XML/BioXML Resources for Databases

The wonders of the internet! Surfing for references to XML documentation results in more documents than you can shake a stick at!

Here's a listing of some XML documentation that I've been pointed to which may help us begin to grasp what it is for and why it may be important.

• JDOM - The Java Document Model - a Java based solution for accessing, manipulating and outputting XML data
• GAME - Genome Annotation Markup Elements
• An XML Workshop for Biologists and Bioinformaticians by Alan Robinson
• Oracle's information on XML
XML Software - XML parsers and DTD Editors galore
• XML Zone - an on-line magazine of sorts for XML developers
• bio.perl.org's XML Project
• Visual Genomics' site - this company has coined BSML - Bioinformatic Sequence Markup Language as well as browsers for using it.
• The BIOpolymer Markup Language (BIOML) Home Page - another company (protometrics) and their standard for 'bioXML'
• IBM's XML Developer site
• Notes on an XML Introduction which I presented on March 1, 2000.
• Vanilla-XML a presentation from IBM descibing XML. Tired of being the only one on your team "in the know" about XML? Download our plain vanilla presentation on XML, customize it for your team, and bring your colleagues -- and especially your boss -- up to speed.
• XML Books some books from amazon.com which may be helpful for the XML-Database crowd.
• w3.org's XML pages
• Sun's JavaDox as a fully searchable XML document
• Catherine Letondal has a web page on biological XML and she also has some info on Bio widgets and other bio-objects here
• XML and Databases by Ronald Bourret, Technical University of Darmstadt. Also includes information on XML-DBMS - a project to transfer data between XML documents and relational databases
• Don't forget to check out CORBA, too!

More to come...