• • Ananiadou S, McNaught J
  Text Mining for Biology and Biomedicine
  Edited Book. Publisher: Artech House, Norwood, MA. ISBN 1-58053-984-X.. 2006.
  



• • Chagoyen M, Carmona-Saez P, Gil C, Carazo MJ, Pascual-Montano A
  A literature-based similarity metric for biological processes
  BMC Bioinformatics. 7:363. 2006.
  PMID: 16872502



• • Chun HW, Tsuruoka Y, Kim JD, Shiba R, Nagata N, Hishiki T, et al.
  Extraction of Gene-Disease Relations from Medline Using Domain Dictionaries and Machine Learning
  Proceedings of the 11th Pacific Symposium on Biocomputing. 2006.
  



• • Good MB, Tranfield ME, Tan CP, Shehata M, Singhera KG, Gosselink J, et al.
  Fast, Cheap and Out of Control: A Zero Curation Model for Ontology Development
  Proceedings of the 11th Pacific Symposium on Biocomputing. 2006.
  



• • Johnson LH, Cohen KB, Baumgartner JAW, Lu Z, Bada M, Kester T, et al.
  Evaluation of Lexical Methods for Detecting Relationships Between Concepts from Multiple Ontologies
  Proceedings of the 11th Pacific Symposium on Biocomputing. 2006.
  



• • Kushida T, Takagi T, Fukuda IK
  Event Ontology: A Pathway-Centric Ontology for Biological Processes
  Proceedings of the 11th Pacific Symposium on Biocomputing. 2006.
  



• • Ling X, Jiang J, He X, Mei Q, Zhai C, Schatz B
  Automatically Generating Gene Summaries from Biomedical Literature
  Proceedings of the 11th Pacific Symposium on Biocomputing. 2006.
  



• • Lu Z, Cohen KB, Hunter L
  Finding GeneRIFs via Gene Ontology Annotations
  Proceedings of the 11th Pacific Symposium on Biocomputing. 2006.
  



• • Lussier Y, Borlawsky T, Rappaport D, Liu Y, Friedman C
  PhenoGO: Assigning Phenotypic Context to Gene Ontology Annotations with Natural Language Processing
  Proceedings of the 11th Pacific Symposium on Biocomputing. 2006.
  



• • Stoica E, Hearst M
  Predicting Gene Functions from Text Using a Cross-Species Approach
  Proceedings of the 11th Pacific Symposium on Biocomputing. 2006.
  



• • Vlachos A, Gasperin C, Lewin I, Briscoe T
  Bootstrapping the Recognition and Anaphoric Linking of Named Entities in Drosophila Articles
  Proceedings of the 11th Pacific Symposium on Biocomputing. 2006.
  



• •
  Get ready to GO! A biologist's guide to the Gene Ontology
  Briefings in Bioinformatics. 6(3):298-304. 2005.
  PMID: 16212777



• • Afantenos DS, Karkaletsis V, Stamatopoulos P
  Summarization from Medical Documents: A Survey
  Artificial Intelligence in Medicine. 33(2):157-177. 2005.
  PMID: 15811783



• • Ahmed ST, Chidambaram D, Davalcu H, Baral C
  IntEx: A Syntactic Role Driven Protein-Protein Interaction Extractor for Bio-Medical Text
  Proceedings of the Joint ACL Workshop and BioLINK SIG (ISMB) on Linking Biological Literature Ontologies and Databases, 2005. 2005.
  



• • Bechhofer SK, Stevens RD, Lord PW
  Ontology Driven Dynamic Linking of Biology Resources
  Proceedings of the Pacific Symposium on Biocomputing (PSB). 2005.
  



• • Blaschke C, Leon AE, Krallinger M, Valencia A
  Evaluation of BioCreAtIvE assessment of task 2
  BMC Bioinformatics. 6(Suppl 1). 2005.
  PMID: 15960828



• • Bodenreider O, Aubry M, Burgun A
  Non-Lexical Approaches to Identifying Associative Relations in the Gene Ontology
  Proceedings of the Pacific Symposium on Biocomputing (PSB). 2005.
  



• • Bodenreider O, Mitchell JA, McCray AT
  Session Introduction
  Proceedings of the Pacific Symposium on Biocomputing (PSB). 2005.
  



• • Camon BE, Barrell GD, Dimmer CE, Lee V, Magrane M, Maslen J, et al.
  An evaluation of GO annotation retrieval for BioCreAtIvE and GOA
  BMC Bioinformatics. 6(Suppl 1). 2005.
  PMID: 15960829



• • Cantor MN, Sarkar IN, Bodenreider O, Lussier YA
  GenesTrace: Phenomic Knowledge Discovery via Structured Terminology
  Proceedings of the Pacific Symposium on Biocomputing (PSB). 2005.
  



• • Clegg AB, Shepherd AJ
  Evaluating and Integrating Treebank Parsers on a Biomedical Corpus
  Association for Computational Linguistics, Workshop on Software05. 2005.
  



• • Cohen A
  Unsupervised Gene/Protein Named Entity Normalization Using Automatically Extracted Dictionaries
  Proceedings of the Joint ACL Workshop and BioLINK SIG (ISMB) on Linking Biological Literature Ontologies and Databases, 2005. 2005.
  



• • Cohen KB, Fox L, Ogren PV, Hunger L
  Corpus Design for Biomedical Natural Language Processing
  Proceedings of the Joint ACL Workshop and BioLINK SIG (ISMB) on Linking Biological Literature Ontologies and Databases, 2005. 2005.
  



• • Couto FM, Silva JM, Coutinho MP
  Finding genomic ontology terms in text using evidence content
  BMC Bioinformatics. 6(Suppl 1). 2005.
  PMID: 15960834



• • Ding J, Viswanathan K, Berleant D, Hughes L, Wurtele SE, Ashlock D, et al.
  Using the biological taxonomy to access biological literature with PathBinderH
  Bioinformatics. 21(10):2560-2562. 2005.
  PMID: 15769838



• • Doms A, Schroeder M
  GoPubMed: exploring PubMed with the Gene Ontology
  Nucleic Acids Research. 33(Web server issue). 2005.
  PMID: 15980585



• • Ehrler F, Geissbühler A, Jimeno A, Ruch P
  Data-poor categorization and passage retrieval for Gene Ontology Annotation in Swiss-Prot
  BMC Bioinformatics. 6(Suppl 1). 2005.
  PMID: 15960836



• • Gennari JH, Silberfein A, Wiley JC
  Integrating Genomic Knowledge Sources Through an Anatomy Ontology
  Proceedings of the Pacific Symposium on Biocomputing (PSB). 2005.
  



• • Hayete B, Bienkowska JR
  GOTrees: Predicting GO Associations from Protein Domain Composition Using Decision Trees
  Proceedings of the Pacific Symposium on Biocomputing (PSB). 2005.
  



• • Hoffman M, Arnoldi C, Chuang I
  The Clinical Bioinformatics Ontology: A Curated Semantic Network Utilizing RefSeq Information
  Proceedings of the Pacific Symposium on Biocomputing (PSB). 2005.
  



• • Hoffman R, Valencia A
  Implementing the iHOP Concept for Navigation of Biomedical Literature
  Bioinformatics (ECCB Suppl). 21(suppl 2). 2005.
  



• • Hofmann O, Schomburg D
  Concept-based annotation of enzyme classes
  Bioinformatics. 21:2059-2066. 2005.
  PMID: 15661799



• • Korbel OJ, Doerks T, Jensen JL, Perex-Iratxeta C, Kaczanowski S, Hooper DS, et al.
  Systematic Association of Genes to Phenotypes by Genome and Literature
  PLoS Biology. 3, No. 5:134. 2005.
  PMID: 15799710



• • Krallinger M, Valencia A
  Applications of Text Mining in Molecular Biology, from Name Recognition to Protein Interaction Maps (Chapter 4)
  Data Analysis and Visualization in Genomics and Proteomics. 2005.
  



• • Krallinger M, Padron M, Valencia A
  A sentence sliding window approach to extract protein annotations from biomedical articles
  BMC Bioinformatics. 6(Suppl 1). 2005.
  



• • Lease M, Charniak E
  Parsing Biomedical Literature
  Second International Joint Conference on Natural Language Processing (IJCNLP05). 2005.
  



• • Liu M, Grigoriev A
  Fast parsers for Entrez Gene
  Bioinformatics 2005. 21:3189-3190. 2005.
  PMID: 1587945



• • Lu Z, Hunter L
  GO Molecular Function Terms Are Predictive of Subcellular Localization
  Proceedings of the Pacific Symposium on Biocomputing (PSB). 2005.
  PMID: 15759622



• • Marshall B, Su H, McDonald D, Chen H
  Linking Ontological Resources Using Aggregatable Substance Identifiers to Organize Extracted Relations
  Proceedings of the Pacific Symposium on Biocomputing (PSB). 2005.
  



• • Mukherjea S
  Information retrieval and knowledge discovery utilising a biomedical Semantic Web
  Briefings in Bioinformatics. 6(3):252-262. 2005.
  PMID: 16212773



• • Ogren PV, Cohen KB, Hunter L
  Implications of Compositionality in the Gene Ontology for Its Curation and Usage
  Proceedings of the Pacific Symposium on Biocomputing (PSB). 2005.
  PMID: 15759624



• • Orchard S, Montecchi-Palazzi L, Hermjakob H, Apweiler R
  The Use of Common Ontologies and Controlled Vocabularies to Enable Data Exchange and Deposition for Complex Proteomic Experiments
  Proceedings of the Pacific Symposium on Biocomputing (PSB). 2005.
  



• • Ramani A, Bunescu R, Mooney R, Marcotte E
  Using Biomedical Literature Mining to Consolidate the Set of Known Human Protein-Protein Interactions
  Proceedings of the Joint ACL Workshop and BioLINK SIG (ISMB) on Linking Biological Literature Ontologies and Databases, 2005. 2005.
  



• • Ray S, Craven M
  Learning Statistical Models for Annotating Proteins with Function Information using Biomedical Text
  BMC Bioinformatics. 6(Suppl 1). 2005.
  PMID: 15960830



• • Rebholz-Schuhmann D, Kirsch H, Couto F
  Facts from Text—Is Text Mining Ready to Deliver?
  PLoS Biology. 3(2):188-191. 2005.
  



• • Rice BS, Nenadic G, Stapley JB
  Mining protein function from text using term-based support vector machines
  BMC Bioinformatics. 6(Suppl 1). 2005.
  PMID: 15960835



• • Saric J, Jensen JL, Rossitza O, Isabel R, Peer B
  Extraction of regulatory gene/protein networks from Medline
  Bioinformatics. 2005.
  PMID: 16046493



• • Settles B
  ABNER: an open source tool for automatically tagging genes, proteins and other entity names in text
  Bioinformatics. 21:3191-3192. 2005.
  PMID: 15860559



• • Skusa A, Ruegg A, Koehler J
  Extraction of biological interaction networks from scientific literature
  Breifings in Bioinformatics. 6(3):263-276. 2005.
  PMID: 16212774



• • Smith B, Ceusters W, Klagges B, Köhler J, Kumar A, Lomax J, et al.
  Relations in Biomedical Ontologies
  Genome Biology. 6(5). 2005.
  



• • Smith LH, Tanabe L, Rindlesch T, Wilbur WJ
  MedTag: A Collection of Biomedical Annotations
  Proceedings of the Joint ACL Workshop and BioLINK SIG (ISMB) on Linking Biological Literature Ontologies and Databases, 2005. 2005.
  



• • Spasic I, Ananiadou S
  A Flexible Measure of Contextual Similarity for Biomedical Terms
  Proceedings of the Pacific Symposium on Biocomputing (PSB). 2005.
  



• • Spasic I, Ananiadou S, McNaught J, Kumar A
  Text mining and ontologies in biomedicine: Making sense of raw text
  Briefings in Bioinformatics. 6(3):239-251. 2005.
  PMID: 16212772



• • Szugat M, Guttler D, Fundel K, Sohler F, Zimmer R
  Web Servicing the Biological Office
  Bioinformatics. 21(Suppl 2). 2005.
  



• • Tari L, Baral C, Dasgupta P
  Understanding the Global Properties of Functionally-Related Gene Networks Using the Gene Ontology
  Proceedings of the Pacific Symposium on Biocomputing (PSB). 2005.
  



• • Tsuruoka Y, Ananiadou S, Tsujii J
  A Machine Learning Approach to Acryonym Generation
  Proceedings of the Joint ACL Workshop and BioLINK SIG (ISMB) on Linking Biological Literature Ontologies and Databases, 2005. 2005.
  



• • Verspoor K
  Towards a Semantic Lexicon for Biological Language Processing
  Comparative and Functional Genomics. 6(1-2):61-66. 2005.
  



• • Verspoor K, Cohn J, Joslyn C, Mniszewski S, Rechtsteiner A, Rocha ML, et al.
  Protein annotation as term categorization in the gene ontology using word proximity networks
  BMC Bioinformatics. 6(Suppl 1). 2005.
  PMID: 15960833



• • Weeber M, Kors AJ, Mons B
  Online tools to support literature-based discovery in the life sciences
  Briefings in Bioinformatics. 6(3):277-286. 2005.
  PMID: 16212775



• • Wellner B
  Weakly Supervised Learning Methods for Improving the Quality of Gene Name Normalization Data
  Proceedings of the Joint ACL Workshop and BioLINK SIG (ISMB) on Linking Biological Literature Ontologies and Databases, 2005. 2005.
  



• • Wellner B, Castaño J, Pustejovsky J
  Adaptive String Similarity Metrics for Biomedical Reference Resolution
  Proceedings of the Joint ACL Workshop and BioLINK SIG (ISMB) on Linking Biological Literature Ontologies and Databases, 2005. 2005.
  



