Journal of Immunology
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TepiTool: A Pipeline for Computational Prediction of T Cell Epitope Candidates
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Exact prediction of a natural T cell epitope
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Emerging coronaviruses: Genome structure, replication, and pathogenesis
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Early phylogenetic estimate of the effective reproduction number of SARS‐CoV‐2
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Development of epitope‐based peptide vaccine against novel coronavirus 2019 (SARS‐COV‐2): Immunoinformatics approach
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AllergenOnline: A peer‐reviewed, curated allergen database to assess novel food proteins for potential cross‐reactivity
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Prediction of continuous B‐cell epitopes in an antigen using recurrent neural network
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FireDock: Fast interaction refinement in molecular docking
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Basic Local Alignment Search Tool
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Virus-Ligand Interactions of OC43 Coronavirus with Cell Membranes
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Human genetics of leishmania infections
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Conformation of amino acid side-chains in proteins
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Correlation between the location of antigenic sites and the prediction of turns in proteins
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Improving the Physical Realism and Structural Accuracy of Protein Models by a Two-Step Atomic-Level Energy Minimization
inferredcites →https://doi.org/10.1016/j.chom.2020.03.002openalex-snapshot
A Sequence Homology and Bioinformatic Approach Can Predict Candidate Targets for Immune Responses to SARS-CoV-2
inferredcites →https://doi.org/10.1016/j.compbiomed.2020.103670openalex-snapshot
Computers and viral diseases. Preliminary bioinformatics studies on the design of a synthetic vaccine and a preventative peptidomimetic antagonist against the SARS-CoV-2 (2019-nCoV, COVID-19) coronavirus
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An in-depth in silico and immunoinformatics approach for designing a potential multi-epitope construct for the effective development of vaccine to combat against SARS-CoV-2 encompassing variants of concern and interest
inferredcites →https://doi.org/10.1016/j.compbiomed.2022.105401openalex-snapshot
Vaxi-DL: A web-based deep learning server to identify potential vaccine candidates
inferredcites →https://doi.org/10.1016/j.imbio.2020.151949openalex-snapshot
Exploiting the reverse vaccinology approach to design novel subunit vaccines against Ebola virus
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Identification of potential cross-protective epitope between a new type of coronavirus (2019-nCoV) and severe acute respiratory syndrome virus
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A novel design of a multi-antigenic, multistage and multi-epitope vaccine against Helicobacter pylori: An in silico approach
inferredcites →https://doi.org/10.1016/j.meegid.2019.03.003openalex-snapshot
Vaccinomics strategy for developing a unique multi-epitope monovalent vaccine against Marburg marburgvirus
inferredcites →https://doi.org/10.1016/j.micpath.2018.09.033openalex-snapshot
Reverse vaccinology and subtractive genomics-based putative vaccine targets identification for Burkholderia pseudomallei Bp1651
inferredcites →https://doi.org/10.1016/j.micpath.2019.02.023openalex-snapshot
Reverse vaccinology approach to design a novel multi-epitope subunit vaccine against avian influenza A (H7N9) virus
