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flybase_main.pl
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flybase_main.pl
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:- encoding(iso_latin_1).
:- flush_output.
:- setenv('RUST_BACKTRACE',full).
:- multifile(fb_pred/2).
:- discontiguous(fb_pred/2).
:- dynamic(fb_pred/2).
fb_stats:- metta_stats,!.
'&flybase':for_metta('&flybase',P):- fb_pred_nr(F,A),current_predicate(F/A),length(L,A),P=[F|L],apply(F,L).
% ==============
% OBO LOADER
% ==============
:- set_option_value(encoding,utf8).
%:- ensure_loaded('./obo_loader').
%:- ensure_loaded(json_loader).
:- ensure_loaded(library(metta_interp)).
% ==============
% VSPACE LOADER
% ==============
%:- set_option_value(max_per_file,10_000_000).
%:- set_option_value(max_per_file,1_000).
%:- set_option_value(max_per_file,300).
%:- set_option_value(max_per_file,inf+1).
:- set_option_value(max_per_file,0).
%:- set_option_value(max_per_file,20_000).
%:- set_option_value(max_per_file,20_000_000_000_000_000_000_000_000_000_000_000).
% load_flybase('./precomputed_files/insertions/fu_gal4_table_fb_*.json').
:- set_option_value(max_disk_cache,1000).
:- set_option_value(samples_per_million,30).
:- set_option_value(full_canon,true).
flybase_identifier('FBab', 'Aberration').
flybase_identifier('FBal', 'Allele').
flybase_identifier('FBba', 'Balancer').
flybase_identifier('FBbt', 'AnatomyTerm').
flybase_identifier('FBch', 'ChromosomeArm').
flybase_identifier('FBcl', 'Clone').
flybase_identifier('FBcv', 'ControlledVocabulary').
flybase_identifier('FBdv', 'DevelopmentalStageTerm').
flybase_identifier('FBgg', 'GeneGroup').
flybase_identifier('FBgn', 'Gene').
flybase_identifier('FBhh', 'HumanDisease').
flybase_identifier('FBig', 'GeneInteraction').
flybase_identifier('FBim', 'Image').
flybase_identifier('FBlc', 'LargeDatasetMetadata').
flybase_identifier('FBmc', 'MolecularConstruct').
flybase_identifier('FBms', 'MolecularSegment').
flybase_identifier('FBpl', 'Probe').
flybase_identifier('FBpp', 'Polypeptide').
flybase_identifier('FBrf', 'Reference').
flybase_identifier('FBsf', 'SequenceFeature').
flybase_identifier('FBsn', 'GeneStrain').
flybase_identifier('FBst', 'GeneStock').
flybase_identifier('FBtc', 'CellLine').
flybase_identifier('FBti', 'TransposableIlementInsertion').
flybase_identifier('FBto', 'ExperimentalTool').
flybase_identifier('FBte', 'TransgenicElement').
flybase_identifier('FBtp', 'Transposon'). %flybase_identifier('FBtp', 'transgenic construct or natural transposon').
flybase_identifier('FBtr', 'Transcript').
% FlyBase prefixes
symbol_prefix(Prefix, flybase, Desc):- flybase_identifier(Prefix, Desc).
% Some common OBO prefixes (Note: these are more generalized and not specific to FlyBase)
symbol_prefix('GO', obo, 'Gene Ontology').
symbol_prefix('PO', obo, 'Plant Ontology').
symbol_prefix('DOID', obo, 'Disease Ontology').
symbol_prefix('UBERON', obo, 'Uber-anatomy ontology').
symbol_prefix('CHEBI', obo, 'Chemical Entities of Biological Interest').
%:- abolish(gp_information/0).
:- forall(retract(fb_pred(F,0)),abolish(F/0)).
:- ensure_loaded(flybase_learn).
:- prolog_load_context(directory, Here),
atom_concat(Here, '/*_loader.pl', Mask),
expand_file_name(Mask, Files),
maplist([File]>>load_files(File), Files).
%fbd(X,P):- fb_pred(F,A),functor(P,F,A),arg(_,P,X), no_repeats(P,call(P)).
fbdead:- fb_pred_nr(F,A),functor(P,F,A),arg(_,P,xxxxxxxxxxxxxxxxx),no_repeats(P,call(P)),
writeln(fbdead=P),fail.
fbdead.
column_description('allele_FBal#', "Current FlyBase identifier (FBal#) of allele.", identifier, 'Allele Identifier').
column_description('allele_symbol', "Current FlyBase allele symbol.", symbol, 'Allele Symbol').
column_description('Bin_value', "The expression bin classification of this gene in this RNA-Seq experiment, based on RPKM value.", numeric, 'Expression Bin').
column_description('Cluster_Cell_Type_ID', "The FlyBase FBbt ID for the cell type represented by the cell cluster.", identifier, 'Cell Type').
column_description('Cluster_Cell_Type_Name', "The FlyBase name for the cell type represented by the cell cluster.", name, 'Cell Type Name').
column_description('Cluster_ID', "The FlyBase FBlc ID for the dataset representing the cell cluster.", identifier, 'Cell Cluster').
column_description('Cluster_Name', "The FlyBase name for the dataset representing the cell cluster.", name, 'Cell Cluster Name').
column_description('Clustering_Analysis_ID', "The FlyBase FBlc ID for the dataset representing the clustering analysis.", identifier, 'Dataset').
column_description('Clustering_Analysis_Name', "The FlyBase name for the dataset representing the clustering analysis.", name, 'Dataset Name').
column_description('Count_used', "Indicates if the RPKM expression value was calculated using only the exonic regions unique to the gene and not overlapping exons of other genes (Unique), or, if the RPKM expression value was calculated based on all exons of the gene regardless of overlap with other genes (Total).", category, 'Count Type').
column_description('DATASAMPLE_NAME_(DATASET_ID)', "Each subsequent column reports the gene RPKM values for the sample listed in the header.", matrix, 'Expression Matrix').
column_description('FBgn', "The unique FlyBase gene ID for this gene.", identifier, 'Gene').
column_description('FBgn_id', "Unique FlyBase gene ID.", identifier, 'Gene').
column_description('FBrf#', "Current FlyBase identifer (FBrf#) of publication from which data came.", identifier, 'Publication Identifier').
column_description('FBrf', "Current FlyBase identifer (FBrf) of publication from which data came.", identifier, 'Publication Identifier').
column_description('FBrf_id', "FlyBase reference ID for the publication.", identifier, 'Reference').
column_description('Gene_ID', "The FlyBase FBgn ID for the expressed gene.", identifier, 'Gene').
column_description('Gene_Symbol', "The FlyBase symbol for the expressed gene.", symbol, 'Gene Symbol').
column_description('GeneSymbol', "The official FlyBase symbol for this gene.", symbol, 'Gene Symbol').
column_description('interaction', "Interaction information associated with allele.", text, 'Interaction Info').
column_description('Interaction_type', "Type of interaction observed, either 'suppressible' or 'enhanceable'.", category, 'Interaction Type').
column_description('Mean_Expression', "The average level of expression of the gene across all cells of the cluster.", numeric, 'Expression Level').
column_description('Parent_library_FBlc', "The unique FlyBase ID for the dataset project to which the RNA-Seq experiment belongs.", identifier, 'Dataset Project').
column_description('Parent_library_name', "The official FlyBase symbol for the dataset project to which the RNA-Seq experiment belongs.", name, 'Dataset Project Name').
column_description('phenotype_id', "Phenotypic identifier associated with the genotype.", identifier, 'Phenotype Identifier').
column_description('phenotype_name', "Phenotypic name associated with the genotype.", name, 'Phenotype Name').
column_description('PMID', "PubMed ID for the publication.", identifier, 'Publication').
column_description('Pub_ID', "The FlyBase FBrf ID for the reference in which the expression was reported.", identifier, 'Publication').
column_description('Pub_miniref', "The FlyBase citation for the publication in which the expression was reported.", citation, 'Publication Citation').
column_description('Publication_FBrf', "Current FlyBase identifier (FBrf) of publication from which the data came.", identifier, 'Publication Reference').
column_description('reference', "Current FlyBase identifer (FBrf#) of publication from which data came.", identifier, 'Publication Identifier').
column_description('Release_ID', "The D. melanogaster annotation set version from which the gene model used in the analysis derives.", version, 'Annotation Version').
column_description('RNASource_FBlc', "The unique FlyBase ID for the RNA-Seq experiment used for RPKM expression calculation.", identifier, 'RNA-Seq Experiment').
column_description('RNASource_name', "The official FlyBase symbol for the RNA-Seq experiment used for RPKM expression calculation.", name, 'RNA-Seq Experiment Name').
column_description('RPKM_value', "The RPKM expression value for the gene in the specified RNA-Seq experiment.", numeric, 'Expression Value').
column_description('Source_Tissue_Anatomy', "The ansymbolical region of the source tissue used for the experiment.", category, 'Tissue Anatomy').
column_description('Source_Tissue_Sex', "The sex of the source tissue used for the experiment.", category, 'Tissue Sex').
column_description('Source_Tissue_Stage', "The life stage of the source tissue used for the experiment.", category, 'Tissue Stage').
column_description('Spread', "The proportion of cells in the cluster in which the gene is detected.", proportion, 'Expression Spread').
column_description('Total_exon_base_count', "The number of bases in all exons of this gene.", numeric, 'Total Exonic Base Count').
column_description('UniProt_database', "Database in UniProt where the protein is listed (either UniProt/TrEMBL or UniProt/Swiss-Prot).", category, 'Protein Database').
column_description('UniProt_id', "Unique identifier for the protein in UniProt.", identifier, 'Protein').
column_description('Unique_exon_base_count', "The number of exonic bases unique to the gene (not overlapping exons of other genes).", numeric, 'Exonic Base Count').
column_description(allele_FBal, "Current FlyBase identifier (FBal) of allele.", identifier, 'Allele Identifier').