• • Wren DJ, Chang TJ, Pustejovsky J, Adar E, Garner RH, Altman BR
  Biomedical Term Mapping Databases
  Nucleic Acids Research (Database Issue). 33:289-293. 2005.
  PMID: 15608198



• • Xiong H, He X, Ding C, Zhang Y, Kumar V, Holbrook SR
  Identification of Functional Modules in Protein Complexes via Hyperclique Pattern Discovery
  Proceedings of the Pacific Symposium on Biocomputing (PSB). 2005.
  



• • Yamakawa H, Maruhashi K, Nakao Y
  Multi-Aspect Gene Relation Analysis
  Proceedings of the Pacific Symposium on Biocomputing (PSB). 2005.
  



• • Adar E
  SaRAD: A Simple and Robust Abbreviation Dictionary
  Bioinformatics. 20(4):527-533. 2004.
  PMID: 14990448



• • Aitken JS, Webber BL, Bard JBL
  Part-of Relations in Anatomy Ontologies: A Proposal for RDFS and OWL Formalisations
  Proceedings of the 9th Pacific Symposium on Biocomputing. 166-177. 2004.
  



• • Amrani A, Kodratoff Y, Matte-Tailliez O
  A Semi-automatic System for Tagging Specialized Corpora
  Lecture Notes in Artificial Intelligence (PAKDD'04). 3056:670-681. 2004.
  



• • Ananiadou S, Friedman C, Tsujii J
  Introduction: named entity recognition in biomedicine
  Journal of Biomedical Informatics. 37(6):393-395. 2004.
  PMID: 15542013



• • Camon E, Magrane M, Barrell D, Lee V, Dimmer E, Malsen J, et al.
  The Gene Ontology Annotation (GOA) Database: sharing knowledge in Uniprot with Gene Ontology
  Nucleic Acids Res.. 32D262-D266. 2004.
  PMID: 14681408



• • Chang JT, Schutze H, Altman RB
  GAPSCORE: Finding Gene and Protein Names One Word at a Time
  Bioinformatics. 20(2):216-225. 2004.
  PMID: 14734313



• • Chen L, Liu H, Friedman C
  Gene name ambiguity of eukaryotic nomenclatures
  Bioinformatics. 2004.
  PMID: 15333458



• • Collier N, Takeuchi K
  Comparison of character-level and part of speech features for name recognition in biomedical texts
  Journal of Biomedical Informatics. 37(6):423-435. 2004.
  PMID: 15542016



• • Daraselia N, Egorov S, Yazhuk A, Novichkova S, Yuryev A, Mazo I
  Extracting human protein interactions from MEDLINE using a full-sentence parser
  Proceedings of the Second European Workshop on Data Mining and Text Mining for Bioinformatics. 11-17. 2004.
  PMID: 15033866



• • Egorov S, Yuryev A, Daraselia N
  A Simple and Practical Dictionary-Based Approach for Identification of Proteins in MEDLINE Abstracts.
  J Am Med Inform Assoc. 2004.
  PMID: 14764613



• • Eom JH, Zhang BT
  PubMiner: Machine Learning Based Text Mining for Biomedical Information Analysis
  Genomics & Informatics. 2(2):99-106. 2004.
  



• • Ginter F, Boberg J, Jarvinen J, Salakoski T
  New Techniques for Disambiguation in Natural Language and Their Application to Biological Text
  Journal of Machine Learning Research (JMLR). 5:605-621. 2004.
  



• • Glenisson P, Coessens B, Van Vooren S, Mathys J, Moreau Y, De Moor B
  TXTGate : Profiling gene groups with text-based information
  Genome Biology. 5(6). 2004.
  



• • Harkema H, Gaizauskas R, Hepple M, Roberts A, Roberts I, Davis N, et al.
  A Large Scale Terminology Resource for Biomedical Text Processing
  HLT-NAACL 2004 Workshop: BioLink 2004, Linking Biological Literature, Ontologies and Databases. 53-60. 2004.
  



• • Hou WJ, Chen HH
  Enhancing performance of protein and gene name recognizers with filtering and integration strategies
  Journal of Biomedical Informatics. 37(6):448-460. 2004.
  PMID: 15542018



• • Huang M, Zhu X, Hao Y, Payan DG, Qu K, Li M
  Discovering Patterns to Extract Protein-Protein Interactions from Full Texts
  Bioinformatics. 2004.
  PMID: 15284092



• • Kaneta Y, Munna MA, Ohkawa T
  A Method of Extracting Sentences Related to Protein Interaction from Literature using a Structure Database
  Proceedings of the Second European Workshop on Data Mining and Text Mining for Bioinformatics. 18-25. 2004.
  



• • Karp PD, Paley S, Krieger CJ, Zhang P
  An Evidence Ontology for Use in Pathway/Genome Databases
  Pacific Symposium on Biocomputing. 9:190-201. 2004.
  



• • Kennedy PJ, Simoff SJ, Skillicorn D, Catchpoole D
  Extracting and Explaining Biological Knowledge in Microarray Data
  Lecture Notes in Artificial Intelligence (PAKDD'04). 3056:699-703. 2004.
  



• • Kiritchenko S, Matwin S, Famili AF
  Hierarchical Text Categorization as a Tool of Associating Genes with Gene Ontology Codes
  Proceedings of the Second European Workshop on Data Mining and Text Mining for Bioinformatics. 26-30. 2004.
  



• • Koike A, Niwa Y, Takagi T
  Automatic Extraction of Gene/Protein Biological Functions from the Biomedical Text
  Bioinformatics. 2004.
  PMID: 15509601



• • Krallinger M, Padron M, Blaschke C, Valencia A
  Assessing the Correlation between Contextual Patterns and Biological Entity Tagging
  Proceedings of the International Joint Workshop on Natural Language Processing in Biomedicine and its Applications (JNLPBA,COLING 2004). 36-42. 2004.
  



• • Krauthammer M, Nenadic G
  Term identification in the biomedical literature
  Journal of Biomedical Informatics. 37(6):512-526. 2004.
  PMID: 15542023



• • Lee KJ, Hwang YS, Kim S, Rim HC
  Biomedical named entity recognition using two-phase model based on SVMs
  Journal of Biomedical Informatics. 37(6):436-447. 2004.
  PMID: 15542017



• • Libbus B, Kilicoglu H, Rindflesch TC, Mork JG, Aronson AR
  Using Natural Language Processing, LocusLink and the Gene Ontology to Compare OMIM to MEDLINE
  HLT-NAACL 2004 Workshop: BioLink 2004, Linking Biological Literature, Ontologies and Databases. 69-76. 2004.
  



• • Light M, Qiu XY, Srinivasan P
  The Language of Bioscience: Facts, Speculations, and Statements In Between
  HLT-NAACL 2004 Workshop: BioLink 2004, Linking Biological Literature, Ontologies and Databases. 17-24. 2004.
  



• • Lu X, Zhai C, Gopalakrishnan V, Buchanan GB
  Automatic annotation of protein motif function with Gene Ontology terms
  BMC Bioinformatics. 5:122. 2004.
  PMID: 15345032



• • Lussier YA, Li J
  Terminological Mapping for High Throughput Comparative Biology of Phenotypes
  Pacific Symposium on Biocomputing. 9:202-213. 2004.
  



• • Mack R, Mukherjea S, Soffer A, Uramoto N, Brown E, Coden A, et al.
  Text Analytics for Life Science using the Unstructured Information Management Architecture
  IBM Systems Journal. 43(3):490-525. 2004.
  



• • Martin D, Brun C, Remy E, Mouren P, Thieffry D, Jacq B
  GOToolBox: Functional Analysis of Gene Datasets based on Gene Ontology
  Genome Biology. 5(12). 2004.
  PMID: 15575967



• • McDonald DM, Chen H, Su H, Marshall BB
  Extracting Gene Pathway Relations Using a Hybrid Grammar: the Arizona Relation Parser
  Bioinformatics. 2004.
  PMID: 15256411



• • McDonald TR, Winters SR, Mandel M, Jin Y, White SP, Pereira F
  An Entity Tagger for Recognizing Acquired Genomic Variations in Cancer Literature
  Bioinformatics. 20(17):3249-3251. 2004.
  PMID: 15180929



• • Mercer RE, Di Marco C
  A Design Methodology for a Biomedical Literature Indexing Tool Using the Rhetoric of Science
  HLT-NAACL 2004 Workshop: BioLink 2004, Linking Biological Literature, Ontologies and Databases. 77-84. 2004.
  



• • Morgan AA, Hirschman L, Colosimo M, Yeh AS, Colombe JB
  Gene name identification and normalization using a model organism database
  Journal of Biomedical Informatics. 37(6):396-410. 2004.
  PMID: 15542014



• • Mukherjea S, Subramaniam LV, Chanda G, Sankararaman S, Kothari R, Batra V, et al.
  Enhancing a Biomedical Information Extraction System with Dictionary Mining and Context Disambiguation
  IBM Journal of Research and Development. 48(5/6). 2004.
  



• • Muller HM, Kenny EE, Sternberg PW
  Textpresso: An Ontology-Based Information Retrieval and Extraction System for Biological Literature
  PLoS Biol.. 2(11)E309. 2004.
  PMID: 15383839



• • Ogren PV, Cohen KB, Acquaah-Mensah GK, Eberlein J, Hunter L
  The Compositional Structure of Gene Ontology Terms
  Pacific Symposium on Biocomputing. 9:214-225. 2004.
  



• • Pyysalo S, Ginter F, Pahikkala T, Boberg J, Jarvinen J, Salakoski T
  Analysis of Link Grammar on Biomedical Dependency Corpus Targeted at Protein-Protein Interactions
  Proceedings of the International Joint Workshop on Natural Language Processing in Biomedicine and its Applications (JNLPBA,COLING 2004). 15-21. 2004.
  



• • Rector A
  Defaults, Context, and Knowledge: Alternatives for OWL-Indexed Knowledge Bases
  Pacific Symposium on Biocomputing. 9:226-237. 2004.
  



• • Rinaldi F, Schneider G, Kaljurand K, Dowdall J, Andronis C, Persidis A, et al.
  Mining relations in the GENIA corpus
  Proceedings of the Second European Workshop on Data Mining and Text Mining for Bioinformatics. 61-68. 2004.
  



• • Rzhetsky A, Iossifov I, Koike T, Krauthammer M, Kra P, Morris M, et al.
  GeneWays: a system for extracting, analyzing, visualizing, and integrating molecular pathway data.
  J Biomed Inform. 37(1):43-53. 2004.
  PMID: 15016385



• • Santos C, Eggle D, States D
  WNT Pathway Curation Using Automated Natural Language Processing: Combining Statistical Methods with Partial and Full Parse for Knowledge Extraction
  Bioinformatics. 21(8):1653-1658. 2004.
  PMID: 15564295



• • Schuemie MJ, Weeber M, Schijvenaars BJ, van Mulligen EM, van der Eijk CC, Jelier R, et al.
  Distribution of Information in Biomedical Abstracts and Full-text Publications
  Bioinformatics. 20(16):2597-2604. 2004.
  PMID: 15130936



• • Semenova T, Hegland M, Graco W, Williams G
  Conceptual Mining of Large Administrative Health Data
  Lecture Notes in Artificial Intelligence (PAKDD'04). 3056:659-669. 2004.
  



• • Smith B, Rosse C
  The Role of Foundational Relations in the Alignment of Biomedical Ontologies
  Medinfo. 11:444-448. 2004.
  PMID: 15360852



• • Spasic I, Ananiadou S
  Using automatically learnt verb selectional preferences for classification of biomedical terms
  Journal of Biomedical Informatics. 37(6):483-497. 2004.
  PMID: 15542021



• • Torii M, Kamboj S, Vijay-Shanker K
  Using name-internal and contextual features to classify biological terms
  Journal of Biomedical Informatics. 37(6):498-511. 2004.
  PMID: 15542022



• • Tsuruoka Y, Tsujii J
  Improving the performance of dictionary-based approaches in protein name recognition
  Journal of Biomedical Informatics. 37(6):461-470. 2004.
  PMID: 15542019



• • Tuason O, Chen L, Liu H, Blake JA, Friedman C
  Biological nomenclatures: a source of lexical knowledge and ambiguity.
  Pac Symp Biocomput. 238-249. 2004.
  PMID: 14992507



• • Uramoto N, Matsuzawa H, Nagano T, Murakami A, Takeuchi H, Takeda K
  A Text-Mining System for Knowledge Discovery from Biomedical Documents
  IBM Systems Journal. 43(3):516-533. 2004.
  



• • Wattarujeekrit T, Shah P, Collier N
  PASBio: predicate-argument structures for event extraction in molecular biology
  BMC Bioinformatics. 5(1):155. 2004.
  PMID: 15494078



• • Wren JD, Bekeredjian R, Stewart JA, Shohet RV, Garner HR
  Knowledge Discovery by Automated Identification and Ranking of Implicit Relationships
  Bioinformatics. 20(3):389-98. 2004.
  



• • Wren JD, Garner HR
  Shared Relationship Analysis: Ranking Set Cohesion and Commonalities within a Literature-Derived Relationship Network
  Bioinformatics. 20(2):191-8. 2004.
  



• • Yamamoto K, Kudo T, Konagaya A, Matsumoto Y
  Use of morphological analysis in protein name recognition
  Journal of Biomedical Informatics. 37(6):471-482. 2004.
  PMID: 15542020



• • Zhang J, Shen D, Zhou G, Su J, Tan CL
  Enhancing HMM-based biomedical named entity recognition by studying special phenomena
  Journal of Biomedical Informatics. 37(6):411-422. 2004.
  PMID: 15542015



• • Zhou G, Zhang J, Su J, Shen D, Tan C
  Recognizing names in biomedical texts: a machine learning approach.
  Bioinformatics. 20(7):1178-1190. 2004.
  PMID: 14871877



• • Bodenreider O, Pakhomov SV
  Exploring Adjectival Modification in Biomedical Discourse Across Two Genres
  Proceedings of the ACL 2003 Workshop on Natural Language Processing in Biomedicine. 105-112. 2003.
  



