<!-- ============================================
     ::DATATOOL:: Generated from "docsum.asn"
     ::DATATOOL:: by application DATATOOL version 2.4.4
     ::DATATOOL:: on 09/25/2012 23:04:47
     ============================================ -->

<!-- ============================================ -->
<!-- This section is mapped from module "Docsum-3-4"
================================================= -->

<!--
 ============================================
 ::DATATOOL:: Generated from "docsum_3.4.xsd"
 ::DATATOOL:: by application DATATOOL version 2.1.0
 ::DATATOOL:: on 08/14/2012 12:01:24
 ============================================
 edited with XMLSPY v5 rel. 4 U (http://www.xmlspy.com) by Michael Kholodov (National Library of Medicine) 
 edited with XMLSpy v2005 rel. 3 U (http://www.altova.com) by Michael Feolo (NCBI/NLM/NIH) 
-->


<!ELEMENT Assay (
        Assay_attlist, 
        Assay_method, 
        Assay_taxonomy, 
        Assay_strains?, 
        Assay_comment?, 
        Assay_citation?)>

<!ELEMENT Assay_attlist (
        Assay_attlist_handle?, 
        Assay_attlist_batch?, 
        Assay_attlist_batchId?, 
        Assay_attlist_batchType?, 
        Assay_attlist_molType?, 
        Assay_attlist_sampleSize?, 
        Assay_attlist_population?, 
        Assay_attlist_linkoutUrl?)>

<!ELEMENT Assay_attlist_handle (#PCDATA)>

<!ELEMENT Assay_attlist_batch (#PCDATA)>

<!ELEMENT Assay_attlist_batchId (%INTEGER;)>

<!ELEMENT Assay_attlist_batchType %ENUM;>
<!ATTLIST Assay_attlist_batchType value (
        snpassay |
        validation |
        doublehit
        ) #REQUIRED >


<!ELEMENT Assay_attlist_molType %ENUM;>
<!ATTLIST Assay_attlist_molType value (
        genomic |
        cDNA |
        mito |
        chloro
        ) #REQUIRED >


<!ELEMENT Assay_attlist_sampleSize (%INTEGER;)>

<!ELEMENT Assay_attlist_population (#PCDATA)>

<!ELEMENT Assay_attlist_linkoutUrl (#PCDATA)>

<!ELEMENT Assay_method (
        Assay_method_eMethod?)>

<!ELEMENT Assay_method_eMethod (
        Assay_method_eMethod_attlist, 
        Assay_method_eMethod_exception)>

<!ELEMENT Assay_method_eMethod_attlist (
        Assay_method_eMethod_attlist_name?, 
        Assay_method_eMethod_attlist_id?)>

<!--Submitters method identifier -->
<!ELEMENT Assay_method_eMethod_attlist_name (#PCDATA)>

<!--dbSNP method identifier -->
<!ELEMENT Assay_method_eMethod_attlist_id (#PCDATA)>

<!--
description of deviation from/addition to
										given method 
-->
<!ELEMENT Assay_method_eMethod_exception (#PCDATA)>

<!ELEMENT Assay_taxonomy (
        Assay_taxonomy_attlist, 
        Assay_taxonomy_taxonomy)>

<!ELEMENT Assay_taxonomy_attlist (
        Assay_taxonomy_attlist_id, 
        Assay_taxonomy_attlist_organism?)>

<!--
NCBI taxonomy ID for
									variation
-->
<!ELEMENT Assay_taxonomy_attlist_id (%INTEGER;)>

<!ELEMENT Assay_taxonomy_attlist_organism (#PCDATA)>

<!ELEMENT Assay_taxonomy_taxonomy EMPTY>

<!ELEMENT Assay_strains (Assay_strains_E*)>


<!ELEMENT Assay_strains_E (#PCDATA)>

<!ELEMENT Assay_comment (#PCDATA)>

<!ELEMENT Assay_citation (Assay_citation_E*)>


<!ELEMENT Assay_citation_E (#PCDATA)>

<!--
A collection of genome sequence records (curated gene regions (NG's),
				contigs (NWNT's) and chromosomes (NC/AC's) produced by a genome sequence project.
				Structure is populated from ContigInfo tables.
-->
<!ELEMENT Assembly (
        Assembly_attlist, 
        Assembly_component?, 
        Assembly_snpStat)>

<!ELEMENT Assembly_attlist (
        Assembly_attlist_dbSnpBuild, 
        Assembly_attlist_genomeBuild, 
        Assembly_attlist_groupLabel?, 
        Assembly_attlist_assemblySource?, 
        Assembly_attlist_current?, 
        Assembly_attlist_reference?)>

<!--
dbSNP build number defining the rsid set aligned to this
						assembly
-->
<!ELEMENT Assembly_attlist_dbSnpBuild (%INTEGER;)>

<!--
assembly build number with possible 'subbuild' version
						numbers to reflect updates in gene annotation (human e.g. 34_3, 35_1,
						36_1)
-->
<!ELEMENT Assembly_attlist_genomeBuild (#PCDATA)>

<!--
High-level classification of the assembly to distinguish
						reference projects from alternate solutions. GroupLabel field from
						organism/build-specific ContigInfo tables. "reference" is occasionally used
						as the preferred assembly; standards will converge as additional organism
						genome projects are finished. Note that some organism assembly names include
						extended characters like '~' and '/' that may be incompatible with OS
						filename conventions.
-->
<!ELEMENT Assembly_attlist_groupLabel (#PCDATA)>

<!--
Name of the group(s) or organization(s) that generated the
						assembly
-->
<!ELEMENT Assembly_attlist_assemblySource (#PCDATA)>

<!--Marks the current genomic assembly -->
<!ELEMENT Assembly_attlist_current EMPTY>
<!ATTLIST Assembly_attlist_current value ( true | false ) #REQUIRED >


<!ELEMENT Assembly_attlist_reference EMPTY>
<!ATTLIST Assembly_attlist_reference value ( true | false ) #REQUIRED >


<!ELEMENT Assembly_component (Component*)>

<!ELEMENT Assembly_snpStat (
        Assembly_snpStat_attlist, 
        Assembly_snpStat_snpStat)>