column_description(allele_symbol, "Current FlyBase allele symbol.", symbol, 'Allele Symbol').
column_description(current_fullname, "Current full name used in FlyBase for the object.", name, 'Name').
column_description(current_symbol, "Current symbol used in FlyBase for the object.", symbol, 'Symbol').
column_description(gene_fullname, "The official full name for this gene.", name, 'Gene Name').
column_description(gene_primary_id, "The unique FlyBase gene ID for this gene.", identifier, 'Gene').
column_description(gene_symbol, "The official FlyBase symbol for this gene.", symbol, 'Gene Symbol').
column_description(gene_type, "The type of gene.", category, 'Gene Type').
column_description(interaction, "Interaction information associated with allele.", text, 'Interaction Info').
column_description(listOf('genotype_FBids', ['/', ' ']), "Current FlyBase identifier(s) of the components that make up the genotype.", list, 'Genotype Identifiers').
column_description(listOf('genotype_symbols', ['/', ' ']), "Current FlyBase symbol(s) of the components that make up the genotype.", list, 'Genotype Symbols').
column_description(listOf('Interacting_gene_FBgn', ['|']), "Current FlyBase identifier (FBgn) of gene(s) involved in the interacting genotype.", list, 'Gene Identifier').
column_description(listOf('Interacting_gene_symbol', ['|']), "Current FlyBase symbol of gene(s) involved in the interacting genotype.", list, 'Gene Symbol').
column_description(listOf('qualifier_ids', ['|']), "Qualifier identifier(s) associated with phenotypic data for genotype.", list, 'Qualifier Identifiers').
column_description(listOf('qualifier_names', ['|']), "Qualifier name(s) associated with phenotypic data for genotype.", list, 'Qualifier Names').
column_description(listOf('Starting_gene_FBgn', ['|']), "Current FlyBase identifier (FBgn) of gene(s) involved in the starting genotype.", list, 'Gene Identifier').
column_description(listOf('Starting_gene_symbol', ['|']), "Current FlyBase symbol of gene(s) involved in the starting genotype.", list, 'Gene Symbol').
column_description(listOf(fullname_synonym, ['|']), "Non-current full name(s) associated with the object.", list, 'Name Synonyms').
column_description(listOf(genotype_FBids, [/, ' ']), "Current FlyBase identifier(s) of the components that make up the genotype.", list, 'Genotype Identifiers').
column_description(listOf(genotype_symbols, [/, ' ']), "Current FlyBase symbol(s) of the components that make up the genotype.", list, 'Genotype Symbols').
column_description(listOf(qualifier_ids, ['|']), "Qualifier identifier(s) associated with phenotypic data for genotype.", list, 'Qualifier Identifiers').
column_description(listOf(qualifier_names, ['|']), "Qualifier name(s) associated with phenotypic data for genotype.", list, 'Qualifier Names').
column_description(listOf(symbol_synonym, ['|']), "Non-current symbol(s) associated with the object.", list, 'Symbol Synonyms').
column_description(organism_abbreviation, "Abbreviation indicating the species of origin.", abbreviation, 'Organism').
column_description(phenotype_id, "Phenotypic identifier associated with the genotype.", identifier, 'Phenotype Identifier').
column_description(phenotype_name, "Phenotypic name associated with the genotype.", name, 'Phenotype Name').
column_description(primary_FBid, "Primary FlyBase identifier for the object.", identifier, 'Object').
column_description(reference, "Current FlyBase identifer (FBrf) of publication from which data came.", identifier, 'Publication Identifier').
column_names('allele_genetic_interactions', ['allele_symbol', 'allele_FBal#', 'interaction', 'FBrf#']).
column_names('fb_synonym', ['primary_FBid', 'organism_abbreviation', 'current_symbol', 'current_fullname', listOf(fullname_synonym, ['|']), listOf(symbol_synonym, ['|'])]).
column_names('gene_genetic_interactions', [listOf('Starting_gene_symbol', ['|']), listOf('Starting_gene_FBgn', ['|']), listOf('Interacting_gene_symbol', ['|']), listOf('Interacting_gene_FBgn', ['|']), 'Interaction_type', 'Publication_FBrf']).
column_names('gene_rpkm_matrix', ['gene_primary_id', 'gene_symbol', 'gene_fullname', 'gene_type', 'DATASAMPLE_NAME_(DATASET_ID)']).
column_names('gene_rpkm_report', ['Release_ID', 'FBgn#', 'GeneSymbol', 'Parent_library_FBlc#', 'Parent_library_name', 'RNASource_FBlc#', 'RNASource_name', 'RPKM_value', 'Bin_value', 'Unique_exon_base_count', 'Total_exon_base_count', 'Count_used']).
column_names('genotype_phenotype_data', [listOf('genotype_symbols', ['/', ' ']), listOf('genotype_FBids', ['/', ' ']), 'phenotype_name', 'phenotype_id', listOf('qualifier_names', ['|']), listOf('qualifier_ids', ['|']), 'reference']).
column_names('pmid_fbgn_uniprot', ['FBrf_id', 'PMID', 'FBgn_id', 'UniProt_database', 'UniProt_id']).
column_names('scRNA-Seq_gene_expression', ['Pub_ID', 'Pub_miniref', 'Clustering_Analysis_ID', 'Clustering_Analysis_Name', 'Source_Tissue_Sex', 'Source_Tissue_Stage', 'Source_Tissue_Anatomy', 'Cluster_ID', 'Cluster_Name', 'Cluster_Cell_Type_ID', 'Cluster_Cell_Type_Name', 'Gene_ID', 'Gene_Symbol', 'Mean_Expression', 'Spread']).
file_location('allele_genetic_interactions', "path_to_file/allele_genetic_interactions_*.tsv").
file_location('genotype_phenotype_data', "path_to_file/genotype_phenotype_data_*.tsv").
primary_column('allele_genetic_interactions', 'allele_FBal#').
primary_column('fb_synonym', 'primary_FBid').
primary_column('gene_genetic_interactions', 'Starting_gene_FBgn').
primary_column('gene_rpkm_matrix', 'gene_primary_id').
primary_column('gene_rpkm_report', 'FBgn#').
primary_column('genotype_phenotype_data', 'genotype_FBids').
primary_column('pmid_fbgn_uniprot', 'FBgn_id').
primary_column('scRNA-Seq_gene_expression', 'Gene_ID').
primary_column(allele_genetic_interactions, allele_FBal).
primary_column(dataset_metadata, 'Item_ID').
primary_column(dmel_paralogs, 'Paralog_FBgn').
primary_column(fb_synonym, primary_FBid).
primary_column(fbgn_exons2affy1_overlaps, 'FBgn').
primary_column(fbgn_exons2affy2_overlaps, 'FBgn').
primary_column(gene_genetic_interactions, 'Starting_gene_FBgn').
primary_column(gene_rpkm_matrix, gene_primary_id).
primary_column(gene_rpkm_report, 'FBgn').
primary_column(genotype_phenotype_data, genotype_FBids).
primary_column(pmid_fbgn_uniprot, 'FBgn_id').
too_generic(Var):- var(Var),!,fail.
too_generic(pub_id).
too_generic(X):- \+ symbolic_list_concat([_,_,_|_],'_',X).
flybase_cols(allele_genetic_interactions,['##allele_symbol','allele_FBal#',interaction,'FBrf#']).
flybase_cols(analysis,[ analysis_id,name,description,program,programversion,algorithm,sourcename,sourceversion,sourceuri,timeexecuted]).
flybase_cols(analysisfeature,[ analysisfeature_id,feature_id,analysis_id,rawscore,normscore,significance,identity]).
flybase_cols(analysisgrp,[ analysisgrp_id,rawscore,normscore,significance,identity,analysis_id,grp_id]).
flybase_cols(analysisgrpmember,[ analysisgrpmember_id,rawscore,normscore,significance,identity,analysis_id,grpmember_id]).
flybase_cols(analysisprop,[ analysisprop_id,analysis_id,type_id,value]).
flybase_cols(audit_chado,[ audit_transaction,transaction_timestamp,userid,audited_table,record_pkey,record_ukey_cols,record_ukey_vals,audited_cols,audited_vals]).
flybase_cols(cell_line,[ cell_line_id,name,uniquename,organism_id,timeaccessioned,timelastmodified]).
flybase_cols(cell_line_loaderm,[ cell_line_loaderm_id,cell_line_id,loaderm_id,pub_id,rank]).
flybase_cols(cell_line_loadermprop,[ cell_line_loadermprop_id,cell_line_loaderm_id,type_id,value,rank]).
flybase_cols(cell_line_dbxref,[ cell_line_dbxref_id,cell_line_id,dbxref_id,is_current]).
flybase_cols(cell_line_feature,[ cell_line_feature_id,cell_line_id,feature_id,pub_id]).
flybase_cols(cell_line_library,[ cell_line_library_id,cell_line_id,library_id,pub_id]).
flybase_cols(cell_line_libraryprop,[ cell_line_libraryprop_id,cell_line_library_id,type_id,value,rank]).
flybase_cols(cell_line_relationship,[ cell_line_relationship_id,subject_id,object_id,type_id]).
flybase_cols(cell_line_strain,[ cell_line_strain_id,strain_id,cell_line_id,pub_id]).
flybase_cols(cell_line_strainprop,[ cell_line_strainprop_id,cell_line_strain_id,type_id,value,rank]).
flybase_cols(cell_line_synonym,[ cell_line_synonym_id,cell_line_id,synonym_id,pub_id,is_current,is_internal]).
flybase_cols(cell_lineprop,[ cell_lineprop_id,cell_line_id,type_id,value,rank]).
flybase_cols(cell_lineprop_pub,[ cell_lineprop_pub_id,cell_lineprop_id,pub_id]).
flybase_cols(cell_line_pub,[ cell_line_pub_id,cell_line_id,pub_id]).
