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<?xml version="1.0"?>
<!DOCTYPE mipe SYSTEM "./mipe.dtd">
<mipe xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
xsi:noNamespaceSchemaLocation="file:/home/bioroot/share/MIPE/mipe.xsd">
<version>1.0</version> <!--#=exactly 1; MIPE version-->
<pcr id=""> <!--#=0 or more; actual PCR-->
<id></id> <!--#=exactly 1; ID of PCR product-->
<modified></modified> <!--#=1 or more; dates on which PCR record was changed (e.g. 20040503)-->
<project></project> <!--#=0 or more; project-->
<researcher></researcher> <!--#=1 or more; person(s) changing this PCR-->
<species></species> <!--#=1 or more; species on which PCR will run-->
<design> <!--#=exactly 1; stuff concerning PCR primer design-->
<source> <!--#=exactly 1; sequence the primers were designed on-->
<accession></accession> <!--#=Exactly 1 from seq, accession or file!!!; accession number-->
<file></file> <!--#=Exactly 1 from seq, accession or file!!!; name of file containing sequence-->
<seq></seq> <!--#=Exactly 1 from seq, accession or file!!!; actual sequence-->
<name></name> <!--#=0 or more; name of source sequence-->
<species></species> <!--#=0 or 1; species of source sequence-->
<type></type> <!--#=0 or 1; type of sequence (e.g. genomic/mRNA)-->
<remark></remark> <!--#=0 or more; remark about source sequence-->
</source>
<range></range> <!--#=0 or 1; e.g. 99-999; pos within source-->
<seq></seq> <!--#=0 or 1; sequence of PCR product including primers-->
<primer1> <!--#=0 or 1; fw PCR primer-->
<oligo></oligo> <!--#=0 or 1; oligo number-->
<seq></seq> <!--#=0 or 1; sequence-->
<tm></tm> <!--#=0 or 1; melting temperature-->
<remark></remark> <!--#=0 or more; remark about fw primer-->
</primer1>
<primer2> <!--#=0 or 1; rev primer-->
<oligo></oligo> <!--#=0 or 1; oligo number-->
<seq></seq> <!--#=0 or 1; sequence-->
<tm></tm> <!--#=0 or 1; melting temperature-->
<remark></remark> <!--#=0 or more; remark about rev primer-->
</primer2>
<profile>
<name></name>
<predenaturation>
<temp></temp>
<time></time>
</predenaturation>
<cycle>
<number></number>
<denaturation>
<temp></temp>
<time></time>
</denaturation>
<annealing>
<temp></temp>
<time></time>
</annealing>
<elongation>
<temp></temp>
<time></time>
</elongation>
</cycle>
<postelongation>
<temp></temp>
<time></time>
</postelongation>
</profile>
<remark></remark> <!--#=0 or more; remark about PCR design-->
</design>
<use> <!--#=0 or 1; stuff concerning the actual running of the PCR (_after_ design)-->
<seq></seq> <!--#=0 or 1; consensus sequence _after_ running the PCR (may differ from seq in design!!)-->
<revcomp></revcomp> <!--#=0 or 1; is consensus sequence reverse complement of sequence in design? (if so: 1; else: 0)-->
<snp id=""> <!--#=0 or more; SNPs identified in PCR product-->
<id></id> <!--#=exactly 1; SNP id-->
<pos></pos> <!--#=exactly 1; position of SNP in use sequence-->
<pos_design></pos_design><!--#=0 or 1; position of SNP in design sequence-->
<pos_source></pos_source><!--#=0 or 1; position of SNP in source sequence-->
<amb></amb> <!--#=0 or 1; ambiguity code-->
<rank></rank> <!--#=0 or 1; if using polyphred for SNP detection: SNP rank (0-6)-->
<assay id="">
<type></type> <!--#=exactly 1; 'sbe' or 'rflp'-->
<id></id> <!--#=exactly 1; SBE ID-->
<enzyme></enzyme> <!--#=exactly 1; remove if type is not RFLP-->
<oligo></oligo> <!--#=0 or 1; SBE oligo number-->
<specific></specific> <!--#=0 or 1; specific sequence of primer-->
<tail></tail> <!--#=0 or 1; tail sequence of primer-->
<strand></strand> <!--#=0 or 1; strand on which SBE primer was designed (relative to use)-->
<remark></remark> <!--#=0 or more; remark about SBE primer-->
</assay>
<remark></remark> <!--#=0 or more; remark about SNP-->
</snp>
<sample id=""> <!--#=0 or more; samples on which the PCR was run-->
<id></id> <!--#=exactly 1; id of sample-->
<file></file> <!--#=0 or 1; name of .ab1-file-->
<genotype> <!--#=0 or more; for certain/all SNPs (see below): genotype for this sample-->
<snp_id></snp_id> <!--#=exactly 1; must be SNP ID from within this PCR record-->
<amb></amb> <!--#=exactly 1; ambiguity code for this SNP in this sample-->
<remark></remark> <!--#=0 or more; remark about genotype-->
</genotype>
<remark></remark> <!--#=0 or more; remark about sample-->
</sample>
<remark></remark> <!--#=0 or more; remark about use-->
</use>
<remark></remark> <!--#=0 or more; remark about PCR-->
</pcr>
<remark></remark> <!--#=0 or more; remark about MIPE file-->
</mipe>
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