<!ELEMENT Assembly_snpStat_attlist (
        Assembly_snpStat_attlist_mapWeight, 
        Assembly_snpStat_attlist_chromCount?, 
        Assembly_snpStat_attlist_placedContigCount?, 
        Assembly_snpStat_attlist_unplacedContigCount?, 
        Assembly_snpStat_attlist_seqlocCount?, 
        Assembly_snpStat_attlist_hapCount?)>
<!--
summary measure of placement precision in the
									assembly
-->
<!ELEMENT Assembly_snpStat_attlist_mapWeight %ENUM;>
<!ATTLIST Assembly_snpStat_attlist_mapWeight value (
        unmapped |
        unique-in-contig |
        two-hits-in-contig |
        less-10-hits |
        multiple-hits
        ) #REQUIRED >


<!--
number of distinct chromosomes in the
									mapset
-->
<!ELEMENT Assembly_snpStat_attlist_chromCount (%INTEGER;)>

<!--
number of distinct contigs [ gi |
									accession[.version] ] in the mapset
-->
<!ELEMENT Assembly_snpStat_attlist_placedContigCount (%INTEGER;)>

<!--
number of sequence postions to a contig with
									unknown chromosomal assignment
-->
<!ELEMENT Assembly_snpStat_attlist_unplacedContigCount (%INTEGER;)>

<!--
total number of sequence positions in the
									mapset
-->
<!ELEMENT Assembly_snpStat_attlist_seqlocCount (%INTEGER;)>

<!--
Number of hits to alternative genomic haplotypes
									(e.g. HLA DR region, KIR, or pseudo-autosomal regions like PAR)
									within the assembly mapset. Note that positions on haplotypes
									defined in other assemblies (a different assembly_group_label
									value) will not be counted in this value.
-->
<!ELEMENT Assembly_snpStat_attlist_hapCount (%INTEGER;)>

<!ELEMENT Assembly_snpStat_snpStat EMPTY>

<!--
URL value from dbSNP_main.BaseURL links table. attributes provide
				context information and URL id that is referenced within individual refSNP
				objects.
-->
<!ELEMENT BaseURL (
        BaseURL_attlist, 
        BaseURL_baseURL)>

<!ELEMENT BaseURL_attlist (
        BaseURL_attlist_urlId?, 
        BaseURL_attlist_resourceName?, 
        BaseURL_attlist_resourceId?)>

<!--
Resource identifier from
								dbSNP_main.baseURL.
-->
<!ELEMENT BaseURL_attlist_urlId (%INTEGER;)>

<!--Name of linked resource -->
<!ELEMENT BaseURL_attlist_resourceName (#PCDATA)>

<!--
identifier expected by resource for
								URL
-->
<!ELEMENT BaseURL_attlist_resourceId (#PCDATA)>

<!--
URL value from dbSNP_main.BaseURL links table. attributes provide
				context information and URL id that is referenced within individual refSNP
				objects.
-->
<!ELEMENT BaseURL_baseURL (#PCDATA)>


<!ELEMENT Component (
        Component_attlist, 
        Component_mapLoc)>

<!ELEMENT Component_attlist (
        Component_attlist_componentType?, 
        Component_attlist_ctgId?, 
        Component_attlist_accession?, 
        Component_attlist_name?, 
        Component_attlist_chromosome?, 
        Component_attlist_start?, 
        Component_attlist_end?, 
        Component_attlist_orientation?, 
        Component_attlist_gi?, 
        Component_attlist_groupTerm?, 
        Component_attlist_contigLabel?)>
<!--
type of component: chromosome, contig, gene_region,
						etc.
-->
<!ELEMENT Component_attlist_componentType %ENUM;>
<!ATTLIST Component_attlist_componentType value (
        contig |
        mrna
        ) #REQUIRED >


<!--
dbSNP contig_id used to join on contig hit / mapset data to
						these assembly properties
-->
<!ELEMENT Component_attlist_ctgId (%INTEGER;)>

<!--
Accession[.version] for the sequence
						component
-->
<!ELEMENT Component_attlist_accession (#PCDATA)>

<!--
contig name defined as either a submitter local id, element
						of a whole genome assembly set, or internal NCBI local
						id
-->
<!ELEMENT Component_attlist_name (#PCDATA)>

<!--
Organism appropriate chromosome tag, 'Un' reserved for
						default case of unplaced components
-->
<!ELEMENT Component_attlist_chromosome (#PCDATA)>

<!--
component starting position on the chromosome (base 0
						inclusive)
-->
<!ELEMENT Component_attlist_start (%INTEGER;)>

<!--
component ending position on the chromosome (base 0
						inclusive)
-->
<!ELEMENT Component_attlist_end (%INTEGER;)>
<!--
orientation of this component to chromosome, forward (fwd) =
						0, reverse (rev) = 1, unknown = NULL in
						ContigInfo.orient.
-->
<!ELEMENT Component_attlist_orientation %ENUM;>
<!ATTLIST Component_attlist_orientation value (
        fwd |
        rev |
        unknown
        ) #REQUIRED >


<!--
NCBI gi for component sequence (equivalent to
						accession.version) for nucleotide sequence.
-->
<!ELEMENT Component_attlist_gi (#PCDATA)>

<!--
Identifier label for the genome assembly that defines the
						contigs in this mapset and their placement within the organism genome.
-->
<!ELEMENT Component_attlist_groupTerm (#PCDATA)>

<!--Display label for component -->
<!ELEMENT Component_attlist_contigLabel (#PCDATA)>

<!ELEMENT Component_mapLoc (MapLoc*)>

<!--Set of dbSNP refSNP docsums, version 3.4 -->
<!ELEMENT ExchangeSet (
        ExchangeSet_attlist, 
        ExchangeSet_sourceDatabase?, 
        ExchangeSet_rs?, 
        ExchangeSet_assay?, 
        ExchangeSet_query?, 
        ExchangeSet_summary?, 
        ExchangeSet_baseURL?)>

<!ELEMENT ExchangeSet_attlist (
        ExchangeSet_attlist_setType?, 
        ExchangeSet_attlist_setDepth?, 
        ExchangeSet_attlist_specVersion?, 
        ExchangeSet_attlist_dbSnpBuild?, 
        ExchangeSet_attlist_generated?)>

<!--
set-type: full dump; from query; single
						refSNP
-->
<!ELEMENT ExchangeSet_attlist_setType (#PCDATA)>

<!--
content depth: brief XML (only refSNP properties and summary
						subSNP element content); full XML (full refSNP, full subSNP content; all
						flanking sequences) 
-->
<!ELEMENT ExchangeSet_attlist_setDepth (#PCDATA)>

