A citation-based method for searching scientific literature

Violaine Moreau, Cécile Fleury, Dominique Piquer, Christophe Nguyen, Nicolas Novali, Sylvie Villard, Daniel Laune, Claude Granier, Franck Molina. BMC Bioinformatics 2008
Times Cited: 48







List of co-cited articles
328 articles co-cited >1



Times Cited
  Times     Co-cited
Similarity


Prediction of residues in discontinuous B-cell epitopes using protein 3D structures.
Pernille Haste Andersen, Morten Nielsen, Ole Lund. Protein Sci 2006
360
45

ElliPro: a new structure-based tool for the prediction of antibody epitopes.
Julia Ponomarenko, Huynh-Hoa Bui, Wei Li, Nicholas Fusseder, Philip E Bourne, Alessandro Sette, Bjoern Peters. BMC Bioinformatics 2008
631
37


CEP: a conformational epitope prediction server.
Urmila Kulkarni-Kale, Shriram Bhosle, A S Kolaskar. Nucleic Acids Res 2005
159
31



Improved method for predicting linear B-cell epitopes.
Jens Erik Pontoppidan Larsen, Ole Lund, Morten Nielsen. Immunome Res 2006
730
29


SEPPA: a computational server for spatial epitope prediction of protein antigens.
Jing Sun, Di Wu, Tianlei Xu, Xiaojing Wang, Xiaolian Xu, Lin Tao, Y X Li, Z W Cao. Nucleic Acids Res 2009
92
25

Discontinuous epitope prediction based on mimotope analysis.
Violaine Moreau, Claude Granier, Sylvie Villard, Daniel Laune, Franck Molina. Bioinformatics 2006
72
22

Epitopia: a web-server for predicting B-cell epitopes.
Nimrod D Rubinstein, Itay Mayrose, Eric Martz, Tal Pupko. BMC Bioinformatics 2009
122
22


Prediction of protein antigenic determinants from amino acid sequences.
T P Hopp, K R Woods. Proc Natl Acad Sci U S A 1981
20

EPSVR and EPMeta: prediction of antigenic epitopes using support vector regression and multiple server results.
Shide Liang, Dandan Zheng, Daron M Standley, Bo Yao, Martin Zacharias, Chi Zhang. BMC Bioinformatics 2010
87
20

Predicting linear B-cell epitopes using string kernels.
Yasser El-Manzalawy, Drena Dobbs, Vasant Honavar. J Mol Recognit 2008
425
20



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
346
18


Antibody-protein interactions: benchmark datasets and prediction tools evaluation.
Julia V Ponomarenko, Philip E Bourne. BMC Struct Biol 2007
136
16

Prediction of conformational B-cell epitopes from 3D structures by random forests with a distance-based feature.
Wen Zhang, Yi Xiong, Meng Zhao, Hua Zou, Xinghuo Ye, Juan Liu. BMC Bioinformatics 2011
61
16

Towards a consensus on datasets and evaluation metrics for developing B-cell epitope prediction tools.
Jason A Greenbaum, Pernille Haste Andersen, Martin Blythe, Huynh-Hoa Bui, Raul E Cachau, James Crowe, Matthew Davies, A S Kolaskar, Ole Lund, Sherrie Morrison,[...]. J Mol Recognit 2007
158
16

BEPITOPE: predicting the location of continuous epitopes and patterns in proteins.
Michael Odorico, Jean-Luc Pellequer. J Mol Recognit 2003
116
14

The immune epitope database 2.0.
Randi Vita, Laura Zarebski, Jason A Greenbaum, Hussein Emami, Ilka Hoof, Nima Salimi, Rohini Damle, Alessandro Sette, Bjoern Peters. Nucleic Acids Res 2010
446
14

Epitope mapping: the first step in developing epitope-based vaccines.
Jonathan M Gershoni, Anna Roitburd-Berman, Dror D Siman-Tov, Natalia Tarnovitski Freund, Yael Weiss. BioDrugs 2007
173
14

Pep-3D-Search: a method for B-cell epitope prediction based on mimotope analysis.
Yan Xin Huang, Yong Li Bao, Shu Yan Guo, Yan Wang, Chun Guang Zhou, Yu Xin Li. BMC Bioinformatics 2008
44
15

