Towards supporting on-demand virtual remodularization using program graphs
Proceedings of the 5th international conference on Aspect-oriented software development
Event extraction for post-translational modifications
BioNLP '10 Proceedings of the 2010 Workshop on Biomedical Natural Language Processing
Towards exhaustive protein modification event extraction
BioNLP '11 Proceedings of BioNLP 2011 Workshop
Text Mining of Protein Phosphorylation Information Using a Generalizable Rule-Based Approach
Proceedings of the International Conference on Bioinformatics, Computational Biology and Biomedical Informatics
| Hi-index | 3.84 |
Motivation: Phosphorylation is an important biochemical reaction that plays a critical role in signal transduction pathways and cell-cycle processes. A text mining system to extract the phosphorylation relation from the literature is reported. The focus of this paper is on the new methods developed and implemented to connect and merge pieces of information about phosphorylation mentioned in different sentences in the text. The effectiveness and accuracy of the system as a whole as well as that of the methods for extraction beyond a clause/sentence is evaluated using an independently annotated dataset, the Phospho.ELM database. The new methods developed to merge pieces of information from different sentences are shown to be effective in significantly raising the recall without much difference in precision. Contact: vijay@cis.udel.edu