<!--
version number of docsum.asn/docsum.dtd
						specification
-->
<!ELEMENT ExchangeSet_attlist_specVersion (#PCDATA)>

<!--build number of database for this export -->
<!ELEMENT ExchangeSet_attlist_dbSnpBuild (%INTEGER;)>

<!--Generated date -->
<!ELEMENT ExchangeSet_attlist_generated (#PCDATA)>

<!ELEMENT ExchangeSet_sourceDatabase (
        ExchangeSet_sourceDatabase_attlist, 
        ExchangeSet_sourceDatabase_sourceDatabase)>

<!ELEMENT ExchangeSet_sourceDatabase_attlist (
        ExchangeSet_sourceDatabase_attlist_taxId, 
        ExchangeSet_sourceDatabase_attlist_organism, 
        ExchangeSet_sourceDatabase_attlist_dbSnpOrgAbbr?, 
        ExchangeSet_sourceDatabase_attlist_gpipeOrgAbbr?)>

<!--
NCBI taxonomy ID for
									variation
-->
<!ELEMENT ExchangeSet_sourceDatabase_attlist_taxId (%INTEGER;)>

<!--
common name for species used as part of database
									name.
-->
<!ELEMENT ExchangeSet_sourceDatabase_attlist_organism (#PCDATA)>

<!--organism abbreviation used in dbSNP. -->
<!ELEMENT ExchangeSet_sourceDatabase_attlist_dbSnpOrgAbbr (#PCDATA)>

<!--
organism abbreviation used within NCBI genome
									pipeline data dumps.
-->
<!ELEMENT ExchangeSet_sourceDatabase_attlist_gpipeOrgAbbr (#PCDATA)>

<!ELEMENT ExchangeSet_sourceDatabase_sourceDatabase EMPTY>

<!ELEMENT ExchangeSet_rs (Rs*)>

<!ELEMENT ExchangeSet_assay (Assay)>

<!ELEMENT ExchangeSet_query (
        ExchangeSet_query_attlist, 
        ExchangeSet_query_query)>

<!ELEMENT ExchangeSet_query_attlist (
        ExchangeSet_query_attlist_date?, 
        ExchangeSet_query_attlist_string?)>

<!--yyyy-mm-dd -->
<!ELEMENT ExchangeSet_query_attlist_date (#PCDATA)>

<!--
Query terms or search
									constraints
-->
<!ELEMENT ExchangeSet_query_attlist_string (#PCDATA)>

<!ELEMENT ExchangeSet_query_query EMPTY>

<!ELEMENT ExchangeSet_summary (
        ExchangeSet_summary_attlist, 
        ExchangeSet_summary_summary)>

<!ELEMENT ExchangeSet_summary_attlist (
        ExchangeSet_summary_attlist_numRsIds?, 
        ExchangeSet_summary_attlist_totalSeqLength?, 
        ExchangeSet_summary_attlist_numContigHits?, 
        ExchangeSet_summary_attlist_numGeneHits?, 
        ExchangeSet_summary_attlist_numGiHits?, 
        ExchangeSet_summary_attlist_num3dStructs?, 
        ExchangeSet_summary_attlist_numAlleleFreqs?, 
        ExchangeSet_summary_attlist_numStsHits?, 
        ExchangeSet_summary_attlist_numUnigeneCids?)>

<!--Total number of refsnp-ids in this exchange set -->
<!ELEMENT ExchangeSet_summary_attlist_numRsIds (%INTEGER;)>

<!--
Total length of exemplar flanking
									sequences
-->
<!ELEMENT ExchangeSet_summary_attlist_totalSeqLength (%INTEGER;)>

<!--
Total number of contig locations from
									SNPContigLoc
-->
<!ELEMENT ExchangeSet_summary_attlist_numContigHits (%INTEGER;)>

<!--
Total number of locus ids from
									SNPContigLocusId
-->
<!ELEMENT ExchangeSet_summary_attlist_numGeneHits (%INTEGER;)>

<!--
Total number of gi hits from
									MapLink
-->
<!ELEMENT ExchangeSet_summary_attlist_numGiHits (%INTEGER;)>

<!--
Total number of 3D structures from
									SNP3D
-->
<!ELEMENT ExchangeSet_summary_attlist_num3dStructs (%INTEGER;)>

<!--
Total number of allele frequences from
									SubPopAllele
-->
<!ELEMENT ExchangeSet_summary_attlist_numAlleleFreqs (%INTEGER;)>

<!--
Total number of STS hits from
									SnpInSts
-->
<!ELEMENT ExchangeSet_summary_attlist_numStsHits (%INTEGER;)>

<!--
Total number of unigene cluster ids from
									UnigeneSnp
-->
<!ELEMENT ExchangeSet_summary_attlist_numUnigeneCids (%INTEGER;)>

<!ELEMENT ExchangeSet_summary_summary EMPTY>

<!ELEMENT ExchangeSet_baseURL (BaseURL*)>

<!--
functional relationship of SNP (and possibly alleles) to genes at
				contig location as defined in organism-specific bxxx_SNPContigLocusId_xxx
				tables.
-->
<!ELEMENT FxnSet (
        FxnSet_attlist, 
        FxnSet_fxnSet)>

<!ELEMENT FxnSet_attlist (
        FxnSet_attlist_geneId?, 
        FxnSet_attlist_symbol?, 
        FxnSet_attlist_mrnaAcc?, 
        FxnSet_attlist_mrnaVer?, 
        FxnSet_attlist_protAcc?, 
        FxnSet_attlist_protVer?, 
        FxnSet_attlist_fxnClass?, 
        FxnSet_attlist_readingFrame?, 
        FxnSet_attlist_allele?, 
        FxnSet_attlist_residue?, 
        FxnSet_attlist_aaPosition?, 
        FxnSet_attlist_mrnaPosition?, 
        FxnSet_attlist_soTerm?)>

<!--gene-id of gene as aligned to contig -->
<!ELEMENT FxnSet_attlist_geneId (%INTEGER;)>

<!--
symbol (official if present in Entrez Gene) of
						gene
-->
<!ELEMENT FxnSet_attlist_symbol (#PCDATA)>

<!--mRNA accession if variation in transcript -->
<!ELEMENT FxnSet_attlist_mrnaAcc (#PCDATA)>

