131 lines
No EOL
3.7 KiB
HTML
131 lines
No EOL
3.7 KiB
HTML
<!DOCTYPE HTML>
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<title>Ss</title>
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<h3>Ss</h3><pre>Defined in file <a href="docsum.asn.html">docsum.asn</a>
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C++ class: <a href="../doxyhtml/classCSs.html">CSs</a>
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Ss ::= SEQUENCE {
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attlist SET {
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ssId INTEGER, --dbSNP accession number for submission
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handle VisibleString, --Tag for the submitting laboratory
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batchId INTEGER, --dbSNP number for batch submission
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locSnpId VisibleString OPTIONAL, --submission (ss#) submitter ID
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--SubSNP classification by type of
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-- variation
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subSnpClass ENUMERATED {
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snp (1),
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in-del (2),
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heterozygous (3),
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microsatellite (4),
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named-locus (5),
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no-variation (6),
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mixed (7),
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multinucleotide-polymorphism (8)
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} OPTIONAL,
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--orientation of refsnp cluster members to refsnp cluster
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-- sequence
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orient ENUMERATED {
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forward (1),
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reverse (2)
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} OPTIONAL,
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--strand is defined as TOP/BOTTOM by nature of flanking
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-- nucleotide sequence
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strand ENUMERATED {
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top (1),
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bottom (2)
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} OPTIONAL,
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molType ENUMERATED {
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genomic (1),
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cDNA (2),
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mito (3),
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chloro (4),
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unknown (5)
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} OPTIONAL, --moltype from Batch table
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--dbSNP build number when ss# was added to a refSNP (rs#)
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-- cluster
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buildId INTEGER OPTIONAL,
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--class of method used to assay for the
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-- variation
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methodClass ENUMERATED {
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dHPLC (1),
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hybridize (2),
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computed (3),
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sSCP (4),
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other (5),
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unknown (6),
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rFLP (7),
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sequence (8)
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} OPTIONAL,
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--subsnp has been experimentally validated by
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-- submitter
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validated ENUMERATED {
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by-submitter (1),
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by-frequency (2),
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by-cluster (3)
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} OPTIONAL,
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--append loc-snp-id to this base URL to construct a pointer to
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-- submitter data.
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linkoutUrl VisibleString OPTIONAL,
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ssAlias VisibleString OPTIONAL,
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-- <xsd:simpleType>
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-- <xsd:restriction base="xsd:string">
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-- <xsd:enumeration value="unknown"/>
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-- <xsd:enumeration value="germline"/>
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-- <xsd:enumeration value="somatic"/>
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-- <xsd:enumeration value="inherited"/>
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-- <xsd:enumeration value="paternal"/>
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-- <xsd:enumeration value="maternal"/>
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-- <xsd:enumeration value="de-novo"/>
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-- <xsd:enumeration value="other"/>
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-- </xsd:restriction>
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-- </xsd:simpleType>
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alleleOrigin INTEGER OPTIONAL,
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-- <xsd:simpleType>
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-- <xsd:restriction base="xsd:string">
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-- <xsd:enumeration value="unknown"/>
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-- <xsd:enumeration value="untested"/>
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-- <xsd:enumeration value="non-pathogenic"/>
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-- <xsd:enumeration value="probable-non-pathogenic"/>
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-- <xsd:enumeration value="probable-pathogenic"/>
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-- <xsd:enumeration value="pathogenic"/>
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-- <xsd:enumeration value="other"/>
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-- </xsd:restriction>
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-- </xsd:simpleType>
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clinicalSignificance VisibleString OPTIONAL
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},
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sequence SEQUENCE {
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--5' sequence that flanks the
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-- variation
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seq5 VisibleString OPTIONAL,
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--list of all nucleotide alleles observed in
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-- ss-list members, correcting for reverse complementation of
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-- memebers reported in reverse orientation
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observed VisibleString,
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--3' sequence that flanks the
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-- variation
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seq3 VisibleString OPTIONAL
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}
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}</pre>
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</html> |