Sciweavers

Share
BMCBI
2010

Walk-weighted subsequence kernels for protein-protein interaction extraction

12 years 2 months ago
Walk-weighted subsequence kernels for protein-protein interaction extraction
Background: The construction of interaction networks between proteins is central to understanding the underlying biological processes. However, since many useful relations are excluded in databases and remain hidden in raw text, a study on automatic interaction extraction from text is important in bioinformatics field. Results: Here, we suggest two kinds of kernel methods for genic interaction extraction, considering the structural aspects of sentences. First, we improve our prior dependency kernel by modifying the kernel function so that it can involve various substructures in terms of (1) e-walks, (2) partial match, (3) non-contiguous paths, and (4) different significance of substructures. Second, we propose the walk-weighted subsequence kernel to parameterize non-contiguous syntactic structures as well as semantic roles and lexical features, which makes learning structural aspects from a small amount of training data effective. Furthermore, we distinguish the significances of param...
Seonho Kim, Juntae Yoon, Jihoon Yang, Seog Park
Added 08 Dec 2010
Updated 08 Dec 2010
Type Journal
Year 2010
Where BMCBI
Authors Seonho Kim, Juntae Yoon, Jihoon Yang, Seog Park
Comments (0)
books