Home > Bibliographic Services Division > Information for Licensees > Licensee Research Use of MEDLINE®/PubMed® Data |
This report is sorted alphabetically by organization/institution or, if not provided, by personal name. It lists NLM's
MEDLINE/PubMed licensees who submitted information 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, or the Research Category title to view the summary report for that research category. General information about NLM's Web site for licensees' research projects
is available.
1 |
Advanced Health Media
2840 Morris Ave, Union, NJ 07083 | |
Eric Johnson |
| |
Research Category:
Information Extraction or Retrieval Methods
| ||
Research Project: IM2 KOL Identification
| ||
Project Summary: Currently, InsiteResearch uses the platform to retrieve data on therapeutic class experts to act as investigators or speakers for healthcare companies |
2 |
Arity Corporation
Research & Development | |
Peter Gabel peter.gabel@arity.com |
Pamela Schaepe pamela.schaepe@arity.com | |
Research Category:
Information Extraction or Retrieval Methods
| ||
Research Project: NLP Information Extraction for Biomedical Research &
Development
| ||
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. |
3 |
ATA SpA - Advanced Technology Assessment
| |
Massimo Riccaboni info@atalab.com |
| |
Research Category:
Information Extraction or Retrieval Methods
| ||
Research Project:
| ||
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. |
4 |
Canaledge Inc.
| |
Yoshiyuki Kobayashi yashi@canaledge.com |
Takao Asanuma asanuma@canaledge.com | |
Research Category:
Information Extraction or Retrieval Methods
| ||
Research Project: text-mining system development
| ||
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. |
5 |
Carnegie Mellon University
| |
Eric Nyberg |
| |
Research Category:
Information Extraction or Retrieval Methods
| ||
Research Project:
| ||
Project Summary: Research in the use of language processing technology to provide more intelligent access to information in MEDLINE abstracts |
6 |
ChemGenex Pharmaceuticals
| |
Jeremy Jowett jjowett@idi.org.au |
| |
Research Category:
Biological Knowledge Discovery
| ||
Research Project: Data mining for functional information on positional candidate
genes for diabetes and obesity
| ||
Project Summary: To collate and present functional information about a list of candidate genes for a range of complex diseases including diabetes, obesity, depression and anxiety. |
7 |
Children's Hospital of Philadelphia
| |
Peter White white@genome.chop.edu |
| |
Research Category:
Information Extraction or Retrieval Methods
| ||
Research Project: Mining the bibliome: Information extraction of the biomedical
literature
| ||
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. |
8 |
CINECA
| |
Andrew Emerson a.emerson@cineca.it |
| |
Research Category:
Biological Knowledge Discovery
| ||
Research Project: MedMOLE - Mining On-Line Expert on MedLine
| ||
Project Summary: MedMOLE is a tool that improves the comprehension of microarray experimental results by grouping co- regulated genes on the basis of the informational content of MEDLINE documents. |
9 |
Columbia University
| |
Stephen Johnson sbj2@columbia.ed |
| |
Research Category:
Information Extraction or Retrieval Methods
| ||
Research Project: CIQR
| ||
Project Summary: CQIR (seeker) explores Context-Initiated Question and Response: responding to physicians' questions when they are in the context of patient care. |
10 |
David Calloway
| |
David Calloway calloway@novatechnologies.net |
| |
Research Category:
Information Extraction or Retrieval Methods
| ||
Research Project: wikipdf
| ||
