Towards a consensus on datasets and evaluation metrics for developing B-cell epitope prediction tools.
A B-cell epitope is the three-dimensional structure within an antigen that can be bound to the variable region of an antibody. The prediction of B-cell epitopes is highly desirable for various immunological applications, but has presented a set of unique challenges to the bioinformatics and immunology communities. Improving the accuracy of B-cell epitope prediction methods depends on a community consensus on the data and metrics utilized to develop and evaluate such tools. A workshop, sponsored by the National Institute of Allergy and Infectious Disease (NIAID), was recently held in Washington, DC to discuss the current state of the B-cell epitope prediction field. Many of the currently available tools were surveyed and a set of recommendations was devised to facilitate improvements in the currently existing tools and to expedite future tool development. An underlying theme of the recommendations put forth by the panel is increased collaboration among research groups. By developing common datasets, standardized data formats, and the means with which to consolidate information, we hope to greatly enhance the development of B-cell epitope prediction tools.
Greenbaum
Jason A
JA
Immune Epitope Database and Analysis Resource (IEDB), La Jolla Institute for Allergy and Immunology, La Jolla, California, USA. jgbaum@liai.org
Andersen
Pernille Haste
PH
Blythe
Martin
M
Bui
Huynh-Hoa
HH
Cachau
Raul E
RE
Crowe
James
J
Davies
Matthew
M
Kolaskar
A S
AS
Lund
Ole
O
Morrison
Sherrie
S
Mumey
Brendan
B
Ofran
Yanay
Y
Pellequer
Jean-Luc
JL
Pinilla
Clemencia
C
Ponomarenko
Julia V
JV
Raghava
G P S
GP
van Regenmortel
Marc H V
MH
Roggen
Erwin L
EL
Sette
Alessandro
A
Schlessinger
Avner
A
Sollner
Johannes
J
Zand
Martin
M
Peters
Bjoern
B
D000818:Animals; D032921:Consensus; D030562:Databases, Protein; D018985:Epitopes, B-Lymphocyte / Q000032:analysis* / Q000145:classification; D005069:Evaluation Studies as Topic; D006287:Health Planning Guidelines; D006801:Humans; D008954:Models, Biological; D008958:Models, Molecular; D019151:Peptide Library; D017433:Protein Structure, Secondary; D020539:Sequence Analysis, Protein / Q000379:methods*; D012984:Software
D018985:Epitopes, B-Lymphocyte; D019151:Peptide Library