• • Brennan PF, Aronson AR
  Towards linking patients and clinical information: detecting UMLS concepts in e-mail.
  J Biomed Inform. 36(4-5):334-41. 2003.
  PMID: 14643729



• • Chiang JH, Yu HC
  MeKE: Discovering the Functions of Gene Products from Biomedical Literature via Sentence Alignment
  Bioinformatics. 19(11):1417-1422. 2003.
  PMID: 12874055



• • Crasto CJ, Morse TM, Migliore M, Nadkarni P, Hines M, Brash DE, et al.
  Creating Knowledgebases to Text-mine PUBMED Articles Using Clustering Techniques
  Proc. AMIA Symp.. 821. 2003.
  PMID: 14728326



• • Denny JC, Smithers JD, Miller RA, Spickard A
  "Understanding" medical school curriculum content using KnowledgeMap.
  J Am Med Inform Assoc. 10(4):351-62. 2003.
  PMID: 12668688



• • Dobrokhotov PB, Goutte C, Veuthey AL, Gaussier E
  Combining NLP and probabilistic categorisation for document and term selection for Swiss-Prot medical annotation
  Bioinformatics. 19 Suppl 1:191-194. 2003.
  PMID: 12855443



• • Duclos-Cartolano C, Venot A
  Building and evaluation of a structured representation of pharmacokinetics information presented in SPCs: from existing conceptual views of pharmacokinetics associated with natural language processing to object-oriented design.
  J Am Med Inform Assoc. 10(3):271-80. 2003.
  PMID: 12626375



• • Erjavec T, Kim JD, Ohta T, Tateisi Y, Tsujii J
  Encoding Biomedical Resources in TEI: The Case of the GENIA Corpus
  Proceedings of the ACL 2003 Workshop on Natural Language Processing in Biomedicine. 97-104. 2003.
  



• • Fiszman M, Rindflesch TC, Kilicoglu H
  Integrating a hypernymic proposition interpreter into a semantic processor for biomedical texts.
  Proc AMIA Symp. 2003.
  PMID: 14728170



• • Fiszman M, Rindflesch TC, Kilicoglu H
  Interpreting hypernymic propositions in an online medical encyclopedia.
  Proc AMIA Symp. 2003.
  PMID: 14728345



• • Friedman C, Liu H, Shagina L
  A vocabulary development and visualization tool based on natural language processing and the mining of textual patient reports.
  J Biomed Inform. 36(3):189-201. 2003.
  PMID: 14615228



• • Happe A, Pouliquen B, Burgun A, Cuggia M, Le Beux P
  Automatic concept extraction from spoken medical reports.
  Int J Med Inf. 70(2-3):255-63. 2003.
  PMID: 12909177



• • Hirschman L, Friedman C, McEntire R, Wu C
  Linking Biological Language, Information and Knowledge
  Pacific Symposium on Biocomputing. 8:388-390. 2003.
  



• • Huske-Kraus D
  Text generation in clinical medicine--a review.
  Methods Inf Med. 42(1):51-60. 2003.
  PMID: 12695796



• • Jacquemart P, Zweigenbaum P
  Towards a medical question-answering system: a feasibility study.
  Stud Health Technol Inform. 95:463-8. 2003.
  PMID: 14664030



• • Jiang G, Ogasawara K, Endoh A, Sakurai T
  Context-based ontology building support in clinical domains using formal concept analysis.
  Int J Med Inf. 71(1):71-81. 2003.
  PMID: 12909160



• • Kim JD, Ohta T, Tateisi Y, Tsujii J
  GENIA corpus-a semantically annotated corpus for bio-textmining.
  Bioinformatics. 19 Suppl 1I180-I182. 2003.
  PMID: 12855455



• • Koike A, Kobayashi Y, Takagi T
  Kinase pathway database: an integrated protein-kinase and NLP-based protein-interaction resource
  Genome Res. 13. 2003.
  PMID: 12799355



• • Kontos J, Malagardi I, Peros J
  The AROMA System for Intelligent Text Mining
  HERMIS International Journal of Computers mathematics and its Applications. 4:163-173. 2003.
  



• • Lee KJ, Hwang YS, Rim HC
  Two-Phase Biomedical NE Recognition based on SVMs
  Proceedings of the ACL 2003 Workshop on Natural Language Processing in Biomedicine. 33-40. 2003.
  



• • Leroy G, Chen H, Martinez JD
  A shallow parser based on closed-class words to capture relations in biomedical text.
  J Biomed Inform. 36(3):145-58. 2003.
  PMID: 14615225



• • Liu H, Friedman C
  Mining terminological knowledge in large biomedical corpora
  Pac Symp Biocomput. 415-426. 2003.
  PMID: 12603046



• • Majoros WH, Subramanian GM, Yandell MD
  Identification of key concepts in biomedical literature using a modified Markov heuristic
  Bioinformatics. 19(3):402-407. 2003.
  PMID: 12584127



• • Mendonca EA, Haas J, Shagina L, Larson E, Friedman C
  Extracting Information on Pneumonia in Infants Using Natural Language Processing of Radiology Reports
  Proceedings of the ACL 2003 Workshop on Natural Language Processing in Biomedicine. 81-88. 2003.
  



• • Meystre S, Haug PJ
  Medical problem and document model for natural language understanding.
  Proc AMIA Symp. 2003.
  PMID: 14728214



• • Mollah SA, Johnson SB
  Automatic learning of the morphology of medical language using information compression.
  Proc AMIA Symp. 2003.
  PMID: 14728443



• • Murff HJ, Forster AJ, Peterson JF, Fiskio JM, Heiman HL, Bates DW
  Electronically screening discharge summaries for adverse medical events.
  J Am Med Inform Assoc. 10(4):339-50. 2003.
  PMID: 12668691



• • Nenadic G, Spasic I, Ananiadou S
  Terminology-driven mining of biomedical literature
  Bioinformatics. 19(8):938-943. 2003.
  PMID: 12761055



• • Nenadic G, Rice S, Spasic I, Ananiadou S, Stapley B
  Selecting Text Features for Gene Name Classification: from Documents to Terms
  Proceedings of the ACL 2003 Workshop on Natural Language Processing in Biomedicine. 121-128. 2003.
  



• • Niu Y, Hirst G, McArthur G, Rodriguez-Gianolli P
  Answering Clinical Questions with Role Identification
  Proceedings of the ACL 2003 Workshop on Natural Language Processing in Biomedicine. 73-80. 2003.
  



• • Novichkova S, Egorov S, Daraselia N
  MedScan, a natural language processing engine for MEDLINE abstracts.
  Bioinformatics. 19(13):1699-706. 2003.
  PMID: 12967967



• • Pakhomov SV, Buntrock J, Chute CG
  Identification of Patients with Congestive Heart Failure using a Binary Classifier: A Case Study.
  Proceedings of the ACL 2003 Workshop on Natural Language Processing in Biomedicine. 89-96. 2003.
  



• • Pratt W, Yetisgen-Yildiz M
  LitLinker: Capturing Connections across the Biomedical Literature
  Proceedings of the 2nd International Conference on Knowledge Capture (KCap03). 105-112. 2003.
  



• • Raychaudhuri S, Altman R
  A Literature-Based Method for Assessing the Functional Coherence of a Gene Group
  Bioinformatics. 19(3):396-401. 2003.
  PMID: 12584126



• • Rindflesch TC, Fiszman M
  The interaction of domain knowledge and linguistic structure in natural language processing: interpreting hypernymic propositions in biomedical text.
  J Biomed Inform. 36(6):462-77. 2003.
  PMID: 14759819



• • Ruch P, Baud R, Geissbuhler A
  Using lexical disambiguation and named-entity recognition to improve spelling correction in the electronic patient record.
  Artif Intell Med. 29(1-2):169-84. 2003.
  PMID: 12957786



• • Samsonova M, Pisarev A, Blagov M
  Processing of natural language queries to a relational database.
  Bioinformatics. 19 Suppl 1i241-9. 2003.
  PMID: 12855465



• • Sarkar IN, Cantor MN, Gelman R, Hartel F, Lussier YA
  Linking biomedical language information and knowledge resources: GO and UMLS
  Pac Symp Biocomput. 439-450. 2003.
  PMID: 12603048



• • Schwartz AS, Hearst MA
  A simple algorithm for identifying abbreviation definitions in biomedical text
  Pac Symp Biocomput. 451-462. 2003.
  PMID: 12603049



• • Shen D, Zhang J, Zhou G, Su J, Tan CL
  Effective Adaptation of Hidden Markov Model-based Named Entity Recognizer for Biomedical Domain
  Proceedings of the ACL 2003 Workshop on Natural Language Processing in Biomedicine. 49-56. 2003.
  



• • Singh SB, Hull RD, Fluder EM
  Text Influenced Molecular Indexing (TIMI): a literature database mining approach that handles text and chemistry.
  J Chem Inf Comput Sci. 43(3):743-52. 2003.
  PMID: 12767132



• • Spasic I, Nenadic G, Ananiadou S
  Using Domain-Specific Verbs for Term Classification
  Proceedings of the ACL 2003 Workshop on Natural Language Processing in Biomedicine. 17-24. 2003.
  



• • Subramaniam LV, Mukherjea S, Kankar P, Srivastava B, Batra VS, Kamesam PV, et al.
  Information Extraction from Biomedical Literature: Methodology, Evaluation and an Application
  ACM Thirteenth Conference on Information and Knowledge Management (CIKM. 2003.
  



• • Temkin JM, Gilder MR
  Extraction of protein interaction information from unstructured text using a context-free grammar.
  Bioinformatics. 19(16):2046-53. 2003.
  PMID: 14594709



• • Torii M, Kamboj S, Vijay-Shanker K
  An Investigation of Various Information Sources for Classifying Biological names
  Proceedings of the ACL 2003 Workshop on Natural Language Processing in Biomedicine. 113-120. 2003.
  



• • Widdows D, Peters S, Cederberg S, Chan CK, Steffen D, Buitelaar P
  Unsupervised Monolingual and Bilingual Word-Sense Disambiguation of Medical Documents using UMLS
  Proceedings of the ACL 2003 Workshop on Natural Language Processing in Biomedicine. 9-16. 2003.
  



• • Wilcox AB, Hripcsak G
  The role of domain knowledge in automating medical text report classification.
  J Am Med Inform Assoc. 10(4):330-8. 2003.
  PMID: 12668687



• • Wren JD
  The IRIDESCENT System: An Automated Data-Mining Method to Identify, Evaluate, and Analyze Sets of Relationships Within Textual Databases
  Ph.D. Dissertation, University of Texas Southwestern Medical Center. 2003.
  



• • Yamamoto K, Kudo T, Konagaya A, Matsumoto Y
  Protein Name Tagging for Biomedical Annotation in Text
  Proceedings of the ACL 2003 Workshop on Natural Language Processing in Biomedicine. 65-72. 2003.
  



• • Zou Q, Chu WW, Morioka C, Leazer GH, Kangarloo H
  IndexFinder: A Method of Extracting Key Concepts from Clinical Texts for Indexing.
  Proc AMIA Symp. 763-767. 2003.
  PMID: 14728276



• • Adamic AL, Wilkinson D, Huberman AB, Adar E
  A Literature Based Method for Identifying Gene-Disease Connections
  Proceedings of the IEEE Comput Soc Bioinform Conf (CSB), 2002. 1:109-117. 2002.
  PMID: 15838128



• • Baud R, Ruch P
  The future of natural language processing for biomedical applications.
  Int J Med Inf. 67(1-3):1-5. 2002.
  PMID: 12460627



• • Benedetto D, Caglioti E, Loreto V
  Language trees and zipping.
  Phys Rev Lett. 88(4):048702. 2002.
  PMID: 11801178



• • Blaschke C, Hirschman L, Valencia A
  Information extraction in molecular biology.
  Brief Bioinform. 3(2):154-65. 2002.
  PMID: 12139435



• • Bodenreider O, Burgun A, Rindflesch TC
  Assessing the consistency of a biomedical terminology through lexical knowledge.
  Int J Med Inf. 67(1-3):85-95. 2002.
  PMID: 12460634



• • Bodenreider O, Rindflesch T, Burgun A
  Unsupervised, corpus-based method for extending a biomedical terminology
  Proceedings of the ACL Workshop on Natural Language Processing in the Biomedical Domain. 53-59. 2002.
  



• • Burgun A, Bodenreider O, Le DF, Moussouni F, Loreal O
  Representation of Roles in Biomedical Ontologies: A Case Study in Functional Genomics
  Proc. of the AMIA Symp. 2002. 86-90. 2002.
  



• • Campbell D, Johnson S
  A transformational-based learner for dependency grammars in discharge summaries
  Proceedings of the ACL Workshop on Natural Language Processing in the Biomedical Domain. 37-44. 2002.
  



• • Chang JT, Altman RB
  Promises of text processing: natural language processing meets AI
  Drug Discov Today. 7(19):992-993. 2002.
  PMID: 12546913



• • Chang JT, Schutze H, Altman RB
  Creating an online dictionary of abbreviations from MEDLINE
  J Am Med Inform Assoc. 9(6):612-620. 2002.
  PMID: 12386112



• • Chaussabel D, Sher A
  Mining microarray expression data by literature profiling.
  Genome Biol. 3(10):55. 2002.
  PMID: 12372143



• • Chiao YC, Zweigenbaum P
  Looking for French-English translations in comparable medical corpora.
  Proc AMIA Symp. 2002.
  PMID: 12463805



• • Christensen LM, Haug PJ, Fiszman M
  MPLUS: a probabilistic medical language understanding system
  Proceedings of the ACL Workshop on Natural Language Processing in the Biomedical Domain. 29-36. 2002.
  



