Literature DB >> 15814561

POSBIOTM-NER: a trainable biomedical named-entity recognition system.

Yu Song1, Eunju Kim, Gary Geunbae Lee, Byoung-Kee Yi.   

Abstract

SUMMARY: POSBIOTM-NER is a trainable biomedical named-entity recognition system. POSBIOTM-NER can be automatically trained and adapted to new datasets without performance degradation, using CRF (conditional random field) machine learning techniques and automatic linguistic feature analysis. Currently, we have trained our system on three different datasets. GENIA-NER was trained based on GENIA Corpus, GENE-NER based on BioCreative data and GPCR-NER based on our own POSBIOTM/NE corpus, respectively, which would be used in GPCR-related pathway extraction.

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Year:  2005        PMID： 15814561     DOI： 10.1093/bioinformatics/bti414

Source DB:  PubMed          Journal:  Bioinformatics        ISSN： 1367-4803            Impact factor:   6.937


  9 in total

1.  A study of machine-learning-based approaches to extract clinical entities and their assertions from discharge summaries.

Authors:  Min Jiang; Yukun Chen; Mei Liu; S Trent Rosenbloom; Subramani Mani; Joshua C Denny; Hua Xu
Journal:  J Am Med Inform Assoc       Date:  2011-04-20       Impact factor: 4.497

2.  Biological Network Mining.

Authors:  Zongliang Yue; Da Yan; Guimu Guo; Jake Y Chen
Journal:  Methods Mol Biol       Date:  2021

3.  Investigating heterogeneous protein annotations toward cross-corpora utilization.

Authors:  Yue Wang; Jin-Dong Kim; Rune Saetre; Sampo Pyysalo; Jun'ichi Tsujii
Journal:  BMC Bioinformatics       Date:  2009-12-09       Impact factor: 3.169

Review 4.  What the papers say: text mining for genomics and systems biology.

Authors:  Nathan Harmston; Wendy Filsell; Michael P H Stumpf
Journal:  Hum Genomics       Date:  2010-10       Impact factor: 4.639

5.  Corpus annotation for mining biomedical events from literature.

Authors:  Jin-Dong Kim; Tomoko Ohta; Jun'ichi Tsujii
Journal:  BMC Bioinformatics       Date:  2008-01-08       Impact factor: 3.169

6.  BEERE: a web server for biomedical entity expansion, ranking and explorations.

Authors:  Zongliang Yue; Christopher D Willey; Anita B Hjelmeland; Jake Y Chen
Journal:  Nucleic Acids Res       Date:  2019-07-02       Impact factor: 16.971

7.  Improving biomedical named entity recognition with syntactic information.

Authors:  Yuanhe Tian; Wang Shen; Yan Song; Fei Xia; Min He; Kenli Li
Journal:  BMC Bioinformatics       Date:  2020-11-25       Impact factor: 3.169

8.  Recognizing clinical entities in hospital discharge summaries using Structural Support Vector Machines with word representation features.

Authors:  Buzhou Tang; Hongxin Cao; Yonghui Wu; Min Jiang; Hua Xu
Journal:  BMC Med Inform Decis Mak       Date:  2013-04-05       Impact factor: 2.796

9.  OntoGene in BioCreative II.

Authors:  Fabio Rinaldi; Thomas Kappeler; Kaarel Kaljurand; Gerold Schneider; Manfred Klenner; Simon Clematide; Michael Hess; Jean-Marc von Allmen; Pierre Parisot; Martin Romacker; Therese Vachon
Journal:  Genome Biol       Date:  2008-09-01       Impact factor: 13.583
  9 in total

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