PubMed

Corpus refactoring: a feasibility study.

Johnson HL, Baumgartner WA Jr, Krallinger M, Cohen KB, Hunter L.

J Biomed Discov Collab. 2007 Sep 13;2:4.PMID: 17854502 [PubMed - in process]Related articlesFree article

Automated de-identification of free-text medical records.

Neamatullah I, Douglass MM, Lehman LW, Reisner A, Villarroel M, Long WJ, Szolovits P, Moody GB, Mark RG, Clifford GD.

BMC Med Inform Decis Mak. 2008 Jul 24;8:32.PMID: 18652655 [PubMed - indexed for MEDLINE]Related articlesFree article

An open-source framework for large-scale, flexible evaluation of biomedical text mining systems.

Baumgartner WA Jr, Cohen KB, Hunter L.

J Biomed Discov Collab. 2008 Jan 29;3:1.PMID: 18230184 [PubMed - in process]Related articlesFree article

Semi-automatic conversion of BioProp semantic annotation to PASBio annotation.

Tsai RT, Dai HJ, Huang CH, Hsu WL.

BMC Bioinformatics. 2008 Dec 12;9 Suppl 12:S18.PMID: 19091017 [PubMed - indexed for MEDLINE]Related articlesFree article

Assessment of disease named entity recognition on a corpus of annotated sentences.

Jimeno A, Jimenez-Ruiz E, Lee V, Gaudan S, Berlanga R, Rebholz-Schuhmann D.

BMC Bioinformatics. 2008 Apr 11;9 Suppl 3:S3.PMID: 18426548 [PubMed - indexed for MEDLINE]Related articlesFree article

Empirical data on corpus design and usage in biomedical natural language processing.

Cohen KB, Fox L, Ogren PV, Hunter L.

AMIA Annu Symp Proc. 2005:156-60.PMID: 16779021 [PubMed - indexed for MEDLINE]Related articlesFree article

Concept recognition for extracting protein interaction relations from biomedical text.

Baumgartner WA Jr, Lu Z, Johnson HL, Caporaso JG, Paquette J, Lindemann A, White EK, Medvedeva O, Cohen KB, Hunter L.

Genome Biol. 2008;9 Suppl 2:S9. Epub 2008 Sep 1.PMID: 18834500 [PubMed - indexed for MEDLINE]Related articlesFree article

Terminologies for text-mining; an experiment in the lipoprotein metabolism domain.

Alexopoulou D, Wächter T, Pickersgill L, Eyre C, Schroeder M.

BMC Bioinformatics. 2008 Apr 25;9 Suppl 4:S2.PMID: 18460175 [PubMed - indexed for MEDLINE]Related articlesFree article

Rapid pattern development for concept recognition systems: application to point mutations.

Caporaso JG, Baumgartner WA, Randolph DA, Cohen KB, Hunter L.

J Bioinform Comput Biol. 2007 Dec;5(6):1233-59.PMID: 18172927 [PubMed - indexed for MEDLINE]Related articles

Comparative analysis of five protein-protein interaction corpora.

Pyysalo S, Airola A, Heimonen J, Björne J, Ginter F, Salakoski T.

BMC Bioinformatics. 2008 Apr 11;9 Suppl 3:S6.PMID: 18426551 [PubMed - indexed for MEDLINE]Related articlesFree article

Web-based infectious disease reporting using XML forms.

Liu D, Wang X, Pan F, Xu Y, Yang P, Rao K.

Int J Med Inform. 2008 Sep;77(9):630-40. Epub 2007 Dec 3.PMID: 18060833 [PubMed - indexed for MEDLINE]Related articles

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

Airola A, Pyysalo S, Björne J, Pahikkala T, Ginter F, Salakoski T.

BMC Bioinformatics. 2008 Nov 19;9 Suppl 11:S2.PMID: 19025688 [PubMed - indexed for MEDLINE]Related articlesFree article

The BioScope corpus: biomedical texts annotated for uncertainty, negation and their scopes.

Vincze V, Szarvas G, Farkas R, Móra G, Csirik J.

BMC Bioinformatics. 2008 Nov 19;9 Suppl 11:S9.PMID: 19025695 [PubMed - indexed for MEDLINE]Related articlesFree article

A model for increasing patient safety in the intensive care unit: increasing the implementation rates of proven safety measures.

Krimsky WS, Mroz IB, McIlwaine JK, Surgenor SD, Christian D, Corwin HL, Houston D, Robison C, Malayaman N.

Qual Saf Health Care. 2009 Feb;18(1):74-80.PMID: 19204137 [PubMed - indexed for MEDLINE]Related articles

OntologyWidget - a reusable, embeddable widget for easily locating ontology terms.

Beauheim CC, Wymore F, Nitzberg M, Zachariah ZK, Jin H, Skene JH, Ball CA, Sherlock G.

BMC Bioinformatics. 2007 Sep 13;8:338.PMID: 17854506 [PubMed - indexed for MEDLINE]Related articlesFree article

Facilitating the development of controlled vocabularies for metabolomics technologies with text mining.

Spasić I, Schober D, Sansone SA, Rebholz-Schuhmann D, Kell DB, Paton NW.

BMC Bioinformatics. 2008 Apr 29;9 Suppl 5:S5.PMID: 18460187 [PubMed - indexed for MEDLINE]Related articlesFree article

Facts from text: can text mining help to scale-up high-quality manual curation of gene products with ontologies?

Winnenburg R, Wächter T, Plake C, Doms A, Schroeder M.

Brief Bioinform. 2008 Nov;9(6):466-78. Epub 2008 Dec 6. Review.PMID: 19060303 [PubMed - indexed for MEDLINE]Related articles

A comparison study on algorithms of detecting long forms for short forms in biomedical text.

Torii M, Hu ZZ, Song M, Wu CH, Liu H.

BMC Bioinformatics. 2007 Nov 27;8 Suppl 9:S5.PMID: 18047706 [PubMed - indexed for MEDLINE]Related articlesFree article

OpenDMAP: an open source, ontology-driven concept analysis engine, with applications to capturing knowledge regarding protein transport, protein interactions and cell-type-specific gene expression.

Hunter L, Lu Z, Firby J, Baumgartner WA Jr, Johnson HL, Ogren PV, Cohen KB.

BMC Bioinformatics. 2008 Jan 31;9:78.PMID: 18237434 [PubMed - indexed for MEDLINE]Related articlesFree article

An intelligent listening framework for capturing encounter notes from a doctor-patient dialog.

Klann JG, Szolovits P.

BMC Med Inform Decis Mak. 2009 Nov 3;9 Suppl 1:S3.PMID: 19891797 [PubMed - in process]Related articlesFree article