Workshop on Natural Language Processing and Ontology Building in Biology

This Workshop is sponsored by
Genome Information Science Project (MEXT)
Information Mobility Project (CREST, JST)


The rapid growth of electronic scientific literature in biology is providing increasingly attractive opportunities for text mining. At the same time, the increasing volume of papers and fact databases available at distributed sources requires a systematic approach for their integration.
Recent development in NLP/IR technologies such as Information Extraction, Term recognition, Concept-based IR, Text Mining, etc. will certainly help biologists to access the relevant information and to discover new facts from huge collections of documents. Some research groups have already launched research projects for text processing and mining in the field of biology.
As the experience of NLP in other fields shows, the success of NLP/IR requires concerted collective efforts of formulating clear research targets, defining evaluation criteria, and building linguistic resources such as correctly annotated texts, ontology and thesauri of terms in the fields, etc.
In order for techniques of NLP, Text Mining and knowledge-based systems to be relevant to application in the biology domain, we believe that it will be extremely fruitful for researchers in biology, knowledge-based systems and NLP to meet to (1) formulate common goals and research targets, and (2) launch concerted efforts for building necessary resources.

The date and venue of the Workshop and the Public Lectures

Issues to be discussed

The following are a list of topics to be discussed at the workshop. We will assign each invited speaker to one of these topics, and for each topic we will have one or two sessions, depending on the number of speakers. One session will be for 2 hours, in which we have three talks (30 minutes for each talk, followed by discussion).
(1) Sessions on "Possible targets of NLP research in Biology"
The invited speakers in these sessions will have been involved in bio-informatics research projects and think that they could benefit from contributions by NLP researchers.

(2) Sessions on "The current state of the arts of NLP"
The invited speakers who give talks here will have been involved in NLP research projects and think that their research can contribute to bio-informatics applications.

(3) Sessions on "Reports on projects of NLP in Biology"
The invited speakers in these sessions will have already achieved some research results in research of NLP for biology or are in the process of formulating concrete projects in the field.

(4) Sessions on "Resource and Ontology building for NLP in Biology"
The invited speakers in these sessions will have been involved in resource building that they think will contribute to the field.

(5) Sessions on "Possible co-operations among researchers in NLP, knowledge-based engineering and biology"
The invited speakers who contribute to this session would like to talk about possible targets or forms of co-operation.

Tentative Time Table

Monday 18th February: The Room "MIYABI" (2nd Floor)

10:00-12:00 Session 1
12:00-13:00 Lunch
13:00-15:00 Session 2
15:00-15:15 Coffie break
15:15-17:15 Session 3
18:00-20:00 Banquet : The Room "SUMA" (2nd Floor)

Tuesday 19th February: The Room "HEIAN" (3rd Floor)

10:00-12:00 Session 4
12:00-13:00 Lunch
13:00-15:00 Session 5
15:00-15:15 Coffie break
15:15-17:15 Session 6
18:30-20:30 Birds-of-a-feather

Wednesday 20th February: The Room "NISHIKI" (2nd Floor)

10:00-12:00 Session 7
12:00-13:00 Lunch
13:00-17:00 Public Lectures: The Room "MIYABI" (2nd Floor)

Photo Gallery

Organizing Committee

Invited Speakers from Abroad

Participants from Japan

Access to Tokyo Garden Palace Hotel

For Further Informaition

Contact Office Attn: Mr. Toshio Sumita and Ms. Atsuko Nakamura
c/o Inter Group Corp., Akasaka Dai-ichi Bldg., 4F, 4-9-17 Akasaka, Minato-ku, Tokyo 107-8486, Japan
Phone: +81-3-3479-5131 Fax: +81-3-3423-1601
E-mail: sec-tky3 at

The pages were last updated on the 8th March 2002 by Tomoko OHTA.

Department of Information Science, Faculty of Science, University of Tokyo,
Hongo 7-3-1, Bunkyo-ku, Tokyo 113, Japan.