inferredcites →https://doi.org/10.1016/j.vaccine.2004.02.005openalex-snapshot
Prediction of CTL epitopes using QM, SVM and ANN techniques
inferredcites →https://doi.org/10.1016/s0140-6736(20)30251-8openalex-snapshot
Genomic characterisation and epidemiology of 2019 novel coronavirus: implications for virus origins and receptor binding
inferredcites →https://doi.org/10.1016/s1359-6446(03)02864-2openalex-snapshot
Vaccine adjuvants: role and mechanisms of action in vaccine immunogenicity
inferredcites →https://doi.org/10.1016/s2213-2600(20)30076-xopenalex-snapshot
Pathological findings of COVID-19 associated with acute respiratory distress syndrome
inferredcites →https://doi.org/10.1021/acs.jproteome.9b00874openalex-snapshot
Improved Prediction of MHC II Antigen Presentation through Integration and Motif Deconvolution of Mass Spectrometry MHC Eluted Ligand Data
inferredcites →https://doi.org/10.1021/bi00367a013openalex-snapshot
New hydrophilicity scale derived from high-performance liquid chromatography peptide retention data: correlation of predicted surface residues with antigenicity and x-ray-derived accessible sites
inferredcites →https://doi.org/10.1021/ja9621760openalex-snapshot
Development and Testing of the OPLS All-Atom Force Field on Conformational Energetics and Properties of Organic Liquids
inferredcites →https://doi.org/10.1038/nature12005openalex-snapshot
Dipeptidyl peptidase 4 is a functional receptor for the emerging human coronavirus-EMC
inferredcites →https://doi.org/10.1038/nprot.2016.169openalex-snapshot
The ClusPro web server for protein–protein docking
inferredcites →https://doi.org/10.1038/s10038-020-0771-5openalex-snapshot
Bioinformatic prediction of potential T cell epitopes for SARS-Cov-2
inferredcites →https://doi.org/10.1038/s41598-017-09199-wopenalex-snapshot
Exploring dengue genome to construct a multi-epitope based subunit vaccine by utilizing immunoinformatics approach to battle against dengue infection
inferredcites →https://doi.org/10.1038/s41598-020-77466-4openalex-snapshot
Identification and validation of 174 COVID-19 vaccine candidate epitopes reveals low performance of common epitope prediction tools
inferredcites →https://doi.org/10.1038/s41598-021-96863-xopenalex-snapshot
Identification of vaccine targets in pathogens and design of a vaccine using computational approaches
inferredcites →https://doi.org/10.1038/s41598-021-96903-6openalex-snapshot
Predicting hosts based on early SARS-CoV-2 samples and analyzing the 2020 pandemic
inferredcites →https://doi.org/10.1056/nejmoa2001316openalex-snapshot
Early Transmission Dynamics in Wuhan, China, of Novel Coronavirus–Infected Pneumonia
inferredcites →https://doi.org/10.1063/1.4872239openalex-snapshot
Structure and dynamics of TIP3P, TIP4P, and TIP5P water near smooth and atomistic walls of different hydroaffinity
inferredcites →https://doi.org/10.1073/pnas.1516000113openalex-snapshot
Autoinhibition and relief mechanism by the proteolytic processing of Toll-like receptor 8
inferredcites →https://doi.org/10.1080/07391102.2010.10507351openalex-snapshot
Virus-mPLoc: A Fusion Classifier for Viral Protein Subcellular Location Prediction by Incorporating Multiple Sites
inferredcites →https://doi.org/10.1080/22221751.2020.1723441openalex-snapshot
An emerging coronavirus causing pneumonia outbreak in Wuhan, China: calling for developing therapeutic and prophylactic strategies
inferredcites →https://doi.org/10.1080/22221751.2020.1729069openalex-snapshot
Potent binding of 2019 novel coronavirus spike protein by a SARS coronavirus-specific human monoclonal antibody
inferredcites →https://doi.org/10.1084/jem.194.6.823openalex-snapshot
Synergism of Cytotoxic T Lymphocyte–Associated Antigen 4 Blockade and Depletion of Cd25+ Regulatory T Cells in Antitumor Therapy Reveals Alternative Pathways for Suppression of Autoreactive Cytotoxic T Lymphocyte Responses
inferredcites →https://doi.org/10.1093/bioinformatics/16.4.404openalex-snapshot
