Julia Ponomarenko, Huynh-Hoa Bui, Wei Li, Nicholas Fusseder, Philip E Bourne, Alessandro Sette, Bjoern Peters. BMC Bioinformatics 2008
Times Cited: 660
Times Cited: 660
Times Cited
Times Co-cited
Similarity
VaxiJen: a server for prediction of protective antigens, tumour antigens and subunit vaccines.
Irini A Doytchinova, Darren R Flower. BMC Bioinformatics 2007
Irini A Doytchinova, Darren R Flower. BMC Bioinformatics 2007
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Prediction of continuous B-cell epitopes in an antigen using recurrent neural network.
Sudipto Saha, G P S Raghava. Proteins 2006
Sudipto Saha, G P S Raghava. Proteins 2006
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ProSA-web: interactive web service for the recognition of errors in three-dimensional structures of proteins.
Markus Wiederstein, Manfred J Sippl. Nucleic Acids Res 2007
Markus Wiederstein, Manfred J Sippl. Nucleic Acids Res 2007
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BepiPred-2.0: improving sequence-based B-cell epitope prediction using conformational epitopes.
Martin Closter Jespersen, Bjoern Peters, Morten Nielsen, Paolo Marcatili. Nucleic Acids Res 2017
Martin Closter Jespersen, Bjoern Peters, Morten Nielsen, Paolo Marcatili. Nucleic Acids Res 2017
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In silico approach for predicting toxicity of peptides and proteins.
Sudheer Gupta, Pallavi Kapoor, Kumardeep Chaudhary, Ankur Gautam, Rahul Kumar, Gajendra P S Raghava. PLoS One 2013
Sudheer Gupta, Pallavi Kapoor, Kumardeep Chaudhary, Ankur Gautam, Rahul Kumar, Gajendra P S Raghava. PLoS One 2013
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Computational immunology meets bioinformatics: the use of prediction tools for molecular binding in the simulation of the immune system.
Nicolas Rapin, Ole Lund, Massimo Bernaschi, Filippo Castiglione. PLoS One 2010
Nicolas Rapin, Ole Lund, Massimo Bernaschi, Filippo Castiglione. PLoS One 2010
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Designing of interferon-gamma inducing MHC class-II binders.
Sandeep Kumar Dhanda, Pooja Vir, Gajendra P S Raghava. Biol Direct 2013
Sandeep Kumar Dhanda, Pooja Vir, Gajendra P S Raghava. Biol Direct 2013
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JCat: a novel tool to adapt codon usage of a target gene to its potential expression host.
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The ClusPro web server for protein-protein docking.
Dima Kozakov, David R Hall, Bing Xia, Kathryn A Porter, Dzmitry Padhorny, Christine Yueh, Dmitri Beglov, Sandor Vajda. Nat Protoc 2017
Dima Kozakov, David R Hall, Bing Xia, Kathryn A Porter, Dzmitry Padhorny, Christine Yueh, Dmitri Beglov, Sandor Vajda. Nat Protoc 2017
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AllerTOP v.2--a server for in silico prediction of allergens.
Ivan Dimitrov, Ivan Bangov, Darren R Flower, Irini Doytchinova. J Mol Model 2014
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Verification of protein structures: patterns of nonbonded atomic interactions.
C Colovos, T O Yeates. Protein Sci 1993
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AllergenFP: allergenicity prediction by descriptor fingerprints.
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Ivan Dimitrov, Lyudmila Naneva, Irini Doytchinova, Ivan Bangov. Bioinformatics 2014
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Large-scale validation of methods for cytotoxic T-lymphocyte epitope prediction.
Mette V Larsen, Claus Lundegaard, Kasper Lamberth, Soren Buus, Ole Lund, Morten Nielsen. BMC Bioinformatics 2007
Mette V Larsen, Claus Lundegaard, Kasper Lamberth, Soren Buus, Ole Lund, Morten Nielsen. BMC Bioinformatics 2007
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High-throughput prediction of protein antigenicity using protein microarray data.
Christophe N Magnan, Michael Zeller, Matthew A Kayala, Adam Vigil, Arlo Randall, Philip L Felgner, Pierre Baldi. Bioinformatics 2010
Christophe N Magnan, Michael Zeller, Matthew A Kayala, Adam Vigil, Arlo Randall, Philip L Felgner, Pierre Baldi. Bioinformatics 2010
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GalaxyRefine: Protein structure refinement driven by side-chain repacking.
Lim Heo, Hahnbeom Park, Chaok Seok. Nucleic Acids Res 2013
Lim Heo, Hahnbeom Park, Chaok Seok. Nucleic Acids Res 2013
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Reliable B cell epitope predictions: impacts of method development and improved benchmarking.