Project Summary: The wikipdf tool (http://www.wikipdf.com) automatically generates glossaries of unusual terms for any article identified by a Medline citation. |
11 |
EMBL-European Bioinformatics Institute
Rebholz Group | |
Peter Stoehr |
| |
Research Category:
Information Extraction or Retrieval Methods
| ||
Research Project: Whatizit
| ||
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. |
12 |
Erasmus MC
Department of Urology | |
Guido Jenster g.jenster@erasmusmc.nl |
| |
Research Category:
Biological Knowledge Discovery
| ||
Research Project: Gene information extraction from MEDLINE
| ||
Project Summary: We link genomic (microarray analyses) and proteomic data (protein expression analyses) to MEDLINE to be able to perform high-throughput and automated MEDLINE searches to extract relationships between genes and their gene products. |
13 |
Food Industry Research & Development Institute
| |
Wang Chun-lin clw@firdi.org.tw |
| |
Research Category:
Biological Knowledge Discovery
| ||
Research Project:
| ||
Project Summary: Establishment the knowledge of the bioresource usage in the MEDLINE/PubMed data |
14 |
Fujitsu Limited
Makuhari Systems Laboratory | |
Shuhei Kinoshita kino@strad.ssg.fujitsu.com |
Masato Mori masatom@strad.ssg.fujitsu.com | |
Research Category:
Information Extraction or Retrieval Methods
| ||
Research Project: Bio Chemical Information Project
| ||
Project Summary: Development of NLP programs which extracts Protein-Protein or Protein-Compound relationships. |
15 |
Marquette University
| |
Craig Struble craig.struble@marquette.edu |
| |
Research Category:
Information Extraction or Retrieval Methods
| ||
Research Project:
| ||
Project Summary: We are using MEDLINE to develop information extraction tools for experimental techniques and protein kinase inhibitors. |
16 |
Monash University and The Beddoes Group
| |
Adam Tucker adam.tucker@med.monash.edu.au |
mail@allori.org | |
Research Category:
Other
| ||
Research Project: Anaesthesia and Medline
| ||
Project Summary: A descriptive study describing the corpus of articles relating to anaesthesia and related fields |
17 |
NAIST
| |
Kouichi Doi doy@is.naist.jp |
| |
Research Category:
Information Extraction or Retrieval Methods
| ||
Research Project:
| ||
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. |
18 |
Nara Institute of Science and Technology
| |
Yuji Matsumoto |
Masashi Shimbo | |
Research Category:
Information Extraction or Retrieval Methods
| ||
Research Project:
| ||
Project Summary: We apply statistical natural language processing techniques to the information extraction and retrieval from Medline abstracts. |
19 |
National Cheng-Kung University
Department of Computer Science and Information Engineering | |
Wen-Hsiang Lu whlu@mail.ncku.edu.tw |
| |
Research Category:
Information Extraction or Retrieval Methods
| ||
Research Project: MMODE: Cross-Language Medical Information Retrieval for
Consumers
| ||
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. |
20 |
National University of Singapore
| |
Ailing Zhu |
Jian Li | |
Research Category:
Biological Knowledge Discovery
| ||
Research Project:
| ||
Project Summary: disease gene mining from MEDLINE |
21 |
Novo Nordisk A/S
DK-2880 Bagsvaerd | |
Henning Nielsen hepn@novonordisk.com |
| |
Research Category:
Biological Knowledge Discovery
| ||
Research Project:
| ||
Project Summary: Teh Novo Group of Companies (Novo Nordisk, Novozymes, and Novo A/S)is a Danish Based Research, Pharmaceutical and Biotech Companies. Our main research focus is on the therapy areas Diabetes, Haemophilia, Growth Hormone, Hormone Replacement Therapy and Industrial Enzymes. |
22 |
OmniViz, Inc.
