Citace upload report

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.

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	find Antibody Paper with Antibody Total Paper--Antibody links
anatomy	Anatomy terms and function	N/A	Raymond Lee	find Anatomy_term find Anatomy_function
concise	Concise Description	con_	Ranjana Kishore, Kimberly Van Auken	Gene with Concise_description
construct	Constructs used in various classes	cns_	Karen Yook, Daniela Raciti, Xiaodong Wang	None	# total papers curated for construct #new papers curated for construct average # constructs curated/new paper
disease	Worm models of human disease	dis_	Ranjana Kishore	find DO_term Gene with Disease_relevance
exprpat	Expression pattern of genes	exp_	Daniela Raciti	find Expr_pattern Gene with Expr_pattern Paper with Expr_pattern
gene cluster	phylogenetic profile clusters	N/A	Karen	none	# gene cluster objects
go	Gene ontology annotation		Kimberly Van Auken, Ranjana Kishore	Gene with GO_term Total Gene--GO_term links
gene regulation	Gene regulation	grg_	Xiaodong Wang	Interaction with Regulatory
gene interaction	Genetic and physical interactions	int_	Chris Grove, Gary Schindelman, Kimberly Van Auken, Karen Yook	find Interaction Interaction with Physical Interaction with Genetic Interaction with Predicted Paper with Interaction	Does find Interaction capture all classes of interactions (regulatory, genetic, physical, and predicted)?
Microarray	microarray	N/A	Wen Chen	find Microarray_experiment find Expression_cluster Paper with Microarray_experiment Paper with Expression_cluster Gene with Experimental_model
molecule	Drug/Chemical/Small molecule objects	mop_	Karen Yook	Molecule with RNAi Molecule with Variation Molecule with Interaction Molecule with WBProcess
movie	Movies	mov_	Daniela Raciti	none
paper	Papers	pap_	Kimberly	find Paper Total Paper--Gene links
person	People	two_	Cecilia	find Person
phenotype	Annotation of phenotypes to variations, strains, rearrangements, transgenes	app_	Karen Yook	Variation with Phenotype Variation with Phenotype_not_observed Transgene with Phenotype Strain with Phenotype	total paper--variation-phenotype link total variation-phenotype link
picture	figures from papers	pic_	Daniela Raciti	find Picture
biological_topic	Topic curation	pro_	Karen Yook	none	total topics--gene links #total topic--pathway links # total paper--topic links
process_term	Process term creation	prt_	Karen Yook	find WBProcess
RNAi	RNAi sequence and phenotype curation	rna_	Chris Grove, Gary Schindelman, Wen Chen	find RNAi RNAi with Phenotype RNAi with Phenotype_not_observed Paper with RNAi||||
transgene	Transgene object curation	trp_	Karen Yook	find Transgene Paper with Transgene Total Paper--Transgene links