flybase_cols(contact,[ contact_id,description,name]).
flybase_cols(cv,[ cv_id,name,definition]).
flybase_cols(loaderm,[ loaderm_id,cv_id,definition,dbxref_id,is_obsolete,is_relationshiptype,name]).
flybase_cols(loaderm_dbxref,[ loaderm_dbxref_id,loaderm_id,dbxref_id,is_for_definition]).
flybase_cols(loaderm_relationship,[ loaderm_relationship_id,type_id,subject_id,object_id]).
flybase_cols(loadermpath,[ loadermpath_id,type_id,subject_id,object_id,cv_id,pathdistance]).
flybase_cols(loadermprop,[ loadermprop_id,loaderm_id,type_id,value,rank]).
flybase_cols(loadermsynonym,[ loadermsynonym_id,loaderm_id,name,type_id]).
flybase_cols(db,[ db_id,name,contact_id,description,urlprefix,url]).
flybase_cols(dbxref,[ dbxref_id,db_id,accession,version,description,url]).
flybase_cols(dbxrefprop,[ dbxrefprop_id,dbxref_id,type_id,value,rank]).
flybase_cols(eimage,[ eimage_id,eimage_data,eimage_type,image_uri]).
flybase_cols(environment,[ environment_id,uniquename,description]).
flybase_cols(environment_loaderm,[ environment_loaderm_id,environment_id,loaderm_id]).
flybase_cols(expression,[ expression_id,uniquename,md5checksum,description]).
flybase_cols(expression_loaderm,[ expression_loaderm_id,expression_id,loaderm_id,rank,loaderm_type_id]).
flybase_cols(expression_loadermprop,[ expression_loadermprop_id,expression_loaderm_id,type_id,value,rank]).
flybase_cols(expression_image,[ expression_image_id,expression_id,eimage_id]).
flybase_cols(expressionprop,[ expressionprop_id,expression_id,type_id,value,rank]).
flybase_cols(expression_pub,[ expression_pub_id,expression_id,pub_id]).
flybase_cols(feature,[ feature_id,dbxref_id,organism_id,name,uniquename,residues,seqlen,md5checksum,type_id,is_analysis,timeaccessioned,timelastmodified,is_obsolete]).
flybase_cols(feature_loaderm,[ feature_loaderm_id,feature_id,loaderm_id,pub_id,is_not]).
flybase_cols(feature_loaderm_dbxref,[ feature_loaderm_dbxref_id,feature_loaderm_id,dbxref_id]).
flybase_cols(feature_loadermprop,[ feature_loadermprop_id,feature_loaderm_id,type_id,value,rank]).
flybase_cols(feature_dbxref,[ feature_dbxref_id,feature_id,dbxref_id,is_current]).
flybase_cols(feature_expression,[ feature_expression_id,expression_id,feature_id,pub_id]).
flybase_cols(feature_expressionprop,[ feature_expressionprop_id,feature_expression_id,type_id,value,rank]).
flybase_cols(feature_genotype,[ feature_genotype_id,feature_id,genotype_id,chromosome_id,rank,cgroup,loaderm_id]).
flybase_cols(feature_grpmember,[ feature_grpmember_id,grpmember_id,feature_id]).
flybase_cols(feature_grpmember_pub,[ feature_grpmember_pub_id,pub_id,feature_grpmember_id]).
flybase_cols(feature_humanhealth_dbxref,[ feature_humanhealth_dbxref_id,humanhealth_dbxref_id,feature_id,pub_id]).
flybase_cols(feature_interaction,[ feature_interaction_id,feature_id,interaction_id,role_id,rank]).
flybase_cols(feature_interactionprop,[ feature_interactionprop_id,feature_interaction_id,type_id,value,rank]).
flybase_cols(feature_interaction_pub,[ feature_interaction_pub_id,feature_interaction_id,pub_id]).
flybase_cols(feature_phenotype,[ feature_phenotype_id,feature_id,phenotype_id]).
flybase_cols(feature_pubprop,[ feature_pubprop_id,feature_pub_id,type_id,value,rank]).
flybase_cols(feature_relationship,[ feature_relationship_id,subject_id,object_id,type_id,rank,value]).
flybase_cols(feature_relationshipprop,[ feature_relationshipprop_id,feature_relationship_id,type_id,value,rank]).
flybase_cols(feature_relationshipprop_pub,[ feature_relationshipprop_pub_id,feature_relationshipprop_id,pub_id]).
flybase_cols(feature_relationship_pub,[ feature_relationship_pub_id,feature_relationship_id,pub_id]).
flybase_cols(feature_synonym,[ feature_synonym_id,synonym_id,feature_id,pub_id,is_current,is_internal]).
flybase_cols(featureloc,[ featureloc_id,feature_id,srcfeature_id,fmin,is_fmin_partial,fmax,is_fmax_partial,strand,phase,residue_info,locgroup,rank]).
flybase_cols(featureloc_pub,[ featureloc_pub_id,featureloc_id,pub_id]).
flybase_cols(featuremap,[ featuremap_id,name,description,unittype_id]).
flybase_cols(featuremap_pub,[ featuremap_pub_id,featuremap_id,pub_id]).
flybase_cols(featurepos,[ featurepos_id,featuremap_id,feature_id,map_feature_id,mappos]).
flybase_cols(featureprop,[ featureprop_id,feature_id,type_id,value,rank]).
flybase_cols(featureprop_pub,[ featureprop_pub_id,featureprop_id,pub_id]).
flybase_cols(feature_pub,[ feature_pub_id,feature_id,pub_id]).
flybase_cols(featurerange,[ featurerange_id,featuremap_id,feature_id,leftstartf_id,leftendf_id,rightstartf_id,rightendf_id,rangestr]).
flybase_cols(genotype,[ genotype_id,uniquename,description,name,is_obsolete]).
flybase_cols(genotype_loaderm,[ genotype_loaderm_id,genotype_id,loaderm_id,pub_id,is_not,rank]).
flybase_cols(genotype_loadermprop,[ genotype_loadermprop_id,genotype_loaderm_id,type_id,value,rank]).
flybase_cols(genotype_dbxref,[ genotype_dbxref_id,genotype_id,dbxref_id,is_current]).
flybase_cols(genotype_synonym,[ genotype_synonym_id,genotype_id,synonym_id,pub_id,is_current,is_internal]).
flybase_cols(genotypeprop,[ genotypeprop_id,genotype_id,type_id,value,rank,cvalue_id]).
flybase_cols(genotypeprop_pub,[ genotypeprop_pub_id,genotypeprop_id,pub_id]).
flybase_cols(genotype_pub,[ genotype_pub_id,genotype_id,pub_id]).
flybase_cols(grp,[ grp_id,name,uniquename,type_id,is_analysis,is_obsolete]).
flybase_cols(grp_loaderm,[ grp_loaderm_id,is_not,loaderm_id,grp_id,pub_id]).
flybase_cols(grp_dbxref,[ grp_dbxref_id,is_current,dbxref_id,grp_id]).
flybase_cols(grp_pubprop,[ grp_pubprop_id,value,rank,type_id,grp_pub_id]).
flybase_cols(grp_relationship,[ grp_relationship_id,value,rank,type_id,subject_id,object_id]).
flybase_cols(grp_relationshipprop,[ grp_relationshipprop_id,value,rank,type_id,grp_relationship_id]).
flybase_cols(grp_relationship_pub,[ grp_relationship_pub_id,pub_id,grp_relationship_id]).
flybase_cols(grp_synonym,[ grp_synonym_id,synonym_id,grp_id,pub_id,is_current,is_internal]).
flybase_cols(grpmember,[ grpmember_id,rank,type_id,grp_id]).
flybase_cols(grpmember_loaderm,[ grpmember_loaderm_id,is_not,loaderm_id,grpmember_id,pub_id]).
flybase_cols(grpmemberprop,[ grpmemberprop_id,value,rank,type_id,grpmember_id]).
flybase_cols(grpmemberprop_pub,[ grpmemberprop_pub_id,pub_id,grpmemberprop_id]).
flybase_cols(grpmember_pub,[ grpmember_pub_id,pub_id,grpmember_id]).
flybase_cols(grpprop,[ grpprop_id,value,rank,type_id,grp_id]).
flybase_cols(grpprop_pub,[ grpprop_pub_id,pub_id,grpprop_id]).
flybase_cols(grp_pub,[ grp_pub_id,pub_id,grp_id]).
flybase_cols(humanhealth,[ humanhealth_id,name,uniquename,organism_id,dbxref_id,is_obsolete]).
flybase_cols(humanhealth_loaderm,[ humanhealth_loaderm_id,humanhealth_id,loaderm_id,pub_id]).
flybase_cols(humanhealth_loadermprop,[ humanhealth_loadermprop_id,humanhealth_loaderm_id,type_id,value,rank]).
flybase_cols(humanhealth_dbxref,[ humanhealth_dbxref_id,humanhealth_id,dbxref_id,is_current]).
flybase_cols(humanhealth_dbxrefprop,[ humanhealth_dbxrefprop_id,humanhealth_dbxref_id,type_id,value,rank]).
flybase_cols(humanhealth_dbxrefprop_pub,[ humanhealth_dbxrefprop_pub_id,humanhealth_dbxrefprop_id,pub_id]).
flybase_cols(humanhealth_feature,[ humanhealth_feature_id,humanhealth_id,feature_id,pub_id]).
flybase_cols(humanhealth_featureprop,[ humanhealth_featureprop_id,humanhealth_feature_id,type_id,value,rank]).
flybase_cols(humanhealth_phenotype,[ humanhealth_phenotype_id,humanhealth_id,phenotype_id,pub_id]).
flybase_cols(humanhealth_phenotypeprop,[ humanhealth_phenotypeprop_id,humanhealth_phenotype_id,type_id,value,rank]).
