18.xml
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This document discusses XML (eXtensible Markup Language). It describes how XML is used to store and exchange data using user-defined tags. It can embed data within HTML code to display in browsers. XML has flexibility and is widely used in bioinformatics databases and services like NCBI, EMBL, DDBJ, and Gene Ontology. An example XML document is provided to showcase its structure with tags, elements, attributes, and proper nesting.
18.xml
- 2. XML ● eXtensible Markup Language ● Used for data exchangeover the web ● Similar to HTML ● Uses document type definition to define data ● Mainly used to make spreadsheets for financial data ● It allows one to create new tags ●
- 3. XML ● Stores data with user defined tags ● XML data can be embedded with HTML code and then used to display within a browser ● Its flexibility and robustness makes it a excellent choice to share data ● BLAST, FASTA produce XML format results ● NCBI, EMBL, DDBJ all use XML format ● PIR database can be downloaded in XML ● Also the Gene Ontology data
- 4. XML Example <?XML> version=”1.0”?> <eSearchResult> <Count>39655</Count> <RetMax>10</Retmax> <RetStart>0</RetStart> <IdList Date=”14/03/2015”> <IdList>123456789</ID> <IdList>123456799</ID> <IdList>123456999</ID> <IdList>123459999</ID> </IdList> </eSearchResult>
- 5. ● 1st line – XML Declaration – declares version ● 2nd line – first element of the root of document <eSearchResult> an object resulting from Entrex search ● Next 4 lines – child elements IdList, Count, RetMax, RetStart ● IdList has a date attribute and multiple Id sublements
- 6. NOTE ● All tags are case sensitive ● All elements must have a matching closing tag ● All elements must be correctly nested ● All attribute values must be quoted (“abc”)
- 7. Output ● EsearchResult – Count – RetMax – RetStart – IdList ● ID ● ID ● ID ● ID 123456789 123456799 123456999 123459999