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Items: 1 to 20 of 26


An Ontology-Enabled Natural Language Processing Pipeline for Provenance Metadata Extraction from Biomedical Text (Short Paper).

Valdez J, Rueschman M, Kim M, Redline S, Sahoo SS.

On Move Meaningful Internet Syst. 2016 Oct;10033:699-708. doi: 10.1007/978-3-319-48472-3_43. Epub 2016 Oct 18.


Effective Information Extraction Framework for Heterogeneous Clinical Reports Using Online Machine Learning and Controlled Vocabularies.

Zheng S, Lu JJ, Ghasemzadeh N, Hayek SS, Quyyumi AA, Wang F.

JMIR Med Inform. 2017 May 9;5(2):e12. doi: 10.2196/medinform.7235.


An information model for computable cancer phenotypes.

Hochheiser H, Castine M, Harris D, Savova G, Jacobson RS.

BMC Med Inform Decis Mak. 2016 Sep 15;16(1):121. doi: 10.1186/s12911-016-0358-4.


Using automatically extracted information from mammography reports for decision-support.

Bozkurt S, Gimenez F, Burnside ES, Gulkesen KH, Rubin DL.

J Biomed Inform. 2016 Aug;62:224-31. doi: 10.1016/j.jbi.2016.07.001. Epub 2016 Jul 4.


NOBLE - Flexible concept recognition for large-scale biomedical natural language processing.

Tseytlin E, Mitchell K, Legowski E, Corrigan J, Chavan G, Jacobson RS.

BMC Bioinformatics. 2016 Jan 14;17:32. doi: 10.1186/s12859-015-0871-y.


A Federated Network for Translational Cancer Research Using Clinical Data and Biospecimens.

Jacobson RS, Becich MJ, Bollag RJ, Chavan G, Corrigan J, Dhir R, Feldman MD, Gaudioso C, Legowski E, Maihle NJ, Mitchell K, Murphy M, Sakthivel M, Tseytlin E, Weaver J.

Cancer Res. 2015 Dec 15;75(24):5194-201. doi: 10.1158/0008-5472.CAN-15-1973. Review.


Support patient search on pathology reports with interactive online learning based data extraction.

Zheng S, Lu JJ, Appin C, Brat D, Wang F.

J Pathol Inform. 2015 Sep 28;6:51. doi: 10.4103/2153-3539.166012. eCollection 2015.


KneeTex: an ontology-driven system for information extraction from MRI reports.

Spasić I, Zhao B, Jones CB, Button K.

J Biomed Semantics. 2015 Sep 7;6:34. doi: 10.1186/s13326-015-0033-1. eCollection 2015.


Comparison of a semi-automatic annotation tool and a natural language processing application for the generation of clinical statement entries.

Lin CH, Wu NY, Lai WS, Liou DM.

J Am Med Inform Assoc. 2015 Jan;22(1):132-42. doi: 10.1136/amiajnl-2014-002991. Epub 2014 Oct 20.


Complex epilepsy phenotype extraction from narrative clinical discharge summaries.

Cui L, Sahoo SS, Lhatoo SD, Garg G, Rai P, Bozorgi A, Zhang GQ.

J Biomed Inform. 2014 Oct;51:272-9. doi: 10.1016/j.jbi.2014.06.006. Epub 2014 Jun 26.


ASLForm: an adaptive self learning medical form generating system.

Zheng S, Wang F, Lu JJ.

AMIA Annu Symp Proc. 2013 Nov 16;2013:1590-9. eCollection 2013.


Using natural language processing to improve efficiency of manual chart abstraction in research: the case of breast cancer recurrence.

Carrell DS, Halgrim S, Tran DT, Buist DS, Chubak J, Chapman WW, Savova G.

Am J Epidemiol. 2014 Mar 15;179(6):749-58. doi: 10.1093/aje/kwt441. Epub 2014 Jan 30.


Automatic Extraction of ICD-O-3 Primary Sites from Cancer Pathology Reports.

Kavuluru R, Hands I, Durbin EB, Witt L.

AMIA Jt Summits Transl Sci Proc. 2013 Mar 18;2013:112-6. eCollection 2013.


Discovering body site and severity modifiers in clinical texts.

Dligach D, Bethard S, Becker L, Miller T, Savova GK.

J Am Med Inform Assoc. 2014 May-Jun;21(3):448-54. doi: 10.1136/amiajnl-2013-001766. Epub 2013 Oct 3.


Extracting laboratory test information from biomedical text.

Kang YS, Kayaalp M.

J Pathol Inform. 2013 Aug 31;4:23. doi: 10.4103/2153-3539.117450. eCollection 2013.


Temporal reasoning over clinical text: the state of the art.

Sun W, Rumshisky A, Uzuner O.

J Am Med Inform Assoc. 2013 Sep-Oct;20(5):814-9. doi: 10.1136/amiajnl-2013-001760. Epub 2013 May 15. Review.


The sharing partnership for innovative research in translation (SPIRiT) consortium: a model for collaboration across CTSA sites.

Reis SE, Patterson PD, Fitzgerald GA, Ford D, Sherwin RS, Solway J, Evanoff BA.

Clin Transl Sci. 2013 Apr;6(2):85-7. doi: 10.1111/cts.12039. No abstract available.


EpiDEA: extracting structured epilepsy and seizure information from patient discharge summaries for cohort identification.

Cui L, Bozorgi A, Lhatoo SD, Zhang GQ, Sahoo SS.

AMIA Annu Symp Proc. 2012;2012:1191-200. Epub 2012 Nov 3.


Text data extraction for a prospective, research-focused data mart: implementation and validation.

Hinchcliff M, Just E, Podlusky S, Varga J, Chang RW, Kibbe WA.

BMC Med Inform Decis Mak. 2012 Sep 13;12:106. doi: 10.1186/1472-6947-12-106.


Clinical research informatics: a conceptual perspective.

Kahn MG, Weng C.

J Am Med Inform Assoc. 2012 Jun;19(e1):e36-42. Epub 2012 Apr 20.

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