flybase_cols(humanhealth_pubprop,[ humanhealth_pubprop_id,value,rank,type_id,humanhealth_pub_id]).
flybase_cols(humanhealth_relationship,[ humanhealth_relationship_id,subject_id,object_id,type_id,value,rank]).
flybase_cols(humanhealth_relationship_pub,[ humanhealth_relationship_pub_id,humanhealth_relationship_id,pub_id]).
flybase_cols(humanhealth_synonym,[ humanhealth_synonym_id,humanhealth_id,synonym_id,pub_id,is_current,is_internal]).
flybase_cols(humanhealthprop,[ humanhealthprop_id,humanhealth_id,type_id,value,rank]).
flybase_cols(humanhealthprop_pub,[ humanhealthprop_pub_id,humanhealthprop_id,pub_id]).
flybase_cols(humanhealth_pub,[ humanhealth_pub_id,humanhealth_id,pub_id]).
flybase_cols(interaction,[ interaction_id,uniquename,type_id,description,is_obsolete]).
flybase_cols(interaction_cell_line,[ interaction_cell_line_id,cell_line_id,interaction_id,pub_id]).
flybase_cols(interaction_loaderm,[ interaction_loaderm_id,interaction_id,loaderm_id]).
flybase_cols(interaction_loadermprop,[ interaction_loadermprop_id,interaction_loaderm_id,type_id,value,rank]).
flybase_cols(interaction_expression,[ interaction_expression_id,expression_id,interaction_id,pub_id]).
flybase_cols(interaction_expressionprop,[ interaction_expressionprop_id,interaction_expression_id,type_id,value,rank]).
flybase_cols(interaction_group,[ interaction_group_id,uniquename,is_obsolete,description]).
flybase_cols(interaction_group_feature_interaction,[ interaction_group_feature_interaction_id,interaction_group_id,feature_interaction_id,rank,ftype]).
flybase_cols(interactionprop,[ interactionprop_id,interaction_id,type_id,value,rank]).
flybase_cols(interactionprop_pub,[ interactionprop_pub_id,interactionprop_id,pub_id]).
flybase_cols(interaction_pub,[ interaction_pub_id,interaction_id,pub_id]).
flybase_cols(library,[ library_id,organism_id,name,uniquename,type_id,is_obsolete,timeaccessioned,timelastmodified]).
flybase_cols(library_loaderm,[ library_loaderm_id,library_id,loaderm_id,pub_id]).
flybase_cols(library_loadermprop,[ library_loadermprop_id,library_loaderm_id,type_id,value,rank]).
flybase_cols(library_dbxref,[ library_dbxref_id,library_id,dbxref_id,is_current]).
flybase_cols(library_dbxrefprop,[ library_dbxrefprop_id,library_dbxref_id,type_id,value,rank]).
flybase_cols(library_expression,[ library_expression_id,expression_id,library_id,pub_id]).
flybase_cols(library_expressionprop,[ library_expressionprop_id,library_expression_id,type_id,value,rank]).
flybase_cols(library_feature,[ library_feature_id,library_id,feature_id]).
flybase_cols(library_featureprop,[ library_featureprop_id,library_feature_id,type_id,value,rank]).
flybase_cols(library_grpmember,[ library_grpmember_id,grpmember_id,library_id]).
flybase_cols(library_humanhealth,[ library_humanhealth_id,humanhealth_id,library_id,pub_id]).
flybase_cols(library_humanhealthprop,[ library_humanhealthprop_id,library_humanhealth_id,type_id,value,rank]).
flybase_cols(library_interaction,[ library_interaction_id,interaction_id,library_id,pub_id]).
flybase_cols(library_relationship,[ library_relationship_id,subject_id,object_id,type_id]).
flybase_cols(library_relationship_pub,[ library_relationship_pub_id,library_relationship_id,pub_id]).
flybase_cols(library_strain,[ library_strain_id,strain_id,library_id,pub_id]).
flybase_cols(library_strainprop,[ library_strainprop_id,library_strain_id,type_id,value,rank]).
flybase_cols(library_synonym,[ library_synonym_id,synonym_id,library_id,pub_id,is_current,is_internal]).
flybase_cols(libraryprop,[ libraryprop_id,library_id,type_id,value,rank]).
flybase_cols(libraryprop_pub,[ libraryprop_pub_id,libraryprop_id,pub_id]).
flybase_cols(library_pub,[ library_pub_id,library_id,pub_id]).
flybase_cols(lock,[ lock_id,username,locktype,lockname,lockrank,lockstatus,timeaccessioend,timelastmodified,chadoxmlfile,comment,task]).
flybase_cols(organism,[ organism_id,abbreviation,genus,species,common_name,comment]).
flybase_cols(organism_loaderm,[ organism_loaderm_id,organism_id,loaderm_id,rank,pub_id]).
flybase_cols(organism_loadermprop,[ organism_loadermprop_id,organism_loaderm_id,type_id,value,rank]).
flybase_cols(organism_dbxref,[ organism_dbxref_id,organism_id,dbxref_id,is_current]).
flybase_cols(organism_grpmember,[ organism_grpmember_id,grpmember_id,organism_id]).
flybase_cols(organism_library,[ organism_library_id,organism_id,library_id]).
flybase_cols(organismprop,[ organismprop_id,organism_id,type_id,value,rank]).
flybase_cols(organismprop_pub,[ organismprop_pub_id,organismprop_id,pub_id]).
flybase_cols(organism_pub,[ organism_pub_id,organism_id,pub_id]).
flybase_cols(phendesc,[ phendesc_id,genotype_id,environment_id,description,type_id,pub_id]).
flybase_cols(phenotype,[ phenotype_id,uniquename,observable_id,attr_id,value,cvalue_id,assay_id]).
flybase_cols(phenotype_comparison,[ phenotype_comparison_id,genotype1_id,environment1_id,genotype2_id,environment2_id,phenotype1_id,phenotype2_id,pub_id,organism_id]).
flybase_cols(phenotype_comparison_loaderm,[ phenotype_comparison_loaderm_id,phenotype_comparison_id,loaderm_id,rank]).
flybase_cols(phenotype_loaderm,[ phenotype_loaderm_id,phenotype_id,loaderm_id,rank]).
flybase_cols(phenstatement,[ phenstatement_id,genotype_id,environment_id,phenotype_id,type_id,pub_id]).
flybase_cols(project,[ project_id,name,description]).
flybase_cols(pub,[ pub_id,title,volumetitle,volume,series_name,issue,pyear,pages,miniref,type_id,is_obsolete,publisher,pubplace,uniquename]).
flybase_cols(pub_dbxref,[ pub_dbxref_id,pub_id,dbxref_id,is_current]).
flybase_cols(pub_relationship,[ pub_relationship_id,type_id,subject_id,object_id]).
flybase_cols(pubauthor,[ pubauthor_id,pub_id,rank,editor,surname,givennames,suffix]).
flybase_cols(pubprop,[ pubprop_id,pub_id,type_id,value,rank]).
flybase_cols(stock,[ stock_id,dbxref_id,organism_id,name,uniquename,description,type_id,is_obsolete]).
flybase_cols(stock_loaderm,[ stock_loaderm_id,stock_id,loaderm_id,pub_id]).
flybase_cols(stock_dbxref,[ stock_dbxref_id,stock_id,dbxref_id,is_current]).
flybase_cols(stock_genotype,[ stock_genotype_id,stock_id,genotype_id]).
flybase_cols(stock_relationship,[ stock_relationship_id,subject_id,object_id,type_id,value,rank]).
flybase_cols(stock_relationship_pub,[ stock_relationship_pub_id,stock_relationship_id,pub_id]).
flybase_cols(stockcollection,[ stockcollection_id,type_id,contact_id,name,uniquename]).
flybase_cols(stockcollection_stock,[ stockcollection_stock_id,stockcollection_id,stock_id]).
flybase_cols(stockcollectionprop,[ stockcollectionprop_id,stockcollection_id,type_id,value,rank]).
flybase_cols(stockprop,[ stockprop_id,stock_id,type_id,value,rank]).
flybase_cols(stockprop_pub,[ stockprop_pub_id,stockprop_id,pub_id]).
flybase_cols(stock_pub,[ stock_pub_id,stock_id,pub_id]).
flybase_cols(strain,[ strain_id,name,uniquename,organism_id,dbxref_id,is_obsolete]).
flybase_cols(strain_loaderm,[ strain_loaderm_id,strain_id,loaderm_id,pub_id]).
flybase_cols(strain_loadermprop,[ strain_loadermprop_id,strain_loaderm_id,type_id,value,rank]).
flybase_cols(strain_dbxref,[ strain_dbxref_id,strain_id,dbxref_id,is_current]).
flybase_cols(strain_feature,[ strain_feature_id,strain_id,feature_id,pub_id]).
flybase_cols(strain_featureprop,[ strain_featureprop_id,strain_feature_id,type_id,value,rank]).
flybase_cols(strain_phenotype,[ strain_phenotype_id,strain_id,phenotype_id,pub_id]).
flybase_cols(strain_phenotypeprop,[ strain_phenotypeprop_id,strain_phenotype_id,type_id,value,rank]).
flybase_cols(strain_relationship,[ strain_relationship_id,subject_id,object_id,type_id,value,rank]).
flybase_cols(strain_relationship_pub,[ strain_relationship_pub_id,strain_relationship_id,pub_id]).
flybase_cols(strain_synonym,[ strain_synonym_id,strain_id,synonym_id,pub_id,is_current,is_internal]).
flybase_cols(strainprop,[ strainprop_id,strain_id,type_id,value,rank]).
flybase_cols(strainprop_pub,[ strainprop_pub_id,strainprop_id,pub_id]).
flybase_cols(strain_pub,[ strain_pub_id,strain_id,pub_id]).
flybase_cols(synonym,[ synonym_id,name,type_id,synonym_sgml]).