• • Chuang JH, Friedman C, Hripcsak G
  A comparison of the Charlson comorbidities derived from medical language processing and administrative data.
  Proc AMIA Symp. 2002.
  PMID: 12463807



• • Chute CG
  The horizontal and vertical nature of patient phenotype retrieval: new directions for clinical text processing.
  Proc AMIA Symp. 2002.
  PMID: 12463808



• • Cohen KB, Dolbey AE, Acquaah-Mensah GK, Hunter L
  Contrast and variability in gene names
  Proceedings of the ACL Workshop on Natural Language Processing in the Biomedical Domain. 14-20. 2002.
  



• • de Bruijn B, Martin J
  Getting to the (c)ore of knowledge: mining biomedical literature.
  Int J Med Inf. 67(1-3):7-18. 2002.
  PMID: 12460628



• • Demetriou G, Gaizauskas. R
  Utilizing text mining results: The Pasta Web System
  Proceedings of the ACL Workshop on Natural Language Processing in the Biomedical Domain. 77-84. 2002.
  



• • Franzen K, Eriksson G, Olsson F, Asker L, Liden P, Coster J
  Protein names and how to find them
  Int J Med Inf. 67(1-3):49-61. 2002.
  PMID: 12460631



• • Friedman C, Kra P, Rzhetsky A
  Two biomedical sublanguages: a description based on the theories of Zellig Harris.
  J Biomed Inform. 35(4):222-35. 2002.
  PMID: 12755517



• • Hahn U, Romacker M, Schulz S
  MEDSYNDIKATE-a natural language system for the extraction of medical information from findings reports.
  Int J Med Inf. 67(1-3):63-74. 2002.
  PMID: 12460632



• • Hahn U, Romacker M, Schultz S
  Creating Knowledge Repositories from Biomedical Reports: The MEDSYNDIKATE Text Mining System
  In Proceedings of the Pacific Symposium on Biocomputing. 338-349. 2002.
  PMID: 11928488



• • Hirschman L, Park JC, Tsujii J, Wong L, Wu CH
  Accomplishments and challenges in literature data mining for biology
  Bioinformatics. 18(12):1553-1561. 2002.
  PMID: 12490438



• • Hripcsak G, Austin JH, Alderson PO, Friedman C
  Use of natural language processing to translate clinical information from a database of 889,921 chest radiographic reports.
  Radiology. 224(1):157-63. 2002.
  PMID: 12091676



• • Hunter L
  Ontologies for Programs, Not People
  Genome Biology. 3(6):1002.1-1002.2. 2002.
  PMID: 12093368



• • Kazama J, Makino T, Ohta Y, Tsujii J
  Tuning support vector machines for biomedical named entity recognition
  Proceedings of the ACL Workshop on Natural Language Processing in the Biomedical Domain. 2002.
  



• • Kontos J, Elmaoglou A, Malagardi I
  ARISTA Causal Knowledge Discovery from Texts
  Proceedings of the 5th International Conference DS 2002. Luebeck, Germany, November 2002, Springer Verlag. 348-355. 2002.
  



• • Kontos J, Malagardi I, Peros J, Elmaoglou A
  System Modeling by Computer using Biomedical Texts
  Res Systemica. 2:1-8. 2002.
  



• • Kowalczyk A, Raskutti B
  One Class SVM for Yeast Regulation Prediction
  SIGKDD Explorations: Newsletter of the ACM Special Interest Group on Knowledge Discovery and Data Mining. 4:99-100. 2002.
  



• • Krauthammer M, Johnson SB, Hripcsak G, Campbell DA, Friedman C
  Representing nested semantic information in a linear string of text using XML
  Proc AMIA Symp. 405-409. 2002.
  PMID: 12463856



• • Krauthammer M, Kra P, Iossifov I, Gomez SM, Hripcsak G, Hatzivassiloglou V, et al.
  Of truth and pathways: chasing bits of information through myriads of articles.
  Bioinformatics. 18 Suppl 1S249-57. 2002.
  PMID: 12169554



• • Krogel MA, Denecke M, Landwehr M, Scheffer T
  Combining Data and Text Mining Techniques for Yeast Gene Regulation Prediction: A Case Study
  SIGKDD Explorations: Newsletter of the ACM Special Interest Group on Knowledge Discovery and Data Mining. 4:104-105. 2002.
  



• • Le Moigno S, Charlet J, Bourigault D, Degoulet P, Jaulent MC
  Terminology extraction from text to build an ontology in surgical intensive care.
  Proc AMIA Symp. 430-4. 2002.
  PMID: 12463860



• • Leroy G, Chen H
  Filling preposition-based templates to capture information from medical abstracts
  Pac Symp Biocomput. 350-361. 2002.
  PMID: 11928489



• • Libbus B, Rindflesch TC
  NLP-based information extraction for managing the molecular biology literature.
  Proc AMIA Symp. 2002.
  PMID: 12463863



• • Liu H, Aronson AR, Friedman C
  A study of abbreviations in MEDLINE abstracts
  Proc AMIA Symp. 464-468. 2002.
  PMID: 12463867



• • Liu H, Johnson SB, Friedman C
  Automatic resolution of ambiguous terms based on machine learning and conceptual relations in the UMLS
  J Am Med Inform Assoc. 9(6):621-636. 2002.
  PMID: 12386113



• • Mao W, Chu WW
  Free-text medical document retrieval via phrase-based vector space model.
  Proc AMIA Symp. 489-93. 2002.
  PMID: 12463872



• • McCray AT, Browne AC, Bodenreider O
  The lexical properties of the gene ontology.
  Proc AMIA Symp. 2002.
  PMID: 12463875



• • Mendonca EA, Johnson SB, Seol YH, Cimino JJ
  Analyzing the Semantics of patient data to rank records of literature retrieval
  Proceedings of the ACL Workshop on Natural Language Processing in the Biomedical Domain. 69-76. 2002.
  



• • Morioka CA, Sinha U, Taira R, el-Saden S, Duckwiler G, Kangarloo H
  Structured reporting in neuroradiology.
  Ann N Y Acad Sci. 980:259-66. 2002.
  PMID: 12594095



• • Nenadic G, Mima H, Spasic I I, Ananiadou S, Tsujii J
  Terminology-driven literature mining and knowledge acquisition in biomedicine
  Int J Med Inf. 67(1-3):33-48. 2002.
  PMID: 12460630



• • Nenadic G, Spasic I, Ananiadou S
  Automatic acronym acquisition and management with domain specific texts
  Proceedings of LREC-3, 3rd International Conference on Language, Resources and Evaluation. 2155-2162. 2002.
  



• • Nenadic G, Spasic I, Ananiadou S
  Automatic discovery of term similarities using pattern mining
  Proceedings of International workshop of Computational Terminology, CompuTerm, Coling. 43-49. 2002.
  



• • Ohta T, Tateisi Y, Mima H, Tsujii J
  The GENIA Corpus: an Annotated Research Abstract Corpus in Molecular Biology Domain
  Proceedings of the Human Language Technology Conference. 2002.
  



• • Oliver DE, Rubin DL, Stuart JM, Hewett M, Klein TE, Altman RB
  Ontology development for a pharmacogenetics knowledge base.
  Pac Symp Biocomput. 2002.
  PMID: 11928517



• • Pustejovsky J, Castano J, Zhang J, Kotecki M, Cochran B
  Robust relational parsing over biomedical literature: extracting inhibit relations
  Pac Symp Biocomput. 362-373. 2002.
  PMID: 11928490



• • Pustejovsky J, Castano J, Zhang J, Sauri R, Luo W
  Medstract: creating large-scale information servers from biomedical texts
  Proceedings of the ACL Workshop on Natural Language Processing in the Biomedical Domain. 85-92. 2002.
  



• • Raychaudhuri S, Chang JT, Sutphin PD, Altman RB
  Associating genes with gene ontology codes using a maximum entropy analysis of biomedical literature
  Genome Res. 12(1):203-214. 2002.
  PMID: 11779846



• • Raychaudhuri S, Schutze H, Altman RB
  Using text analysis to identify functionally coherent gene groups.
  Genome Res. 12(10):1582-90. 2002.
  PMID: 12368251



• • Sarkar IN, Rindflesch TC
  Discovering protein similarity using natural language processing.
  Proc AMIA Symp. 2002.
  PMID: 12463910



• • Schultz S, Honeck M, Hahn U
  Biomedical text retrieval in languages with a complex morphology
  Proceedings of the ACL Workshop on Natural Language Processing in the Biomedical Domain. 61-68. 2002.
  



• • Sinclair G, Webber B, Davidson D
  Enhanced natural language access to anatomically-indexed data
  Proceedings of the ACL Workshop on Natural Language Processing in the Biomedical Domain. 45-52. 2002.
  



• • Stetson PD, Johnson SB, Scotch M, Hripcsak G
  The sublanguage of cross-coverage.
  Proc AMIA Symp. 2002.
  PMID: 12463923



• • Thomas SM, Mamlin B, Schadow G, McDonald C
  A successful technique for removing names in pathology reports using an augmented search and replace method.
  Proc AMIA Symp. 2002.
  PMID: 12463930



• • Vogel DS, Axelrod RC
  Predicting the Effects of Gene Deletion
  SIGKDD Explorations: Newsletter of the ACM Special Interest Group on Knowledge Discovery and Data Mining. 4:101-103. 2002.
  



• • Volk M, Ripplinger B, Vintar S, Buitelaar P, Raileanu D, Sacaleanu B
  Semantic annotation for concept-based cross-language medical information retrieval.
  Int J Med Inf. 67(1-3):97-112. 2002.
  PMID: 12460635



• • Wilcox AB, Narus SP, Bowes WA
  Using natural language processing to analyze physician modifications to data entry templates.
  Proc AMIA Symp. 2002.
  PMID: 12463955



• • Wren JD, Gamer HR
  Heuristics for Identification of Acronym-Definition Patterns Within Text: Towards an Automated Construction of Comprehensive Acronym-Definition Dictionaries
  Methods of Information in Medicine. 41(5):426-34. 2002.
  



• • Yandell MD, Majoros WH
  Genomics and natural language processing
  Nat Rev Genet. 3(8):601-610. 2002.
  PMID: 12154383



• • Yu H, Hripcsak G, Friedman C
  Mapping Abbreviations to Full Forms in Biomedical Articles
  Journal of the American Medical Informatics Association. 9:262-272. 2002.
  PMID: 11971887



• • Zweigenbaum P, Grabar N
  Restoring accents in unknown biomedical words: application to the French MeSH thesaurus.
  Int J Med Inf. 67(1-3):113-26. 2002.
  PMID: 12460636



• • Zweigenbaum P, Grabar N
  Accenting unknown words in a specialized language
  Proceedings of the ACL Workshop on Natural Language Processing in the Biomedical Domain. 2002.
  



• • Aronson AR
  Effective mapping of biomedical text to the UMLS Metathesaurus: the MetaMap program.
  Proc AMIA Symp. 2001.
  PMID: 11825149



• • Baud RH, Lovis C, Ruch P, Rassinoux AM
  A light knowledge model for linguistic applications.
  Proc AMIA Symp. 2001.
  PMID: 11833480



• • Campbell DA, Johnson SB
  Comparing Syntactic Complexity in Medical and non-Medical Corpora.
  Proc AMIA Symp. 2001.
  PMID: 11825160



• • Friedman C, Friedman C, Liu H, Shagina L, Johnson S, Hripcsak G
  Evaluating the UMLS as a source of lexical knowledge for medical language processing.
  Proc AMIA Symp. 2001.
  PMID: 11825178



• • Friedman C, Kra P, Yu H, Krauthammer M, Rzhetsky A
  GENIES: a natural-language processing system for the extraction of molecular pathways from journal articles.
  Bioinformatics. 17 Suppl 1S74-S82. 2001.
  PMID: 11472995



• • Hahn U, Honeck M, Piotrowski M, Schulz S
  Subword segmentation--leveling out morphological variations for medical document retrieval.
  Proc AMIA Symp. 229-33. 2001.
  PMID: 11825186



• • Hasman A, de Bruijn LM, Arends JW
  Evaluation of a method that supports pathology report coding.
  Methods Inf Med. 40(4):293-7. 2001.
  PMID: 11552341



• • Hatzivassiloglou V, Duboue PA, Rzhetsky A
  Disambiguating proteins, genes, and RNA in text: a machine learning approach.
  Bioinformatics. 17 Suppl 1S97-S106. 2001.
  PMID: 11472998



• • Heinze DT, Heinze DT, Morsch ML, Morsch ML
  Mining free-text medical records.
  Proc AMIA Symp. 2001.
  PMID: 11825190



• • Jordan DA, McKeown KR, Concepcion KJ, Feiner SK, Hatzivassiloglou V
  Generation and evaluation of intraoperative inferences for automated health care briefings on patient status after bypass surgery.
  J Am Med Inform Assoc. 8(3):267-80. 2001.
  PMID: 11320071



• • Kim W, Aronson AR, Wilbur WJ
  Automatic MeSH term assignment and quality assessment.
  Proc AMIA Symp. 2001.
  PMID: 11825203



• • Krauthammer M, Hripcsak G
  A knowledge model for the interpretation and visualization of NLP-parsed discharged summaries.
  Proc AMIA Symp. 2001.
  PMID: 11825207



• • Leroy G, Chen H
  Meeting medical terminology needs--the Ontology-Enhanced Medical Concept Mapper.
  IEEE Trans Inf Technol Biomed. 5(4):261-70. 2001.
  PMID: 11759832



• • Liu H, Lussier YA, Friedman C
  A study of abbreviations in the UMLS
  Proc AMIA Symp. 393-397. 2001.
  PMID: 11825217



• • Liu H, Lussier YA, Friedman C
  Disambiguating ambiguous biomedical terms in biomedical narrative text: an unsupervised method.
  J Biomed Inform. 34(4):249-61. 2001.
  PMID: 11977807



• • Lussier YA, Shagina L, Friedman C
  Automating SNOMED coding using medical language understanding: a feasibility study.
  Proc AMIA Symp. 2001.
  PMID: 11825222



• • Masys DR
  Linking microarray data to the literature.
  Nat Genet. 28(1):9-10. 2001.
  PMID: 11326264



• • Masys DR, Welsh JB, Fink JL, Gribskov M, Klacansky I, Corbeil J
  Use of keyword hierarchies to interpret gene expression patterns
  Bioinformatics. 17(4):319-326. 2001.
  PMID: 11301300



• • McCray AT, Bodenreider O, Malley JD, Browne AC
  Evaluating UMLS strings for natural language processing.
  Proc AMIA Symp. 2001.
  PMID: 11825228



• • Mendonca EA, Cimino JJ
  Building a knowledge base to support a digital library.
  Medinfo. 10(Pt 1):221-5. 2001.
  PMID: 11604737



• • Mendonca EA, Cimino JJ, Johnson SB
  Using narrative reports to support a digital library.
  Proc AMIA Symp. 2001.
  PMID: 11825230



• • Mutalik PG, Deshpande A, Nadkarni PM
  Use of general-purpose negation detection to augment concept indexing of medical documents: a quantitative study using the UMLS.
  J Am Med Inform Assoc. 8(6):598-609. 2001.
  PMID: 11687566



• • Park JC, Kim HS, Kim JJ
  Bidirectional Incremental Parsing for Automatic Pathway Identification with Combinatory Categorical Grammar
  In Proceedings of the Pacific Symposium on Biocomputing. 396-407. 2001.
  PMID: 11262958



• • Park JC
  Using Combinatory Categorial Grammar to Extract Biomedical Information
  IEEE Intelligent Systems. 16(6):62-67. 2001.
  



