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|
<!-- DocSum DTD for clinvar database -->
<!--~~ !dtd
~~json
<json type='esummary' version='0.3'>
<config lcnames='true'/>
</json>
~~-->
<!ENTITY % T_string "(#PCDATA)">
<!-- Members definition of Structure type: T_variation_xref -->
<!ELEMENT db_source %T_string;>
<!ELEMENT db_id %T_string;>
<!-- Definition of Structure type: T_variation_xref -->
<!--~~ <variation_xref>
~~json <object/>
~~-->
<!ENTITY % T_variation_xref "(
db_source?,
db_id?
)
">
<!-- Definition of List type: T_VariationXRefList -->
<!ELEMENT variation_xref %T_variation_xref;>
<!ENTITY % T_VariationXRefList "(variation_xref)*">
<!-- Definition of List type: T_AliasesType -->
<!ELEMENT string %T_string;>
<!ENTITY % T_AliasesType "(string)*">
<!-- Members definition of Structure type: T_assembly_set -->
<!ELEMENT status %T_string;>
<!ELEMENT assembly_name %T_string;>
<!ELEMENT chr %T_string;>
<!ELEMENT band %T_string;>
<!ELEMENT start %T_string;>
<!ELEMENT stop %T_string;>
<!ELEMENT inner_start %T_string;>
<!ELEMENT inner_stop %T_string;>
<!ELEMENT outer_start %T_string;>
<!ELEMENT outer_stop %T_string;>
<!ELEMENT display_start %T_string;>
<!ELEMENT display_stop %T_string;>
<!ELEMENT assembly_acc_ver %T_string;>
<!ELEMENT annotation_release %T_string;>
<!ELEMENT alt %T_string;>
<!ELEMENT ref %T_string;>
<!-- Definition of Structure type: T_assembly_set -->
<!--~~ <assembly_set>
~~json <object/>
~~-->
<!ENTITY % T_assembly_set "(
status?,
assembly_name?,
chr?,
band?,
start?,
stop?,
inner_start?,
inner_stop?,
outer_start?,
outer_stop?,
display_start?,
display_stop?,
assembly_acc_ver?,
annotation_release?,
alt?,
ref?
)
">
<!-- Definition of List type: T_VariationLocType -->
<!ELEMENT assembly_set %T_assembly_set;>
<!ENTITY % T_VariationLocType "(assembly_set)*">
<!-- Members definition of Structure type: T_allele_freq -->
<!ELEMENT source %T_string;>
<!ELEMENT value %T_string;>
<!ELEMENT minor_allele %T_string;>
<!-- Definition of Structure type: T_allele_freq -->
<!--~~ <allele_freq>
~~json <object/>
~~-->
<!ENTITY % T_allele_freq "(
source?,
value?,
minor_allele?
)
">
<!-- Definition of List type: T_AlleleFreqSetType -->
<!ELEMENT allele_freq %T_allele_freq;>
<!ENTITY % T_AlleleFreqSetType "(allele_freq)*">
<!-- Members definition of Structure type: T_variation -->
<!ELEMENT measure_id %T_string;>
<!ELEMENT variation_xrefs %T_VariationXRefList;>
<!ELEMENT variation_name %T_string;>
<!ELEMENT cdna_change %T_string;>
<!ELEMENT aliases %T_AliasesType;>
<!ELEMENT variation_loc %T_VariationLocType;>
<!ELEMENT allele_freq_set %T_AlleleFreqSetType;>
<!ELEMENT variant_type %T_string;>
<!ELEMENT canonical_spdi %T_string;>
<!-- Definition of Structure type: T_variation -->
<!--~~ <variation>
~~json <object/>
~~-->
<!ENTITY % T_variation "(
measure_id?,
variation_xrefs?,
variation_name?,
cdna_change?,
aliases?,
variation_loc?,
allele_freq_set?,
variant_type?,
canonical_spdi?
)
">
<!-- Definition of List type: T_VariationSetType -->
<!ELEMENT variation %T_variation;>
<!ENTITY % T_VariationSetType "(variation)*">
<!-- Definition of List type: T_SCVType -->
<!-- Already defined ...
string as %T_string;>
... Already defined -->
<!ENTITY % T_SCVType "(string)*">
<!-- Definition of List type: T_RCVType -->
<!-- Already defined ...
string as %T_string;>
... Already defined -->
<!ENTITY % T_RCVType "(string)*">
<!-- Members definition of Structure type: T_SupportingSubmissionsType -->
<!ELEMENT scv %T_SCVType;>
<!ELEMENT rcv %T_RCVType;>
<!-- Definition of Structure type: T_SupportingSubmissionsType -->
<!--~~ <SupportingSubmissionsType>
~~json <object/>
~~-->
<!ENTITY % T_SupportingSubmissionsType "(
scv?,
rcv?