| |
Jeffrey Saffer |
| |
Research Category:
Information Extraction or Retrieval Methods
| ||
Research Project: Development of Visualization Software
| ||
Project Summary: Development of software capable of visualizing Medline data. |
23 |
Polish Academy of Sciences
Institute of Biochemistry & Biophysics | |
Pawel Siedlecki |
| |
Research Category:
Information Extraction or Retrieval Methods
| ||
Research Project:
| ||
Project Summary: Usage of medline database for searching information about aminoacid sequences |
24 |
Public Health Genetics Unit, Cambridge
| |
Julian Higgins julian.higgins@mrc-bsu.cam.ac.uk |
Roger Hale roger.hale@linguamatics.com | |
Research Category:
Information Extraction or Retrieval Methods
| ||
Research Project:
| ||
Project Summary: Investigation of I2E text-mining system in human genome epidemiology |
25 |
Spanish National Biotechnology Center (CNB-CSIC)
Protein Design Group | |
Martin Krallinger martink@cnb.uamm.es |
martingenetech@yahoo.com | |
Research Category:
Information Extraction or Retrieval Methods
| ||
Research Project: NATURAL LANGUAGE PROCESSING STRATEGIES
| ||
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 |
26 |
SUNY Stony Brook
Dept. of Computer Science | |
Steven Skiena skiena@cs.sunysb.edu |
| |
Research Category:
Information Extraction or Retrieval Methods
| ||
Research Project:
| ||
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. |
27 |
U TX-Houston
School of Health Information Sciences | |
Elmer Bernstam Elmer.V.Bernstam@uth.tmc.edu |
| |
Research Category:
Information Extraction or Retrieval Methods
| ||
Research Project: MedlineQBE
| ||
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. |
28 |
UCLA
| |
Robert Bilder rbilder@mednet.ucla.edu |
| |
Research Category:
Ontologies or Classification Schema
| ||
Research Project: Cognitive Phenotyping for Neuropsychiatric Therapeutics
| ||
Project Summary: This project (part of NIH Roadmap Initiative) aims to develop strategies for interdisciplinary research on cognitive phenotypes. One goal is development of informatics approaches to cognitive phenotype definition. |
29 |
University Health Network
Jurisica Lab | |
David Otasek |
| |
Research Category:
Information Extraction or Retrieval Methods
| ||
Research Project:
| ||
Project Summary: Automated extraction of protein-protein interactions from Medline/PubMed abstracts. |
30 |
University Health Network, Microarray Centre
MaRS Centre, Toronto Medical Discovery Tower, 9-308G | |
LU ZHIBIN zlu@uhnresearch.ca |
| |
Research Category:
Biological Knowledge Discovery
| ||
Research Project:
| ||
Project Summary: We are constantly looking for ways to enhance the annotation of our microarrays. This includes finding homologs, placement in gene network and general knowledge discovery of proteins. |
31 |
University of Arizona
The Artificial Intelligence Lab | |
Hsinchun Chen hchen@eller.arizona.edu |
Cathy Larson cal@eller.arizona.edu | |
Research Category:
Biological Knowledge Discovery
| ||
Research Project: GeneScene (please note that the name of this project is
undergoing revision and will soon change)
| ||
Project Summary: GeneScene develops text mining and data mining techniques to support automated extraction and inference of biological regulatory pathways from biomedical literature and experimental data. We also provide visualization tools to facilitate related research. |
32 |
University of Oklahoma
101 David L. Boren Blvd. | |
Jonathan Wren Jonathan.Wren@OU.edu |
| |
Research Category:
Biological Knowledge Discovery
| ||
Research Project:
| ||
Project Summary: Knowledge discovery using entities found within MEDLINE-for both shared relationship analysis (e.g.to find commonalities for microarray responders) and implicit relationship analysis (e.g. to discover previously unknown/undocumented relationships) |
33 |
University of Sheffield
Department of Computer Science | |
Angus Roberts |
| |
Research Category:
Other
| ||
Research Project: CLEF postgraduate studentship
| ||
Project Summary: PhD studentship on the extraction of part whole relations from biomedical texts |
34 |
University of Texas at Austin
Center for Computational Biology and Bioinformatics | |
Edward Marcotte |
| |
Research Category:
Information Extraction or Retrieval Methods
| ||
Research Project:
| ||
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 |
35 |
UT Southwestern Medical Center at Dallas
NA2.226 | |
Harold Garner |
Justin Hicks | |
Research Category:
Biological Knowledge Discovery
| ||
Research Project: INNOVATION LABS DATA MINING
| ||
Project Summary: We are interested in Biological Knowledge Discovery, pubmed-like searching and any useful literature-based tools development that can be useful for researchers. |
36 |
Wageningen University and Research Centre
Laboratory of Bioinformatics | |
Jack Leunissen jack.leunissen@wur.nl |
| |
Research Category:
Information Extraction or Retrieval Methods
| ||
Research Project: BIOMETA
| ||
Project Summary: Development of text mining techniques, including concept weighting and term disambiguation |
Last updated: 22 August 2007
First published: 01 August 2005
Metadata| Permanence level: Permanence Not Guaranteed