• • Petersson H, Nilsson G, Strender LE, Ahlfeldt H
  The connection between terms used in medical records and coding system: a study on Swedish primary health care data.
  Med Inform Internet Med. 26(2):87-99. 2001.
  PMID: 11560294



• • Piniewski-Bond JF, Buck GM, Horowitz RS, Schuster JH, Weed DL, Weiner JM
  Comparison of information processing technologies.
  J Am Med Inform Assoc. 8(2):174-84. 2001.
  PMID: 11230385



• • Ries JE, Su K, Peterson G, Sievert MC, Patrick TB, Moxley DE, et al.
  Comparing frequency of content-bearing words in abstracts and texts in articles from four medical journals: an exploratory study.
  Medinfo. 10(Pt 1):381-4. 2001.
  PMID: 11604768



• • Romacker M, Hahn U
  Empirical data for the semantic interpretation of prepositional phrases in medical documents.
  Proc AMIA Symp. 2001.
  PMID: 11825251



• • Ruch P, Baud R, Geissbuhler A, Rassinoux AM
  Comparing general and medical texts for information retrieval based on natural language processing: an inquiry into lexical disambiguation.
  Medinfo. 10(Pt 1):261-5. 2001.
  PMID: 11604745



• • Ruch P, Baud RH, Geiddbuhler A, Lovis C, Rassinoux AM, Riviere A
  Looking back or looking all around: comparing two spell checking strategies for documents edition in an electronic patient record.
  Proc AMIA Symp. 2001.
  PMID: 11837217



• • Schulz S, Honeck M, Hahn U
  Indexing medical WWW documents by morphemes.
  Medinfo. 10(Pt 1):266-70. 2001.
  PMID: 11604746



• • Sponsler JL
  HPARSER: Extracting formal patient data from free text history and physical reports using natural language processing software.
  Proc AMIA Symp. 2001.
  PMID: 11825263



• • Srinivasan P
  MeSHmap: a text mining tool for MEDLINE.
  Proc AMIA Symp. 2001.
  PMID: 11825264



• • Su K, Ries JE, Peterson GM, Cullinan Sievert ME, Patrick TB, Moxley DE, et al.
  Comparing frequency of word occurrences in abstracts and texts using two stop word lists.
  Proc AMIA Symp. 2001.
  PMID: 11825272



• • Taira RK, Soderland SG, Jakobovits RM
  Automatic Structuring of Radiology Free-Text Reports.
  Radiographics. 21(1):237-245. 2001.
  PMID: 11158658



• • Tsujii J, Ohta T
  Natural language processing for text mining in genome science
  Tanpakushitsu Kakusan Koso. 46(16 Suppl):2532-7. 2001.
  PMID: 11802425



• • Tsujii J, Wong L
  Session Introduction: Natural Language Processing and Information Extraction in Biology
  Pac Symp Biocomput. 6:372-373. 2001.
  



• • Weeber M, Mork J, Aronson AR
  Developing a test collection for biomedical word sense disambiguation.
  Proc AMIA Symp. 2001.
  PMID: 11825285



• • Zweigenbaum P, Darmoni SJ, Grabar N
  The contribution of morphological knowledge to French MeSH mapping for information retrieval.
  Proc AMIA Symp. 2001.
  PMID: 11825295



• • Zweigenbaum P, Jacquemart P, Grabar N, Habert B
  Building a text corpus for representing the variety of medical language.
  Medinfo. 10(Pt 1):290-4. 2001.
  PMID: 11604751



• • Aronson AR, Bodenreider O, Chang HF, Humphrey SM, Mork JG, Nelson SJ, et al.
  The NLM Indexing Initiative.
  Proc AMIA Symp. 2000.
  PMID: 11079836



• • Ashburner M, Ball CA, Blake JA, Botstein D, Butler H, Cherry JM, et al.
  Gene ontology: tool for the unification of biology. The Gene Ontology Consortium
  Nat Genet. 25:25-9. 2000.
  PMID: 10802651



• • Baclawski K, Cigna J, Kokar MM, Mager P, Indurkhya B
  Knowledge representation and indexing using the unified medical language system
  Pac Symp Biocomput. 493-504. 2000.
  PMID: 10902197



• • Barrows Jr RC, Busuioc M, Friedman C
  Limited parsing of notational text visit notes: ad-hoc vs. NLP approaches.
  Proc AMIA Symp. 7(6):51-5. 2000.
  PMID: 11079843



• • Baud RH, Lovis C, Ruch P, Rassinoux AM
  A toolset for medical text processing.
  Stud Health Technol Inform. 77:456-61. 2000.
  PMID: 11187593



• • Beinborn J
  The automation of coding.
  Top Health Inf Manage. 21(2):68-73. 2000.
  PMID: 11143282



• • Bodenreider O
  Using UMLS semantics for classification purposes.
  Proc AMIA Symp. 28(10):86-90. 2000.
  PMID: 11079850



• • do Amaral MB, Roberts A, Rector AL
  NLP techniques associated with the OpenGALEN ontology for semi-automatic textual extraction of medical knowledge: abstracting and mapping equivalent linguistic and logical constructs.
  Proc AMIA Symp. 2000.
  PMID: 11079848



• • Elkins JS, Friedman C, Boden-Albala B, Sacco RL, Hripcsak G
  Coding neuroradiology reports for the Northern Manhattan Stroke Study: a comparison of natural language processing and manual review.
  Comput Biomed Res. 33(1):1-10. 2000.
  PMID: 10772780



• • Fiszman M, Chapman WW, Aronsky D, Evans RS, Haug PJ
  Automatic detection of acute bacterial pneumonia from chest X-ray reports.
  J Am Med Inform Assoc. 7(6):593-604. 2000.
  PMID: 11062233



• • Fiszman M, Haug PJ
  Using medical language processing to support real-time evaluation of pneumonia guidelines.
  Proc AMIA Symp. 2000.
  PMID: 11079880



• • Franz P, Zaiss A, Schulz S, Hahn U, Klar R
  Automated coding of diagnoses--three methods compared.
  Proc AMIA Symp. 76(4):250-4. 2000.
  PMID: 11079883



• • Friedman C
  A broad-coverage natural language processing system
  Proc AMIA Symp. 19(19):270-4. 2000.
  PMID: 11079887



• • Gobel G, Masser J, Pfeiffer KP
  A MeSH based intelligent search intermediary for consumer health information systems.
  Stud Health Technol Inform. 77:673-7. 2000.
  PMID: 11187638



• • Grabar N, Zweigenbaum P
  A general method for sifting linguistic knowledge from structured terminologies.
  Proc AMIA Symp. 2000.
  PMID: 11079895



• • Hahn U, Romacker M, Schulz S
  MEDSYNDIKATE--design considerations for an ontology-based medical text understanding system.
  Proc AMIA Symp. 2000.
  PMID: 11079899



• • Hersh WR, Crabtree MK, Hickam DH, Sacherek L, Rose L, Friedman CP
  Factors associated with successful answering of clinical questions using an information retrieval system.
  Bull Med Libr Assoc. 88(4):323-31. 2000.
  PMID: 11055299



• • Johnson SB
  Natural Language Processing in Biomedicine
  The Handbook of Biomedical Engineering. Boca Raton (FL): CRC Press. 2000.
  



• • Kim W, Wilbur WJ
  Corpus-based statistical screening for phrase identification.
  J Am Med Inform Assoc. 7(5):499-511. 2000.
  PMID: 10984469



• • Liu H, Friedman C
  A method for vocabulary development and visualization based on medical language processing and XML.
  Proc AMIA Symp. 2000.
  PMID: 11079934



• • Lovis C, Baud RH
  Fast exact string pattern-matching algorithms adapted to the characteristics of the medical language.
  J Am Med Inform Assoc. 7(4):378-91. 2000.
  PMID: 10887166



• • Lovis C, Baud RH, Planche P
  Power of expression in the electronic patient record: structured data or narrative text?
  Int J Med Inf. 58-59(3):101-10. 2000.
  PMID: 10978913



• • MacCallum RM, Kelley LA, Sternberg MJ
  SAWTED: structure assignment with text description--enhanced detection of remote homologues with automated SWISS-PROT annotation comparisons
  Bioinformatics. 16(2):125-129. 2000.
  PMID: 10842733



• • McEntire R, Karp DP, Abernethy FN, Benton D, Helt G, De JM, et al.
  An Evaluation of Ontology Exchange Languages for Bioinformatics
  ISMB. 239-250. 2000.
  PMID: 10977085



• • Pratt W, Wasserman H
  QueryCat: automatic categorization of MEDLINE queries.
  Proc AMIA Symp. 18(24):655-9. 2000.
  PMID: 11079965



• • Rassinoux AM, Ruch P, Baud RH, Lovis C
  Semantic handling of medical compound words through sound analysis and generation processes.
  Proc AMIA Symp. 2000.
  PMID: 11079969



• • Rindflesch TC, Bean CA, Sneiderman CA
  Argument identification for arterial branching predications asserted in cardiac catheterization reports.
  Proc AMIA Symp. 17(3):704-8. 2000.
  PMID: 11079975



• • Rodgers RP
  Searching for biomedical information on the World Wide Web.
  J Med Pract Manage. 15(6):306-13. 2000.
  PMID: 11183455



• • Romacker M, Hahn U, Schulz S, Klar R
  Semantic analysis of medical free texts.
  Stud Health Technol Inform. 77:438-42. 2000.
  PMID: 11187590



• • Roux M, Ledoray V
  Understanding of medico-technical reports.
  Artif Intell Med. 18(2):149-72. 2000.
  PMID: 10648848



• • Ruch P, Baud RH, Rassinoux AM, Bouillon P, Robert G
  Medical document anonymization with a semantic lexicon.
  Proc AMIA Symp. 2000.
  PMID: 11079980



• • Ruch P, Bouillon P, Robert G, Baud R, Rassinoux AM
  Tagging medical texts: a rule-based experiment.
  Stud Health Technol Inform. 77:448-55. 2000.
  PMID: 11187592



• • Rzhetsky A, Koike T, Kalachikov S, Gomez SM, Krauthammer M, Kaplan SH, et al.
  A knowledge model for analysis and simulation of regulatory networks.
  Bioinformatics. 16(12):1120-8. 2000.
  PMID: 11159331



• • Schnitzer GL
  Natural language processing: a coding professional`s perspective.
  J AHIMA. 71(9):95-8. 2000.
  PMID: 11141812



• • Schulz S, Hahn U
  Morpheme-based, cross-lingual indexing for medical document retrieval.
  Int J Med Inf. 58-59:87-99. 2000.
  PMID: 10978912



• • Tanaka M, Nakazono S, Matsuno H, Tsujimoto H, Kitamura Y, Miyano S
  Intelligent system for topic survey in MEDLINE by keyword recommendation and learning text characteristics.
  Genome Inform Ser Workshop Genome Inform. 11:73-82. 2000.
  PMID: 11700589



• • Trombert-Paviot B, Rodrigues JM, Rogers JE, Baud R, van der Haring E, Rassinoux AM, et al.
  GALEN: a third generation terminology tool to support a multipurpose national coding system for surgical procedures.
  Int J Med Inf. 58-59:71-85. 2000.
  PMID: 10978911



• • Tsunoda T, Wong L
  Natural language processing for biology
  Pac Symp Biocomput. 74(12):491-2. 2000.
  PMID: 10902196



• • Warner HR
  Can natural language processing aid outpatient coders?
  J AHIMA. 71(8):78-81. 2000.
  PMID: 11186634



• • Weeber M, Klein H, Aronson AR, Mork JG, de Jong-van den Berg LT, Vos R
  Text-based discovery in biomedicine: the architecture of the DAD-system.
  Proc AMIA Symp. 35(20):903-7. 2000.
  PMID: 11080015



• • Yoshida M, Fukuda K, Takagi T
  PNAD-CSS: a workbench for constructing a protein name abbreviation dictionary.
  Bioinformatics. 16(2):169-75. 2000.
  PMID: 10842739



• • Barac'h V, Burgun A, Delamarre D, Le Beux P
  A method for an automated decomposition of a complex term into its conceptual components.
  Stud Health Technol Inform. 68:875-80. 1999.
  PMID: 10725023



• • Baud RH, Rassinoux AM, Ruch P, Lovis C, Scherrer JR
  The power and limits of a rule-based morpho-semantic parser.
  Proc AMIA Symp. 222(2):22-6. 1999.
  PMID: 10566313