<!--
mRNA sequence version if variation is in
						transcripot
-->
<!ELEMENT FxnSet_attlist_mrnaVer (%INTEGER;)>

<!--protein accession if variation in protein -->
<!ELEMENT FxnSet_attlist_protAcc (#PCDATA)>

<!--
protein version if variation is in
						protein
-->
<!ELEMENT FxnSet_attlist_protVer (%INTEGER;)>
<!--
variation in region of gene, but not in
										transcript - deprecated
-->
<!ELEMENT FxnSet_attlist_fxnClass %ENUM;>
<!ATTLIST FxnSet_attlist_fxnClass value (
        locus-region |
        coding-unknown |
        synonymous-codon |
        non-synonymous-codon |
        mrna-utr |
        intron-variant |
        splice-region-variant |
        reference |
        coding-exception |
        coding-sequence-variant |
        nc-transcript-variant |
        downstream-variant-500B |
        upstream-variant-2KB |
        nonsense |
        missense |
        frameshift-variant |
        utr-variant-3-prime |
        utr-variant-5-prime |
        splice-acceptor-variant |
        splice-donor-variant |
        cds-indel |
        stop-gained |
        stop-lost |
        complex-change-in-transcript |
        incomplete-terminal-codon-variant |
        nmd-transcript-variant |
        mature-miRNA-variant |
        upstream-variant-5KB |
        downstream-variant-5KB |
        intergenic
        ) #REQUIRED >


<!ELEMENT FxnSet_attlist_readingFrame (%INTEGER;)>

<!--
variation allele: * suffix indicates allele of contig at this
						location
-->
<!ELEMENT FxnSet_attlist_allele (#PCDATA)>

<!--translated amino acid residue for allele -->
<!ELEMENT FxnSet_attlist_residue (#PCDATA)>

<!--
position of the variant residue in peptide
						sequence
-->
<!ELEMENT FxnSet_attlist_aaPosition (%INTEGER;)>

<!ELEMENT FxnSet_attlist_mrnaPosition (%INTEGER;)>

<!ELEMENT FxnSet_attlist_soTerm (#PCDATA)>

<!--
functional relationship of SNP (and possibly alleles) to genes at
				contig location as defined in organism-specific bxxx_SNPContigLocusId_xxx
				tables.
-->
<!ELEMENT FxnSet_fxnSet EMPTY>

<!--
Position of a single hit of a variation on a
				contig
-->
<!ELEMENT MapLoc (
        MapLoc_attlist, 
        MapLoc_fxnSet?)>

<!ELEMENT MapLoc_attlist (
        MapLoc_attlist_asnFrom, 
        MapLoc_attlist_asnTo, 
        MapLoc_attlist_locType, 
        MapLoc_attlist_alnQuality?, 
        MapLoc_attlist_orient?, 
        MapLoc_attlist_physMapInt?, 
        MapLoc_attlist_leftFlankNeighborPos?, 
        MapLoc_attlist_rightFlankNeighborPos?, 
        MapLoc_attlist_leftContigNeighborPos?, 
        MapLoc_attlist_rightContigNeighborPos?, 
        MapLoc_attlist_numberOfMismatches?, 
        MapLoc_attlist_numberOfDeletions?, 
        MapLoc_attlist_numberOfInsertions?, 
        MapLoc_attlist_refAllele?)>

<!--
beginning of variation as feature on
						contig
-->
<!ELEMENT MapLoc_attlist_asnFrom (%INTEGER;)>

<!--
end position of variation as feature on
						contig
-->
<!ELEMENT MapLoc_attlist_asnTo (%INTEGER;)>
<!--
defines the seq-loc symbol if asn_from !=
						asn_to
-->
<!ELEMENT MapLoc_attlist_locType %ENUM;>
<!ATTLIST MapLoc_attlist_locType value (
        insertion |
        exact |
        deletion |
        range-ins |
        range-exact |
        range-del
        ) #REQUIRED >


<!--alignment qualiity -->
<!ELEMENT MapLoc_attlist_alnQuality (%REAL;)>
<!--
orientation of refSNP sequence to contig
						sequence
-->
<!ELEMENT MapLoc_attlist_orient %ENUM;>
<!ATTLIST MapLoc_attlist_orient value (
        forward |
        reverse
        ) #REQUIRED >


<!--
chromosome position as integer for
						sorting
-->
<!ELEMENT MapLoc_attlist_physMapInt (%INTEGER;)>

<!--
nearest aligned position in 5' flanking sequence of
						snp
-->
<!ELEMENT MapLoc_attlist_leftFlankNeighborPos (%INTEGER;)>

<!--nearest aligned position in 3' flanking sequence of snp -->
<!ELEMENT MapLoc_attlist_rightFlankNeighborPos (%INTEGER;)>

<!--
nearest aligned position in 5' contig alignment of
						snp
-->
<!ELEMENT MapLoc_attlist_leftContigNeighborPos (%INTEGER;)>

<!--
nearest aligned position in 3' contig alignment of
						snp
-->
<!ELEMENT MapLoc_attlist_rightContigNeighborPos (%INTEGER;)>

<!--
number of Mismatched positions in this
						alignment
-->
<!ELEMENT MapLoc_attlist_numberOfMismatches (%INTEGER;)>

<!--number of deletions in this alignment -->
<!ELEMENT MapLoc_attlist_numberOfDeletions (%INTEGER;)>

<!--number of insetions in this alignment -->
<!ELEMENT MapLoc_attlist_numberOfInsertions (%INTEGER;)>

<!ELEMENT MapLoc_attlist_refAllele (#PCDATA)>

<!ELEMENT MapLoc_fxnSet (FxnSet*)>


<!ELEMENT PrimarySequence (
        PrimarySequence_attlist, 
        PrimarySequence_mapLoc)>

<!ELEMENT PrimarySequence_attlist (
        PrimarySequence_attlist_dbSnpBuild, 
        PrimarySequence_attlist_gi, 
        PrimarySequence_attlist_source?, 
        PrimarySequence_attlist_accession?)>

<!ELEMENT PrimarySequence_attlist_dbSnpBuild (%INTEGER;)>

<!ELEMENT PrimarySequence_attlist_gi (%INTEGER;)>

<!ELEMENT PrimarySequence_attlist_source %ENUM;>
<!ATTLIST PrimarySequence_attlist_source value (
        submitter |
        blastmb |
        xm |
        remap |
        hgvs
        ) #REQUIRED >


