[HTML][HTML] NCBI disease corpus: a resource for disease name recognition and concept normalization

RI Doğan, R Leaman, Z Lu - Journal of biomedical informatics, 2014‏ - Elsevier
Abstract Information encoded in natural language in biomedical literature publications is
only useful if efficient and reliable ways of accessing and analyzing that information are …

[PDF][PDF] Domain adaptation with structural correspondence learning

J Blitzer, R McDonald, F Pereira - Proceedings of the 2006 …, 2006‏ - aclanthology.org
Discriminative learning methods are widely used in natural language processing. These
methods work best when their training and test data are drawn from the same distribution …

Applications of natural language processing in biodiversity science

AE Thessen, H Cui, D Mozzherin - Advances in bioinformatics, 2012‏ - Wiley Online Library
Centuries of biological knowledge are contained in the massive body of scientific literature,
written for human‐readability but too big for any one person to consume. Large‐scale …

[PDF][PDF] The Stanford typed dependencies representation

MC De Marneffe, CD Manning - Coling 2008: proceedings of the …, 2008‏ - aclanthology.org
This paper examines the Stanford typed dependencies representation, which was designed
to provide a straightforward description of grammatical relations for any user who could …

Concept annotation in the CRAFT corpus

M Bada, M Eckert, D Evans, K Garcia, K Shipley… - BMC …, 2012‏ - Springer
Background Manually annotated corpora are critical for the training and evaluation of
automated methods to identify concepts in biomedical text. Results This paper presents the …

Wide-coverage efficient statistical parsing with CCG and log-linear models

S Clark, JR Curran - Computational Linguistics, 2007‏ - direct.mit.edu
This article describes a number of log-linear parsing models for an automatically extracted
lexicalized grammar. The models are “full” parsing models in the sense that probabilities are …

Corpus annotation for mining biomedical events from literature

JD Kim, T Ohta, J Tsujii - BMC bioinformatics, 2008‏ - Springer
Abstract Background Advanced Text Mining (TM) such as semantic enrichment of papers,
event or relation extraction, and intelligent Question Answering have increasingly attracted …

All-paths graph kernel for protein-protein interaction extraction with evaluation of cross-corpus learning

A Airola, S Pyysalo, J Björne, T Pahikkala, F Ginter… - BMC …, 2008‏ - Springer
Background Automated extraction of protein-protein interactions (PPI) is an important and
widely studied task in biomedical text mining. We propose a graph kernel based approach …

[PDF][PDF] Reranking and self-training for parser adaptation

D McClosky, E Charniak… - Proceedings of the 21st …, 2006‏ - aclanthology.org
Statistical parsers trained and tested on the Penn Wall Street Journal (WSJ) treebank have
shown vast improvements over the last 10 years. Much of this improvement, however, is …

Bridging semantics and syntax with graph algorithms—state-of-the-art of extracting biomedical relations

Y Luo, Ö Uzuner, P Szolovits - Briefings in bioinformatics, 2017‏ - academic.oup.com
Research on extracting biomedical relations has received growing attention recently, with
numerous biological and clinical applications including those in pharmacogenomics, clinical …