Difference between revisions of "Source and maintenance of non-WBGene info"

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|Variation
 
|Variation
 
|obo_name_variation<br>obo_data_variation
 
|obo_name_variation<br>obo_data_variation
 +
|yes
 
|yes
 
|yes
 
|yes
 
|yes
 
|no
 
|no
 
|no
 
|no
 +
|yes
 
|yes
 
|yes
 
|yes
 
|yes
 
|no
 
|no
 
|no
 
|no
|no
+
|WBVariationID
|no
 
|
 
 
|-
 
|-
 
|Variation public_name
 
|Variation public_name
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|yes
 
|yes
 
|no
 
|no
|for Variation first pass
+
|For Mary Ann's Variation first pass/SVM
 
|For Variation lexicon
 
|For Variation lexicon
 
|In multiple OAs
 
|In multiple OAs
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|no
 
|no
 
|no
 
|no
|yes
+
|yes <br>Display WBGeneID and gin_locus
 
|no
 
|no
 
|no
 
|no
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|yes
 
|yes
 
|no
 
|no
|yes?
+
|yes? for MA's scripts??
 
|no
 
|no
 
|
 
|
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|obo_data_variation
 
|obo_data_variation
 
|no
 
|no
 +
|no <br>used to query for Variation type Allele and Transposon
 
|yes
 
|yes
 +
|no
 +
|no
 +
|no
 
|yes
 
|yes
 
|no
 
|no
|
+
|no
|
+
|no
|
 
|
 
|
 
|
 
 
|Only take these Methods<br>"Allele"<br>"Deletion_allele"<br>"Deletion_and_insertion_allele"<br>"Deletion_polymorphism<br>"Insertion_allele"<br>"Insertion_polymorhism"<br>"KO_consortium_allele"<br>"Mos_insertion"<br>"NBP_knockout_allele"<br>"NemaGENETAG_consortium_allele"<br>"Substitution_allele"<br>"Transposon_insertion"
 
|Only take these Methods<br>"Allele"<br>"Deletion_allele"<br>"Deletion_and_insertion_allele"<br>"Deletion_polymorphism<br>"Insertion_allele"<br>"Insertion_polymorhism"<br>"KO_consortium_allele"<br>"Mos_insertion"<br>"NBP_knockout_allele"<br>"NemaGENETAG_consortium_allele"<br>"Substitution_allele"<br>"Transposon_insertion"
 
|-
 
|-
|Status
+
|Status  
 
|obo_data_variation
 
|obo_data_variation
|no
+
|yes
 
|yes
 
|yes
 
|yes
 
|yes
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|no
 
|no
 
|yes
 
|yes
|?
+
|no
 
|no
 
|no
 
|no
 
|no
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|no
 
|no
 
|no
 
|no
|yes
+
|yes <br>display gin_locus (do not need WBGeneID)
 
|no
 
|no
 
|no
 
|no
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|no
 
|no
 
|no
 
|no
|yes
+
|yes <br>display gin_locus (do not need WBGeneID)
 
|no
 
|no
 
|no
 
|no
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|no
 
|no
 
|no
 
|no
|no
+
|yes
 
|yes
 
|yes
 
|no
 
|no
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|no
 
|no
 
|no
 
|no
|no
+
|yes
 
|yes
 
|yes
 
|no
 
|no
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|no
 
|no
 
|no
 
|no
|no
+
|yes
 
|yes
 
|yes
 
|no
 
|no
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|yes
 
|yes
 
|no
 
|no
|no
+
|yes MA's script
|no
+
|yes? use for text markup regex?
 
|
 
|
 
|-
 
|-

Revision as of 21:01, 27 September 2013

AceDB tag Postgres table Current - Nameserver nightly dump Current - WS bimonthly release Future - Geneace nightly dump Future - WS bimonthly release Use - Paper or meeting abstract gene connection Use - OA data type curation Use - OA term info Use - Dumping scripts Use -Text mining/SVM Use - Updating GSA Lexicon Comment
Variation obo_name_variation
obo_data_variation
yes yes yes no no yes yes yes no no WBVariationID
Variation public_name obo_name_variation
obo_data_variation
no yes yes no no yes yes no For Mary Ann's Variation first pass/SVM For Variation lexicon In multiple OAs
Variation- Gene obo_data_variation no yes yes no no no yes
Display WBGeneID and gin_locus
no no no
Variation -Reference obo_data_variation no yes yes no no no yes no yes? for MA's scripts?? no
Variation -Method obo_data_variation no no
used to query for Variation type Allele and Transposon
yes no no no yes no no no Only take these Methods
"Allele"
"Deletion_allele"
"Deletion_and_insertion_allele"
"Deletion_polymorphism
"Insertion_allele"
"Insertion_polymorhism"
"KO_consortium_allele"
"Mos_insertion"
"NBP_knockout_allele"
"NemaGENETAG_consortium_allele"
"Substitution_allele"
"Transposon_insertion"
Status obo_data_variation yes yes yes no no no yes no no no
Rearrangement obo_name_rearrangement
obo_data_rearrangement
no yes yes no no yes yes no no yes
Rearrangement -map obo_data_rearrangement no yes yes no no no yes no no no
gene_inside obo_data_rearrangement no yes yes no no no yes
display gin_locus (do not need WBGeneID)
no no no
gene_outside obo_data_rearrangement no yes yes no no no yes
display gin_locus (do not need WBGeneID)
no no no
Strain obo_name_strain
obo_data_strain
no yes yes no no yes yes no no yes
Strain -genotype obo_data_strain no yes yes no no no yes no no no
Strain- location obo_data_strain no yes yes no no no yes no no no
Clone obo_name_clone
obo_data_clone
no yes yes no no yes (expr_pattern) yes no? no yes
Clone -Type Not sure you need a table for this. All clones that populate the clone tables will be of one type = PLASMID no yes yes no no no yes no no no
Clone -Transgene obo_data_clone no yes yes no no no yes no no no I don't think there is any data in this tag in the ftp cloness.ace
Clone -strain obo_data_clone no yes yes no no no yes no no no
Clone -general_remark obo_data_clone no yes yes no no no yes no no no
Clone -location obo_data_clone no yes yes no no no yes no no no
Clone -accession_number obo_data_clone no yes yes no no no yes no no no
Laboratory obo_name_laboratory
obo_data_laboratory
no yes yes no no yes yes no no no
Laboratory -Representative obo_name_laboratory
obo_data_laboratory
no yes yes no no yes yes no no no
Laboratory -Registered_lab_members obo_data_laboratory - actually I don't know if this needs to be displayed in the term info no yes yes no no no yes no no no
Laboratory - allele_designation obo_data_laboratory no yes yes no no no yes no yes MA's script yes? use for text markup regex?
Laboratory - strain_designation obo_data_laboratory no yes yes no no no yes no no no
Laboratory -Mail obo_data_laboratory no yes yes no no no yes no no no
Transgene trp_name no no no no no yes yes yes no no
Transgene public_name trp_publicname no no no no no yes yes yes yes yes
Transgene synonym trp_synonym no no no no no yes yes yes no no
Transgene Summary trp_summary no no no no no no yes yes no no
Transgene paper trp_paper no no no no no no yes yes yes? no