<!ELEMENT PrimarySequence_attlist_accession (#PCDATA)>

<!ELEMENT PrimarySequence_mapLoc (MapLoc*)>

<!--
defines the docsum structure for refSNP clusters, where a refSNP
				cluster (rs) is a grouping of individual dbSNP submissions that all refer to the
				same variation. The refsnp provides a single unified record for annotation of NCBI
				resources such as reference genome sequence.
-->
<!ELEMENT Rs (
        Rs_attlist, 
        Rs_het?, 
        Rs_validation, 
        Rs_create, 
        Rs_update?, 
        Rs_sequence, 
        Rs_ss, 
        Rs_assembly?, 
        Rs_primarySequence?, 
        Rs_rsStruct?, 
        Rs_rsLinkout?, 
        Rs_mergeHistory?, 
        Rs_hgvs?, 
        Rs_alleleOrigin?, 
        Rs_phenotype?, 
        Rs_bioSource?, 
        Rs_frequency?)>

<!ELEMENT Rs_attlist (
        Rs_attlist_rsId, 
        Rs_attlist_snpClass, 
        Rs_attlist_snpType, 
        Rs_attlist_molType, 
        Rs_attlist_validProbMin?, 
        Rs_attlist_validProbMax?, 
        Rs_attlist_genotype?, 
        Rs_attlist_bitField?, 
        Rs_attlist_taxId?)>

<!--refSNP (rs) number -->
<!ELEMENT Rs_attlist_rsId (%INTEGER;)>

<!ELEMENT Rs_attlist_snpClass %ENUM;>
<!ATTLIST Rs_attlist_snpClass value (
        snp |
        in-del |
        heterozygous |
        microsatellite |
        named-locus |
        no-variation |
        mixed |
        multinucleotide-polymorphism
        ) #REQUIRED >


<!ELEMENT Rs_attlist_snpType %ENUM;>
<!ATTLIST Rs_attlist_snpType value (
        notwithdrawn |
        artifact |
        gene-duplication |
        duplicate-submission |
        notspecified |
        ambiguous-location |
        low-map-quality
        ) #REQUIRED >


<!ELEMENT Rs_attlist_molType %ENUM;>
<!ATTLIST Rs_attlist_molType value (
        genomic |
        cDNA |
        mito |
        chloro |
        unknown
        ) #REQUIRED >


<!--
minimum reported success rate of all submissions in
						cluster
-->
<!ELEMENT Rs_attlist_validProbMin (%INTEGER;)>

<!--
maximum reported success rate of all submissions in
						cluster
-->
<!ELEMENT Rs_attlist_validProbMax (%INTEGER;)>

<!--
at least one genotype reported for this
						refSNP
-->
<!ELEMENT Rs_attlist_genotype EMPTY>
<!ATTLIST Rs_attlist_genotype value ( true | false ) #REQUIRED >


<!ELEMENT Rs_attlist_bitField (#PCDATA)>

<!ELEMENT Rs_attlist_taxId (%INTEGER;)>

<!ELEMENT Rs_het (
        Rs_het_attlist, 
        Rs_het_het)>

<!ELEMENT Rs_het_attlist (
        Rs_het_attlist_type, 
        Rs_het_attlist_value, 
        Rs_het_attlist_stdError?)>
<!--
Est=Estimated average het from allele
									frequencies, Obs=Observed from genotype data
-->
<!ELEMENT Rs_het_attlist_type %ENUM;>
<!ATTLIST Rs_het_attlist_type value (
        est |
        obs
        ) #REQUIRED >


<!--Heterozygosity -->
<!ELEMENT Rs_het_attlist_value (%REAL;)>

<!--
Standard error of Het
									estimate
-->
<!ELEMENT Rs_het_attlist_stdError (%REAL;)>

<!ELEMENT Rs_het_het EMPTY>

<!ELEMENT Rs_validation (
        Rs_validation_attlist, 
        Rs_validation_otherPopBatchId?, 
        Rs_validation_twoHit2AlleleBatchId?, 
        Rs_validation_frequencyClass?, 
        Rs_validation_hapMapPhase?, 
        Rs_validation_tGPPhase?, 
        Rs_validation_suspectEvidence?)>

<!ELEMENT Rs_validation_attlist (
        Rs_validation_attlist_byCluster?, 
        Rs_validation_attlist_byFrequency?, 
        Rs_validation_attlist_byOtherPop?, 
        Rs_validation_attlist_by2Hit2Allele?, 
        Rs_validation_attlist_byHapMap?, 
        Rs_validation_attlist_by1000G?, 
        Rs_validation_attlist_suspect?)>

<!--
at least one subsnp in cluster has frequency data
									submitted
-->
<!ELEMENT Rs_validation_attlist_byCluster EMPTY>
<!ATTLIST Rs_validation_attlist_byCluster value ( true | false ) #REQUIRED >


<!--Validated by allele frequency -->
<!ELEMENT Rs_validation_attlist_byFrequency EMPTY>
<!ATTLIST Rs_validation_attlist_byFrequency value ( true | false ) #REQUIRED >


<!ELEMENT Rs_validation_attlist_byOtherPop EMPTY>
<!ATTLIST Rs_validation_attlist_byOtherPop value ( true | false ) #REQUIRED >


<!--
cluster has 2+ submissions, with 1+ submissions
									assayed with a non-computational method
-->
<!ELEMENT Rs_validation_attlist_by2Hit2Allele EMPTY>
<!ATTLIST Rs_validation_attlist_by2Hit2Allele value ( true | false ) #REQUIRED >


<!--Validated by HapMap Project  -->
<!ELEMENT Rs_validation_attlist_byHapMap EMPTY>
<!ATTLIST Rs_validation_attlist_byHapMap value ( true | false ) #REQUIRED >


<!--Validated by 1000 Genomes Project -->
<!ELEMENT Rs_validation_attlist_by1000G EMPTY>
<!ATTLIST Rs_validation_attlist_by1000G value ( true | false ) #REQUIRED >


<!--Suspected to be false SNP -->
<!ELEMENT Rs_validation_attlist_suspect EMPTY>
<!ATTLIST Rs_validation_attlist_suspect value ( true | false ) #REQUIRED >


<!--
dbSNP batch-id's for other pop snp validation
										data.
-->
<!ELEMENT Rs_validation_otherPopBatchId (Rs_validation_otherPopBatchId_E*)>


