Citace upload report

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Goals for upload report

  • Summary of the uploaded data classes/objects - this summary should be blind to requests from curators and should alert Caltech to missing data classes or severe changes in numbers of objects within preexisting data classes
  • Summary of curation work - this summary should be curator driven, in some cases the summary will require a more involved aceperl query to get at the actual annotation rather than a straight data class object number.

Issues/Discussion

Data classes/types curated and sent to Hinxton

For each data type, please indicate what information you want to know upon Citace data testing and what information you want to include the report to Hinxton.

Data class/type Curation focus Postgres Tables
( oa tables)
Curator Current Citace dump stat Requested stat(s) for Citace report Requested stats for build release
antibody C. elegans antibodies abp_ Xiaodong Wang #antibody objects
#Paper-antibody links
anatomy Anatomy terms and function N/A Raymond Lee #anatomy terms
#anatomy function objects
concise Concise Description con_ Ranjana Kishore, Kimberly Van Auken #Genes with Concise_description
construct Constructs used in various classes cns_ Karen Yook, Daniela Raciti, Xiaodong Wang None
disease Worm models of human disease dis_ Ranjana Kishore #DO_terms
#Gene with Disease_relevance
exprpat Expression pattern of genes exp_ Daniela Raciti #Expr_pattern
#Gene with Expr_pattern
#Papers with Expr_pattern
gene class Concise description of gene classes N/A Karen Yook none
go Gene ontology annotation Kimberly Van Auken, Ranjana Kishore #Genes with GO_term
Total Gene--GO_term links
gene regulation Gene regulation grg_ Xiaodong Wang #interaction?
#Interaction with Regulatory
#Paper with interaction?
#molecule with interaction?
gene interaction Genetic and physical interactions int_ Chris Grove, Gary Schindelman, Kimberly Van Auken, Karen Yook # interactions(total?)
#physical interactions
#genetic interactions
#predicted interactions
#papers with interactions
Microarray microarray N/A Wen Chen #Microarray_experiment
#expression_clusters
#Papers with microarray_experiment
#papers with expression clusters
molecule Drug/Chemical/Small molecule objects mop_ Karen Yook #Molecules with RNAi
#Molecule with Variation
#Molecule with Interaction
#Molecule with WBProcess
movie Movies mov_ Daniela Raciti none
paper Papers pap_ Kimberly #papers
Total paper--gene links
person People N/A Cecilia #persons
phenotype Annotation of phenotypes to variations, strains, rearrangements, transgenes app_ Karen Yook #Variations with Phenotype
#Variations with Phenotype_not_observed
#Transgenes with Phenotype
#Strains with Phenotype
#molecules with variation
picture figures from papers pic_ Daniela Raciti #pictures
biological_topic Topic curation pro_ Karen Yook none
process_term Process term creation prt_ Karen Yook #topics
RNAi RNAi sequence and phenotype curation rna_ Chris Grove, Gary Schindelman, Wen Chen #RNAi with Phenotype
#RNAi with Phenotype_not_observed
#papers with rnai
transgene Transgene object curation trp_ Karen Yook #transgenes
#paper with transgene
total paper transgene links