The PSIPRED protein structure prediction server
inferredcites →https://doi.org/10.1093/bioinformatics/17.12.1236openalex-snapshot
ProPred: prediction of HLA-DR binding sites
inferredcites →https://doi.org/10.1093/bioinformatics/17.9.849openalex-snapshot
The HMMTOP transmembrane topology prediction server
inferredcites →https://doi.org/10.1093/bioinformatics/btaa145openalex-snapshot
Genome Detective Coronavirus Typing Tool for rapid identification and characterization of novel coronavirus genomes
inferredcites →https://doi.org/10.1093/bioinformatics/btg108openalex-snapshot
ProPred1: prediction of promiscuous MHC Class-I binding sites
inferredcites →https://doi.org/10.1093/bioinformatics/btp493openalex-snapshot
Mobyle: a new full web bioinformatics framework
inferredcites →https://doi.org/10.1093/bioinformatics/btq249openalex-snapshot
PSORTb 3.0: improved protein subcellular localization prediction with refined localization subcategories and predictive capabilities for all prokaryotes
inferredcites →https://doi.org/10.1093/bioinformatics/btq324openalex-snapshot
EpiTOP—a proteochemometric tool for MHC class II binding prediction
inferredcites →https://doi.org/10.1093/bioinformatics/btx345openalex-snapshot
Protein–Sol: a web tool for predicting protein solubility from sequence
inferredcites →https://doi.org/10.1093/molbev/msy096openalex-snapshot
MEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms
inferredcites →https://doi.org/10.1093/nar/gkaa379openalex-snapshot
NetMHCpan-4.1 and NetMHCIIpan-4.0: improved predictions of MHC antigen presentation by concurrent motif deconvolution and integration of MS MHC eluted ligand data
inferredcites →https://doi.org/10.1093/nar/gkg563openalex-snapshot
ExPASy: the proteomics server for in-depth protein knowledge and analysis
inferredcites →https://doi.org/10.1093/nar/gkh073openalex-snapshot
Database resources of the National Center for Biotechnology Information: update
inferredcites →https://doi.org/10.1093/nar/gki376openalex-snapshot
JCat: a novel tool to adapt codon usage of a target gene to its potential expression host
inferredcites →https://doi.org/10.1093/nar/gki412openalex-snapshot
DiANNA: a web server for disulfide connectivity prediction
inferredcites →https://doi.org/10.1093/nar/gki481openalex-snapshot
PatchDock and SymmDock: servers for rigid and symmetric docking
inferredcites →https://doi.org/10.1093/nar/gkl343openalex-snapshot
AlgPred: prediction of allergenic proteins and mapping of IgE epitopes
inferredcites →https://doi.org/10.1093/nar/gkm251openalex-snapshot
LOMETS: A local meta-threading-server for protein structure prediction
inferredcites →https://doi.org/10.1093/nar/gkp323openalex-snapshot
PEP-FOLD: an online resource for de novo peptide structure prediction
inferredcites →https://doi.org/10.1093/nar/gku1003openalex-snapshot
STRING v10: protein–protein interaction networks, integrated over the tree of life
inferredcites →https://doi.org/10.1093/nar/gku1214openalex-snapshot
The RCSB Protein Data Bank: views of structural biology for basic and applied research and education
inferredcites →https://doi.org/10.1093/nar/gkw336openalex-snapshot
3Drefine: an interactive web server for efficient protein structure refinement
inferredcites →https://doi.org/10.1093/nar/gkx1095openalex-snapshot
Database resources of the National Center for Biotechnology Information
inferredcites →https://doi.org/10.1093/nar/gkx346openalex-snapshot
BepiPred-2.0: improving sequence-based B-cell epitope prediction using conformational epitopes
inferredcites →https://doi.org/10.1093/nar/gkx407openalex-snapshot
HDOCK: a web server for protein–protein and protein–DNA/RNA docking based on a hybrid strategy
inferredcites →https://doi.org/10.1093/nar/gky357openalex-snapshot
HPEPDOCK: a web server for blind peptide–protein docking based on a hierarchical algorithm