<!ELEMENT Rs_validation_otherPopBatchId_E (%INTEGER;)>

<!--
dbSNP batch-id's for double-hit snp
										validation data. Use batch-id to get methods, etc.
-->
<!ELEMENT Rs_validation_twoHit2AlleleBatchId (Rs_validation_twoHit2AlleleBatchId_E*)>


<!ELEMENT Rs_validation_twoHit2AlleleBatchId_E (%INTEGER;)>

<!--
Frequency validation class (1) low frequency
										variation that is cited in journal and other reputable
										sources (2) greater than 5 percent minor allele freq in each
										and all populations (4) greater than 5 percent minor allele
										freq in 1+ populations (8) if the variant has 2+ minor
										allele count based on freq or genotype data (16) less than 1
										percent minor allele freq in each and all populations (32)
										less than 1 percent minor freq in 1+ populations
-->
<!ELEMENT Rs_validation_frequencyClass (Rs_validation_frequencyClass_E*)>


<!ELEMENT Rs_validation_frequencyClass_E (%INTEGER;)>

<!--
alidated by HapMap Project phase1-genotyped
										(1), Phase 1 genotyped; filtered, non-redundant
										phase2-genotyped (2), Phase 2 genotyped; filtered,
										non-redundant phase3-genotyped (4) Phase 3 genotyped;
										filtered, non-redundant 
-->
<!ELEMENT Rs_validation_hapMapPhase (Rs_validation_hapMapPhase_E*)>


<!ELEMENT Rs_validation_hapMapPhase_E (%INTEGER;)>

<!--
Validated by 1000 Genomes Project (TGP) pilot
										1 (1), pilot 2 (2), pilot 3 (4) 
-->
<!ELEMENT Rs_validation_tGPPhase (Rs_validation_tGPPhase_E*)>


<!ELEMENT Rs_validation_tGPPhase_E (%INTEGER;)>

<!--
Suspected to be false SNP evidence Single
										Nucleotide Difference - paralogous genes (1), Genotype or
										base calling errors (2), Submission evidence or errors (4),
										Others (8) 
-->
<!ELEMENT Rs_validation_suspectEvidence (Rs_validation_suspectEvidence_E*)>


<!ELEMENT Rs_validation_suspectEvidence_E (#PCDATA)>
<!--
date the refsnp cluster was
							instantiated
date the refsnp cluster was
							instantiated
-->
<!ELEMENT Rs_create (
        Rs_create_attlist, 
        Rs_create_create)>

<!ELEMENT Rs_create_attlist (
        Rs_create_attlist_build?, 
        Rs_create_attlist_date?)>

<!--
build number when the cluster was
									created
-->
<!ELEMENT Rs_create_attlist_build (%INTEGER;)>

<!--yyyy-mm-dd -->
<!ELEMENT Rs_create_attlist_date (#PCDATA)>

<!--
date the refsnp cluster was
							instantiated
-->
<!ELEMENT Rs_create_create EMPTY>
<!--
most recent date the cluster was updated (member added or
							deleted)
most recent date the cluster was updated (member added or
							deleted)
-->
<!ELEMENT Rs_update (
        Rs_update_attlist, 
        Rs_update_update)>

<!ELEMENT Rs_update_attlist (
        Rs_update_attlist_build?, 
        Rs_update_attlist_date?)>

<!--
build number when the cluster was
									updated
-->
<!ELEMENT Rs_update_attlist_build (%INTEGER;)>

<!--yyyy-mm-dd -->
<!ELEMENT Rs_update_attlist_date (#PCDATA)>

<!--
most recent date the cluster was updated (member added or
							deleted)
-->
<!ELEMENT Rs_update_update EMPTY>

<!ELEMENT Rs_sequence (
        Rs_sequence_attlist, 
        Rs_sequence_seq5?, 
        Rs_sequence_observed, 
        Rs_sequence_seq3?)>

<!ELEMENT Rs_sequence_attlist (
        Rs_sequence_attlist_exemplarSs, 
        Rs_sequence_attlist_ancestralAllele?)>

<!--
dbSNP ss# selected as source of refSNP flanking
									sequence, ss# part of ss-list below 
-->
<!ELEMENT Rs_sequence_attlist_exemplarSs (%INTEGER;)>

<!ELEMENT Rs_sequence_attlist_ancestralAllele (#PCDATA)>

<!--
5' sequence that flanks the
										variation
-->
<!ELEMENT Rs_sequence_seq5 (#PCDATA)>

<!--
list of all nucleotide alleles observed in
										ss-list members, correcting for reverse complementation of
										members reported in reverse orientation
-->
<!ELEMENT Rs_sequence_observed (#PCDATA)>

<!--
3' sequence that flanks the
										variation
-->
<!ELEMENT Rs_sequence_seq3 (#PCDATA)>

<!ELEMENT Rs_ss (Ss*)>

<!ELEMENT Rs_assembly (Assembly*)>

<!ELEMENT Rs_primarySequence (PrimarySequence*)>

<!ELEMENT Rs_rsStruct (RsStruct*)>

<!ELEMENT Rs_rsLinkout (RsLinkout*)>

<!ELEMENT Rs_mergeHistory (Rs_mergeHistory_E*)>


<!ELEMENT Rs_mergeHistory_E (
        Rs_mergeHistory_E_attlist, 
        Rs_mergeHistory_E_mergeHistory)>

<!ELEMENT Rs_mergeHistory_E_attlist (
        Rs_mergeHistory_E_attlist_rsId, 
        Rs_mergeHistory_E_attlist_buildId?, 
        Rs_mergeHistory_E_attlist_orientFlip?)>

<!--
previously issued rs id whose member assays have
									now been merged
-->
<!ELEMENT Rs_mergeHistory_E_attlist_rsId (%INTEGER;)>

<!--
build id when rs id was merged into parent
									rs
-->
<!ELEMENT Rs_mergeHistory_E_attlist_buildId (%INTEGER;)>

<!--
TRUE if strand of rs id is reverse to parent
									object's current strand
-->
<!ELEMENT Rs_mergeHistory_E_attlist_orientFlip EMPTY>
<!ATTLIST Rs_mergeHistory_E_attlist_orientFlip value ( true | false ) #REQUIRED >