)
">
<!ENTITY % T_date "(#PCDATA)">
<!-- Members definition of Structure type: T_trait_xref -->
<!-- Already defined ...
db_source as %T_string;
... Already defined -->
<!-- Already defined ...
db_id as %T_string;
... Already defined -->
<!-- Definition of Structure type: T_trait_xref -->
<!--~~ <trait_xref>
~~json <object/>
~~-->
<!ENTITY % T_trait_xref "(
db_source?,
db_id?
)
">
<!-- Definition of List type: T_TraitXrefsType -->
<!ELEMENT trait_xref %T_trait_xref;>
<!ENTITY % T_TraitXrefsType "(trait_xref)*">
<!-- Members definition of Structure type: T_trait -->
<!ELEMENT trait_xrefs %T_TraitXrefsType;>
<!ELEMENT trait_name %T_string;>
<!-- Definition of Structure type: T_trait -->
<!--~~ <trait>
~~json <object/>
~~-->
<!ENTITY % T_trait "(
trait_xrefs?,
trait_name?
)
">
<!-- Definition of List type: T_TraitSetType -->
<!ELEMENT trait %T_trait;>
<!ENTITY % T_TraitSetType "(trait)*">
<!-- Members definition of Structure type: T_ClassificationType -->
<!ELEMENT description %T_string;>
<!ELEMENT last_evaluated %T_date;>
<!ELEMENT review_status %T_string;>
<!ELEMENT fda_recognized_database %T_string;>
<!ELEMENT trait_set %T_TraitSetType;>
<!-- Definition of Structure type: T_ClassificationType -->
<!--~~ <ClassificationType>
~~json <object/>
~~-->
<!ENTITY % T_ClassificationType "(
description?,
last_evaluated?,
review_status?,
fda_recognized_database?,
trait_set?
)
">
<!-- Members definition of Structure type: T_gene -->
<!ELEMENT symbol %T_string;>
<!ELEMENT GeneID %T_string;>
<!ELEMENT strand %T_string;>
<!-- Already defined ...
source as %T_string;
... Already defined -->
<!-- Definition of Structure type: T_gene -->
<!--~~ <gene>
~~json <object/>
~~-->
<!ENTITY % T_gene "(
symbol?,
GeneID?,
strand?,
source?
)
">
<!-- Definition of List type: T_GenesType -->
<!ELEMENT gene %T_gene;>
<!ENTITY % T_GenesType "(gene)*">
<!-- Definition of List type: T_MolecularConsequenceListType -->
<!-- Already defined ...
string as %T_string;>
... Already defined -->
<!ENTITY % T_MolecularConsequenceListType "(string)*">
<!-- Members definition of Structure type: T_DocSum -->
<!ELEMENT obj_type %T_string;>
<!ELEMENT accession %T_string;>
<!ELEMENT accession_version %T_string;>
<!ELEMENT title %T_string;>
<!ELEMENT variation_set %T_VariationSetType;>
<!ELEMENT supporting_submissions %T_SupportingSubmissionsType;>
<!ELEMENT germline_classification %T_ClassificationType;>
<!ELEMENT clinical_impact_classification %T_ClassificationType;>
<!ELEMENT oncogenicity_classification %T_ClassificationType;>
<!ELEMENT record_status %T_string;>
<!ELEMENT gene_sort %T_string;>
<!ELEMENT chr_sort %T_string;>
<!ELEMENT location_sort %T_string;>
<!ELEMENT variation_set_name %T_string;>
<!ELEMENT variation_set_id %T_string;>
<!ELEMENT genes %T_GenesType;>
<!ELEMENT molecular_consequence_list %T_MolecularConsequenceListType;>
<!ELEMENT protein_change %T_string;>
<!-- Already defined ...
fda_recognized_database as %T_string;
... Already defined -->
<!ELEMENT error %T_string;>
<!-- Definition of Structure type: T_DocSum -->
<!--~~ <DocumentSummary>
~~json <object name='@uid'/>
~~-->
<!ENTITY % T_DocSum "((
obj_type?,
accession?,
accession_version?,
title?,
variation_set?,
supporting_submissions?,
germline_classification?,
clinical_impact_classification?,
oncogenicity_classification?,
record_status?,
gene_sort?,
chr_sort?,
location_sort?,
variation_set_name?,
variation_set_id?,
genes?,
molecular_consequence_list?,
protein_change?,
fda_recognized_database?
)
| error)
">
<!ELEMENT DocumentSummary %T_DocSum;>
<!ATTLIST DocumentSummary uid CDATA #IMPLIED>
<!ELEMENT DbBuild %T_string;>
<!ELEMENT DocumentSummarySet (DbBuild?, DocumentSummary*)>
<!ATTLIST DocumentSummarySet status CDATA #REQUIRED>
<!--~~ <DocumentSummarySet>
~~json
<object key="result">
<array key="uids" select='DocumentSummary/@uid'/>
<members select='DocumentSummary'/>
</object>
~~-->
<!--~~ <eSummaryResult>
~~ json <member/>
~~-->
<!ELEMENT eSummaryResult (DocumentSummarySet?)>
|
