Paper Info
Title
Extraction and Grounding of Protein Mutations via Semantic Integration of Text and Sequence Information
Abstract
Rich information on mutations and their impacts is scattered across scientific texts and literature. Reuse of mutation impact annotations requires grounding mutations to the correct positions on sequences extracted from protein databases as a critical step. This paper presents a generic method for grounding textual mentions of mutation entities to protein sequences, that is based on an OWL-DL ontology driven workflow that integrates text and sequence information in a semantically consistent way. Mutation mentions mined from texts are iteratively mapped onto candidate proteins, and an ontology mining algorithm facilitates their correct grounding to a protein sequence. Using a gold standard corpus of full text articles and corresponding protein sequences we show the proposed method is promising compared to existing approaches.
Year
DOI
Venue
2011
10.1109/AINA.2011.112
Advanced Information Networking and Applications
Keywords
Field
DocType
biology computing,data mining,knowledge representation languages,text analysis,OWL-DL ontology,ontology mining algorithm,protein databases,protein mutations grounding,semantic integration,sequence information,text information,Mutation Extraction,Mutation Grounding,Ontologies,Sequence Analysis,Text Mining
Ontology (information science),Semantic integration,Ontology,Text mining,Information retrieval,Protein sequencing,Computer science,Workflow,Protein Databases,Sequence analysis
Conference
ISSN
ISBN
Citations 
1550-445X E-ISBN : 978-0-7695-4337-6
978-0-7695-4337-6
0
PageRank 
References 
Authors
0.34
13
2
Name
Order
Citations
PageRank
christopher j o baker132930.96
K Rajaraman238031.94