Nigel COLLIER

Last updated: 12/03/05 10:45
 
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Name
Nigel COLLIER
URL
http://sites.google.com/site/nhcollier/
Affiliation
National Institute of Informatics
Job title
Associate Professor
Degree
Doctoral Degrees:1996, Ph.D. (UMIST, UK)
Other affiliation
JST SakigakeGraduate University for Advanced Studies
Twitter ID
nigelhcollier

Profile

# Doctoral Degrees:1996, Ph.D. (UMIST, UK)
# Research Fields:Natural Language Processing, Machine Learning, Information Extraction


Web surveillance for public health risk management:
Suppose a serious public health crisis occurs in Japan, or somewhere else in the world. What's the most effective way to minimize the risk (risk management) of problems caused by the crisis? The first course of action is to identify the crisis and take all possible response measures. To do this successfully, it's important to obtain accurate information on the crisis as quickly as possible.

Developing a system to prevent the spread of communicable diseases:
If an infectious disease outbreak occurs somewhere in the world, one of the most important things to do at the initial stage of risk management is finding a way to allow national governments and medical specialists to get accurate and correct information as quickly as possible. In the past, information was acquired by manual efforts including monitoring local news broadcasts in the region where the disease broke out. But due to several factors, including language differences and the massive volume of news, this isn't an especially efficient way to collect information. A project called BioCaster was initiated in 2006 to reduce this problem.

BioCaster aims to automatically scan news in the regions or countries where the outbreak of a disease is reported and produces a brief summary of the incident in various languages. This allows public health workers around the world to find out about the outbreaks of dangerous diseases in real-time. To start, the system is scheduled to provide information in four languages, English, Japanese, Vietnamese, and Thai.

Creating a medical information infrastructure based on BioCaster:
Several current systems scan public health information on the Web, but they all have drawbacks-limited language compatibility or lack of ease of use. The basic technologies for solving these problems are being developed in BioCaster. Some of the benefits of the research can be seen on our website (http://biocaster.nii.ac.jp) including the global health monitor for mapping disease and a searchable ontology.

In addition to obtaining information on disease outbreaks, we also aim to provide intelligent links to biomedical journals into the system to give medical specialists easy access to the latest in research information.

My field of expertise is natural language processing, but I've been studying text mining (text data analysis methods) since participating in the University of Tokyo's GENIA project in 1998. The goal of the GENIA project was to develop a system that automatically analyzes and retrieves research results from the Web to reduce the significant delays in getting biomedical research results into databases. Text mining technologies can be applied to various fields and offer great potential for helping professional workers find specific information more efficiently. Implementing these technologies will require the mutual efforts of experts from various fields.

Research Areas

 
 

Career

 
Oct 2008
 - 
Today
Researcher, Japan Science and Technology Agency, PRESTO programme
 
Oct 2002
 - 
Today
Associate Professor, Department of Informatics, the Graduate University for Advanced Studies
 
Nov 2000
 - 
Today
Associate Professor, Principles of Informatics Division, National Institute of Informatics
 

Prizes

 
Nov 2009
Best paper award (with co-author Hutchatai Chanlekha), International Symposium on Languages in Biology and Medicine (LBM 2009)
 