flybase_cols(tableinfo,[ tableinfo_id,name,primary_key_column,is_view,view_on_table_id,superclass_table_id,is_updateable,modification_date]).
flybase_cols(update_track,[ update_track_id,release,fbid,time_update,author,statement,comment,annotation_id]).
table_columns(T,List):- table_columns_tt(TT,List), eigther_contains(T,TT),!.
table_columns_tt(TT,List):- column_names(TT,List).
table_columns_tt(TT,List):- flybase_cols(TT,List).
table_columns_tt(TT,List):- t_h_n(TT,_,List).
eigther_contains(TT,T):- TT=T,!.
eigther_contains(T,TT):- symbol_contains(T,TT),!.
eigther_contains(TT,T):- symbol_contains(T,TT),!.
column_names('cyto-genetic-seq', ['Cytogenetic_map_position', 'Genetic_map_position', 'Sequence_coordinates_(release_6)', 'R6_conversion_notes']).
column_names('Dmel_enzyme', [gene_group_id, gene_group_name, listOf(gene_group_GO_id), listOf(gene_group_GO_name), listOf(gene_group_EC_number), listOf(gene_group_EC_name), gene_id, gene_symbol, gene_name, listOf(gene_EC_number), listOf(gene_EC_name)]).
column_names('scRNA-Seq_gene_expression', ['Pub_ID', 'Pub_miniref', 'Clustering_Analysis_ID', 'Clustering_Analysis_Name', 'Source_Tissue_Sex', 'Source_Tissue_Stage', 'Source_Tissue_Anatomy', 'Cluster_ID', 'Cluster_Name', 'Cluster_Cell_Type_ID', 'Cluster_Cell_Type_Name', 'Gene_ID', 'Gene_Symbol', 'Mean_Expression', 'Spread']).
column_names(allele_genetic_interactions, [allele_symbol, allele_FBal, interaction, 'FBrf']).
column_names(allele_phenotypic, [allele_symbol, allele_FBal, phenotype, 'FBrf']).
column_names(fbal_to_fbgn, ['AlleleID', 'AlleleSymbol', 'GeneID', 'GeneSymbol']).
column_names(genotype_phenotype_data, [listOf(genotype_symbols, [/, ' ']), listOf(genotype_FBids, [/, ' ']), phenotype_name, phenotype_id, listOf(qualifier_names, ['|']), listOf(qualifier_ids, ['|']), reference]).
% #genotype_symbols genotype_FBids phenotype_name phenotype_id qualifier_names qualifier_ids reference
column_names(automated_gene_summaries, [primary_FBgn, summary_text]).
column_names(best_gene_summary, ['FBgn', 'Gene_Symbol', 'Summary_Source', 'Summary']).
column_names(cDNA_clone_data, ['FBcl', organism_abbreviation, clone_name, dataset_metadata_name, listOf(cDNA_accession), listOf('EST_accession')]).
column_names(dataset_metadata, ['Dataset_Metadata_ID', 'Dataset_Metadata_Name', 'Item_ID', 'Item_Name']).
column_names(disease_model_annotations, ['FBgn', 'Gene_symbol', 'HGNC', 'DO_qualifier', 'DO', 'DO_term', 'Allele_used_in_model_(FBal)', 'Allele_used_in_model_(symbol)', 'Based_on_orthology_with_(HGNC_ID)', 'Based_on_orthology_with_(symbol)', 'Evidence/interacting_alleles', 'Reference_(FBrf)']).
column_names(dmel_gene_sequence_ontology_annotations, [gene_primary_id, gene_symbol, so_term_name, so_term_id]).
column_names(dmel_human_orthologs_disease, ['Dmel_gene', 'Dmel_gene_symbol', 'Human_gene_HGNC', 'Human_gene_OMIM', 'Human_gene_symbol', 'DIOPT_score', 'OMIM_Phenotype_IDs', 'OMIM_Phenotype_IDs[name]']).
column_names(dmel_paralogs, ['FBgn', 'GeneSymbol', 'Arm/Scaffold', 'Location', 'Strand', 'Paralog_FBgn', 'Paralog_GeneSymbol', 'Paralog_Arm/Scaffold', 'Paralog_Location', 'Paralog_Strand', 'DIOPT_score']).
column_names(dmel_unique_protein_isoforms, ['FBgn', 'FB_gene_symbol', representative_protein, listOf(identical_protein)]).
column_names(entity_publication, [entity_id, entity_name, 'FlyBase_publication', 'PubMed']).
column_names(fb_synonym, [primary_FBid, organism_abbreviation, current_symbol, current_fullname, listOf(fullname_synonym, ['|']), listOf(symbol_synonym, ['|'])]).
column_names(fbgn_annotation_ID, [gene_symbol, organism_abbreviation, primary_FBgn, listOf(secondary_FBgn), annotation_ID, listOf(secondary_annotation_ID)]).
column_names(fbgn_exons2affy1_overlaps, ['FBgn', listOf(affy)]).
column_names(fbgn_exons2affy2_overlaps, ['FBgn', listOf(affy)]).
column_names(fbgn_fbtr_fbpp, ['FBgn', 'FBtr', 'FBpp']).
column_names(fbgn_fbtr_fbpp_expanded, [organism, gene_type, gene_ID, gene_symbol, gene_fullname, annotation_ID, transcript_type, transcript_ID, transcript_symbol, polypeptide_ID, polypeptide_symbol]).
column_names(fbgn_gleanr, [organism_abbreviation, gene_symbol, primary_FBgn, 'GLEANR']).
column_names(fbgn_NAseq_Uniprot, [gene_symbol, organism_abbreviation, primary_FBgn, nucleotide_accession, na_based_protein_accession, 'UniprotKB/Swiss-Prot/TrEMBL_accession', 'EntrezGene', 'RefSeq_transcripts', 'RefSeq_proteins']).
column_names(fbgn_uniprot, [primary_FBgn, gene_symbol, 'CG', 'UniprotKB/Swiss-Prot/TrEMBL_accession']).
column_names(fbrf_pmid_pmcid_doi, ['FBrf', 'PMID', 'PMCID', 'DOI', pub_type, miniref, pmid_added]).
column_names(gene_functional_complementation, ['Dmel_gene_symbol', 'Dmel_gene_FBgn', ortholog_gene_symbol, ortholog_gene_FBgn_ID, reference_FBrf]).
column_names(gene_genetic_interactions, [listOf('Starting_gene_symbol'), listOf('Starting_gene_FBgn'), listOf('Interacting_gene_symbol'), listOf('Interacting_gene_FBgn'), 'Interaction_type', 'Publication_FBrf']).
column_names(gene_group, ['FB_group', 'FB_group_symbol', 'FB_group_name', 'Parent_FB_group', 'Parent_FB_group_symbol', 'Group_member_FB_gene', 'Group_member_FB_gene_symbol']).
column_names(gene_groups_HGNC, ['FB_group', 'FB_group_symbol', 'FB_group_name', 'HGNC_family']).
column_names(gene_map_table, [organism_abbreviation, current_symbol, primary_FBid, recombination_loc, cytogenetic_loc, sequence_loc]).
column_names(gene_rpkm_matrix, [gene_primary_id, gene_symbol, gene_fullname, gene_type, 'DATASAMPLE_NAME_(DATASET_ID)']).
column_names(gene_rpkm_report, ['Release_ID', 'FBgn', 'GeneSymbol', 'Parent_library_FBlc', 'Parent_library_name', 'RNASource_FBlc', 'RNASource_name', 'RPKM_value', 'Bin_value', 'Unique_exon_base_count', 'Total_exon_base_count', 'Count_used']).
column_names(gene_snapshots, ['FBgn', 'GeneSymbol', 'GeneName', datestamp, gene_snapshot_text]).
column_names(genomic_clone, ['FBcl', organism_abbreviation, clone_name, accession]).
column_names(insertion_mapping, [insertion_symbol, 'FBti', genomic_location, range, orientation, estimated_cytogenetic_location, observed_cytogenetic_location]).
column_names(organism_list, [genus, species, abbreviation, common_name, 'NCBI_taxon', 'drosophilid?']).
column_names(pathway_group, ['FB_group', 'FB_group_symbol', 'FB_group_name', 'Parent_FB_group', 'Parent_FB_group_symbol', 'Group_member_FB_gene', 'Group_member_FB_gene_symbol']).
column_names(physical_interactions_mitab, [listOf('ID_Interactor_A'), listOf('ID_Interactor_B'), listOf('Alt_ID_Interactor_A'), listOf('Alt_ID_Interactor_B'), listOf('Alias_Interactor_A'), listOf('Alias_Interactor_B'), listOf('Interaction_Detection_Method'), listOf('Publication_1st_Author'), listOf('Publication'), 'Taxid_Interactor_A', 'Taxid_Interactor_B', listOf('Interaction_Type'), listOf('Source_Database'), listOf('Interaction_Identifier'), listOf('Confidence_Value'), listOf('Expansion_Method'), listOf('Biological_Role_Interactor_A'), listOf('Biological_Role_Interactor_B'), listOf('Experimental_Role_Interactor_A'), listOf('Experimental_Role_Interactor_B'), listOf('Type_Interactor_A'), listOf('Type_Interactor_B'), listOf('Xref_Interactor_A'), listOf('Xref_Interactor_B'), listOf('Interaction_Xref'), listOf('Annotation_Interactor_A'), listOf('Annotation_Interactor_B'), listOf('Interaction_Annotation'), listOf('Host_Organism'), 'Interaction_Parameters', 'Creation_Date', 'Update_Date', 'Checksum_Interactor_A', 'Checksum_Interactor_B', 'Interaction_Checksum', 'Negative', listOf('Feature_Interactor_A'), listOf('Feature_Interactor_B'), 'Stoichiometry_Interactor_A', 'Stoichiometry_Interactor_B', listOf('Identification_Method_Participant_A'), listOf('Identification_Method_Participant_B')]).
