||This is Lincoln Stein's proposal for a Distributed Annotation System.
It is meant as a system to coordinate community annotations of genbank
sequences. It uses xml based on GFF to represent annotations, similar
|| A basic way of representing genomic annotations. GAME and
DAS both share features of GFF.
| XML Examples
||Some basic xml examples for biology.
||A very flexible dtd for biosequence data released by proteomics.
||A java package which contains a BlastXML dtd and some java parsers
for that dtd. Here's the dtd
directed at bioperl and an xsl
stylesheet for the dtd.
||Here's another blastxml that the guys from SmithKline Beecham posted
on the bioxml mailing list. Yes, it has the same name as the Pharm
Tools xml. Namespaces, anyone?
||Here's an xml from Peter Karp's group from Pangea Systems. XML-Based
Ontology Exchange Language is an xml for exchanging both database schema's
and data. It's based on relatively generic tags and could probably
represent almost any data.
| Brad's Paper
||Here's my paper from the fall of '99 detailing my thoughts on working
towards a biological xml standard. You'll see it's quite similar
to the ideas of the original bioxml designers who decided to base standards
around a set of tags instead of full dtd's.
||Alan Robinson's workshop on biology and xml. -> Lots of Word
and Powerpoint files.
| MicroArray dtd
||The MGED MicroArray XML unofficial homepage.