@conference {D202,
	title = {D201: Ontobull and BFOConvert: Web-based programs to support automatic ontology conversion},
	booktitle = {International Conference on Biomedical Ontology and BioCreative (ICBO BioCreative 2016)},
	series = {Proceedings of the Joint International Conference on Biological Ontology and BioCreative (2016)},
	year = {2016},
	month = {11/30/16},
	publisher = {CEUR-ws.org Volume 1747},
	organization = {CEUR-ws.org Volume 1747},
	abstract = {<p>When a widely reused ontology appears in a new version which is not compatible with older versions, the ontologies reusing it need to be updated accordingly. Ontobull (http://ontobull.hegroup.org) has been developed to automatically update ontologies with new term IRI(s) and associated metadata to take account of such version changes. To use the Ontobull web interface a user is required to (i) upload one or more ontology OWL source files; (ii) input an ontology term IRI mapping; and (where needed) (iii) provide update settings for ontology headers and XML namespace IDs. Using this information, the backend Ontobull Java program automatically updates the OWL ontology files with desired term IRIs and ontology metadata. The Ontobull subprogram BFOConvert supports the conversion of an ontology that imports a previous version of BFO. A use case is pro- vided to demonstrate the features of Ontobull and BFOConvert.</p>
},
	url = {http://ceur-ws.org/Vol-1747/D201_ICBO2016.pdf},
	author = {Edison Ong and Zuoshuang Xiang and Jie Zheng and Barry Smith and Yongqun He}
}
@conference {BP01,
	title = {BP01: Ignet: A centrality and INO-based web system for analyzing and visualizing literature-mined networks},
	booktitle = {International Conference on Biomedical Ontology and BioCreative (ICBO BioCreative 2016)},
	series = {Proceedings of the Joint International Conference on Biological Ontology and BioCreative (2016)},
	year = {2016},
	month = {11/30/16},
	publisher = {CEUR-ws.org Volume 1747},
	organization = {CEUR-ws.org Volume 1747},
	abstract = {<p>Ignet (Integrative Gene Network) is a web-based system for dynamical- ly updating and analyzing gene interaction networks mined using all Pub- Med abstracts. Four centrality metrics, namely degree, eigenvector, be- tweenness, and closeness are used to determine the importance of genes in the networks. Different gene interaction types between genes are classified using the Interaction Network Ontology (INO) that classifies interaction types in an ontological hierarchy along with individual keywords listed for each interaction type. An interactive user interface is designed to explore the interaction network as well as the centrality and ontology based net- work analysis. Availability: http://ignet.hegroup.org.</p>
},
	url = {http://ceur-ws.org/Vol-1747/BP01_ICBO2016.pdf},
	author = {Arzucan Ozgur and Junguk Hur and Zuoshuang Xiang and Edison Ong and Dragomir Radev and Yongqun He}
}