<!ELEMENT Rs_mergeHistory_E_mergeHistory EMPTY>

<!-- HGVS name list  -->
<!ELEMENT Rs_hgvs (Rs_hgvs_E*)>


<!ELEMENT Rs_hgvs_E (#PCDATA)>
<!--
							origin of this allele, if known
							note that these are powers-of-two, and represent bits; thus, we can
							represent more than one state simultaneously through a bitwise OR
							unknown         (0),
							germline        (1),
							somatic         (2),
							inherited       (4),
							paternal        (8),
							maternal        (16),
							de-novo         (32),
							biparental      (64),
							uniparental     (128),
							not-tested      (256),
							tested-inconclusive (512),
							origin of this allele, if known
							note that these are powers-of-two, and represent bits; thus, we can
							represent more than one state simultaneously through a bitwise OR
							unknown         (0),
							germline        (1),
							somatic         (2),
							inherited       (4),
							paternal        (8),
							maternal        (16),
							de-novo         (32),
							biparental      (64),
							uniparental     (128),
							not-tested      (256),
							tested-inconclusive (512),
-->
<!ELEMENT Rs_alleleOrigin (Rs_alleleOrigin_E*)>


<!ELEMENT Rs_alleleOrigin_E (
        Rs_alleleOrigin_E_attlist, 
        Rs_alleleOrigin_E_alleleOrigin)>

<!ELEMENT Rs_alleleOrigin_E_attlist (
        Rs_alleleOrigin_E_attlist_allele?)>

<!ELEMENT Rs_alleleOrigin_E_attlist_allele (#PCDATA)>

<!--
							origin of this allele, if known
							note that these are powers-of-two, and represent bits; thus, we can
							represent more than one state simultaneously through a bitwise OR
							unknown         (0),
							germline        (1),
							somatic         (2),
							inherited       (4),
							paternal        (8),
							maternal        (16),
							de-novo         (32),
							biparental      (64),
							uniparental     (128),
							not-tested      (256),
							tested-inconclusive (512),
-->
<!ELEMENT Rs_alleleOrigin_E_alleleOrigin (%INTEGER;)>

<!ELEMENT Rs_phenotype (Rs_phenotype_E*)>


<!ELEMENT Rs_phenotype_E (
        Rs_phenotype_E_clinicalSignificance?)>

<!--
										unknown                 (0),
										untested                (1),
										non-pathogenic          (2),
										probable-non-pathogenic (3),
										probable-pathogenic     (4),
										pathogenic              (5),
										drug response           (6),
										other                   (255)
-->
<!ELEMENT Rs_phenotype_E_clinicalSignificance (Rs_phenotype_E_clinicalSignificance_E*)>


<!ELEMENT Rs_phenotype_E_clinicalSignificance_E (#PCDATA)>

<!ELEMENT Rs_bioSource (Rs_bioSource_E*)>


<!ELEMENT Rs_bioSource_E (
        Rs_bioSource_E_genome?, 
        Rs_bioSource_E_origin?)>

<!--
										unknown (0) ,
										genomic (1) ,
										chloroplast (2) ,
										chromoplast (3) ,
										kinetoplast (4) ,
										mitochondrion (5) ,
										plastid (6) ,
										macronuclear (7) ,
										extrachrom (8) ,
										plasmid (9) ,
										transposon (10) ,
										insertion-seq (11) ,
										cyanelle (12) ,
										proviral (13) ,
										virion (14) ,
										nucleomorph (15) ,
										apicoplast (16) ,
										leucoplast (17) ,
										proplastid (18) ,
										endogenous-virus (19) ,
										hydrogenosome (20) ,
										chromosome (21) ,
										chromatophore (22)
-->
<!ELEMENT Rs_bioSource_E_genome (Rs_bioSource_E_genome_E*)>


<!ELEMENT Rs_bioSource_E_genome_E (#PCDATA)>

<!--
										unknown (0) ,
										natural (1) ,                    normal biological entity
										natmut (2) ,                    naturally occurring mutant
										mut (3) ,                        artificially mutagenized
										artificial (4) ,                 artificially engineered
										synthetic (5) ,                 purely synthetic
										other (255)
-->
<!ELEMENT Rs_bioSource_E_origin (Rs_bioSource_E_origin_E*)>


<!ELEMENT Rs_bioSource_E_origin_E (#PCDATA)>

<!ELEMENT Rs_frequency (Rs_frequency_E*)>


<!ELEMENT Rs_frequency_E (
        Rs_frequency_E_attlist, 
        Rs_frequency_E_frequency)>

<!ELEMENT Rs_frequency_E_attlist (
        Rs_frequency_E_attlist_freq?, 
        Rs_frequency_E_attlist_allele?, 
        Rs_frequency_E_attlist_popId?, 
        Rs_frequency_E_attlist_sampleSize?)>

<!ELEMENT Rs_frequency_E_attlist_freq (%REAL;)>

<!ELEMENT Rs_frequency_E_attlist_allele (#PCDATA)>

<!--dbSNP Populaton ID -->
<!ELEMENT Rs_frequency_E_attlist_popId (%INTEGER;)>

<!ELEMENT Rs_frequency_E_attlist_sampleSize (%INTEGER;)>

<!ELEMENT Rs_frequency_E_frequency EMPTY>

<!--link data for another resource -->
<!ELEMENT RsLinkout (
        RsLinkout_attlist, 
        RsLinkout_rsLinkout)>

<!ELEMENT RsLinkout_attlist (
        RsLinkout_attlist_resourceId, 
        RsLinkout_attlist_linkValue)>

<!--BaseURLList.url_id -->
<!ELEMENT RsLinkout_attlist_resourceId (#PCDATA)>

<!--
value to append to ResourceURL.base-url for complete
						link
-->
<!ELEMENT RsLinkout_attlist_linkValue (#PCDATA)>

<!--link data for another resource -->
<!ELEMENT RsLinkout_rsLinkout EMPTY>

<!--structure information for SNP -->
<!ELEMENT RsStruct (
        RsStruct_attlist, 
        RsStruct_rsStruct)>

<!ELEMENT RsStruct_attlist (
        RsStruct_attlist_protAcc?, 
        RsStruct_attlist_protGi?, 
        RsStruct_attlist_protLoc?, 
        RsStruct_attlist_protResidue?, 
        RsStruct_attlist_rsResidue?, 
        RsStruct_attlist_structGi?, 
        RsStruct_attlist_structLoc?, 
        RsStruct_attlist_structResidue?)>

