BioLINK Text Data Mining SIG: Biology Literature, Information and Knowledge
at ISMB 2003, Brisbane, Australia
Friday, June 27, 2003 9:00 - 17:30
For details see this BioNLP list archive item.
From their website,
"The Special Interest Group on Text Mining (or BioLINK) was created to address the need of communication and interchange of ideas in the field of text mining and information extraction applied to biology and biomedicine...."
Go there to see more details, list of organizers of the group, online papers, etc. There is also a mailing list. Send inquiries about the mailing list to email@example.com
News, 4/8/03: The SIGIR'03 Workshop on Text Analysis for Bioinformatics will be held August 1st, in Toronto, Canada. Paper submission by June 16th. Click for details in the BioNLP archive.
News, 3/13/03: The IEEE Computer Society Bioinformatics is looking for papers on NLP in Biology. Paper deadline is coming up soon, April 1, but there is a May 22 deadline for Poster Abstracts that will be published in the Proceedings. The conference will be held at Stanford, August 11-14, 2003. More information here: http://conferences.computer.org/bioinformatics/. And here is a two-page PDF version of the call for papers.
News, 12/24/2002: TREC2003, the Text Retrieval Conference, has a Genomics track. Click for details in the BioNLP archive
News, 12/23/2002: A very useful new review paper on biology text data mining has just been published by Hirschman, et al. The citation, abstract and references are available here.
The literature of the field of biology is the largest of all the sciences. The volume of biology literature each year, measured in bytes, is about fifty times the size of the entire human genome, junk and all. But locked in this literature is an enormous amount of information that can tell us much about the structure and function of genes, proteins, cells and organisms -- how they work as well as how they can fail.
The newly emergent interest in natural language processing for biology has been christened "Information Extraction". But work in this area has been going on for many decades under different names and this site includes a good deal of information about past and current work in NLP and in information extraction for biology in particular. The other major descriptor of the general field is "Computational Linguistics".
The goals for this site include providing material and links in the following areas:
Activities in this community could include:
The site was created by Bob Futrelle, February 27, 2001.
News, 12/20/2002: Computational linguist, Daniel Jurafsky, received a MacArthur "Genius Award" in 2002. Though Dan focuses primarily on speech, it's nice to know that one of our own has been so highly honored. His book with Martin is listed on our Books and Journals page.
News, 11/28/2002: PSB 2003 Linking Biomedical Language, Information and Knowledge, January 3-7, 2003. Papers now online.
More news, 11/28/2002: ACL 2002 Workshop on Natural Language Processing in the Biomedical Domain. Papers now online.
11/28/2002: There will be a special session at PSB 2003,
"Linking Biomedical Language, Information and Knowledge".
The session is part of the Pacific Symposium on Biocomputing 2003
January 3-7, 2003
Kauai Marriott Resort and Beach Club.
Here are online copies the introductory paper and all six session papers.
There was a Workshop on Natural Language Processing in the Biomedical Domain at ACL 2002 in Philadelphia. I have placed a mirror of the web pages for the workshop here which includes online copies of the twelve papers, in PDF and Postscript formats. Be warned that some of the links there are not operational, since I have not copied the entire ACL CD contents to the bionlp.org site(!).
11/28/2002: There was a text mining workshop at ISMB 2002 in Edmonton, Alberta, Canada on August 2nd, 2002. Here is the initial announcement. When the workshop has its own page, or I can otherwise get copies of or links to the papers, there'll be a link here.
Archives of even earlier News - Archives.
CONTRIBUTIONS: Send me your papers and reports or links to them. This site will improve primarily by the collection of contributions from researchers and practitioners from around the world. I would be happy to add links to any on-line papers and reports you have or are aware of or cache them on this site for easy access. Any links to other resources would also be most welcome.