Introducing meta-services for biomedical information extraction

Table 1 Annotation servers

Team/Group	GM	GN	TX	PPI	Conf	State	Web Page
Hakenberg	+	+	+	+	True	Dynamic	http://alibaba.informatik.hu-berlin.de/bcms/
Kuo	+				False	Dynamic	http://aiia.iis.sinica.edu.tw/biocreative2.htm
Tsai	+			+	True	Dynamic	http://asqa.iis.sinica.edu.tw/biocreative2/
Lau		+			True	Dynamic	http://giant.cit.nih.gov/
Sætre	+	+		+	True	Static
Kim				+	True	Dynamic	http://bi.snu.ac.kr/pie
Baumgartner	+	+		+	False	Dynamic
Haddow	+	+	+	+	True	Static
Ruch		+		+	True	Dynamic	http://129.194.97.165/EAGLtools/
Özgür				+	True	Static
Luong		+			True	Dynamic
Hoffmann	^a	+	+	+	True	Dynamic	http://www.ihop-net.org/
Totals	6	8	3	9	10	12 teams

List of annotation servers used by the meta-server, plus a Boolean flag determining whether the classifiers use a confidence score (Conf) and the system state (State): dynamic = online system, already capable of delivering content for any PubMed abstract; static = offline system, server in development. The webpage columns provide a link to an online site for a team's annotation system. ^aiHOP (Hoffmann) delivers GMs, but because of data compatibility issues this is a feature to be added in later versions of the meta-server. GM, gene/protein mention detections; GN, gene/protein normalizations; PPI, protein-protein interaction classification; TX, taxon classifications.

ISSN: 1474-760X