• • Bennett NA, He Q, Powell K, Schatz BR
  Extracting noun phrases for all of MEDLINE.
  Proc AMIA Symp. 49(3):671-5. 1999.
  PMID: 10566444



• • Blaschke C, Andrade MA, Ouzounis C, Valencia A
  Automatic extraction of biological information from scientific text: protein-protein interactions.
  Proc Int Conf Intell Syst Mol Biol. 30A(2):60-7. 1999.
  PMID: 10786287



• • Campbell DA, Johnson SB
  A technique for semantic classification of unknown words using UMLS resources
  Proc AMIA Symp. 716-20. 1999.
  PMID: 10566453



• • Dessena S, Mori AR, Galeazzi E
  Development of a cross-thesaurus with Internet-based refinement supported by UMLS.
  Int J Med Inf. 53(1):29-41. 1999.
  PMID: 10075129



• • Dimec J, Dzeroski S, Todorovski L, Hristovski D
  WWW search engine for Slovenian and English medical documents.
  Stud Health Technol Inform. 68:547-52. 1999.
  PMID: 10724948



• • Dugan JM, Berrios DC, Liu X, Kim DK, Kaizer H, Fagan LM
  Automation and integration of components for generalized semantic markup of electronic medical texts.
  Proc AMIA Symp. 1999.
  PMID: 10566457



• • Eisenhaber F, Bork P
  Evaluation of human-readable annotation in biomolecular sequence databases with biological rule libraries.
  Bioinformatics. 15(7-8):528-35. 1999.
  PMID: 10487860



• • Fiszman M, Chapman WW, Evans SR, Haug PJ
  Automatic identification of pneumonia related concepts on chest x-ray reports.
  Proc AMIA Symp. 1999.
  PMID: 10566322



• • Fleischmann W, Moller S, Gateau A, Apweiler R
  A novel method for automatic functional annotation of proteins
  Bioinformatics. 15(3):228-233. 1999.
  PMID: 10222410



• • Friedman C, Hripcsak G
  Natural language processing and its future in medicine.
  Acad Med. 74(8):890-5. 1999.
  PMID: 10495728



• • Friedman C, Hripcsak G, Shagina L, Liu H
  Representing information in patient reports using natural language processing and the extensible markup language.
  J Am Med Inform Assoc. 6(1):76-87. 1999.
  PMID: 9925230



• • Friedman C, Knirsch C, Shagina L, Hripcsak G
  Automating a severity score guideline for community-acquired pneumonia employing medical language processing of discharge summaries.
  Proc AMIA Symp. 1999.
  PMID: 10566360



• • Goldman JA, Chu WW, Parker DS, Goldman RM
  Term domain distribution analysis: a data mining tool for text databases.
  Methods Inf Med. 38(2):96-101. 1999.
  PMID: 10431513



• • Hahn U, Romacker M, Schulz S
  Discourse structures in medical reports--watch out! The generation of referentially coherent and valid text knowledge bases in the MEDSYNDIKATE system.
  Int J Med Inf. 53(1):1-28. 1999.
  PMID: 10075128



• • Hahn U, Romacker M, Schulz S
  How knowledge drives understanding--matching medical ontologies with the needs of medical language processing.
  Artif Intell Med. 15(1):25-51. 1999.
  PMID: 9930615



• • Hripcsak G, Kuperman GJ, Friedman C, Heitjan DF
  A reliability study for evaluating information extraction from radiology reports.
  J Am Med Inform Assoc. 6(2):143-50. 1999.
  PMID: 10094067



• • Humphreys BL, Lindberg DA, Schoolman HM, Barnett GO
  The Unified Medical Language System: an informatics research collaboration
  J Am Med Inform Assoc. 1999.
  PMID: 9452981



• • Johnson DB, Chu WW, Dionisio JD, Taira RK, Kangarloo H
  Creating and indexing teaching files from free-text patient reports.
  Proc AMIA Symp. 1999.
  PMID: 10566473



• • Johnson SB
  A semantic lexicon for medical language processing.
  J Am Med Inform Assoc. 6(3):205-18. 1999.
  PMID: 10332654



• • Mann C, Schutze H
  Foundations of Statistical Natural Language Processing
  MIT Press. 1999.
  



• • Ng SK, Wong M
  Toward Routine Automatic Pathway Discovery from On-line Scientific Text Abstracts.
  Genome Inform Ser Workshop Genome Inform. 10:104-112. 1999.
  PMID: 11072347



• • Rindflesch TC, Hunter L, Aronson AR
  Mining molecular binding terminology from biomedical text.
  Proc AMIA Symp. 34(12):127-31. 1999.
  PMID: 10566334



• • Romacker M, Schulz S, Hahn U
  Streamlining semantic interpretation for medical narratives.
  Proc AMIA Symp. 171(3):925-9. 1999.
  PMID: 10566496



• • Ruch P, Wagner J, Bouillon P, Baud RH, Rassinoux AM, Scherrer JR
  MEDTAG: tag-like semantics for medical document indexing.
  Proc AMIA Symp. 1999.
  PMID: 10566336



• • Schulz S, Romacker M, Franz P, Zaiss A, Klar R, Hahn U
  Towards a multilingual morpheme thesaurus for medical free-text retrieval.
  Stud Health Technol Inform. 68(5):891-4. 1999.
  PMID: 10725027



• • Taira RK, Soderland SG
  A statistical natural language processor for medical reports.
  Proc AMIA Symp. 23(2):970-4. 1999.
  PMID: 10566505



• • Trombert-Paviot B, Rodrigues JM, Rogers JE, Baud R, van der Haring E, Rassinoux AM, et al.
  Galen: a third generation terminology tool to support a multipurpose national coding system for surgical procedures.
  Stud Health Technol Inform. 68:901-5. 1999.
  PMID: 10725030



• • Wagner JC, Rogers JE, Baud RH, Scherrer JR
  Natural language generation of surgical procedures.
  Int J Med Inf. 53(2-3):175-92. 1999.
  PMID: 10193887



• • Wellons MF, Purcell GP
  Task-specific journal extracts for using the medical literature.
  Proc AMIA Symp. 1999.
  PMID: 10566512



• • Wilbur WJ, Hazard GF, Divita G, Mork JG, Aronson AR, Browne AC
  Analysis of biomedical text for chemical names: a comparison of three methods
  Proc AMIA Symp. 176-180. 1999.
  PMID: 10566344



• • Wilcox A, Hripcsak G
  Classification algorithms applied to narrative reports.
  Proc AMIA Symp. 20(1-2):455-9. 1999.
  PMID: 10566400



• • Yu H, Friedman C, Rhzetsky A, Kra P
  Representing genomic knowledge in the UMLS semantic network
  Proc AMIA Symp. 181-5. 1999.
  PMID: 10566345



• • Baud R
  Present and future trends with NLP.
  Int J Med Inf. 52(1-3):133-9. 1998.
  PMID: 9848410



• • Baud R, Lovis C, Rassinoux AM, Michel PA, Scherrer JR
  Automatic extraction of linguistic knowledge from an international classification.
  Medinfo. 9 Pt 1:581-5. 1998.
  PMID: 10384521



• • Baud RH, Lovis C, Rassinoux AM, Scherrer JR
  Alternative ways for knowledge collection, indexing and robust language retrieval.
  Methods Inf Med. 37(4-5):315-26. 1998.
  PMID: 9865029



• • Baud RH, Lovis C, Rassinoux AM, Scherrer JR
  Morpho-semantic parsing of medical expressions.
  Proc AMIA Symp. 1998.
  PMID: 9929321



• • Bean CA, Rindflesch TC, Sneiderman CA
  Automatic semantic interpretation of anatomic spatial relationships in clinical text.
  Proc AMIA Symp. 1998.
  PMID: 9929348



• • Ceusters W, Buekens F, De Moor G, Waagmeester A
  The distinction between linguistic and conceptual semantics in medical terminology and its implication for NLP-based knowledge acquisition.
  Methods Inf Med. 37(4-5):327-33. 1998.
  PMID: 9865030



• • Ceusters W, Spyns P, De Moor G
  From syntactic-semantic tagging to knowledge discovery in medical texts.
  Int J Med Inf. 52(1-3):149-57. 1998.
  PMID: 9848412



• • Cooper GF, Miller RA
  An experiment comparing lexical and statistical methods for extracting MeSH terms from clinical free text.
  J Am Med Inform Assoc. 5(1):62-75. 1998.
  PMID: 9452986



• • de Bruijn LM, Hasman A, Arends JW
  Automatic coding of diagnostic reports.
  Methods Inf Med. 37(3):260-5. 1998.
  PMID: 9787626



• • Divita G, Browne AC, Rindflesch TC
  Evaluating lexical variant generation to improve information retrieval.
  Proc AMIA Symp. 39(4):775-9. 1998.
  PMID: 9929324



• • Friedman C, Hripcsak G
  Evaluating natural language processors in the clinical domain.
  Methods Inf Med. 37(4-5):334-44. 1998.
  PMID: 9865031



• • Friedman C, Hripcsak G, Shablinsky I
  An evaluation of natural language processing methodologies.
  Proc AMIA Symp. 302(2):855-9. 1998.
  PMID: 9929340



• • Fukuda K, Tamura A, Tsunoda T, Takagi T
  Toward information extraction: identifying protein names from biological papers
  Pac Symp Biocomput. 33(2):707-18. 1998.
  PMID: 9697224



• • Hahn U, Romacker M, Schulz S
  Why discourse structures in medical reports matter for the validity of automatically generated text knowledge bases.
  Medinfo. 9 Pt 1:633-8. 1998.
  PMID: 10384532



• • Hersh WR, Leen TK, Rehfuss PS, Malveau S
  Automatic prediction of trauma registry procedure codes from emergency room dictations.
  Medinfo. 9 Pt 1(2):665-9. 1998.
  PMID: 10384538



• • Hishiki T, Collier N, Nobata C, Okazaki-Ohta T, Ogata N, Sekimizu T, et al.
  Developing NLP Tools for Genome Informatics: An Information Extraction Perspective
  Genome Inform Ser Workshop Genome Inform. 9:81-90. 1998.
  PMID: 11072324



• • Hripcsak G, Kuperman GJ, Friedman C
  Extracting findings from narrative reports: software transferability and sources of physician disagreement.
  Methods Inf Med. 37(1):1-7. 1998.
  PMID: 9550840



• • Johnson DB, Taira RK, Zhou W, Goldin JG, Aberle DR
  Hyperad: augmenting and visualizing free text radiology reports.
  Radiographics. 18(2):507-15. 1998.
  PMID: 9536493



• • Johnson SB
  Conceptual graph grammar--a simple formalism for sublanguage.
  Methods Inf Med. 37(4-5):345-52. 1998.
  PMID: 9865032



• • Lovis C, Baud R, Michel PA, Rassinoux AM, Rodrigues JM, Scherrer JR
  Full text multilingual automatic morphosemantems for stand-alone or Internet based applications.
  Medinfo. 9 Pt 1:155. 1998.
  PMID: 10384438



• • Lovis C, Baud R, Rassinoux AM, Michel PA, Scherrer JR
  Medical dictionaries for patient encoding systems: a methodology.
  Artif Intell Med. 14(1-2):201-14. 1998.
  PMID: 9779890



• • McCray AT
  The nature of lexical knowledge.
  Methods Inf Med. 37(4-5):353-60. 1998.
  PMID: 9865033



• • Rassinoux AM, Lovis C, Baud RH, Scherrer JR
  Versatility of a multilingual and bi-directional approach for medical language processing.
  Proc AMIA Symp. 1998.
  PMID: 9929303



• • Rocha RA, Huff SM, Haug PJ, Evans DA, Bray BE
  Evaluation of a semantic data model for chest radiology: application of a new methodology.
  Methods Inf Med. 37(4-5):477-90. 1998.
  PMID: 9865046



• • Rodrigues JM, Trombert-Paviot B, Baud R, Wagner J, Meusnier-Carriot F
  Galen-In-Use: using artificial intelligence terminology tools to improve the linguistic coherence of a national coding system for surgical procedures.
  Medinfo. 9 Pt 1:623-27. 1998.
  PMID: 10384530



• • Sekimizu T, Park HS, Tsujii J
  Identifying the Interaction between Genes and Gene Products Based on Frequently Seen Verbs in Medline Abstracts
  Genome Inform Ser Workshop Genome Inform. 9:62-71. 1998.
  PMID: 11072322



• • Smalheiser NR, Swanson DR
  Using ARROWSMITH: a computer-assisted approach to formulating and assessing scientific hypotheses.
  Comput Methods Programs Biomed. 57(3):149-53. 1998.
  PMID: 9822851



• • Sneiderman CA, Rindflesch TC, Bean CA
  Identification of anatomical terminology in medical text.
  Proc AMIA Symp. 10(2):428-32. 1998.
  PMID: 9929255



• • Spyns P, Nhan NT, Baert E, Sager N, De Moor G
  Medical language processing applied to extract clinical information from Dutch medical documents.
  Medinfo. 9 Pt 1(2):685-9. 1998.
  PMID: 10384542



• • Steimann F
  Dependency parsing for medical language and concept representation.
  Artif Intell Med. 12(1):77-86. 1998.
  PMID: 9475953



• • van Mulligen EM
  UMLS-based access to CPR data.
  Medinfo. 9 Pt 1:166-70. 1998.
  PMID: 10384441



• • Wilcox A, Hripcsak G
  Knowledge discovery and data mining to assist natural language understanding.
  Proc AMIA Symp. 86(12B):835-9. 1998.
  PMID: 9929336



• • Zweigenbaum P, Bouaud J, Bachimont B, Charlet J, Seroussi B, Boisvieux JF
  From text to knowledge: a unifying document-centered view of analyzed medical language.
  Methods Inf Med. 37(4-5):384-93. 1998.
  PMID: 9865036



• • Aronson AR, Rindflesch TC
  Query expansion using the UMLS Metathesaurus.
  Proc AMIA Annu Fall Symp. 1997.
  PMID: 9357673



• • Ceusters W, Spyns P, De Moor G
  From natural language to formal language: when MultiTALE meets GALEN.
  Stud Health Technol Inform. 43 Pt A(3C):396-400. 1997.
  PMID: 10179581



• • de Bruijn LM, Hasman A, Arends JW
  Automatic SNOMED classification--a corpus-based method.
  Comput Methods Programs Biomed. 54(1-2):115-22. 1997.
  PMID: 9290926



• • de Estrada WD, Murphy S, Barnett GO
  Puya: a method of attracting attention to relevant physical findings.
  Proc AMIA Annu Fall Symp. 509-513. 1997.
  PMID: 9357678



• • Detmer WM, Barnett GO, Hersh WR
  MedWeaver: integrating decision support, literature searching, and Web exploration using the UMLS Metathesaurus.
  Proc AMIA Annu Fall Symp. 9(3):490-4. 1997.
  PMID: 9357674



• • Friedman C
  Towards a comprehensive medical language processing system: methods and issues.
  Proc AMIA Annu Fall Symp. 12(15):595-9. 1997.
  PMID: 9357695



• • Hahn U, Romacker M
  Text structures in medical text processing: empirical evidence and a text understanding prototype.
  Proc AMIA Annu Fall Symp. 1997.
  PMID: 9357739



• • Hahn U, Schnattinger K
  Deep Knowledge Discovery from Natural Language Texts
  In Proceedings of the 3rd International Conference on Knowledge Discovery and Data Mining. KDD-97175-178. 1997.
  



