Difference between revisions of "Msigdb dtd"

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<pre><br />    This is the DTD for MSigDB.<br /> It describes a format for a database of gene sets that captures<br /> both the content of a gene set (i.e gene members) as well as annotation about<br /> the gene set.<br /> @VERSION 1.0 May 2006<br /> @AUTHOR Aravind Subramanian<br /><br />DOCTYPE MSIGDB <br />ELEMENT MSIGDB GENESET*          -- top level container --&gt;<br />ATTLIST MSIGDB<br />  NAME CDATA #REQUIRED -- name of the database<br />  VERSION CDATA #REQUIRED -- version of the database<br /><br /><br />ELEMENT GENESET                  -- a single gene set --&gt;<br />ATTLIST GENESET<br /> STANDARD_NAME CDATA #REQUIRED -- an english name for the gene set<br /> SYSTEMATIC_NAME CDATA #REQUIRED -- a systematized identifier<br /> ORGANISM CDATA #REQUIRED -- organism in which the geneset was generated<br /> EXTERNAL_DETAILS_URL CDATA             -- 3rd party url for more info<br /> CHIP CDATA #REQUIRED -- platform on which the geneset was generated<br /> CATEGORY_CODE CDATA (C1|C2|C3|C4)<br /> SUB_CATEGORY_CODE CDATA (CYTO|PATH|ONTO|CURT|PERT|MODL|CLIN|REPM|TFAC|NEGH) <br /> CONTRIBUTOR CDATA #REQUIRED -- name of person/database that curated the set<br /> PMID CDATA -- PubMed ID if available<br /> GEOID CDATA -- GEO ID if available<br /> DESCRIPTION CDATA -- a full detailed desc or abstract<br /> DESCRIPTION_BRIEF CDATA #REQUIRED -- a brief 1 line description<br /> %MESH CDATA -- keywords and MESH identifiers<br /> %MEMBERS CDATA #REQUIRED -- Genes in the native format<br /> %MEMBERS_SYMBOLIZED CDATA #REQUIRED -- Genes after converting to gene symbols<br /><br /></pre>
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<pre> STANDARD_NAME CDATA #REQUIRED -- an english name for the gene set<br /> SYSTEMATIC_NAME CDATA #REQUIRED -- a systematized identifier<br /> ORGANISM CDATA #REQUIRED -- organism in which the geneset was generated<br /> EXTERNAL_DETAILS_URL CDATA             -- 3rd party url for more info<br /> CHIP CDATA #REQUIRED -- platform on which the geneset was generated<br /> CATEGORY_CODE CDATA (C1|C2|C3|C4)<br /> SUB_CATEGORY_CODE CDATA (CYTO|PATH|ONTO|CURT|PERT|MODL|CLIN|REPM|TFAC|NEGH) <br /> CONTRIBUTOR CDATA #REQUIRED -- name of person/database that curated the set<br /> PMID CDATA -- PubMed ID if available<br /> GEOID CDATA -- GEO ID if available<br /> DESCRIPTION CDATA -- a full detailed desc or abstract<br /> DESCRIPTION_BRIEF CDATA #REQUIRED -- a brief 1 line description<br /> %MESH CDATA -- keywords and MESH identifiers<br /> %MEMBERS CDATA #REQUIRED -- Genes in the native format<br /> %MEMBERS_SYMBOLIZED CDATA #REQUIRED -- Genes after converting to gene symbols</pre>

Revision as of 11:50, 24 March 2006


 

	STANDARD_NAME		CDATA	#REQUIRED	-- an english name for the gene set<br />	SYSTEMATIC_NAME		CDATA	#REQUIRED	-- a systematized identifier<br />	ORGANISM		CDATA	#REQUIRED	-- organism in which the geneset was generated<br />	EXTERNAL_DETAILS_URL	CDATA	    	        -- 3rd party url for more info<br />	CHIP			CDATA	#REQUIRED	-- platform on which the geneset was generated<br />	CATEGORY_CODE		CDATA	(C1|C2|C3|C4)<br />	SUB_CATEGORY_CODE	CDATA	(CYTO|PATH|ONTO|CURT|PERT|MODL|CLIN|REPM|TFAC|NEGH)	<br />	CONTRIBUTOR		CDATA	#REQUIRED	-- name of person/database that curated the set<br />	PMID			CDATA			-- PubMed ID if available<br />	GEOID			CDATA			-- GEO ID if available<br />	DESCRIPTION		CDATA			-- a full detailed desc or abstract<br />	DESCRIPTION_BRIEF	CDATA	#REQUIRED	-- a brief 1 line description<br />	%MESH			CDATA			-- keywords and MESH identifiers<br />	%MEMBERS		CDATA	#REQUIRED	-- Genes in the native format<br />	%MEMBERS_SYMBOLIZED	CDATA	#REQUIRED	-- Genes after converting to gene symbols
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