Jens Vindahl Kringelum, Claus Lundegaard, Ole Lund, Morten Nielsen. PLoS Comput Biol 2012
Jens Vindahl Kringelum, Claus Lundegaard, Ole Lund, Morten Nielsen. PLoS Comput Biol 2012
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Predicting linear B-cell epitopes using string kernels.
Yasser El-Manzalawy, Drena Dobbs, Vasant Honavar. J Mol Recognit 2008
Yasser El-Manzalawy, Drena Dobbs, Vasant Honavar. J Mol Recognit 2008
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The PSIPRED protein structure prediction server.
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SOLpro: accurate sequence-based prediction of protein solubility.
Christophe N Magnan, Arlo Randall, Pierre Baldi. Bioinformatics 2009
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PatchDock and SymmDock: servers for rigid and symmetric docking.
Dina Schneidman-Duhovny, Yuval Inbar, Ruth Nussinov, Haim J Wolfson. Nucleic Acids Res 2005
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In-silico design of a multi-epitope vaccine candidate against onchocerciasis and related filarial diseases.
Robert Adamu Shey, Stephen Mbigha Ghogomu, Kevin Kum Esoh, Neba Derrick Nebangwa, Cabirou Mounchili Shintouo, Nkemngo Francis Nongley, Bertha Fru Asa, Ferdinand Njume Ngale, Luc Vanhamme, Jacob Souopgui. Sci Rep 2019
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Properties of MHC class I presented peptides that enhance immunogenicity.
Jorg J A Calis, Matt Maybeno, Jason A Greenbaum, Daniela Weiskopf, Aruna D De Silva, Alessandro Sette, Can Keşmir, Bjoern Peters. PLoS Comput Biol 2013
Jorg J A Calis, Matt Maybeno, Jason A Greenbaum, Daniela Weiskopf, Aruna D De Silva, Alessandro Sette, Can Keşmir, Bjoern Peters. PLoS Comput Biol 2013
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Protein-Sol: a web tool for predicting protein solubility from sequence.
Max Hebditch, M Alejandro Carballo-Amador, Spyros Charonis, Robin Curtis, Jim Warwicker. Bioinformatics 2017
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Prediction of IL4 inducing peptides.
Sandeep Kumar Dhanda, Sudheer Gupta, Pooja Vir, G P S Raghava. Clin Dev Immunol 2013
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The PSIPRED Protein Analysis Workbench: 20 years on.
Daniel W A Buchan, David T Jones. Nucleic Acids Res 2019
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Subtractive proteomics to identify novel drug targets and reverse vaccinology for the development of chimeric vaccine against Acinetobacter baumannii.
Vandana Solanki, Vishvanath Tiwari. Sci Rep 2018
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Improved methods for predicting peptide binding affinity to MHC class II molecules.
Kamilla Kjaergaard Jensen, Massimo Andreatta, Paolo Marcatili, Søren Buus, Jason A Greenbaum, Zhen Yan, Alessandro Sette, Bjoern Peters, Morten Nielsen. Immunology 2018
Kamilla Kjaergaard Jensen, Massimo Andreatta, Paolo Marcatili, Søren Buus, Jason A Greenbaum, Zhen Yan, Alessandro Sette, Bjoern Peters, Morten Nielsen. Immunology 2018
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I-TASSER: a unified platform for automated protein structure and function prediction.
Ambrish Roy, Alper Kucukural, Yang Zhang. Nat Protoc 2010
Ambrish Roy, Alper Kucukural, Yang Zhang. Nat Protoc 2010
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Peptide binding predictions for HLA DR, DP and DQ molecules.
Peng Wang, John Sidney, Yohan Kim, Alessandro Sette, Ole Lund, Morten Nielsen, Bjoern Peters. BMC Bioinformatics 2010
Peng Wang, John Sidney, Yohan Kim, Alessandro Sette, Ole Lund, Morten Nielsen, Bjoern Peters. BMC Bioinformatics 2010
13
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.
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Predicting population coverage of T-cell epitope-based diagnostics and vaccines.
Huynh-Hoa Bui, John Sidney, Kenny Dinh, Scott Southwood, Mark J Newman, Alessandro Sette. BMC Bioinformatics 2006
Huynh-Hoa Bui, John Sidney, Kenny Dinh, Scott Southwood, Mark J Newman, Alessandro Sette. BMC Bioinformatics 2006
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A candidate multi-epitope vaccine against SARS-CoV-2.
Tamalika Kar, Utkarsh Narsaria, Srijita Basak, Debashrito Deb, Filippo Castiglione, David M Mueller, Anurag P Srivastava. Sci Rep 2020
Tamalika Kar, Utkarsh Narsaria, Srijita Basak, Debashrito Deb, Filippo Castiglione, David M Mueller, Anurag P Srivastava. Sci Rep 2020
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The Phyre2 web portal for protein modeling, prediction and analysis.