• • Haug PJ, Christensen L, Gundersen M, Clemons B, Koehler S, Bauer K
  A natural language parsing system for encoding admitting diagnoses.
  Proc AMIA Annu Fall Symp. 1997.
  PMID: 9357738



• • Hersh WR, Campbell EM, Malveau SE
  Assessing the feasibility of large-scale natural language processing in a corpus of ordinary medical records: a lexical analysis.
  Proc AMIA Annu Fall Symp. 1997.
  PMID: 9357692



• • Jain NL, Friedman C
  Identification of findings suspicious for breast cancer based on natural language processing of mammogram reports.
  Proc AMIA Annu Fall Symp. 1997.
  PMID: 9357741



• • Ludwig CA
  Problem list in computer-based patient records
  Schweiz Rundsch Med Prax. 86(3):55-8. 1997.
  PMID: 9045285



• • Nazarenko A, Zweigenbaum P, Bouaud J, Habert B
  Corpus-based identification and refinement of semantic classes.
  Proc AMIA Annu Fall Symp. 1997.
  PMID: 9357693



• • Ohta Y, Yamamoto Y, Okazaki T, Uchiyama I, Takagi T
  Automatic construction of knowledge base from biological papers
  Proc Int Conf Intell Syst Mol Biol. 5(2):218-225. 1997.
  PMID: 9322040



• • Rassinoux AM, Miller RA, Baud RH, Scherrer JR
  Compositional and enumerative designs for medical language representation.
  Proc AMIA Annu Fall Symp. 1997.
  PMID: 9357700



• • Rodrigues JM, Trombert-Paviot B, Baud R, Wagner J, Rusch P, Meusnier F
  Galen-In-Use: an EU Project applied to the development of a new national coding system for surgical procedures: NCAM.
  Stud Health Technol Inform. 43 Pt B:897-901. 1997.
  PMID: 10179798



• • Seka LP, Courtin C, Le Beux P
  ADM-INDEX: an automated system for indexing and retrieval of medical texts.
  Stud Health Technol Inform. 43 Pt A:406-10. 1997.
  PMID: 10179583



• • Baud RH, Rassinoux AM, Lovis C, Wagner J, Griesser V, Michel PA, et al.
  Knowledge sources for Natural Language Processing.
  Proc AMIA Annu Fall Symp. 285(2):70-4. 1996.
  PMID: 8947630



• • Berman JJ, Moore GW
  SNOMED-encoded surgical pathology databases: a tool for epidemiologic investigation.
  Mod Pathol. 9(9):944-50. 1996.
  PMID: 8878028



• • Ertle AR, Campbell EM, Hersh WR
  Automated application of clinical practice guidelines for asthma management.
  Proc AMIA Annu Fall Symp. 1996.
  PMID: 8947727



• • Evans DA, Brownlow ND, Hersh WR, Campbell EM
  Automating concept identification in the electronic medical record: an experiment in extracting dosage information.
  Proc AMIA Annu Fall Symp. 43(1):388-92. 1996.
  PMID: 8947694



• • Hahn U, Schnattinger K, Romacker M
  Automatic knowledge acquisition from medical texts
  Proc AMIA Annu Fall Symp. 94(2):383-7. 1996.
  PMID: 8947693



• • Hersh WR, Campbell EH, Evans DA, Brownlow ND
  Empirical, automated vocabulary discovery using large text corpora and advanced natural language processing tools.
  Proc AMIA Annu Fall Symp. 1996.
  PMID: 8947648



• • Jain NL, Knirsch CA, Friedman C, Hripcsak G
  Identification of suspected tuberculosis patients based on natural language processing of chest radiograph reports.
  Proc AMIA Annu Fall Symp. 1996.
  PMID: 8947725



• • Johnson SB, Friedman C
  Integrating data from natural language processing into a clinical information system.
  Proc AMIA Annu Fall Symp. 255(3 Pt 1):537-41. 1996.
  PMID: 8947724



• • Murphy SN, Barnett GO
  Achieving automated narrative text interpretation using phrases in the electronic medical record.
  Proc AMIA Annu Fall Symp. 1996.
  PMID: 8947723



• • Rassinoux AM, Miller RA, Baud RH, Scherrer JR
  Modeling principles for QMR medical findings.
  Proc AMIA Annu Fall Symp. 1996.
  PMID: 8947669



• • Sager N, Nhan NT, Lyman M, Tick LJ
  Medical language processing with SGML display.
  Proc AMIA Annu Fall Symp. 1996.
  PMID: 8947726



• • Sneiderman CA, Rindflesch TC, Aronson AR
  Finding the findings: identification of findings in medical literature using restricted natural language processing.
  Proc AMIA Annu Fall Symp. 54(2):239-43. 1996.
  PMID: 8947664



• • Spackman KA, Hersh WR
  Recognizing noun phrases in medical discharge summaries: an evaluation of two natural language parsers.
  Proc AMIA Annu Fall Symp. 344(10):155-8. 1996.
  PMID: 8947647



• • Spyns P
  Natural language processing in medicine: an overview.
  Methods Inf Med. 35(4-5):285-301. 1996.
  PMID: 9019092



• • Spyns P, De Moor G
  A Dutch medical language processor.
  Int J Biomed Comput. 41(3):181-205. 1996.
  PMID: 8872194



• • Aronow DB, Cooley JR, Soderland S
  Automated identification of episodes of asthma exacerbation for quality measurement in a computer-based medical record.
  Proc Annu Symp Comput Appl Med Care. 1995.
  PMID: 8563291



• • Baud R, Lovis C, Rassinoux AM, Michel PA, Alpay L, Wagner J, et al.
  Toward a medical linguistic knowledge base.
  Medinfo. 8 Pt 1:13-7. 1995.
  PMID: 8591136



• • Baud RH, Rassinoux AM, Wagner JC, Lovis C, Juge C, Alpay LL, et al.
  Representing clinical narratives using conceptual graphs.
  Methods Inf Med. 34(1-2):176-86. 1995.
  PMID: 9082129



• • Bookstein A, Klein ST, Raita RT
  Clumping Properties of Content-Bearing Words
  In Proceedings of the 18th ACM International Conference on Research and Development in Information Retrieval. 1995.
  PMID: [NULL]



• • Brigl B, Mieth M, Haux R, Gluck E
  The LBI-method for automated indexing of diagnoses by using SNOMED. Part 2. Evaluation.
  Int J Biomed Comput. 38(2):101-8. 1995.
  PMID: 7729926



• • Delamarre D, Burgun A, Seka LP, Le Beux P
  Automated coding of patient discharge summaries using conceptual graphs.
  Methods Inf Med. 34(4):345-51. 1995.
  PMID: 7476465



• • do Amaral MB, Satomura Y
  Associating semantic grammars with the SNOMED: processing medical language and representing clinical facts into a language-independent frame.
  Medinfo. 8 Pt 1:18-22. 1995.
  PMID: 8591149



• • el-Gamal SS, Esmail MM
  Understanding clinical narrative text.
  Med Inform (Lond). 20(2):161-73. 1995.
  PMID: 8569309



• • Fowler J, Maram S, Kouramajian V, Devadhar V
  Automated MeSH indexing of the World-Wide Web.
  Proc Annu Symp Comput Appl Med Care. 1995.
  PMID: 8563421



• • Friedman C, Johnson SB, Forman B, Starren J
  Architectural requirements for a multipurpose natural language processor in the clinical environment.
  Proc Annu Symp Comput Appl Med Care. 1995.
  PMID: 8563299



• • Haug PJ, Koehler S, Lau LM, Wang P, Rocha R, Huff SM
  Experience with a mixed semantic/syntactic parser.
  Proc Annu Symp Comput Appl Med Care. 1995.
  PMID: 8563286



• • Hripcsak G, Friedman C, Alderson PO, DuMouchel W, Johnson SB, Clayton PD
  Unlocking clinical data from narrative reports: a study of natural language processing.
  Ann Intern Med. 122(9):681-8. 1995.
  PMID: 7702231



• • Kiuchi T, Kaihara S
  On the linguistic representation of medical information: natural language, controlled language, and formal language.
  Medinfo. 8 Pt 1:23-7. 1995.
  PMID: 8591160



• • Lovis C, Michel PA, Baud R, Scherrer JR
  Word segmentation processing: a way to exponentially extend medical dictionaries.
  Medinfo. 8 Pt 1(1):28-32. 1995.
  PMID: 8591172



• • Pietrzyk PM
  Free text analysis.
  Int J Biomed Comput. 39(1):139-44. 1995.
  PMID: 7601527



• • Purcell GP, Shortliffe EH
  Contextual models of clinical publications for enhancing retrieval from full-text databases.
  Proc Annu Symp Comput Appl Med Care. 1995.
  PMID: 8563412



• • Rassinoux AM, Michel PA, Wagner J, Baud R
  Current trends with natural language processing.
  Medinfo. 8 Pt 2(2):1657. 1995.
  PMID: 8591530



• • Rassinoux AM, Wagner JC, Lovis C, Baud RH, Rector A, Scherrer JR
  Analysis of medical texts based on a sound medical model.
  Proc Annu Symp Comput Appl Med Care. 1995.
  PMID: 8563282



• • Rector AL, Glowinski AJ, Nowlan WA, Rossi-Mori A
  Medical-concept models and medical records: an approach based on GALEN and PEN&PAD.
  J Am Med Inform Assoc. 2(1):19-35. 1995.
  PMID: 7895133



• • Rector AL, Solomon WD, Nowlan WA, Rush TW, Zanstra PE, Claassen WM
  A Terminology Server for medical language and medical information systems.
  Methods Inf Med. 34(1-2):147-57. 1995.
  PMID: 9082124



• • Sager N, Lyman M, Nhan NT, Tick LJ
  Medical language processing: applications to patient data representation and automatic encoding.
  Methods Inf Med. 34(1-2):140-6. 1995.
  PMID: 9082123



• • Spyns P, Willems JL
  Dutch medical language processing: discussion of a prototype.
  Medinfo. 8 Pt 1:37-40. 1995.
  PMID: 8591201



• • Tuttle MS, Cole WG, Sheretz DD, Nelson SJ
  Navigating to knowledge.
  Methods Inf Med. 34(1-2):214-31. 1995.
  PMID: 9082134



• • Zweigenbaum P, Bachimont B, Bouaud J, Charlet J, Boisvieux JF
  A multi-lingual architecture for building a normalised conceptual representation from medical language.
  Proc Annu Symp Comput Appl Med Care. 1995.
  PMID: 8563301



• • Bassoe CF
  Automatic text analysis of medical records
  Tidsskr Nor Laegeforen. 114(17):1974-6. 1994.
  PMID: 8079327



• • Bell DS, Pattison-Gordon E, Greenes RA
  Experiments in concept modeling for radiographic image reports.
  J Am Med Inform Assoc. 1(3):249-62. 1994.
  PMID: 7719807



• • Brigl B, Mieth M, Haux R, Gluck E
  The LBI-method for automated indexing of diagnoses by using SNOMED. Part 1. Design and realization.
  Int J Biomed Comput. 37(3):237-47. 1994.
  PMID: 7705905



• • do Amaral MB, Satomura Y
  Structuring medical information into a language-independent database.
  Med Inform (Lond). 19(3):269-82. 1994.
  PMID: 7707747



• • Friedman C, Alderson PO, Austin JH, Cimino JJ, Johnson SB
  A general natural-language text processor for clinical radiology
  J Am Med Inform Assoc. 1(2):161-74. 1994.
  PMID: 7719797



• • Friedman C, Cimino JJ, Johnson SB
  A schema for representing medical language applied to clinical radiology.
  J Am Med Inform Assoc. 1(3):233-48. 1994.
  PMID: 7719806



• • Hafner CD, Baclawski K, Futrelle RP, Fridman N, Sampath S
  Creating a knowledge base of biological research papers.
  Proc Int Conf Intell Syst Mol Biol. 2:147-55. 1994.
  PMID: 7584384



• • Haug P, Koehler S, Lau LM, Wang P, Rocha R, Huff S
  A natural language understanding system combining syntactic and semantic techniques.
  Proc Annu Symp Comput Appl Med Care. 1994.
  PMID: 7949928



• • Moore GW, Berman JJ
  Automatic SNOMED coding.
  Proc Annu Symp Comput Appl Med Care. 41(6):225-9. 1994.
  PMID: 7949924



• • Nangle B, Keane MT
  Effective retrieval in Hospital Information Systems: the use of context in answering queries to Patient Discharge Summaries.
  Artif Intell Med. 6(3):207-27. 1994.
  PMID: 7920967