Discontinuous epitopes on the C2 domain of coagulation Factor VIII mapped by computer-designed synthetic peptides.
Aurélien Lebreton, Violaine Moreau, Priscilla Lapalud, Christopher Cayzac, Sébastien André, Christophe Nguyen, Jean-François Schved, Géraldine Lavigne, Claude Granier. Br J Haematol 2011
11
63

Antigenicity and immunogenicity of synthetic peptides.
M H Van Regenmortel. Biologicals 2001
121
14

Correlation between the location of antigenic sites and the prediction of turns in proteins.
J L Pellequer, E Westhof, M H Van Regenmortel. Immunol Lett 1993
119
14

Structural analysis of B-cell epitopes in antibody:protein complexes.
Jens Vindahl Kringelum, Morten Nielsen, Søren Berg Padkjær, Ole Lund. Mol Immunol 2013
158
14

Recent advances in B-cell epitope prediction methods.
Yasser El-Manzalawy, Vasant Honavar. Immunome Res 2010
93
14

Epitope mapping using combinatorial phage-display libraries: a graph-based algorithm.
Itay Mayrose, Tomer Shlomi, Nimrod D Rubinstein, Jonathan M Gershoni, Eytan Ruppin, Roded Sharan, Tal Pupko. Nucleic Acids Res 2007
78
12

Application of the Spot method to the identification of peptides and amino acids from the antibody paratope that contribute to antigen binding.
Daniel Laune, Franck Molina, Gaëlle Ferrières, Sylvie Villard, Cédric Bès, François Rieunier, Thierry Chardès, Claude Granier. J Immunol Methods 2002
70
12

Stepwise prediction of conformational discontinuous B-cell epitopes using the Mapitope algorithm.
Erez M Bublil, Natalia Tarnovitski Freund, Itay Mayrose, Osnat Penn, Anna Roitburd-Berman, Nimrod D Rubinstein, Tal Pupko, Jonathan M Gershoni. Proteins 2007
70
12


Prediction of antigenic epitopes on protein surfaces by consensus scoring.
Shide Liang, Dandan Zheng, Chi Zhang, Martin Zacharias. BMC Bioinformatics 2009
65
12


Improving B-cell epitope prediction and its application to global antibody-antigen docking.
Konrad Krawczyk, Xiaofeng Liu, Terry Baker, Jiye Shi, Charlotte M Deane. Bioinformatics 2014
78
12

Improved method for linear B-cell epitope prediction using antigen's primary sequence.
Harinder Singh, Hifzur Rahman Ansari, Gajendra P S Raghava. PLoS One 2013
163
12


SiteLight: binding-site prediction using phage display libraries.
Inbal Halperin, Haim Wolfson, Ruth Nussinov. Protein Sci 2003
51
10

3D-Epitope-Explorer (3DEX): localization of conformational epitopes within three-dimensional structures of proteins.
Andreas Schreiber, Michael Humbert, Alexander Benz, Ursula Dietrich. J Comput Chem 2005
70
10


MIMOX: a web tool for phage display based epitope mapping.
Jian Huang, Alex Gutteridge, Wataru Honda, Minoru Kanehisa. BMC Bioinformatics 2006
68
10

An introduction to epitope prediction methods and software.
Xingdong Yang, Xinglong Yu. Rev Med Virol 2009
115
10

SUPERFICIAL--surface mapping of proteins via structure-based peptide library design.
Andrean Goede, Ines S Jaeger, Robert Preissner. BMC Bioinformatics 2005
11
45

More than one reason to rethink the use of peptides in vaccine design.
Anthony W Purcell, James McCluskey, Jamie Rossjohn. Nat Rev Drug Discov 2007
506
10

Continuous and discontinuous protein antigenic determinants.
D J Barlow, M S Edwards, J M Thornton. Nature 1986
435
10

Location of 'continuous' antigenic determinants in the protruding regions of proteins.
J M Thornton, M S Edwards, W R Taylor, D J Barlow. EMBO J 1986
223
10

BEST: improved prediction of B-cell epitopes from antigen sequences.
Jianzhao Gao, Eshel Faraggi, Yaoqi Zhou, Jishou Ruan, Lukasz Kurgan. PLoS One 2012
55
10


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.