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Difference between revisions of "GGBN Amplification Vocabulary"
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(Created page with "<div id="wikinote">Principal usage: The GGBN Amplification Vocabulary is meant to be used with a 1:many relation for 1 DNA record. This is to cover all amplifications done wit...") |
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| − | <div id="wikinote">Principal usage: The GGBN Amplification Vocabulary is meant to be used with a 1:many relation for 1 DNA record. This is to cover all amplifications done with a single DNA sample. Within a Darwin Core-Archive implementation it has to be used with the new defined Material Sample Core (not the Occurrence Core). Within ABCD please use the [http://data.ggbn.org/schemas/ggbn/terms/ABCDGGBN.html ABCDGGBN] implementation | + | <div id="wikinote">Principal usage: The GGBN Amplification Vocabulary is meant to be used with a 1:many relation for 1 DNA record. This is to cover all amplifications done with a single DNA sample. Within a Darwin Core-Archive implementation it has to be used with the new defined Material Sample Core (not the Occurrence Core). Within ABCD please use the [http://data.ggbn.org/schemas/ggbn/terms/ABCDGGBN.html ABCDGGBN] implementation.</div> |
| − | ''Description:'' These terms have been developed for specific GGBN purposes but can be used in any other molecular context. The amplification vocabulary terms are specific to the aspects of amplification, sequencing, and genetic accession numbers. It also contains terms from MIxS. It does not cover single read information (see GGBN Single Read Vocabulary). | + | ''Description:'' These terms have been developed for specific GGBN purposes but can be used in any other molecular context. The amplification vocabulary terms are specific to the aspects of amplification, sequencing, and genetic accession numbers. It also contains terms from [https://genomicsstandardsconsortium.github.io/mixs/ MIxS]. It does not cover single read information (see [[GGBN_Single_Read_Vocabulary | GGBN Single Read Vocabulary]]). |
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| + | This is a collection within the [[GGBN_Data_Standard_v1 | GGBN Data Standard]]. It contains the following concepts: | ||
<div style="margin:0 0 0 2em;"> | <div style="margin:0 0 0 2em;"> | ||
| − | '''By label:''' [[ | + | '''By label:''' [[ggbn:amplificationDate|Amplification Date]] • [[ggbn:amplificationMethod|Amplification Method]] • [[ggbn:amplificationStaff|Amplification Staff]] • [[ggbn:amplificationSuccess|Amplification Success]] • [[ggbn:amplificationSuccessDetails|Amplification Success Details]] • [[ggbn:BOLDProcessID|BOLD Process ID]] • [[ggbn:barcodeSequence|Barcode Sequence]] • [[ggbn:consensusSequence|Consensus Sequence]] • [[ggbn:consensusSequenceChromatogramFileURI|Consensus Sequence Chromatogram URI]] • [[ggbn:consensusSequenceLength|Consensus Sequence Length]] • [[ggbn:geneticAccessionNumber|Genetic Accession Number]] • [[ggbn:geneticAccessionURI|Genetic Accession URI]] • [[ggbn:GC-content|Guanin-Cytosine content]] • [[ggbn:haplotype|Haplotype]] • [[ggbn:marker|Marker]] • [[ggbn:markerAccordance|Marker Accordance]] • [[ggbn:markerSubfragment|Marker Subfragment]] • [[ggbn:primerName|Primer Name]] • [[ggbn:primerNameForward|Primer Name (Forward)]] • [[ggbn:primerNameReverse|Primer Name (Reverse)]] • [[ggbn:primerReferenceCitation|Primer Reference Citation]] • [[ggbn:primerReferenceCitationForward|Primer Reference Citation (Forward)]] • [[ggbn:primerReferenceCitationReverse|Primer Reference Citation (Reverse)]] • [[ggbn:primerReferenceLink|Primer Reference Link]] • [[ggbn:primerReferenceLinkForward|Primer Reference Link (Forward)]] • [[ggbn:primerReferenceLinkReverse|Primer Reference Link (Reverse)]] • [[ggbn:primerSequence|Primer Sequence]] • [[ggbn:primerSequenceForward|Primer Sequence (Forward)]] • [[ggbn:primerSequenceReverse|Primer Sequence (Reverse)]] • [[ggbn:purificationMethod|Purification Method (DNA or Amplification)]] • [[mixs:adapters|adapters]] • [[mixs:annot_source|mixs:annot source]] • [[mixs:assembly|mixs:assembly]] • [[mixs:chimera_check|mixs:chimera check]] • [[mixs:finishing_strategy|mixs:finishing strategy]] • [[mixs:mid|mixs:mid]] • [[mixs:seq_quality_check|mixs:seq quality check]] • [[mixs:sop|mixs:sop]] |
</div> | </div> | ||
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<div style="margin:0 0 0 2em;"> | <div style="margin:0 0 0 2em;"> | ||
