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Licensee Research Use of MEDLINE®/PubMed® Data:
Summary Report Sorted by Research Category:
Development of Information Extraction and/or Retrieval Methods
Printer-friendly VersionThis report is sorted alphabetically by organization/institution. It lists NLM's licensees who have submitted
information in the category shown below about their use of the data for research and permitted NLM to make their
information available on the Web.
Click on the Project Summary for the corresponding complete report. General information about NLM's Web site for licensees' research projects
is available.
DEVELOPMENT OF INFORMATION EXTRACTION AND/OR RETRIEVAL METHODS
| 1 |
Advanced Health Media 2840 Morris Ave, Union, NJ 07083 | |
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Eric Johnson | | |
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Project Name: IM2 KOL Identification | ||
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Project Summary:
Currently, InsiteResearch uses the platform to retrieve data on therapeutic class experts to act as investigators
or speakers for healthcare companies
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| 2 |
Arity Corporation Research & Development | |
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Peter Gabel peter.gabel@arity.com | Pamela Schaepe pamela.schaepe@arity.com | |
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Project Name: NLP Information Extraction for Biomedical Research & Development | ||
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Project Summary:
Goal of the project is to utilize sophisticated Natural Lanugage Processing techniques to maximize accuracy in
extractio of facts, associations, assertions and rules from biomedical literature.
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| 3 |
ATA SpA - Advanced Technology Assessment | |
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Massimo Riccaboni info@atalab.com | | |
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Project Name: | ||
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Project Summary:
The main goals of this project are to set up automated or semi-automated procedures to translate affiliation
information provided by PubMed into structured data, with a particular emphasis on separating and identifying
geographical information, and to develop suitable approaches to analysis of un-structured texts in the bio-
medical domain.
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| 4 |
Canaledge Inc. | |
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Yoshiyuki Kobayashi yashi@canaledge.com | Takao Asanuma asanuma@canaledge.com | |
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Project Name: text-mining system development | ||
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Project Summary:
Development of a text-mining system for finding the data of protein/protein interactions or gene/disease or
gene/chemical compound relationships, etc.
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| 5 |
Carnegie Mellon University | |
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Eric Nyberg | | |
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Project Name: | ||
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Project Summary:
Research in the use of language processing technology to provide more intelligent access to information in
MEDLINE abstracts
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| 6 |
Children's Hospital of Philadelphia | |
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Peter White white@genome.chop.edu | | |
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Project Name: Mining the bibliome: Information extraction of the biomedical literature | ||
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Project Summary:
Our goal is qualitatively better methods for automatically extracting information from the biomedical literature,
relying on recent progress and new research in three areas: high-accuracy parsing, shallow semantic analysis,
and integration of large volumes of diverse data.
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| 7 |
Columbia University | |
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Stephen Johnson sbj2@columbia.ed | | |
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Project Name: CIQR | ||
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Project Summary:
CQIR (seeker) explores Context-Initiated Question and Response: responding to physicians' questions when
they are in the context of patient care.
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| 8 |
David Calloway | |
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David Calloway calloway@novatechnologies.net | | |
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Project Name: wikipdf | ||
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Project Summary:
The wikipdf tool (http://www.wikipdf.com) automatically generates glossaries of unusual terms for any article
identified by a Medline citation.
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| 9 |
EMBL-European Bioinformatics Institute Rebholz Group | |
|
Peter Stoehr | | |
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Project Name: Whatizit | ||
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Project Summary:
We focus on extraction of facts from scientific literature in molecular biology. This is mainly based but not limited
to Pattern Matching and other High-Throughput methods. The group has experience in chunk parsing, natural
language processing (NLP), and has applied its methods to different tasks. This includes identification of
terminology, of abbreviations, of mutations and of relations between named entities, e.g. protein-protein
interactions.
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| 10 |
Fujitsu Limited Makuhari Systems Laboratory | |
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Shuhei Kinoshita kino@strad.ssg.fujitsu.com | Masato Mori masatom@strad.ssg.fujitsu.com | |
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Project Name: Bio Chemical Information Project | ||
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Project Summary:
Development of NLP programs which extracts Protein-Protein or Protein-Compound relationships.
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| 11 |
Marquette University | |
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Craig Struble craig.struble@marquette.edu | | |
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Project Name: | ||
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Project Summary:
We are using MEDLINE to develop information extraction tools for experimental techniques and protein kinase
inhibitors.
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| 12 |
NAIST | |
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Kouichi Doi doy@is.naist.jp | | |
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Project Name: | ||
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Project Summary:
We research automatic extraction of protein protein interaction. Our sub goals are named entity of proteins,
classification of verb or verb phrase and extraction of abbrevation.
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| 13 |
Nara Institute of Science and Technology | |
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Yuji Matsumoto | Masashi Shimbo | |
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Project Name: | ||
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Project Summary:
We apply statistical natural language processing techniques to the information extraction and retrieval from
Medline abstracts.
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| 14 |
National Cheng-Kung University Department of Computer Science and Information Engineering | |
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Wen-Hsiang Lu whlu@mail.ncku.edu.tw | | |
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Project Name: MMODE: Cross-Language Medical Information Retrieval for Consumers | ||
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Project Summary:
Many consumers in non-English-speaking countries are eager to access up-to-date health information from the
U.S. authoritative medical websites, such as PubMed and MedlinePlus. However, currently, there is no any
cross-language medical information retrieval (CLMIR) system that could provide Taiwanese consumers to
overcome the language barrier.
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| 15 |
OmniViz, Inc. | |
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Jeffrey Saffer | | |
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Project Name: Development of Visualization Software | ||
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Project Summary:
Development of software capable of visualizing Medline data.
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| 16 |
Polish Academy of Sciences Institute of Biochemistry & Biophysics | |
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Pawel Siedlecki | | |
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Project Name: | ||
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Project Summary:
Usage of medline database for searching information about aminoacid sequences
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| 17 |
Public Health Genetics Unit, Cambridge | |
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Julian Higgins julian.higgins@mrc-bsu.cam.ac.uk | Roger Hale roger.hale@linguamatics.com | |
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Project Name: | ||
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Project Summary:
Investigation of I2E text-mining system in human genome epidemiology
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| 18 |
Spanish National Biotechnology Center (CNB-CSIC) Protein Design Group | |
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Martin Krallinger martink@cnb.uamm.es | martingenetech@yahoo.com | |
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Project Name: NATURAL LANGUAGE PROCESSING STRATEGIES | ||
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Project Summary:
This work explores basic aspects of text mining and NLP strategies for providing functional information for
protein s and genes in the context of functional descriptions of genes such as using protein - GGene Ontology
term associations
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| 19 |
SUNY Stony Brook Dept. of Computer Science | |
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Steven Skiena skiena@cs.sunysb.edu | | |
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Project Name: | ||
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Project Summary:
TextMed is a search engine for medical entities: diseases, drugs, chemicals, organs and organisms.TextMed
aims to identify relationships between these medical entities. TextMed uses natural language processing
techniques to track medical entity references from the scientific literature, and a variety of statistical techniques
to analyze the relationships between them.
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| 20 |
U TX-Houston School of Health Information Sciences | |
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Elmer Bernstam Elmer.V.Bernstam@uth.tmc.edu | | |
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Project Name: MedlineQBE | ||
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Project Summary:
The goals of this project are to facilitate access to the biomedical literature by using techniques adapted from
the World Wide Web. We are currently exploring citation analysis and collaborative filtering. In addition, we are
exploring novel evaluation methods to compare alternative retrieval strategies.
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| 21 |
University Health Network Jurisica Lab | |
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David Otasek | | |
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Project Name: | ||
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Project Summary:
Automated extraction of protein-protein interactions from Medline/PubMed abstracts.
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| 22 |
University of Texas at Austin Center for Computational Biology and Bioinformatics | |
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Edward Marcotte | | |
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Project Name: | ||
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Project Summary:
The focus of our lab is in the study of protein functions and protein-protein interactions by combining
computational and bioinformatic approaches with experimental techniques
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| 23 |
Wageningen University and Research Centre Laboratory of Bioinformatics | |
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Jack Leunissen jack.leunissen@wur.nl | | |
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Project Name: BIOMETA | ||
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Project Summary:
Development of text mining techniques, including concept weighting and term disambiguation
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Last updated: 22 August 2007
First published: 02 August 2005
Metadata| Permanence level: Permanence Not Guaranteed