XML for Bioinformatics

• Main Author: Cerami, Ethan (Author)
• Corporate Author: SpringerLink (Online service)
• Format: Electronic eBook
• Language: English
• Published: New York, NY : Springer New York, 2005.
• Subjects: Computer science.; Computer organization.; Special purpose computers.; Programming languages (Electronic computers).; Coding theory.; Bioinformatics.; Computer Science.; Programming Languages, Compilers, Interpreters.; Special Purpose and Application-Based Systems.; Computer Systems Organization and Communication Networks.; Coding and Information Theory.

XML, or Extensible Markup Language, is rapidly becoming a critical tool in bioinformatics and biological data exchange. XML is currently used to represent a diverse set of biological data, from nucleotide and protein sequences to protein-protein interactions and signal transduction pathways. XML is...

Table of Contents:

• to XML for Bioinformatics
• Fundamentals of XML and BSML
• DTDs for Bioinformatics
• XML Schemas for Bioinformatics
• Parsing NCBI XML in Perl
• The Distributed Annotation System (DAS)
• Parsing DAS Data with SAX
• Parsing DAS Data with JDOM
• Web Services for Bioinformatics.