Warning: Undefined array key "mm" in /www/wwwroot/www.ai-bt.com/si.php on line 10 Deprecated: trim(): Passing null to parameter #1 ($string) of type string is deprecated in /www/wwwroot/www.ai-bt.com/si.php on line 10 Extracting structured information from free text pathology reports.

Literature DB >> 14728240

Extracting structured information from free text pathology reports.

Abstract

We have developed a method that extracts structured information about specimens and their related findings in free-text surgical pathology reports. Our method uses regular expressions that drive a state-automaton on top of XSLT and Java. Text fragments identified are coded against the UMLS. This paper describes the technical approach and reports on a preliminary evaluation study, designed to guide further development. We found that of 275 reviewed reports, 91% were coded at least so that all specimens and their critical pathologic findings were represented in codes.

Mesh：

Year: 2003 PMID： 14728240 PMCID： PMC1480213

Source DB: PubMed Journal: AMIA Annu Symp Proc ISSN： 1559-4076

7 in total

1. Use of general-purpose negation detection to augment concept indexing of medical documents: a quantitative study using the UMLS.

Authors: P G Mutalik; A Deshpande; P M Nadkarni
Journal: J Am Med Inform Assoc Date: 2001 Nov-Dec Impact factor: 4.497

2. Effective mapping of biomedical text to the UMLS Metathesaurus: the MetaMap program.

Authors: A R Aronson
Journal: Proc AMIA Symp Date: 2001

3. A successful technique for removing names in pathology reports using an augmented search and replace method.

Authors: Sean M Thomas; Burke Mamlin; Gunther Schadow; Clement McDonald
Journal: Proc AMIA Symp Date: 2002

4. Quality assurance in anatomic pathology: automated SNOMED coding.

Authors: K J Carter; S Rinehart; E Kessler; L P Caccamo; N P Ritchey; B A Erickson; F Castro; M D Poggione
Journal: J Am Med Inform Assoc Date: 1996 Jul-Aug Impact factor: 4.497

Review 5. Natural language processing and the representation of clinical data.

Authors: N Sager; M Lyman; C Bucknall; N Nhan; L J Tick
Journal: J Am Med Inform Assoc Date: 1994 Mar-Apr Impact factor: 4.497

6. Experience with a mixed semantic/syntactic parser.

Authors: P J Haug; S Koehler; L M Lau; P Wang; R Rocha; S M Huff
Journal: Proc Annu Symp Comput Appl Med Care Date: 1995

7. Unlocking clinical data from narrative reports: a study of natural language processing.

Authors: G Hripcsak; C Friedman; P O Alderson; W DuMouchel; S B Johnson; P D Clayton
Journal: Ann Intern Med Date: 1995-05-01 Impact factor: 25.391

7 in total

24 in total

1. Open-source toolkit for simple XML annotation.

Authors: Burke W Mamlin; Gunther Schadow; J Marc Overhage
Journal: AMIA Annu Symp Proc Date: 2003

2. Enhancing clinical concept extraction with distributional semantics.

Authors: Siddhartha Jonnalagadda; Trevor Cohen; Stephen Wu; Graciela Gonzalez
Journal: J Biomed Inform Date: 2011-11-07 Impact factor: 6.317

Review 3. Natural Language Processing methods and systems for biomedical ontology learning.

Authors: Kaihong Liu; William R Hogan; Rebecca S Crowley
Journal: J Biomed Inform Date: 2010-07-18 Impact factor: 6.317

4. Using a statistical natural language Parser augmented with the UMLS specialist lexicon to assign SNOMED CT codes to anatomic sites and pathologic diagnoses in full text pathology reports.

Authors: Henry J Lowe; Yang Huang; Donald P Regula
Journal: AMIA Annu Symp Proc Date: 2009-11-14

9. Evaluation of the VA/KP problem list subset of SNOMED as a clinical terminology for electronic prescription clinical decision support.

Authors: Surendranath Mantena; Gunther Schadow
Journal: AMIA Annu Symp Proc Date: 2007-10-11

10. A comparative study of current Clinical Natural Language Processing systems on handling abbreviations in discharge summaries.

Authors: Yonghui Wu; Joshua C Denny; S Trent Rosenbloom; Randolph A Miller; Dario A Giuse; Hua Xu
Journal: AMIA Annu Symp Proc Date: 2012-11-03