Papers

 
Collier N, Doan S
Bioinformatics (Oxford, England)      Mar 2012   [Refereed]
Collier N, Son NT, Nguyen NM
Journal of biomedical semantics   2 Suppl 5 S9   Oct 2011   [Refereed]
Collier N
Journal of biomedical semantics   2 Suppl 5 S10   Oct 2011   [Refereed]
Rebholz-Schuhmann D, Yepes AJ, Li C, Kafkas S, Lewin I, Kang N, Corbett P, Milward D, Buyko E, Beisswanger E, Hornbostel K, Kouznetsov A, Witte R, Laurila JB, Baker CJ, Kuo CJ, Clematide S, Rinaldi F, Farkas R, Móra G, Hara K, Furlong LI, Rautschka M, Neves ML, Pascual-Montano A, Wei Q, Collier N, Chowdhury MF, Lavelli A, Berlanga R, Morante R, Van Asch V, Daelemans W, Marina JL, van Mulligen E, Kors J, Hahn U
Journal of biomedical semantics   2 Suppl 5 S11   Oct 2011   [Refereed]
Wei Q, Collier N
BMC research notes   4 32   Feb 2011   [Refereed]
Towards classifying species in systems biology papers using text mining
Wei, Q. and Collier, N.
BMC Research Notes   4(32)    Feb 2011   [Refereed]
Towards cross-lingual alerting for bursty epidemic events
Collier, N.
4th International Symposium on Semantic Mining for Biomedicine (SMBM'2010)      Oct 2010   [Refereed]
OMG U got flu? Analysis of shared health messages for bio-surveillance
Collier, N., Nguyen, S.T. and Nguyen M.T.N.
4th International Symposium on Semantic Mining for Biomedicine (SMBM'2010)      Oct 2010   [Refereed]
Conway M, Kawazoe A, Chanlekha H, Collier N
Journal of medical Internet research   12 e43   Sep 2010   [Refereed]
An ontology-driven system for detecting global health events
Collier, N., Matsuda Goodwin, R., McCrae, J., Doan, S., Kawazoe, A., Conway, M., Kawtrakul, A., Takeuchi, K. and Dien, D.
23rd International Conference on Computational Linguistics (COLING)   215-222   Aug 2010   [Refereed]
Chanlekha H, Collier N
International journal of medical informatics   79 284-296   Apr 2010   [Refereed]
Collier N
Journal of biomedical semantics   1 2   Mar 2010   [Refereed]
Chanlekha H, Collier N
Journal of biomedical semantics   1 3   Mar 2010   [Refereed]
What’s unusual in online disease outbreak news?
Collier, N.
Journal of Biomedical Semantics   1(1)    Mar 2010   [Refereed]
Wrestling with biomedical research results: language resources and literature analysis. Introduction.
Rebholz-Schuhmann D, Collier N, Park JC, Wong L
Journal of bioinformatics and computational biology   8 129-130   Feb 2010   [Refereed]
Wrestling with biomedical research results: Language resources and literature analysis
Rebholz-Schuhmann, D, Collier, N., Park JC., Wong, L.
Journal of Bioinformatics and Computational Biology   8(1) 129-130   Feb 2010   [Refereed][Invited]
A framework for enhanced spatial and temporal granularity in report-based health surveillance systems
Chanlekha, H. and Collier, N.
Journal of Medical Informatics and Decision Making   10(1)    Jan 2010   [Refereed]
The landscape of international event-based biosurveillance
Hartley, D., Nelson N., Walters R., Arthur R., Yangarber R., Madoff L., Linge J., Mawudeku A., Collier N., Brownstein J., Thinus, G. and Lightfoot N.
Emerging Health Threats Journal   3(e3)    Jan 2010   [Refereed]
Developing a disease outbreak corpus
Conway, M., Kawazoe, A., Chanlekha, H. and Collier, N.
Medical Internet Research   12(3) e43   2010   [Refereed]
A methodology to enhance spatial understanding of disease outbreak events reported in news articles
Chanlekha, H. and Collier, N.
Medical Informatics   79(4) 284-296   2010   [Refereed]

Misc

 
Nigel Collier, Son Doan
   Oct 2011
Recent studies have shown strong correlation between social networking data
and national influenza rates. We expanded upon this success to develop an
automated text mining system that classifies Twitter messages in real time into
six syndromic categories based on key terms from a public health ontology.
10-fold cross validation tests were used to compare Naive Bayes (NB) and
Support Vector Mach...
Nigel Collier
Journal of Biomedical Semantics 2011, 2(Suppl 5):S10      Oct 2011
Background: Online news reports are increasingly becoming a source for event
based early warning systems that detect natural disasters. Harnessing the
massive volume of information available from multilingual newswire presents as
many challenges as opportunities due to the patterns of reporting complex
spatiotemporal events. Results: In this article we study the problem of
utilising correlated ...
Son Doan, Bao-Khanh Ho Vo, Nigel Collier
   Sep 2011
Social media such as Facebook and Twitter have proven to be a useful resource
to understand public opinion towards real world events. In this paper, we
investigate over 1.5 million Twitter messages (tweets) for the period 9th March
2011 to 31st May 2011 in order to track awareness and anxiety levels in the
Tokyo metropolitan district to the 2011 Tohoku Earthquake and subsequent
tsunami and nucl...
Nigel Collier
   Aug 1996
This paper look at how the Hopfield neural network can be used to store and
recall patterns constructed from natural language sentences. As a pattern
recognition and storage tool, the Hopfield neural network has received much
attention. This attention however has been mainly in the field of statistical
physics due to the model's simple abstraction of spin glass systems. A
discussion is made of ...

Conferences

 
High throughput analysis and alerting of disease outbreaks from the grey literature [Invited]
Collier, N.
European Bioinformatics Institute   Jan 2010   
The challenge of detecting public health threats on the Web ? experience in the BioCaster project [Invited]
Collier N.
Department of Computer Science, University of Helsinki, Finland   Jan 2009   
The challenge of detecting public health threats on the Web ? experience in the BioCaster project [Invited]
Collier N.
Georgetown University Medical Centre, USA   Dec 2008   
The challenge of detecting public health threats on the Web ? experience in the BioCaster project [Invited]
Collier N.
Children’s Hospital of Ontario Research Center, Canada   Nov 2008   
The challenge of detecting public health threats on the Web ? experience in the BioCaster project [Invited]
Collier N.
Department of Computer Science, Melbourne University, Australia   Nov 2008