Indexing Initiative Publications

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The following list of presentations and papers provide a good overiew of the Indexing Initiative. Latest publications are listed first in each of the sections.

Subheading Attachment
Fine-Grained Indexing of the Biomedical Literature: MeSH Subheading Attachment for a MEDLINE Indexing Tool, AMIA 2007 - PDF (39kb) Fine-Grained Indexing of the Biomedical Literature: MeSH Subheading Attachment for a MEDLINE Indexing Tool, AMIA 2007
Multiple Approaches to Fine-Grained Indexing of the Biomedical Literature, 2007 - PDF (103kb) Multiple Approaches to Fine-Grained Indexing of the Biomedical Literature, Proc Pacific Symposium on Biocomputing 2007
User-centered Evaluation
User-centered Evaluation of the MTI System, 2007 - PDF (942kb) User-centered Evaluation of the MTI System, 2007
A MEDLINE Indexing Experiment Using Terms Suggested by MTI, June 2002 - PDF (510kb) A MEDLINE Indexing Experiment Using Terms Suggested by MTI, June 2002
Lister Hill NLP Content View (LNCV)
UMLS Content Views Appropriate for NLP Processing of the Biomedical Literature vs. Clinical Text, AMIA 2009 - PDF (25 kb) UMLS Content Views Appropriate for NLP Processing of the Biomedical Literature vs. Clinical Text, AMIA 2009
Methodology for Creating UMLS Content Views Appropriate for Biomedical Natural Language Processing, AMIA 2008 - PDF (50kb) Methodology for Creating UMLS Content Views Appropriate for Biomedical Natural Language Processing, AMIA 2008
General
2008 Report to the Board of Scientific Counselors - PDF (203kb) 2008 Report to the Board of Scientific Counselors
Automatic Indexing of Specialized Documents: Using Generic vs. Domain-Specific Document Representations, BioNLP 2007 - PDF (44kb) Automatic Indexing of Specialized Documents: Using Generic vs. Domain-Specific Document Representations, BioNLP 2007
From Indexing the Biomedical Literature to Coding Clinical Text: Experience with MTI and Machine Learning Approaches, BioNLP 2007 - PDF (158kb) From Indexing the Biomedical Literature to Coding Clinical Text: Experience with MTI and Machine Learning Approaches, BioNLP 2007
Semi-Automatic Indexing of Full Text Biomedical Articles, AMIA 2005 - PDF (100kb) Semi-Automatic Indexing of Full Text Biomedical Articles, AMIA 2005
Evaluation of French and English MeSH Indexing Systems ..., AMIA 2005 - PDF (50kb) Evaluation of French and English MeSH Indexing Systems with a Parallel Corpus, AMIA 2005
The NLM Indexing Initiative's Medical Text Indexer, MedInfo 2004 - PDF (54kb) The NLM Indexing Initiative's Medical Text Indexer, MedInfo 2004
Application of a Medical Text Indexer to an Online Dermatology Atlas, MedInfo 2004 - PDF (319kb) Application of a Medical Text Indexer to an Online Dermatology Atlas, MedInfo 2004
Automated and Semi-automated Indexing, Report to the Board of Regents 2002 - PDF (2.1mb) Automated and Semi-automated Indexing, Report to the Board of Regents 2002
Automatic MeSH Term Assignment and Quality Assessment, AMIA 2001 - PDF (130kb) Automatic MeSH Term Assignment and Quality Assessment, AMIA 2001
The NLM Indexing Initiative paper - PDF (139kb) The NLM Indexing Initiative, AMIA 2000
1999 Report to the Board of Scientific Counselors - PDF (203kb) 1999 Report to the Board of Scientific Counselors
[HTML] (203kb) 1999 AMIA Poster Presentation: Automated Assignment of Medical Subject Headings
Technical
Medical Text Indexer (MTI) Processing Flow - PDF (503kb) Medical Text Indexer (MTI) Processing Flow

Last Modified: October 27, 2009 ii-public
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Indexing Initiative (II)
Investigating computer-assisted and fully automatic methodologies for indexing biomedical text. Includes the NLM Medical Text Indexer (MTI).
Semantic Knowledge Representation (SKR)
Develop programs to provide usable semantic representation of biomedical text. Includes the MetaMap and SemRep programs.
MetaMap Transfer (MMTx)
Java-Based distributable version of the MetaMap program.
Word Sense Disambiguation (WSD)
Test collection of manually curated MetaMap ambiguity resolution in support of word sense disambiguation research.
Medline Baseline Repository (MBR)
Static MEDLINE Baselines for use in research involving biomedical citations. Allows for query searches and test collection creation.
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