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Posted to commits@ctakes.apache.org by ch...@apache.org on 2012/12/04 16:54:21 UTC
svn commit: r1417004 -
/incubator/ctakes/site/trunk/content/ctakes/components.mdtext
Author: chenpei
Date: Tue Dec 4 15:54:20 2012
New Revision: 1417004
URL: http://svn.apache.org/viewvc?rev=1417004&view=rev
Log:
Adding details about components
Added:
incubator/ctakes/site/trunk/content/ctakes/components.mdtext (with props)
Added: incubator/ctakes/site/trunk/content/ctakes/components.mdtext
URL: http://svn.apache.org/viewvc/incubator/ctakes/site/trunk/content/ctakes/components.mdtext?rev=1417004&view=auto
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--- incubator/ctakes/site/trunk/content/ctakes/components.mdtext (added)
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+Title: Apache cTAKES components
+Notice: Licensed to the Apache Software Foundation (ASF) under one
+ or more contributor license agreements. See the NOTICE file
+ distributed with this work for additional information
+ regarding copyright ownership. The ASF licenses this file
+ to you under the Apache License, Version 2.0 (the
+ "License"); you may not use this file except in compliance
+ with the License. You may obtain a copy of the License at
+ .
+ http://www.apache.org/licenses/LICENSE-2.0
+ .
+ Unless required by applicable law or agreed to in writing,
+ software distributed under the License is distributed on an
+ "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
+ KIND, either express or implied. See the License for the
+ specific language governing permissions and limitations
+ under the License.
+
+# Apache cTAKES Components
+
+### Sentence boundary detection
+Apache OpenNLP technology with a model trained on manually annotated clinical data
+(see Savova et al, 2010)
+
+### Tokenization
+(rule-based) (see Savova et al, 2010)
+
+### Morphologic normalization (National Library of Medicine's Lexical Variant Generation tool
+http://www.nlm.nih.gov/research/umls/new_users/online_learning/LEX_004.htm
+
+### POS tagging
+Apache OpenNLP technology with a model trained on manually annotated clinical data) (see Savova et al, 2010; upcoming 2013 publication
+
+### Shallow parsing
+(Apache OpenNLP technology with a model trained on manually annotated clinical data) (see Savova et al, 2010)
+
+### Named Entity Recognition (see Savova et al, 2010)
+ - Dictionary mapping (lookup algorithm)
+ - Semantic typing is based on these UMLS semantic types: diseases/disorders, signs/symptoms, anatomical sites, procedures, medications
+
+### Assertion module
+Discovers negation, degree of certainty and the subject/experiencer of the clinical event (upcoming 2013 publication)
+
+### Dependency parser
+Detects dependency relations between words (machine learning with a model trained on manually annotated clinical data) (see Choi and Palmer, 2011a; Choi and Palmer, 2011b; upcoming 2013 publication)
+
+### Constituency parser
+Apache OpenNLP technology with a model trained on manually annotated clinical data (see Zheng et al, 2011)
+
+### Semantic Role Labeler
+Assigns the predicate-argument structure of the sentence (who did what to whom when and where) (see Choi and Palmer, 2011a; Choi and Palmer, 2011b; upcoming 2013 publication)
+
+### Co-reference resolver
+Resolves co-referring entities. (machine learning with a model trained on manually annotated clinical data) (see Zheng et al, 2011)
+
+### Relation extractor
+discovers such attributes as the location and the severity of a clinical condition (machine learning with a model trained on manually annotated clinical data) (upcoming 2013 publication)
+
+### Drug Profile module
+discovers drug-specific attributes such as dosage, duration, form, frequency, route, strength (see Sohn et al, 2010; Savova et al, 2011)
+
+### Smoking status classifier
+past smoker, current smoker, non-smoker, smoker, unknown (see Savova et al, 2008)
+
+# Select Publications:
+Choi J, Palmer M. Getting the most out of Transition-based Dependency Parsing. 46th Annual Meeting of the Association for Computational Linguistics: Human Language Technologies,. Portland, OR.: ACL-HLT 2011a , 2011.
+
+Choi J, Palmer M. Transition-based Semantic Role Labeling Using Predicate Argument Clustering. RELMS 2011: Relational Models of Semantics, held in conjunction with ACL-HLT 2011. Portland, OR, 2011b.
+
+Savova G, Olson J, Murphy S, Cafourek V, Couch F, Goetz M, Ingle J, Suman V, Chute C and Weinshilboum R. 2011. The electronic medical record and drug response research: automated discovery of drug treatment patterns for endocrine therapy of breast cancer. Journal of American Medical Informatics Association.
+
+Savova GK, Masanz JJ, Ogren PV, Zheng J, Sohn S, Kipper-Schuler KC, and Chute CG. Mayo clinical Text Analysis and Knowledge Extraction System (cTAKES): architecture, component evaluation and applications. Journal of the American Medical Informatics Association : JAMIA 2010;17(5):507-13.
+
+Savova G, Ogren P, Duffy P, Buntrock J and Chute C. 2008. Mayo Clinic System for patient smoking status classification. J Am Med Inform Assoc. 2008; 15(1):25-8. PMID: 17947622
+
+Sohn S, Murphy SP, Masanz JJ, Kocher JP, Savova GK. Classification of medication status change in clinical narratives. AMIA Annual Symposium proceedings / AMIA Symposium. AMIA Symposium 2010;2010:762-6.
+
+Zheng J, Chapman W, Miller T, Lin C, Crowley R and Savova G. 2012. A system for coreference resolution for the clinical narrative. Journal of the American Medical Informatics Association. doi:10.1136/amiajnl-2011-000599
Propchange: incubator/ctakes/site/trunk/content/ctakes/components.mdtext
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