| − | '''By concept name:''' [[ | + | '''By concept name:''' [[ggbn:amplificationDate|ggbn:amplificationDate]] • [[ggbn:amplificationMethod|ggbn:amplificationMethod]] • [[ggbn:amplificationStaff|ggbn:amplificationStaff]] • [[ggbn:amplificationSuccess|ggbn:amplificationSuccess]] • [[ggbn:amplificationSuccessDetails|ggbn:amplificationSuccessDetails]] • [[ggbn:barcodeSequence|ggbn:barcodeSequence]] • [[ggbn:BOLDProcessID|ggbn:BOLDProcessID]] • [[ggbn:GC-content|ggbn:GC-content]] • [[ggbn:consensusSequenceChromatogramFileURI|ggbn:consensusSequenceChromatogramFileURI]] • [[ggbn:consensusSequence|ggbn:consensusSequence]] • [[ggbn:consensusSequenceLength|ggbn:consensusSequenceLength]] • [[ggbn:geneticAccessionNumber|ggbn:geneticAccessionNumber]] • [[ggbn:geneticAccessionURI|ggbn:geneticAccessionURI]] • [[ggbn:haplotype|ggbn:haplotype]] • [[ggbn:marker|ggbn:marker]] • [[ggbn:markerAccordance|ggbn:markerAccordance]] • [[ggbn:markerSubfragment|ggbn:markerSubfragment]] • [[ggbn:primerName|ggbn:primerName]] • [[ggbn:primerNameForward|ggbn:primerNameForward]] • [[ggbn:primerNameReverse|ggbn:primerNameReverse]] • [[ggbn:primerReferenceCitation|ggbn:primerReferenceCitation]] • [[ggbn:primerReferenceCitationForward|ggbn:primerReferenceCitationForward]] • [[ggbn:primerReferenceCitationReverse|ggbn:primerReferenceCitationReverse]] • [[ggbn:primerReferenceLink|ggbn:primerReferenceLink]] • [[ggbn:primerReferenceLinkForward|ggbn:primerReferenceLinkForward]] • [[ggbn:primerReferenceLinkReverse|ggbn:primerReferenceLinkReverse]] • [[ggbn:primerSequence|ggbn:primerSequence]] • [[ggbn:primerSequenceForward|ggbn:primerSequenceForward]] • [[ggbn:primerSequenceReverse|ggbn:primerSequenceReverse]] • [[ggbn:purificationMethod|ggbn:purificationMethod]] • [[mixs:adapters|mixs:adapters]] • [[mixs:annot_source|mixs:annot_source]] • [[mixs:assembly|mixs:assembly]] • [[mixs:chimera_check|mixs:chimera_check]] • [[mixs:finishing_strategy|mixs:finishing_strategy]] • [[mixs:mid|mixs:mid]] • [[mixs:seq_quality_check|mixs:seq_quality_check]] • [[mixs:sop|mixs:sop]] |
</div> | </div> | ||
Latest revision as of 11:09, 24 January 2025
Principal usage: The GGBN Amplification Vocabulary is meant to be used with a 1:many relation for 1 DNA record. This is to cover all amplifications done with a single DNA sample. Within a Darwin Core-Archive implementation it has to be used with the new defined Material Sample Core (not the Occurrence Core). Within ABCD please use the ABCDGGBN implementation.
Description: These terms have been developed for specific GGBN purposes but can be used in any other molecular context. The amplification vocabulary terms are specific to the aspects of amplification, sequencing, and genetic accession numbers. It also contains terms from MIxS. It does not cover single read information (see GGBN Single Read Vocabulary).
This is a collection within the GGBN Data Standard. It contains the following concepts:
By label: Amplification Date • Amplification Method • Amplification Staff • Amplification Success • Amplification Success Details • BOLD Process ID • Barcode Sequence • Consensus Sequence • Consensus Sequence Chromatogram URI • Consensus Sequence Length • Genetic Accession Number • Genetic Accession URI • Guanin-Cytosine content • Haplotype • Marker • Marker Accordance • Marker Subfragment • Primer Name • Primer Name (Forward) • Primer Name (Reverse) • Primer Reference Citation • Primer Reference Citation (Forward) • Primer Reference Citation (Reverse) • Primer Reference Link • Primer Reference Link (Forward) • Primer Reference Link (Reverse) • Primer Sequence • Primer Sequence (Forward) • Primer Sequence (Reverse) • Purification Method (DNA or Amplification) • adapters • mixs:annot source • mixs:assembly • mixs:chimera check • mixs:finishing strategy • mixs:mid • mixs:seq quality check • mixs:sop
By concept name: ggbn:amplificationDate • ggbn:amplificationMethod • ggbn:amplificationStaff • ggbn:amplificationSuccess • ggbn:amplificationSuccessDetails • ggbn:barcodeSequence • ggbn:BOLDProcessID • ggbn:GC-content • ggbn:consensusSequenceChromatogramFileURI • ggbn:consensusSequence • ggbn:consensusSequenceLength • ggbn:geneticAccessionNumber • ggbn:geneticAccessionURI • ggbn:haplotype • ggbn:marker • ggbn:markerAccordance • ggbn:markerSubfragment • ggbn:primerName • ggbn:primerNameForward • ggbn:primerNameReverse • ggbn:primerReferenceCitation • ggbn:primerReferenceCitationForward • ggbn:primerReferenceCitationReverse • ggbn:primerReferenceLink • ggbn:primerReferenceLinkForward • ggbn:primerReferenceLinkReverse • ggbn:primerSequence • ggbn:primerSequenceForward • ggbn:primerSequenceReverse • ggbn:purificationMethod • mixs:adapters • mixs:annot_source • mixs:assembly • mixs:chimera_check • mixs:finishing_strategy • mixs:mid • mixs:seq_quality_check • mixs:sop
GGBN Amplification Vocabulary has a sub-collection:
