Beyond the clause: extraction of phosphorylation information from medline abstracts.

@article{citeulike:486877, abstract = {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.}, address = {AU-KBC Research Centre, Anna University Chennai, India.}, author = {Narayanaswamy, M. and Ravikumar, K. E. and Vijay-Shanker, K. }, citeulike-article-id = {486877}, issn = {1367-4803}, journal = {Bioinformatics}, keywords = {bioinformatics, medline, phosphorylation, text-mining}, month = {June}, posted-at = {2008-04-07 01:51:53}, priority = {2}, title = {Beyond the clause: extraction of phosphorylation information from medline abstracts.}, url = {http://view.ncbi.nlm.nih.gov/pubmed/15961474}, volume = {21 Suppl 1}, year = {2005} }

TY - JOUR ID - citeulike:486877 L3 - citeulike-article-id:486877 TI - Beyond the clause: extraction of phosphorylation information from medline abstracts. JF - Bioinformatics VL - 21 Suppl 1 AD - AU-KBC Research Centre, Anna University Chennai, India. SN - 1367-4803 N2 - 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. KW - bioinformatics KW - medline KW - phosphorylation KW - text-mining AU - Narayanaswamy, M AU - Ravikumar, KE AU - Vijay-Shanker, K PY - 2005/06/01/ UR - http://view.ncbi.nlm.nih.gov/pubmed/15961474 ER -