column_names(pmid_fbgn_uniprot, ['FBrf', 'PMID', 'FBgn', 'UniProt_database', 'UniProt_id']).
column_names(synonym, [primary_FBid, organism_abbreviation, current_symbol, current_fullname, listOf(fullname_synonym), listOf(symbol_synonym)]).
column_names_ext(pmid_fbgn_uniprot, ['FBrf_id', 'PMID', 'FBgn_id', 'UniProt_database', 'UniProt_id']).
column_names_ext(gene_genetic_interactions, [listOf('Starting_gene_symbol', ['|']), listOf('Starting_gene_FBgn', ['|']), listOf('Interacting_gene_symbol', ['|']), listOf('Interacting_gene_FBgn', ['|']), 'Interaction_type', 'Publication_FBrf']).
column_names_ext(gene_rpkm_matrix, [gene_primary_id, gene_symbol, gene_fullname, gene_type, 'BCM_1_E2-4hr_(FBlc0000061)', 'BCM_1_E14-16hr_(FBlc0000062)', 'BCM_1_E2-16hr_(FBlc0000063)', 'BCM_1_E2-16hr100_(FBlc0000064)', 'BCM_1_L3i_(FBlc0000065)', 'BCM_1_L3i100_(FBlc0000066)', 'BCM_1_P3d_(FBlc0000067)', 'BCM_1_FA3d_(FBlc0000068)', 'BCM_1_MA3d_(FBlc0000069)', 'BCM_1_P_(FBlc0000070)', 'BCM_1_L_(FBlc0000071)', 'BCM_1_A17d_(FBlc0000072)', 'mE_mRNA_em0-2hr_(FBlc0000086)', 'mE_mRNA_em2-4hr_(FBlc0000087)', 'mE_mRNA_em4-6hr_(FBlc0000088)', 'mE_mRNA_em6-8hr_(FBlc0000089)', 'mE_mRNA_em8-10hr_(FBlc0000090)', 'mE_mRNA_em10-12hr_(FBlc0000091)', 'mE_mRNA_em12-14hr_(FBlc0000092)', 'mE_mRNA_em14-16hr_(FBlc0000093)', 'mE_mRNA_em16-18hr_(FBlc0000094)', 'mE_mRNA_em18-20hr_(FBlc0000095)', 'mE_mRNA_em20-22hr_(FBlc0000096)', 'mE_mRNA_em22-24hr_(FBlc0000097)', 'mE_mRNA_L1_(FBlc0000098)', 'mE_mRNA_L2_(FBlc0000099)', 'mE_mRNA_L3_12hr_(FBlc0000100)', 'mE_mRNA_L3_PS1-2_(FBlc0000101)', 'mE_mRNA_L3_PS3-6_(FBlc0000102)', 'mE_mRNA_L3_PS7-9_(FBlc0000103)', 'mE_mRNA_WPP_(FBlc0000104)', 'mE_mRNA_P5_(FBlc0000105)', 'mE_mRNA_P6_(FBlc0000106)', 'mE_mRNA_P8_(FBlc0000107)', 'mE_mRNA_P9-10_(FBlc0000108)', 'mE_mRNA_P15_(FBlc0000109)', 'mE_mRNA_AdF_Ecl_1days_(FBlc0000110)', 'mE_mRNA_AdF_Ecl_5days_(FBlc0000111)', 'mE_mRNA_AdF_Ecl_30days_(FBlc0000112)', 'mE_mRNA_AdM_Ecl_1days_(FBlc0000113)', 'mE_mRNA_AdM_Ecl_5days_(FBlc0000114)', 'mE_mRNA_AdM_Ecl_30days_(FBlc0000115)', 'mE_mRNA_A_MateF_1d_head_(FBlc0000207)', 'mE_mRNA_A_MateF_4d_ovary_(FBlc0000208)', 'mE_mRNA_A_MateM_1d_head_(FBlc0000209)', 'mE_mRNA_A_VirF_1d_head_(FBlc0000210)', 'mE_mRNA_A_VirF_4d_head_(FBlc0000211)', 'mE_mRNA_A_MateF_20d_head_(FBlc0000212)', 'mE_mRNA_A_MateF_4d_head_(FBlc0000213)', 'mE_mRNA_A_MateM_20d_head_(FBlc0000214)', 'mE_mRNA_A_MateM_4d_acc_gland_(FBlc0000215)', 'mE_mRNA_A_MateM_4d_head_(FBlc0000216)', 'mE_mRNA_A_MateM_4d_testis_(FBlc0000217)', 'mE_mRNA_A_1d_carcass_(FBlc0000218)', 'mE_mRNA_A_1d_dig_sys_(FBlc0000219)', 'mE_mRNA_A_20d_carcass_(FBlc0000220)', 'mE_mRNA_A_20d_dig_sys_(FBlc0000221)', 'mE_mRNA_A_4d_carcass_(FBlc0000222)', 'mE_mRNA_A_4d_dig_sys_(FBlc0000223)', 'mE_mRNA_P8_CNS_(FBlc0000224)', 'mE_mRNA_L3_CNS_(FBlc0000225)', 'mE_mRNA_L3_Wand_carcass_(FBlc0000226)', 'mE_mRNA_L3_Wand_dig_sys_(FBlc0000227)', 'mE_mRNA_L3_Wand_fat_(FBlc0000228)', 'mE_mRNA_L3_Wand_imag_disc_(FBlc0000229)', 'mE_mRNA_L3_Wand_saliv_(FBlc0000230)', 'mE_mRNA_A_VirF_20d_head_(FBlc0000231)', 'mE_mRNA_A_VirF_4d_ovary_(FBlc0000232)', 'mE_mRNA_WPP_fat_(FBlc0000233)', 'mE_mRNA_WPP_saliv_(FBlc0000234)', 'mE_mRNA_P8_fat_(FBlc0000235)', 'mE_mRNA_A_4d_Cold1_(FBlc0000237)', 'mE_mRNA_A_4d_Cold2_(FBlc0000238)', 'mE_mRNA_L3_Cu_0.5mM_(FBlc0000239)', 'mE_mRNA_L3_late_Zn_5mM_(FBlc0000240)', 'mE_mRNA_A_4d_Cu_15mM_(FBlc0000241)', 'mE_mRNA_A_4d_Zn_4.5mM_(FBlc0000242)', 'mE_mRNA_A_4d_Caffeine_25mg/ml_(FBlc0000243)', 'mE_mRNA_A_4d_Caffeine_2.5mg/ml_(FBlc0000244)', 'mE_mRNA_L3_Caffeine_1.5mg/ml_(FBlc0000245)', 'mE_mRNA_A_4d_Cd_0.1M_(FBlc0000246)', 'mE_mRNA_A_4d_Cd_0.05M_(FBlc0000247)', 'mE_mRNA_L3_Cd_12h_(FBlc0000248)', 'mE_mRNA_L3_Cd_6hr_(FBlc0000249)', 'mE_mRNA_A_4d_Paraquat_5mM_(FBlc0000250)', 'mE_mRNA_A_4d_Paraquat_10mM_(FBlc0000251)', 'mE_mRNA_L3_Rotenone_8ug_(FBlc0000252)', 'mE_mRNA_L3_Rotenone_2ug_(FBlc0000253)', 'mE_mRNA_L3_EtOH_10_(FBlc0000254)', 'mE_mRNA_L3_EtOH_5_(FBlc0000255)', 'mE_mRNA_L3_EtOH_2.5_(FBlc0000256)', 'mE_mRNA_A_4d_Heatshock_(FBlc0000257)', 'mE_mRNA_A_10d_Resveratrol_100uM_(FBlc0000672)', 'mE_mRNA_A_10d_Rotenone_Starved_(FBlc0000673)', 'mE_mRNA_F_Sindbis_virus_(FBlc0000674)', 'mE_mRNA_L_Sindbis_virus_(FBlc0000675)', 'mE_mRNA_M_Sindbis_virus_(FBlc0000676)', 'mE_mRNA_P_Sindbis_virus_(FBlc0000677)', 'mE_mRNA_CME-W2_cells_(FBlc0000261)', 'mE_mRNA_GM2_cells_(FBlc0000262)', 'mE_mRNA_mbn2_cells_(FBlc0000263)', 'mE_mRNA_BG2-c2_cells_(FBlc0000264)', 'mE_mRNA_D20-c5_cells_(FBlc0000265)', 'mE_mRNA_S3_cells_(FBlc0000266)', 'mE_mRNA_1182-4H_cells_(FBlc0000267)', 'mE_mRNA_CME_L1_cells_(FBlc0000268)', 'mE_mRNA_Kc167_cells_(FBlc0000269)', 'mE_mRNA_BG1-c1_cells_(FBlc0000270)', 'mE_mRNA_D11_cells_(FBlc0000271)', 'mE_mRNA_D16-c3_cells_(FBlc0000272)', 'mE_mRNA_D17-c3_cells_(FBlc0000273)', 'mE_mRNA_D21_cells_(FBlc0000274)', 'mE_mRNA_D32_cells_(FBlc0000275)', 'mE_mRNA_D4-c1_cells_(FBlc0000276)', 'mE_mRNA_D8_cells_(FBlc0000277)', 'mE_mRNA_D9_cells_(FBlc0000278)', 'mE_mRNA_S1_cells_(FBlc0000279)', 'mE_mRNA_S2R+_cells_(FBlc0000280)', 'mE_mRNA_Sg4_cells_(FBlc0000281)', 'mE_mRNA_OSS_cells_(FBlc0000282)', 'mE_mRNA_OSC_cells_(FBlc0000283)', 'mE_mRNA_fGS_cells_(FBlc0000284)', 'Knoblich_mRNA_L3_CNS_neuroblast_(FBlc0000505)', 'Knoblich_mRNA_L3_CNS_neuron_(FBlc0000506)', 'RNA-Seq_Profile_FlyAtlas2_Adult_Female_Brain_(FBlc0003619)', 'RNA-Seq_Profile_FlyAtlas2_Adult_Female_Crop_(FBlc0003620)', 'RNA-Seq_Profile_FlyAtlas2_Adult_Female_Carcass_(FBlc0003621)', 'RNA-Seq_Profile_FlyAtlas2_Adult_Female_Eye_(FBlc0003622)', 'RNA-Seq_Profile_FlyAtlas2_Adult_Female_FatBody_(FBlc0003623)', 'RNA-Seq_Profile_FlyAtlas2_Adult_Female_Head_(FBlc0003624)', 'RNA-Seq_Profile_FlyAtlas2_Adult_Female_Hindgut_(FBlc0003625)', 'RNA-Seq_Profile_FlyAtlas2_Adult_Female_Midgut_(FBlc0003626)', 'RNA-Seq_Profile_FlyAtlas2_Adult_Female_Ovary_(FBlc0003627)', 'RNA-Seq_Profile_FlyAtlas2_Adult_Female_RectalPad_(FBlc0003628)', 'RNA-Seq_Profile_FlyAtlas2_Adult_Female_SalivaryGland_(FBlc0003629)', 'RNA-Seq_Profile_FlyAtlas2_Adult_Female_ThoracicoAbdominalGanglion_(FBlc0003630)', 'RNA-Seq_Profile_FlyAtlas2_Adult_Female_MalpighianTubule_(FBlc0003631)', 'RNA-Seq_Profile_FlyAtlas2_Adult_Female_Mated_Spermathecum_(FBlc0003632)', 