Overview of BioCreative II gene mention recognition.
Nineteen teams presented results for the Gene Mention Task at the BioCreative II Workshop. In this task participants designed systems to identify substrings in sentences corresponding to gene name mentions. A variety of different methods were used and the results varied with a highest achieved F1 score of 0.8721. Here we present brief descriptions of all the methods used and a statistical analysis of the results. We also demonstrate that, by combining the results from all submissions, an F score of 0.9066 is feasible, and furthermore that the best result makes use of the lowest scoring submissions.
National Center for Biotechnology Information, Bethesda, Maryland, USA. lsmith@ncbi.nlm.nih.gov
Larry
L
Smith
Lorraine K
LK
Tanabe
Rie Johnson nee
RJ
Ando
Cheng-Ju
CJ
Kuo
I-Fang
IF
Chung
Chun-Nan
CN
Hsu
Yu-Shi
YS
Lin
Roman
R
Klinger
Christoph M
CM
Friedrich
Kuzman
K
Ganchev
Manabu
M
Torii
Hongfang
H
Liu
Barry
B
Haddow
Craig A
CA
Struble
Richard J
RJ
Povinelli
Andreas
A
Vlachos
William A
WA
Baumgartner
Lawrence
L
Hunter
Bob
B
Carpenter
Richard Tzong-Han
RT
Tsai
Hong-Jie
HJ
Dai
Feng
F
Liu
Yifei
Y
Chen
Chengjie
C
Sun
Sophia
S
Katrenko
Pieter
P
Adriaans
Christian
C
Blaschke
Rafael
R
Torres
Mariana
M
Neves
Preslav
P
Nakov
Anna
A
Divoli
Manuel
M
Maña-López
Jacinto
J
Mata
W John
WJ
Wilbur
D019295:Computational Biology / Q000379:methods*; D003226:Congresses as Topic; D005796:Genes; D012958:Societies, Scientific