Lawrence A Kelley, Stefans Mezulis, Christopher M Yates, Mark N Wass, Michael J E Sternberg. Nat Protoc 2015
Lawrence A Kelley, Stefans Mezulis, Christopher M Yates, Mark N Wass, Michael J E Sternberg. Nat Protoc 2015
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AlgPred 2.0: an improved method for predicting allergenic proteins and mapping of IgE epitopes.
Neelam Sharma, Sumeet Patiyal, Anjali Dhall, Akshara Pande, Chakit Arora, Gajendra P S Raghava. Brief Bioinform 2021
Neelam Sharma, Sumeet Patiyal, Anjali Dhall, Akshara Pande, Chakit Arora, Gajendra P S Raghava. Brief Bioinform 2021
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The I-TASSER Suite: protein structure and function prediction.
Jianyi Yang, Renxiang Yan, Ambrish Roy, Dong Xu, Jonathan Poisson, Yang Zhang. Nat Methods 2015
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GalaxyWEB server for protein structure prediction and refinement.
Junsu Ko, Hahnbeom Park, Lim Heo, Chaok Seok. Nucleic Acids Res 2012
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AlgPred: prediction of allergenic proteins and mapping of IgE epitopes.
Sudipto Saha, G P S Raghava. Nucleic Acids Res 2006
Sudipto Saha, G P S Raghava. Nucleic Acids Res 2006
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Computer-aided designing of immunosuppressive peptides based on IL-10 inducing potential.
Gandharva Nagpal, Salman Sadullah Usmani, Sandeep Kumar Dhanda, Harpreet Kaur, Sandeep Singh, Meenu Sharma, Gajendra P S Raghava. Sci Rep 2017
Gandharva Nagpal, Salman Sadullah Usmani, Sandeep Kumar Dhanda, Harpreet Kaur, Sandeep Singh, Meenu Sharma, Gajendra P S Raghava. Sci Rep 2017
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An in silico deep learning approach to multi-epitope vaccine design: a SARS-CoV-2 case study.
Zikun Yang, Paul Bogdan, Shahin Nazarian. Sci Rep 2021
Zikun Yang, Paul Bogdan, Shahin Nazarian. Sci Rep 2021
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SWISS-MODEL: homology modelling of protein structures and complexes.
Andrew Waterhouse, Martino Bertoni, Stefan Bienert, Gabriel Studer, Gerardo Tauriello, Rafal Gumienny, Florian T Heer, Tjaart A P de Beer, Christine Rempfer, Lorenza Bordoli,[...]. Nucleic Acids Res 2018
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12
SVMTriP: a method to predict antigenic epitopes using support vector machine to integrate tri-peptide similarity and propensity.
Bo Yao, Lin Zhang, Shide Liang, Chi Zhang. PLoS One 2012
Bo Yao, Lin Zhang, Shide Liang, Chi Zhang. PLoS One 2012
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Prediction of residues in discontinuous B-cell epitopes using protein 3D structures.
Pernille Haste Andersen, Morten Nielsen, Ole Lund. Protein Sci 2006
Pernille Haste Andersen, Morten Nielsen, Ole Lund. Protein Sci 2006
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Immune epitope database analysis resource.
Yohan Kim, Julia Ponomarenko, Zhanyang Zhu, Dorjee Tamang, Peng Wang, Jason Greenbaum, Claus Lundegaard, Alessandro Sette, Ole Lund, Philip E Bourne,[...]. Nucleic Acids Res 2012
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A novel design of a multi-antigenic, multistage and multi-epitope vaccine against Helicobacter pylori: An in silico approach.
Beatriz Meza, Felipe Ascencio, Arturo Pedro Sierra-Beltrán, Javier Torres, Carlos Angulo. Infect Genet Evol 2017
Beatriz Meza, Felipe Ascencio, Arturo Pedro Sierra-Beltrán, Javier Torres, Carlos Angulo. Infect Genet Evol 2017
11
PSORTb 3.0: improved protein subcellular localization prediction with refined localization subcategories and predictive capabilities for all prokaryotes.
Nancy Y Yu, James R Wagner, Matthew R Laird, Gabor Melli, Sébastien Rey, Raymond Lo, Phuong Dao, S Cenk Sahinalp, Martin Ester, Leonard J Foster,[...]. Bioinformatics 2010
Nancy Y Yu, James R Wagner, Matthew R Laird, Gabor Melli, Sébastien Rey, Raymond Lo, Phuong Dao, S Cenk Sahinalp, Martin Ester, Leonard J Foster,[...]. Bioinformatics 2010
11
Co-cited is the co-citation frequency, indicating how many articles cite the article together with the query article. Similarity is the co-citation as percentage of the times cited of the query article or the article in the search results, whichever is the lowest. These numbers are calculated for the last 100 citations when articles are cited more than 100 times.