Overview of the ID, EPI and REL tasks of BioNLP Shared Task 2011

BMC Bioinformatics

Table 9 Summary of extraction system architectures

Event extraction systems
	NLP		Events
Team	Word	Parse	Trig.	Arg.	Group.	Modif.	Other resources
FAUST	CoreNLP, SnowBall	McCCJ + SD	(UMass+Stanford as features)			-	word clusters
UTurku	Porter	McCCJ + SD	SVM	SVM	SVM	SVM	hedge words
UMass	CoreNLP, SnowBall	McCCJ + SD	Joint, dual decomposition			-	-
MSR-NLP	Porter, custom	McCCJ + SD, Enju	SVM	SVM	SVM	-	triggers, word clusters
Stanford	custom	McCCJ + SD	MaxEnt		Joint, MSTParser	-	word clusters
ConcordU	-	McCCJ + SD	Dict	Rules	Rules	Rules	triggers and hedge words
CCP-BTMG	Porter, WN-lemma	Stanford + SD	Graph extraction & matching			-	-
PNNL	Porter	Stanford	SVM	SVM	Rules	-	UMLS, triggers
PredX	LGP	LGP	Dict	Rules	Rules	-	UMLS, triggers
Relation extraction systems
	NLP		Extraction		Other resources
Team	Word	Parse	Entities	Relations	Corpora	Other
UTurku	Porter	McCCJ + SD	SVM	SVM	-	-
VIBGhent	Porter	McCCJ + SD	Dict + rules	SVM	GENIA, PubMed	word similarities
ConcordU	-	McCCJ + SD	Dict	Rules	-	-
HCMUS	OpenNLP	OpenNLP	Dict	Rules	-	-

Abbreviations: Trig./Arg./Group./Modif.=event trigger detection/argument detection/argument grouping/modification detection, CoreNLP = Stanford CoreNLP [117], Porter=Porter stemmer [118], Snowball=Snowball stemmer [119], WN-lemma=WordNet lemmatization, McCCJ=McClosky-Charniak-Johnson parser [97, 98], LGP = Link Grammar Parser [120], SD=Stanford Dependency conversion [97], Dict=Dictionary, UMLS=UMLS resources (e.g. lexicon, metamap) [121].

ISSN: 1471-2105