inferredcites →https://doi.org/10.1093/nar/gkz1029openalex-snapshot
Allele frequency net database (AFND) 2020 update: gold-standard data classification, open access genotype data and new query tools
inferredcites →https://doi.org/10.1093/oxfordjournals.jbchem.a133168openalex-snapshot
Thermostability and Aliphatic Index of Globular Proteins
inferredcites →https://doi.org/10.1099/0022-1317-69-12-2939openalex-snapshot
Coronaviruses: Structure and Genome Expression
inferredcites →https://doi.org/10.1101/2020.01.25.919332openalex-snapshot
Scrutinizing surface glycoproteins and poxin-schlafen protein to design a heterologous recombinant vaccine against monkeypox virus
inferredcites →https://doi.org/10.1110/ps.03479604openalex-snapshot
Predicting subcellular localization of proteins for Gram‐negative bacteria by support vector machines based on n ‐peptide compositions
inferredcites →https://doi.org/10.1111/obr.13034openalex-snapshot
Risk of COVID‐19 for patients with obesity
inferredcites →https://doi.org/10.1128/jvi.55.3.836-839.1985openalex-snapshot
Induction of hepatitis A virus-neutralizing antibody by a virus-specific synthetic peptide
inferredcites →https://doi.org/10.1155/2010/297505openalex-snapshot
Vaxign: The First Web-Based Vaccine Design Program for Reverse Vaccinology and Applications for Vaccine Development
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Synthetic Biology and Personalized Medicine
inferredcites →https://doi.org/10.1161/01.res.87.5.e1openalex-snapshot
A Novel Angiotensin-Converting Enzyme–Related Carboxypeptidase (ACE2) Converts Angiotensin I to Angiotensin 1-9
inferredcites →https://doi.org/10.1186/1471-2105-10-421openalex-snapshot
BLAST+: architecture and applications
inferredcites →https://doi.org/10.1186/1471-2105-11-568openalex-snapshot
Peptide binding predictions for HLA DR, DP and DQ molecules
inferredcites →https://doi.org/10.1186/1471-2105-7-131openalex-snapshot
EpiJen: a server for multistep T cell epitope prediction
inferredcites →https://doi.org/10.1186/1471-2105-8-361openalex-snapshot
Development of an epitope conservancy analysis tool to facilitate the design of epitope-based diagnostics and vaccines
inferredcites →https://doi.org/10.1186/1471-2105-8-4openalex-snapshot
VaxiJen: a server for prediction of protective antigens, tumour antigens and subunit vaccines
inferredcites →https://doi.org/10.1186/1471-2105-8-424openalex-snapshot
Large-scale validation of methods for cytotoxic T-lymphocyte epitope prediction
inferredcites →https://doi.org/10.1186/1471-2105-9-40openalex-snapshot
I-TASSER server for protein 3D structure prediction
inferredcites →https://doi.org/10.1186/1471-2105-9-514openalex-snapshot
ElliPro: a new structure-based tool for the prediction of antibody epitopes
inferredcites →https://doi.org/10.1186/1471-2164-12-192openalex-snapshot
FungalRV: adhesin prediction and immunoinformatics portal for human fungal pathogens
inferredcites →https://doi.org/10.1186/1471-2350-4-9openalex-snapshot
Association of HLA class I with severe acute respiratory syndrome coronavirus infection
inferredcites →https://doi.org/10.1186/s13040-020-00211-0openalex-snapshot
Deep learning methods improve linear B-cell epitope prediction
inferredcites →https://doi.org/10.1371/journal.pone.0073957openalex-snapshot
In Silico Approach for Predicting Toxicity of Peptides and Proteins
inferredcites →https://doi.org/10.1371/journal.pone.0146759openalex-snapshot
Comprehensive Map of Molecules Implicated in Obesity
inferredcites →https://doi.org/10.2353/ajpath.2007.060977openalex-snapshot
Loss of Angiotensin-Converting Enzyme-2 (Ace2) Accelerates Diabetic Kidney Injury
inferredcites →https://doi.org/10.3201/eid0503.990310openalex-snapshot
Adhesins as Targets for Vaccine Development
inferredcites →https://doi.org/10.3389/fimmu.2019.02572openalex-snapshot