'RNA-Seq_Profile_FlyAtlas2_Adult_Female_Virgin_Spermathecum_(FBlc0003633)', 'RNA-Seq_Profile_FlyAtlas2_Adult_Female_Whole_(FBlc0003634)', 'RNA-Seq_Profile_FlyAtlas2_Adult_Male_Brain_(FBlc0003635)', 'RNA-Seq_Profile_FlyAtlas2_Adult_Male_Crop_(FBlc0003636)', 'RNA-Seq_Profile_FlyAtlas2_Adult_Male_Carcass_(FBlc0003637)', 'RNA-Seq_Profile_FlyAtlas2_Adult_Male_Eye_(FBlc0003638)', 'RNA-Seq_Profile_FlyAtlas2_Adult_Male_FatBody_(FBlc0003639)', 'RNA-Seq_Profile_FlyAtlas2_Adult_Male_Head_(FBlc0003640)', 'RNA-Seq_Profile_FlyAtlas2_Adult_Male_Hindgut_(FBlc0003641)', 'RNA-Seq_Profile_FlyAtlas2_Adult_Male_Midgut_(FBlc0003642)', 'RNA-Seq_Profile_FlyAtlas2_Adult_Male_RectalPad_(FBlc0003643)', 'RNA-Seq_Profile_FlyAtlas2_Adult_Male_SalivaryGland_(FBlc0003644)', 'RNA-Seq_Profile_FlyAtlas2_Adult_Male_ThoracicoAbdominalGanglion_(FBlc0003645)', 'RNA-Seq_Profile_FlyAtlas2_Adult_Male_MalpighianTubule_(FBlc0003646)', 'RNA-Seq_Profile_FlyAtlas2_Adult_Male_Testis_(FBlc0003647)', 'RNA-Seq_Profile_FlyAtlas2_Adult_Male_AccessoryGland_(FBlc0003648)', 'RNA-Seq_Profile_FlyAtlas2_Adult_Male_Whole_(FBlc0003649)', 'RNA-Seq_Profile_FlyAtlas2_L3_CNS_(FBlc0003650)', 'RNA-Seq_Profile_FlyAtlas2_L3_FatBody_(FBlc0003651)', 'RNA-Seq_Profile_FlyAtlas2_L3_Hindgut_(FBlc0003652)', 'RNA-Seq_Profile_FlyAtlas2_L3_MalpighianTubule_(FBlc0003653)', 'RNA-Seq_Profile_FlyAtlas2_L3_Midgut_(FBlc0003654)', 'RNA-Seq_Profile_FlyAtlas2_L3_SalivaryGland_(FBlc0003655)', 'RNA-Seq_Profile_FlyAtlas2_L3_Trachea_(FBlc0003656)', 'RNA-Seq_Profile_FlyAtlas2_L3_Carcass_(FBlc0003657)', 'RNA-Seq_Profile_FlyAtlas2_L3_Whole_(FBlc0003658)', 'RNA-Seq_Profile_FlyAtlas2_Adult_Female_Heart_(FBlc0003724)', 'RNA-Seq_Profile_FlyAtlas2_Adult_Male_Heart_(FBlc0003725)']).
flybase_tables([
analysis, analysisfeature, analysisgrp, analysisgrpmember, analysisprop, audit_chado, cell_line, cell_line_loaderm, cell_line_loadermprop,
cell_line_dbxref, cell_line_feature, cell_line_library, cell_line_libraryprop, cell_line_pub, cell_line_relationship, cell_line_strain,
cell_line_strainprop, cell_line_synonym, cell_lineprop, cell_lineprop_pub, contact, cv, loaderm, loaderm_dbxref, loaderm_relationship,
loadermpath, loadermprop, loadermsynonym, db, dbxref, dbxrefprop, eimage, environment, environment_loaderm, expression, expression_loaderm,
expression_loadermprop, expression_image, expression_pub, expressionprop, feature, feature_loaderm, feature_loaderm_dbxref,
feature_loadermprop, feature_dbxref, feature_expression, feature_expressionprop, feature_genotype, feature_grpmember,
feature_grpmember_pub, feature_humanhealth_dbxref, feature_interaction, feature_interaction_pub, feature_interactionprop,
feature_phenotype, feature_pub, feature_pubprop, feature_relationship, feature_relationship_pub, feature_relationshipprop,
feature_relationshipprop_pub, feature_synonym, featureloc, featureloc_pub, featuremap, featuremap_pub, featurepos, featureprop,
featureprop_pub, featurerange, genotype, genotype_loaderm, genotype_loadermprop, genotype_dbxref, genotype_pub, genotype_synonym,
genotypeprop, genotypeprop_pub, grp, grp_loaderm, grp_dbxref, grp_pub, grp_pubprop, grp_relationship, grp_relationship_pub,
grp_relationshipprop, grp_synonym, grpmember, grpmember_loaderm, grpmember_pub, grpmemberprop, grpmemberprop_pub, grpprop,
grpprop_pub, humanhealth, humanhealth_loaderm, humanhealth_loadermprop, humanhealth_dbxref, humanhealth_dbxrefprop,
humanhealth_dbxrefprop_pub, humanhealth_feature, humanhealth_featureprop, humanhealth_phenotype, humanhealth_phenotypeprop,
humanhealth_pub, humanhealth_pubprop, humanhealth_relationship, humanhealth_relationship_pub, humanhealth_synonym, humanhealthprop,
humanhealthprop_pub, interaction, interaction_cell_line, interaction_loaderm, interaction_loadermprop, interaction_expression,
interaction_expressionprop, interaction_group, interaction_group_feature_interaction, interaction_pub, interactionprop,
interactionprop_pub, library, library_loaderm, library_loadermprop, library_dbxref, library_dbxrefprop, library_expression,
library_expressionprop, library_feature, library_featureprop, library_grpmember, library_humanhealth, library_humanhealthprop,
library_interaction, library_pub, library_relationship, library_relationship_pub, library_strain, library_strainprop, library_synonym,
libraryprop, libraryprop_pub, lock, organism, organism_loaderm, organism_loadermprop, organism_dbxref, organism_grpmember,
organism_library, organism_pub, organismprop, organismprop_pub, phendesc, phenotype, phenotype_comparison, phenotype_comparison_loaderm,
phenotype_loaderm, phenstatement, project, pub, pub_dbxref, pub_relationship, pubauthor, pubprop, sql_features, sql_implementation_info,
sql_parts, sql_sizing, stock, stock_loaderm, stock_dbxref, stock_genotype, stock_pub, stock_relationship, stock_relationship_pub,
stockcollection, stockcollection_stock, stockcollectionprop, stockprop, stockprop_pub, strain, strain_loaderm, strain_loadermprop,
strain_dbxref, strain_feature, strain_featureprop, strain_phenotype, strain_phenotypeprop,
strain_pub, strain_relationship, strain_relationship_pub, strain_synonym, strainprop, strainprop_pub, synonym, tableinfo, update_track]).
table_n_type(allele_genetic_interactions, 1, allele_symbol, _).
table_n_type(allele_genetic_interactions, 2, allele_FBal, 'FBal').
table_n_type(allele_genetic_interactions, 3, interaction, _).
table_n_type(allele_genetic_interactions, 4, 'FBrf', 'FBrf').
table_n_type(disease_model_annotations, 1, 'FBgn', 'FBgn').
table_n_type(disease_model_annotations, 2, 'Gene_symbol', _).
table_n_type(disease_model_annotations, 3, 'HGNC', 'HGNC').
table_n_type(disease_model_annotations, 4, 'DO_qualifier', _).
table_n_type(disease_model_annotations, 5, 'DO', _).
table_n_type(disease_model_annotations, 6, 'DO_term', _).
table_n_type(disease_model_annotations, 7, 'Allele_used_in_model_(FBal)', 'FBal').
table_n_type(disease_model_annotations, 8, 'Allele_used_in_model_(symbol)', _).
table_n_type(disease_model_annotations, 9, 'Based_on_orthology_with_(HGNC_ID)', 'HGNC').
table_n_type(disease_model_annotations, 10, 'Based_on_orthology_with_(symbol)', _).
table_n_type(disease_model_annotations, 11, 'Evidence/interacting_alleles', _).
