A citation-based method for searching scientific literature

J L Pellequer, E Westhof, M H Van Regenmortel. Immunol Lett 1993
Times Cited: 120







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



Times Cited
  Times     Co-cited
Similarity






Improved method for predicting linear B-cell epitopes.
Jens Erik Pontoppidan Larsen, Ole Lund, Morten Nielsen. Immunome Res 2006
740
54

Prediction of protein antigenic determinants from amino acid sequences.
T P Hopp, K R Woods. Proc Natl Acad Sci U S A 1981
50


Prediction of residues in discontinuous B-cell epitopes using protein 3D structures.
Pernille Haste Andersen, Morten Nielsen, Ole Lund. Protein Sci 2006
372
42

Predicting linear B-cell epitopes using string kernels.
Yasser El-Manzalawy, Drena Dobbs, Vasant Honavar. J Mol Recognit 2008
436
42



BEPITOPE: predicting the location of continuous epitopes and patterns in proteins.
Michael Odorico, Jean-Luc Pellequer. J Mol Recognit 2003
117
32

CEP: a conformational epitope prediction server.
Urmila Kulkarni-Kale, Shriram Bhosle, A S Kolaskar. Nucleic Acids Res 2005
161
30

Bcipep: a database of B-cell epitopes.
Sudipto Saha, Manoj Bhasin, Gajendra P S Raghava. BMC Genomics 2005
132
28

Predicting location of continuous epitopes in proteins from their primary structures.
J L Pellequer, E Westhof, M H Van Regenmortel. Methods Enzymol 1991
105
27

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
660
27

COBEpro: a novel system for predicting continuous B-cell epitopes.
Michael J Sweredoski, Pierre Baldi. Protein Eng Des Sel 2009
110
26

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
159
25



Epitopia: a web-server for predicting B-cell epitopes.
Nimrod D Rubinstein, Itay Mayrose, Eric Martz, Tal Pupko. BMC Bioinformatics 2009
124
22


Hydrophobic packing and spatial arrangement of amino acid residues in globular proteins.
P K Ponnuswamy, M Prabhakaran, P Manavalan. Biochim Biophys Acta 1980
135
21


Antibody-protein interactions: benchmark datasets and prediction tools evaluation.
Julia V Ponomarenko, Philip E Bourne. BMC Struct Biol 2007
137
21

Recent advances in B-cell epitope prediction methods.
Yasser El-Manzalawy, Vasant Honavar. Immunome Res 2010
95
20

Gapped BLAST and PSI-BLAST: a new generation of protein database search programs.
S F Altschul, T L Madden, A A Schäffer, J Zhang, Z Zhang, W Miller, D J Lipman. Nucleic Acids Res 1997
18


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
169
18

PREDITOP: a program for antigenicity prediction.
J L Pellequer, E Westhof. J Mol Graph 1993
56
30

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
89
19

BEST: improved prediction of B-cell epitopes from antigen sequences.
Jianzhao Gao, Eshel Faraggi, Yaoqi Zhou, Jishou Ruan, Lukasz Kurgan. PLoS One 2012
55
30

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
95
16

Continuous and discontinuous protein antigenic determinants.
D J Barlow, M S Edwards, J M Thornton. Nature 1986
436
15

A machine-learning approach for predicting B-cell epitopes.
Nimrod D Rubinstein, Itay Mayrose, Tal Pupko. Mol Immunol 2009
76
19

What is a B-cell epitope?
Marc H V Van Regenmortel. Methods Mol Biol 2009
141
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

SVM-based prediction of linear B-cell epitopes using Bayes Feature Extraction.
Lawrence J K Wee, Diane Simarmata, Yiu-Wing Kam, Lisa F P Ng, Joo Chuan Tong. BMC Genomics 2010
50
28

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
359
14

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
607
14

The Protein Data Bank.
H M Berman, J Westbrook, Z Feng, G Gilliland, T N Bhat, H Weissig, I N Shindyalov, P E Bourne. Nucleic Acids Res 2000
13

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
12

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
19

Prediction of sequential antigenic regions in proteins.
G W Welling, W J Weijer, R van der Zee, S Welling-Wester. FEBS Lett 1985
288
11

CED: a conformational epitope database.
Jian Huang, Wataru Honda. BMC Immunol 2006
99
11

Computational characterization of B-cell epitopes.
Nimrod D Rubinstein, Itay Mayrose, Dan Halperin, Daniel Yekutieli, Jonathan M Gershoni, Tal Pupko. Mol Immunol 2008
147
11


Structural analysis of B-cell epitopes in antibody:protein complexes.
Jens Vindahl Kringelum, Morten Nielsen, Søren Berg Padkjær, Ole Lund. Mol Immunol 2013
163
11

AntiJen: a quantitative immunology database integrating functional, thermodynamic, kinetic, biophysical, and cellular data.
Christopher P Toseland, Debra J Clayton, Helen McSparron, Shelley L Hemsley, Martin J Blythe, Kelly Paine, Irini A Doytchinova, Pingping Guan, Channa K Hattotuwagama, Darren R Flower. Immunome Res 2005
125
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.