<!--accession of the protein with variation -->
<!ELEMENT RsStruct_attlist_protAcc (#PCDATA)>

<!--GI of the protein with variation -->
<!ELEMENT RsStruct_attlist_protGi (%INTEGER;)>

<!--
position of the residue for the protein
						GI
-->
<!ELEMENT RsStruct_attlist_protLoc (%INTEGER;)>

<!--
residue specified for protein at prot-loc
						location
-->
<!ELEMENT RsStruct_attlist_protResidue (#PCDATA)>

<!--
alternative residue specified by variation
						sequence
-->
<!ELEMENT RsStruct_attlist_rsResidue (#PCDATA)>

<!--GI of the structure neighbor -->
<!ELEMENT RsStruct_attlist_structGi (%INTEGER;)>

<!--
position of the residue for the structure
						GI
-->
<!ELEMENT RsStruct_attlist_structLoc (%INTEGER;)>

<!--
residue specified for protein at struct-loc
						location
-->
<!ELEMENT RsStruct_attlist_structResidue (#PCDATA)>

<!--structure information for SNP -->
<!ELEMENT RsStruct_rsStruct EMPTY>

<!--data for an individual submission to dbSNP -->
<!ELEMENT Ss (
        Ss_attlist, 
        Ss_sequence)>

<!ELEMENT Ss_attlist (
        Ss_attlist_ssId, 
        Ss_attlist_handle, 
        Ss_attlist_batchId, 
        Ss_attlist_locSnpId?, 
        Ss_attlist_subSnpClass?, 
        Ss_attlist_orient?, 
        Ss_attlist_strand?, 
        Ss_attlist_molType?, 
        Ss_attlist_buildId?, 
        Ss_attlist_methodClass?, 
        Ss_attlist_validated?, 
        Ss_attlist_linkoutUrl?, 
        Ss_attlist_ssAlias?, 
        Ss_attlist_alleleOrigin?, 
        Ss_attlist_clinicalSignificance?)>

<!--dbSNP accession number for submission -->
<!ELEMENT Ss_attlist_ssId (%INTEGER;)>

<!--Tag for the submitting laboratory -->
<!ELEMENT Ss_attlist_handle (#PCDATA)>

<!--dbSNP number for batch submission -->
<!ELEMENT Ss_attlist_batchId (%INTEGER;)>

<!--submission (ss#) submitter ID -->
<!ELEMENT Ss_attlist_locSnpId (#PCDATA)>
<!--
SubSNP classification by type of
						variation
-->
<!ELEMENT Ss_attlist_subSnpClass %ENUM;>
<!ATTLIST Ss_attlist_subSnpClass value (
        snp |
        in-del |
        heterozygous |
        microsatellite |
        named-locus |
        no-variation |
        mixed |
        multinucleotide-polymorphism
        ) #REQUIRED >

<!--
orientation of refsnp cluster members to refsnp cluster
						sequence
-->
<!ELEMENT Ss_attlist_orient %ENUM;>
<!ATTLIST Ss_attlist_orient value (
        forward |
        reverse
        ) #REQUIRED >

<!--
strand is defined as TOP/BOTTOM by nature of flanking
						nucleotide sequence
-->
<!ELEMENT Ss_attlist_strand %ENUM;>
<!ATTLIST Ss_attlist_strand value (
        top |
        bottom
        ) #REQUIRED >


<!--moltype from Batch table -->
<!ELEMENT Ss_attlist_molType %ENUM;>
<!ATTLIST Ss_attlist_molType value (
        genomic |
        cDNA |
        mito |
        chloro |
        unknown
        ) #REQUIRED >


<!--
dbSNP build number when ss# was added to a refSNP (rs#)
						cluster
-->
<!ELEMENT Ss_attlist_buildId (%INTEGER;)>
<!--
class of method used to assay for the
						variation
-->
<!ELEMENT Ss_attlist_methodClass %ENUM;>
<!ATTLIST Ss_attlist_methodClass value (
        dHPLC |
        hybridize |
        computed |
        sSCP |
        other |
        unknown |
        rFLP |
        sequence
        ) #REQUIRED >

<!--
subsnp has been experimentally validated by
									submitter
-->
<!ELEMENT Ss_attlist_validated %ENUM;>
<!ATTLIST Ss_attlist_validated value (
        by-submitter |
        by-frequency |
        by-cluster
        ) #REQUIRED >


<!--
append loc-snp-id to this base URL to construct a pointer to
						submitter data.
-->
<!ELEMENT Ss_attlist_linkoutUrl (#PCDATA)>

<!ELEMENT Ss_attlist_ssAlias (#PCDATA)>

<!--
				<xsd:simpleType>
					<xsd:restriction base="xsd:string">
						<xsd:enumeration value="unknown"/>
						<xsd:enumeration value="germline"/>
						<xsd:enumeration value="somatic"/>
						<xsd:enumeration value="inherited"/>
						<xsd:enumeration value="paternal"/>
						<xsd:enumeration value="maternal"/>
						<xsd:enumeration value="de-novo"/>
						<xsd:enumeration value="other"/>
					</xsd:restriction>
				</xsd:simpleType>
-->
<!ELEMENT Ss_attlist_alleleOrigin (%INTEGER;)>

<!--
				<xsd:simpleType>
					<xsd:restriction base="xsd:string">
						<xsd:enumeration value="unknown"/>
						<xsd:enumeration value="untested"/>
						<xsd:enumeration value="non-pathogenic"/>
						<xsd:enumeration value="probable-non-pathogenic"/>
						<xsd:enumeration value="probable-pathogenic"/>
						<xsd:enumeration value="pathogenic"/>
						<xsd:enumeration value="other"/>
					</xsd:restriction>
				</xsd:simpleType>
-->
<!ELEMENT Ss_attlist_clinicalSignificance (#PCDATA)>

<!ELEMENT Ss_sequence (
        Ss_sequence_seq5?, 
        Ss_sequence_observed, 
        Ss_sequence_seq3?)>

<!--
5' sequence that flanks the
										variation
-->
<!ELEMENT Ss_sequence_seq5 (#PCDATA)>

<!--
list of all nucleotide alleles observed in
										ss-list members, correcting for reverse complementation of
										memebers reported in reverse orientation
-->
<!ELEMENT Ss_sequence_observed (#PCDATA)>

<!--
3' sequence that flanks the
										variation
-->
<!ELEMENT Ss_sequence_seq3 (#PCDATA)>

