A call for paper in

Literature Data Mining for Biology

A special session within the
Pacific Symposium on Biocomputing 2002
January 3-7, 2002
Kauai Marriott Resort and Beach Club

A large part of the information required for biology research can only be found in free-text form, as in MEDLINE abstracts, or in comment fields of relevant reports, as in GenBank feature table annotations. This information is important for many types of analysis, such as classification of proteins into functional groups, discovery of new functional relationships, maintenance of  information on material and methods, increased  precision and relevance of hits returned by BLAST, extraction of protein interaction information, and so on. However, information in free-text form or in comment fields is very difficult for automated systems to use. In addition, the extracted information  may need further enrichment, for example, through the inclusion of quantitative information about the interaction. This session will investigate how natural language and data mining techniques can provide and structure information relevant to biological applications. The session solicits papers on techniques and applications of natural language processing to the extraction of biological information from free text, including literature abstracts (e.g., MEDLINE), database annotations (e.g., GENBANK or PIR), and other relevant biology sources. It will emphasize the combination of natural language techniques with other biological information sources, such as database and sequence searches, to facilitate collection and organization of information about particular genes, proteins, or pathways. In particular, we are interested in:

Session co-chairs

Submission information

Submissions are due 16 July 2001
Decisions are announced 20 August 2001
Camera ready copy due 24 September 2001
Poster abstracts due 5 November 2001
Further information http://psb.stanford.edu

All papers must be submitted to russ.altman@stanford.edu in electronic format. The file formats we accept are: postscript (*.ps), adobe acrobat (*.pdf) and Microsoft Word documents (*.doc). Attached files should be named with the last name of the first author (e.g. altman.ps, altman.pdf, or altman.doc). Hardcopy submissions or unprocessed TEX or LATEX files will be rejected without review.

Each paper must be accompanied by a cover letter. The cover letter must state the following:

Submitted papers are limited to twelve (12) pages in our publication format. Please format your paper according to instructions found at ftp://ftp-smi.stanford.edu/pub/altman/psb. If figures can not be easily resized and placed precisely in the text, then it should be clear that with appropriate modifications, the total manuscript length would be within the page limit. Color pictures can be printed at the expense of the authors. The fee is $500 per page of color pictures, payable at the time of camera ready submission.