An in silico—in vitro Pipeline Identifying an HLA-A*02:01+ KRAS G12V+ Spliced Epitope Candidate for a Broad Tumor-Immune Response in Cancer Patients
inferredcites →https://doi.org/10.3389/fimmu.2020.01581openalex-snapshot
COVID-19 Coronavirus Vaccine Design Using Reverse Vaccinology and Machine Learning
inferredcites →https://doi.org/10.3390/jcm9020330openalex-snapshot
The Extent of Transmission of Novel Coronavirus in Wuhan, China, 2020
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Preliminary Identification of Potential Vaccine Targets for the COVID-19 Coronavirus (SARS-CoV-2) Based on SARS-CoV Immunological Studies
inferredcites →https://doi.org/10.4049/jimmunol.1102675openalex-snapshot
The Impact of a Large and Frequent Deletion in the Human TCR β Locus on Antiviral Immunity
inferredcites →https://doi.org/10.5281/zenodo.632975openalex-snapshot
CFSSP: Chou and Fasman Secondary Structure Prediction server
inferredcites →https://doi.org/10.7287/peerj.preprints.27538v1openalex-snapshot
An extensive survey of molecular docking tools and their applications using text mining and deep curation strategies.
What points at this work
Incoming claims: where this work appears in other papers’ reference lists and arguments.
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Ppidb: A Database for Protein-Protein Interactions
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Deep Learning Models for Vaccinology: Predicting T-cell Epitopes in C57BL/6 Mice
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Application of machine learning and deep learning techniques on reverse vaccinology – a systematic literature review
inferred← citeshttps://doi.org/10.1007/s12247-026-10728-2openalex-snapshot
A Multi-Domain Approach for Designing of Novel Epitopes-Based Vaccine Against Chandipura Virus
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inferred← citeshttps://doi.org/10.1016/j.crbiot.2026.100379openalex-snapshot
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inferred← citeshttps://doi.org/10.1109/bibm62325.2024.10822330openalex-snapshot
PREDBL6: a system for predicting C57BL/6 mouse T-cell epitopes
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Computational Design of a Multi-Epitope Vaccine against Prevotella copri: Molecular Dynamics and Immunoinformatics Study
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inferred← citeshttps://doi.org/10.1155/2022/7205241openalex-snapshot
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In Silico Characterization of Uncharacterized Proteins From Multiple Strains of Clostridium Difficile
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Peer Review #1 of "Disparities in COVID-19 incidence and fatality rates at high-altitude (v0.1)"
inferred← citeshttps://doi.org/10.7287/peerj.14473v0.1/reviews/2openalex-snapshot
Peer Review #2 of "Disparities in COVID-19 incidence and fatality rates at high-altitude (v0.1)"
inferred← citeshttps://doi.org/10.7287/peerj.14473v0.1/reviews/3openalex-snapshot
Peer Review #3 of "Disparities in COVID-19 incidence and fatality rates at high-altitude (v0.1)"
inferred← citeshttps://doi.org/10.7287/peerj.14473v0.2/reviews/1openalex-snapshot
Peer Review #1 of "Disparities in COVID-19 incidence and fatality rates at high-altitude (v0.2)"
inferred← citeshttps://doi.org/10.7287/peerj.14473v0.2/reviews/2openalex-snapshot
Peer Review #2 of "Disparities in COVID-19 incidence and fatality rates at high-altitude (v0.2)"
inferred← citeshttps://doi.org/10.7287/peerj.14473v0.2/reviews/3openalex-snapshot
Peer Review #3 of "Disparities in COVID-19 incidence and fatality rates at high-altitude (v0.2)"
inferred← citeshttps://doi.org/10.7717/peerj.14473openalex-snapshot
Disparities in COVID-19 incidence and fatality rates at high-altitude
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Science and Advanced Computing — runs a structured editorial panel for researchers
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