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Results: 1 to 20 of 56

1.

Anatomical entity recognition with a hierarchical framework augmented by external resources.

Xu Y, Hua J, Ni Z, Chen Q, Fan Y, Ananiadou S, Chang EI, Tsujii J.

PLoS One. 2014 Oct 24;9(10):e108396. doi: 10.1371/journal.pone.0108396. eCollection 2014.

PMID:
25343498
[PubMed - in process]
Free PMC Article
2.

Generalising semantic category disambiguation with large lexical resources for fun and profit.

Stenetorp P, Pyysalo S, Ananiadou S, Tsujii J.

J Biomed Semantics. 2014 Jun 2;5:26. doi: 10.1186/2041-1480-5-26. eCollection 2014.

PMID:
25093067
[PubMed]
Free PMC Article
3.

Joint segmentation and named entity recognition using dual decomposition in Chinese discharge summaries.

Xu Y, Wang Y, Liu T, Liu J, Fan Y, Qian Y, Tsujii J, Chang EI.

J Am Med Inform Assoc. 2014 Feb;21(e1):e84-92. doi: 10.1136/amiajnl-2013-001806. Epub 2013 Aug 9.

PMID:
23934949
[PubMed - indexed for MEDLINE]
4.

Building large collections of Chinese and English medical terms from semi-structured and encyclopedia websites.

Xu Y, Wang Y, Sun JT, Zhang J, Tsujii J, Chang E.

PLoS One. 2013 Jul 9;8(7):e67526. doi: 10.1371/journal.pone.0067526. Print 2013.

PMID:
23874426
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

An end-to-end system to identify temporal relation in discharge summaries: 2012 i2b2 challenge.

Xu Y, Wang Y, Liu T, Tsujii J, Chang EI.

J Am Med Inform Assoc. 2013 Sep-Oct;20(5):849-58. doi: 10.1136/amiajnl-2012-001607. Epub 2013 Mar 6.

PMID:
23467472
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Proximity-based frameworks for generating embeddings from multi-output data.

Mu T, Goulermas JY, Tsujii J, Ananiadou S.

IEEE Trans Pattern Anal Mach Intell. 2012 Nov;34(11):2216-32.

PMID:
23289130
[PubMed - indexed for MEDLINE]
7.

Improving protein coreference resolution by simple semantic classification.

Nguyen N, Kim JD, Miwa M, Matsuzaki T, Tsujii J.

BMC Bioinformatics. 2012 Nov 17;13:304. doi: 10.1186/1471-2105-13-304.

PMID:
23157272
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Event extraction across multiple levels of biological organization.

Pyysalo S, Ohta T, Miwa M, Cho HC, Tsujii J, Ananiadou S.

Bioinformatics. 2012 Sep 15;28(18):i575-i581. doi: 10.1093/bioinformatics/bts407.

PMID:
22962484
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Suicide note sentiment classification: a supervised approach augmented by web data.

Xu Y, Wang Y, Liu J, Tu Z, Sun JT, Tsujii J, Chang E.

Biomed Inform Insights. 2012;5(Suppl. 1):31-41. doi: 10.4137/BII.S8956. Epub 2012 Jan 30.

PMID:
22879758
[PubMed]
Free PMC Article
10.

Overview of the ID, EPI and REL tasks of BioNLP Shared Task 2011.

Pyysalo S, Ohta T, Rak R, Sullivan D, Mao C, Wang C, Sobral B, Tsujii J, Ananiadou S.

BMC Bioinformatics. 2012 Jun 26;13 Suppl 11:S2. doi: 10.1186/1471-2105-13-S11-S2.

PMID:
22759456
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

The Genia Event and Protein Coreference tasks of the BioNLP Shared Task 2011.

Kim JD, Nguyen N, Wang Y, Tsujii J, Takagi T, Yonezawa A.

BMC Bioinformatics. 2012 Jun 26;13 Suppl 11:S1. doi: 10.1186/1471-2105-13-S11-S1.

PMID:
22759455
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Named entity recognition of follow-up and time information in 20,000 radiology reports.

Xu Y, Tsujii J, Chang EI.

J Am Med Inform Assoc. 2012 Sep-Oct;19(5):792-9. doi: 10.1136/amiajnl-2012-000812. Epub 2012 Jul 6.

PMID:
22771530
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Feature engineering combined with machine learning and rule-based methods for structured information extraction from narrative clinical discharge summaries.

Xu Y, Hong K, Tsujii J, Chang EI.

J Am Med Inform Assoc. 2012 Sep-Oct;19(5):824-32. doi: 10.1136/amiajnl-2011-000776. Epub 2012 May 14.

PMID:
22586067
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

A classification approach to coreference in discharge summaries: 2011 i2b2 challenge.

Xu Y, Liu J, Wu J, Wang Y, Tu Z, Sun JT, Tsujii J, Chang EI.

J Am Med Inform Assoc. 2012 Sep-Oct;19(5):897-905. doi: 10.1136/amiajnl-2011-000734. Epub 2012 Apr 13.

PMID:
22505762
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

U-Compare bio-event meta-service: compatible BioNLP event extraction services.

Kano Y, Björne J, Ginter F, Salakoski T, Buyko E, Hahn U, Cohen KB, Verspoor K, Roeder C, Hunter LE, Kilicoglu H, Bergler S, Van Landeghem S, Van Parys T, Van de Peer Y, Miwa M, Ananiadou S, Neves M, Pascual-Montano A, Özgür A, Radev DR, Riedel S, Sætre R, Chun HW, Kim JD, Pyysalo S, Ohta T, Tsujii J.

BMC Bioinformatics. 2011 Dec 18;12:481. doi: 10.1186/1471-2105-12-481.

PMID:
22177292
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Event extraction for DNA methylation.

Ohta T, Pyysalo S, Miwa M, Tsujii J.

J Biomed Semantics. 2011 Oct 6;2 Suppl 5:S2. doi: 10.1186/2041-1480-2-S5-S2.

PMID:
22166595
[PubMed]
Free PMC Article
17.

An analysis of gene/protein associations at PubMed scale.

Pyysalo S, Ohta T, Tsujii J.

J Biomed Semantics. 2011 Oct 6;2 Suppl 5:S5. doi: 10.1186/2041-1480-2-S5-S5.

PMID:
22166173
[PubMed]
Free PMC Article
18.

Automatic extraction of angiogenesis bioprocess from text.

Wang X, McKendrick I, Barrett I, Dix I, French T, Tsujii J, Ananiadou S.

Bioinformatics. 2011 Oct 1;27(19):2730-7. doi: 10.1093/bioinformatics/btr460. Epub 2011 Aug 5.

PMID:
21821664
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Mining metabolites: extracting the yeast metabolome from the literature.

Nobata C, Dobson PD, Iqbal SA, Mendes P, Tsujii J, Kell DB, Ananiadou S.

Metabolomics. 2011 Mar;7(1):94-101. Epub 2010 Oct 31.

PMID:
21687783
[PubMed]
Free PMC Article
20.

Discovering and visualizing indirect associations between biomedical concepts.

Tsuruoka Y, Miwa M, Hamamoto K, Tsujii J, Ananiadou S.

Bioinformatics. 2011 Jul 1;27(13):i111-9. doi: 10.1093/bioinformatics/btr214.

PMID:
21685059
[PubMed - indexed for MEDLINE]
Free PMC Article

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