• • Rassinoux AM, Michel PA, Juge C, Baud R, Scherrer JR
  Natural language processing of medical texts within the HELIOS environment.
  Comput Methods Programs Biomed. 45 SupplS79-96. 1994.
  PMID: 7882677



• • Rindflesch TC, Aronson AR
  Ambiguity resolution while mapping free text to the UMLS Metathesaurus.
  Proc Annu Symp Comput Appl Med Care. 24(3):240-4. 1994.
  PMID: 7949927



• • Rocha RA, Huff SM
  Using digrams to map controlled medical vocabularies.
  Proc Annu Symp Comput Appl Med Care. 1994.
  PMID: 7949914



• • Sager N, Lyman M, Bucknall C, Nhan N, Tick LJ
  Natural language processing and the representation of clinical data.
  J Am Med Inform Assoc. 1(2):142-60. 1994.
  PMID: 7719796



• • Sager N, Lyman M, Nhan NT, Tick LJ
  Automatic encoding into SNOMED III: a preliminary investigation.
  Proc Annu Symp Comput Appl Med Care. 1994.
  PMID: 7949925



• • Zweigenbaum P
  MENELAS: an access system for medical records using natural language.
  Comput Methods Programs Biomed. 45(1-2):117-20. 1994.
  PMID: 7889741



• • Baud R, Lovis C, Alpay L, Rassinoux AM, Scherrer JR, Nowlan A, et al.
  Modelling for natural language understanding.
  Proc Annu Symp Comput Appl Med Care. 88(5):289-93. 1993.
  PMID: 8130480



• • Cimino JJ, Aguirre A, Johnson SB, Peng P
  Generic queries for meeting clinical information needs.
  Bull Med Libr Assoc. 81(2):195-206. 1993.
  PMID: 8472005



• • Cimino JJ, Barnett GO
  Automatic knowledge acquisition from MEDLINE.
  Methods Inf Med. 32(2):120-30. 1993.
  PMID: 8321130



• • Friedman C, Cimino JJ, Johnson SB
  A conceptual model for clinical radiology reports.
  Proc Annu Symp Comput Appl Med Care. 1993.
  PMID: 8130594



• • Johnson SB, Aguirre A, Peng P, Cimino J
  Interpreting natural language queries using the UMLS.
  Proc Annu Symp Comput Appl Med Care. 1993.
  PMID: 8130481



• • Lamiell JM, Wojcik ZM, Isaacks J
  Computer auditing of surgical operative reports written in English.
  Proc Annu Symp Comput Appl Med Care. 1993.
  PMID: 8130475



• • Lenert LA, Tovar M
  Automated linkage of free-text descriptions of patients with a practice guideline.
  Proc Annu Symp Comput Appl Med Care. 285(2):274-8. 1993.
  PMID: 8130477



• • McCray AT, Aronson AR, Browne AC, Rindflesch TC, Razi A, Srinivasan S
  UMLS knowledge for biomedical language processing.
  Bull Med Libr Assoc. 81(2):184-94. 1993.
  PMID: 8472004



• • Peng P, Aguirre A, Johnson SB, Cimino JJ
  Generating MEDLINE search strategies using a librarian knowledge-based system.
  Proc Annu Symp Comput Appl Med Care. 1993.
  PMID: 8130544



• • Rasmussen JE, Bassoe CF
  Semantic analysis of medical records.
  Methods Inf Med. 32(1):66-72. 1993.
  PMID: 8469163



• • Rindflesch TC, Aronson AR
  Semantic processing in information retrieval.
  Proc Annu Symp Comput Appl Med Care. 15(3):611-5. 1993.
  PMID: 8130547



• • Sager N, Lyman M, Tick LJ, Nhan NT, Bucknall CE
  Natural language processing of asthma discharge summaries for the monitoring of patient care.
  Proc Annu Symp Comput Appl Med Care. 15(5):265-8. 1993.
  PMID: 8130474



• • Yang Y, Chute CG
  Words or concepts: the features of indexing units and their optimal use in information retrieval.
  Proc Annu Symp Comput Appl Med Care. 1993.
  PMID: 8130562



• • Zingmond D, Lenert LA
  Monitoring free-text data using medical language processing.
  Comput Biomed Res. 26(5):467-81. 1993.
  PMID: 8243070



• • Baud RH, Rassinoux AM, Scherrer JR
  Natural language processing and semantical representation of medical texts.
  Methods Inf Med. 31(2):117-25. 1992.
  PMID: 1635463



• • DeHart K, Holbrook J
  Emergency department applications of digital dictation and natural language processing.
  J Ambulatory Care Manage. 15(4):18-23. 1992.
  PMID: 10122094



• • Satomura Y, do Amaral MB
  Automated diagnostic indexing by natural language processing.
  Med Inform (Lond). 17(3):149-63. 1992.
  PMID: 1405837



• • Vries JK, Marshalek B, D`Abarno JC, Yount RJ, Dunner LL
  An automated indexing system utilizing semantic net expansion.
  Comput Biomed Res. 25(2):153-67. 1992.
  PMID: 1582192



• • Wagner MM, Cooper GF
  Evaluation of a Meta-1-based automatic indexing method for medical documents.
  Comput Biomed Res. 25(4):336-50. 1992.
  PMID: 1511595



• • Borst F, Lyman M, Nhan NT, Tick LJ, Sager N, Scherrer JR
  TEXTINFO: a tool for automatic determination of patient clinical profiles using text analysis.
  Proc Annu Symp Comput Appl Med Care. 64(2):63-7. 1991.
  PMID: 1807679



• • Evans DA, Hersh WR, Monarch IA, Lefferts RG, Handerson SK
  Automatic indexing of abstracts via natural-language processing using a simple thesaurus.
  Med Decis Making. 11(4 Suppl)S108-15. 1991.
  PMID: 1770839



• • Gabrieli ER, Speth DJ
  Automated analysis of medical text. II. Cognitive strategy.
  J Med Syst. 15(1):65-78. 1991.
  PMID: 1748850



• • Kiuchi T, Kaihara S
  Quantitative evaluation of English-Japanese machine translation of medical literature.
  Methods Inf Med. 30(3):199-205. 1991.
  PMID: 1943792



• • Lin R, Lenert L, Middleton B, Shiffman S
  A free-text processing system to capture physical findings: Canonical Phrase Identification System (CAPIS).
  Proc Annu Symp Comput Appl Med Care. 168-72. 1991.
  PMID: 1807580



• • Lyman M, Sager N, Tick L, Nhan N, Borst F, Scherrer JR
  The application of natural-language processing to healthcare quality assessment.
  Med Decis Making. 11(4 Suppl)S65-8. 1991.
  PMID: 1770852



• • McCray AT
  Extending a natural language parser with UMLS knowledge.
  Proc Annu Symp Comput Appl Med Care. 1991.
  PMID: 1807586



• • Moore GW, Berman JJ
  Object-oriented controlled-vocabulary translator using TRANSOFT HyperPAD.
  Proc Annu Symp Comput Appl Med Care. 1991.
  PMID: 1807773



• • Pietrzyk PM
  A Medical Text Analysis System for German--syntax analysis.
  Methods Inf Med. 30(4):275-83. 1991.
  PMID: 1762581



• • Powsner SM, Miller PL
  From patient reports to bibliographic retrieval: a Meta-1 front-end.
  Proc Annu Symp Comput Appl Med Care. 1991.
  PMID: 1807656



• • Rossi Mori A, Galeazzi E, Gangemi A, Pisanelli DM, Thornton AM
  Semantic standards for the representation of medical records.
  Med Decis Making. 11(4 Suppl)S76-80. 1991.
  PMID: 1770855



• • Wagner MM
  An automatic indexing method for medical documents.
  Proc Annu Symp Comput Appl Med Care. 1991.
  PMID: 1807564



• • Borst F, Scherrer JR
  Registration of detailed data in the medical record or how to translate "impressions" into measurable observations]
  Schweiz Med Wochenschr. 120(49):1871-6. 1990.
  PMID: 2263929



• • Dorda WG
  Data-screening and retrieval of medical data by the system WAREL.
  Methods Inf Med. 29(1):3-11. 1990.
  PMID: 2308525



• • Gabrieli ER, Speth DJ
  Automated analysis of medical text. I. Clue gathering.
  J Med Syst. 14(1-2):71-91. 1990.
  PMID: 2373972



• • Haug PJ, Ranum DL, Frederick PR
  Computerized extraction of coded findings from free-text radiologic reports. Work in progress.
  Radiology. 174(2):543-8. 1990.
  PMID: 2404321



• • Hersh WR, Greenes RA
  SAPHIRE--an information retrieval system featuring concept matching, automatic indexing, probabilistic retrieval, and hierarchical relationships.
  Comput Biomed Res. 23(5):410-25. 1990.
  PMID: 2225787



• • McCray AT, Srinivasan S
  Automated access to a large medical dictionary: online assistance for research and application in natural language processing.
  Comput Biomed Res. 23(2):179-98. 1990.
  PMID: 2185922



• • Grams RR, Jin ZM
  The natural language processing of medical databases.
  J Med Syst. 13(2):79-87. 1989.
  PMID: 2769117



• • Cristea D, Mihaescu T
  Combining menus with natural language processing in recording medical data.
  J Clin Comput. 16(5-6):156-66. 1988.
  PMID: 10290398



• • Dorda W, Haidl B, Sachs P
  Processing medical natural language data by the system WAREL.
  Methods Inf Med. 27(2):67-72. 1988.
  PMID: 3386537



• • Gabrieli ER
  Computer-assisted assessment of patient care in the hospital.
  J Med Syst. 12(3):135-46. 1988.
  PMID: 3171443



• • Moore GW, Boitnott JK, Miller RE, Eggleston JC, Hutchins GM
  Integrated pathology reporting, indexing, and retrieval system using natural language diagnoses.
  Mod Pathol. 1(1):44-50. 1988.
  PMID: 3070549



• • Wingert F
  Medical linguistics: automated indexing into SNOMED.
  Crit Rev Med Inform. 1(4):333-403. 1988.
  PMID: 3288353



• • Humphrey SM, Miller NE
  Knowledge-based indexing of the medical literature: the Indexing Aid Project.
  J Am Soc Inf Sci. 38(3):184-96. 1987.
  PMID: 10301519



• • Mayer PS, Bailey GH, Mayer RJ, Hillis A, Dvoracek JE
  Locative inferences in medical texts.
  J Med Syst. 11(2-3):123-35. 1987.
  PMID: 3668402



• • Gabrieli ER, Speth DJ
  Automated analysis of the discharge summary.
  J Clin Comput. 15(1):1-28. 1986.
  PMID: 10279021



• • Moore GW, Polacsek RA, Erozan YS, de la Monte SM, Miller RE, Hutchins GM, et al.
  Multilingual translation techniques in the analysis of narrative medical text.
  Comput Methods Programs Biomed. 22(1):35-42. 1986.
  PMID: 3634670



• • Wingert F
  An indexing system for SNOMED.
  Methods Inf Med. 25(1):22-30. 1986.
  PMID: 3753739



• • Wingert F
  Automated indexing based on SNOMED.
  Methods Inf Med. 24(1):27-34. 1985.
  PMID: 3982279



• • Wolff S
  The use of morphosemantic regularities in the medical vocabulary for automatic lexical coding.
  Methods Inf Med. 23(4):195-203. 1984.
  PMID: 6392820



• • Sager N, Wong R
  Developing a database from free-text clinical data.
  J Clin Comput. 11(5-6):184-94. 1983.
  PMID: 10278191



• • Shapiro AR
  Exploratory analysis of the medical record.
  Med Inform (Lond). 8(3):163-71. 1983.
  PMID: 6600040



• • Sager N, Bross ID, Story G, Bastedo P, Marsh E, Shedd D
  Automatic encoding of clinical narrative.
  Comput Biol Med. 12(1):43-56. 1982.
  PMID: 7075165



• • Hirschman L, Story G, Marsh E, Lyman M, Sager N
  An experiment in automated health care evaluation from narrative medical records.
  Comput Biomed Res. 14(5):447-63. 1981.
  PMID: 7273723



• • Foulis PR, Norbut AM, Mendelow H, Kessler GF
  Pathology accessioning and retrieval system with encoding by computer (PARSEC). A microcomputer-based system for anatomic pathology featuring automated SNOP coding and multiple administrative functions.
  Am J Clin Pathol. 73(6):748-53. 1980.
  



• • Dunham GS, Pacak MG, Pratt AW
  Automatic indexing of pathology data.
  J Am Soc Inf Sci. 29(2):81-90. 1978.
  PMID: 10318395



• • Sager N, Lyman M
  Computerized language processing: implications for health care evaluation.
  Med Rec News. 49(3):20-28. 1978.
  PMID: 10307700



• • Coles EC, Slavin G
  An evaluation of automatic coding of surgical pathology reports.
  J Clin Pathol. 29(7):621-5. 1976.
  PMID: 977772



• • Boyce B, Lockard M
  Automatic and manual indexing performance in a small file of medical literature.
  Bull Med Libr Assoc. 63(4):378-85. 1975.
  PMID: 1191823



• • Okubo RS, Russell WS, Dimsdale B, Lamson BG
  Natural language storage and retrieval of medical diagnostic information. Experience at the UCLA hospital and clinics over a 10-year period.
  Comput Programs Biomed. 5(2):105-30. 1975.
  PMID: 1104249



• • Barnett GO, Greenes RA, Grossman JH
  Computer processing of medical text information.
  Methods Inf Med. 8(4):177-82. 1969.
  PMID: 5386004



• • Baruch JJ
  Progress in programming for processing English language medical records.
  Ann N Y Acad Sci. 126(2):795-804. 1965.
  PMID: 5217245




Sort by:

Year of Publication (descending) Year of Publication (ascending) Author Title

Last modified: Thu Jun 28 18:41:56 2007
By: Limin Zheng