table_n_type(disease_model_annotations, 12, 'Reference_(FBrf)', 'FBrf').
table_n_type(dmel_gene_sequence_ontology_annotations, 1, gene_primary_id, _).
table_n_type(dmel_gene_sequence_ontology_annotations, 2, gene_symbol, _).
table_n_type(dmel_gene_sequence_ontology_annotations, 3, so_term_name, _).
table_n_type(dmel_gene_sequence_ontology_annotations, 4, so_term_id, _).
table_n_type(dmel_human_orthologs_disease, 1, 'Dmel_gene', _).
table_n_type(dmel_human_orthologs_disease, 2, 'Dmel_gene_symbol', _).
table_n_type(dmel_human_orthologs_disease, 3, 'Human_gene_HGNC', 'HGNC').
table_n_type(dmel_human_orthologs_disease, 4, 'Human_gene_OMIM', 'OMIM').
table_n_type(dmel_human_orthologs_disease, 5, 'Human_gene_symbol', _).
table_n_type(dmel_human_orthologs_disease, 6, 'DIOPT_score', _).
table_n_type(dmel_human_orthologs_disease, 7, listOf('OMIM_Phenotype_IDs',[',']), 'OMIM').
table_n_type(dmel_human_orthologs_disease, 8, 'OMIM_Phenotype_IDs[name]', 'OMIM').
table_n_type(fbgn_fbtr_fbpp_expanded, 1, organism, _).
table_n_type(fbgn_fbtr_fbpp_expanded, 2, gene_type, _).
table_n_type(fbgn_fbtr_fbpp_expanded, 3, gene_ID, 'FBgn').
table_n_type(fbgn_fbtr_fbpp_expanded, 4, gene_symbol, _).
table_n_type(fbgn_fbtr_fbpp_expanded, 5, gene_fullname, _).
table_n_type(fbgn_fbtr_fbpp_expanded, 6, annotation_ID, _).
table_n_type(fbgn_fbtr_fbpp_expanded, 7, transcript_type, _).
table_n_type(fbgn_fbtr_fbpp_expanded, 8, transcript_ID, 'FBtr').
table_n_type(fbgn_fbtr_fbpp_expanded, 9, transcript_symbol, _).
table_n_type(fbgn_fbtr_fbpp_expanded, 10, polypeptide_ID, 'FBpp').
table_n_type(fbgn_fbtr_fbpp_expanded, 11, polypeptide_symbol, _).
table_n_type(fbrf_pmid_pmcid_doi, 1, 'FBrf', 'FBrf').
table_n_type(fbrf_pmid_pmcid_doi, 2, 'PMID', 'PMID').
table_n_type(fbrf_pmid_pmcid_doi, 3, 'PMCID', 'PMCID').
table_n_type(fbrf_pmid_pmcid_doi, 4, 'DOI', 'DOI').
table_n_type(fbrf_pmid_pmcid_doi, 5, pub_type, _).
table_n_type(fbrf_pmid_pmcid_doi, 6, miniref, _).
table_n_type(fbrf_pmid_pmcid_doi, 7, pmid_added, _).
table_n_type(gene_genetic_interactions, 1, 'Starting_gene_symbol', _).
table_n_type(gene_genetic_interactions, 2, 'Starting_gene_FBgn', 'FBgn').
table_n_type(gene_genetic_interactions, 3, 'Interacting_gene_symbol', _).
table_n_type(gene_genetic_interactions, 4, 'Interacting_gene_FBgn', 'FBgn').
table_n_type(gene_genetic_interactions, 5, 'Interaction_type', _).
table_n_type(gene_genetic_interactions, 6, 'Publication_FBrf', 'FBrf').
table_n_type(gene_map_table, 1, organism_abbreviation, _).
table_n_type(gene_map_table, 2, current_symbol, _).
table_n_type(gene_map_table, 3, primary_FBid, 'FBgn').
table_n_type(gene_map_table, 4, recombination_loc, _).
table_n_type(gene_map_table, 5, cytogenetic_loc, _).
table_n_type(gene_map_table, 6, sequence_loc, _).
table_n_type(physical_interactions_mitab, 1, 'ID_Interactor_A', _).
table_n_type(physical_interactions_mitab, 2, 'ID_Interactor_B', _).
table_n_type(physical_interactions_mitab, 3, 'Alt_ID_Interactor_A', _).
table_n_type(physical_interactions_mitab, 4, 'Alt_ID_Interactor_B', _).
table_n_type(physical_interactions_mitab, 5, 'Alias_Interactor_A', _).
table_n_type(physical_interactions_mitab, 6, 'Alias_Interactor_B', _).
table_n_type(physical_interactions_mitab, 7, 'Interaction_Detection_Method', _).
table_n_type(physical_interactions_mitab, 8, 'Publication_1st_Author', _).
table_n_type(physical_interactions_mitab, 9, 'Publication', _).
table_n_type(physical_interactions_mitab, 10, 'Taxid_Interactor_A', _).
table_n_type(physical_interactions_mitab, 11, 'Taxid_Interactor_B', _).
table_n_type(physical_interactions_mitab, 12, 'Interaction_Type', _).
table_n_type(physical_interactions_mitab, 13, 'Source_Database', _).
table_n_type(physical_interactions_mitab, 14, 'Interaction_Identifier', _).
table_n_type(physical_interactions_mitab, 15, 'Confidence_Value', _).
table_n_type(physical_interactions_mitab, 16, 'Expansion_Method', _).
table_n_type(physical_interactions_mitab, 17, 'Biological_Role_Interactor_A', _).
table_n_type(physical_interactions_mitab, 18, 'Biological_Role_Interactor_B', _).
table_n_type(physical_interactions_mitab, 19, 'Experimental_Role_Interactor_A', _).
table_n_type(physical_interactions_mitab, 20, 'Experimental_Role_Interactor_B', _).
table_n_type(physical_interactions_mitab, 21, 'Type_Interactor_A', _).
table_n_type(physical_interactions_mitab, 22, 'Type_Interactor_B', _).
table_n_type(physical_interactions_mitab, 23, 'Xref_Interactor_A', _).
table_n_type(physical_interactions_mitab, 24, 'Xref_Interactor_B', _).
table_n_type(physical_interactions_mitab, 25, 'Interaction_Xref', _).
table_n_type(physical_interactions_mitab, 26, 'Annotation_Interactor_A', _).
table_n_type(physical_interactions_mitab, 27, 'Annotation_Interactor_B', _).
table_n_type(physical_interactions_mitab, 28, 'Interaction_Annotation', _).
table_n_type(physical_interactions_mitab, 29, 'Host_Organism', _).
table_n_type(physical_interactions_mitab, 30, 'Interaction_Parameters', _).
table_n_type(physical_interactions_mitab, 31, 'Creation_Date', _).
table_n_type(physical_interactions_mitab, 32, 'Update_Date', _).
table_n_type(physical_interactions_mitab, 33, 'Checksum_Interactor_A', _).
table_n_type(physical_interactions_mitab, 34, 'Checksum_Interactor_B', _).
table_n_type(physical_interactions_mitab, 35, 'Interaction_Checksum', _).
table_n_type(physical_interactions_mitab, 36, 'Negative', _).
table_n_type(physical_interactions_mitab, 37, 'Feature_Interactor_A', _).
table_n_type(physical_interactions_mitab, 38, 'Feature_Interactor_B', _).
table_n_type(physical_interactions_mitab, 39, 'Stoichiometry_Interactor_A', _).
table_n_type(physical_interactions_mitab, 40, 'Stoichiometry_Interactor_B', _).
table_n_type(physical_interactions_mitab, 41, 'Identification_Method_Participant_A', _).
table_n_type(physical_interactions_mitab, 42, 'Identification_Method_Participant_B', _).
table_n_type(fbal_to_fbgn, 1, 'AlleleID', 'FBal').
table_n_type(fbal_to_fbgn, 2, 'AlleleSymbol', _).
table_n_type(fbal_to_fbgn, 3, 'GeneID', 'FBgn').
table_n_type(fbal_to_fbgn, 4, 'GeneSymbol', _).
table_n_type(cDNA_clone_data, 1, 'FBcl', 'FBcl').
table_n_type(cDNA_clone_data, 2, organism_abbreviation, _).
table_n_type(cDNA_clone_data, 3, clone_name, _).
table_n_type(cDNA_clone_data, 4, dataset_metadata_name, _).
table_n_type(cDNA_clone_data, 5, cDNA_accession, _).
table_n_type(cDNA_clone_data, 6, 'EST_accession', _).
table_n_type(genomic_clone, 1, 'FBcl', 'FBcl').
table_n_type(genomic_clone, 2, organism_abbreviation, _).
table_n_type(genomic_clone, 3, clone_name, _).
table_n_type(genomic_clone, 4, accession, _).
/*
table_n_type(fbgn_uniprot, 1, primary_FBgn, 'FBgn').
table_n_type(fbgn_uniprot, 2, gene_symbol, _).
table_n_type(fbgn_uniprot, 3, 'CG', _).
table_n_type(fbgn_uniprot, 4, 'UniprotKB/Swiss-Prot/TrEMBL_accession', _).
table_n_type(pmid_fbgn_uniprot, 1, primary_FBgn, 'FBgn').
table_n_type(pmid_fbgn_uniprot, 2, gene_symbol, _).
table_n_type(pmid_fbgn_uniprot, 3, 'CG', _).
table_n_type(pmid_fbgn_uniprot, 4, 'UniprotKB/Swiss-Prot/TrEMBL_accession', _).
*/
table_n_type(automated_gene_summaries, 1, primary_FBgn, 'FBgn').
table_n_type(automated_gene_summaries, 2, summary_text, _).
table_n_type(best_gene_summary, 1, 'FBgn', 'FBgn').
table_n_type(best_gene_summary, 2, 'Gene_Symbol', _).
table_n_type(best_gene_summary, 3, 'Summary_Source', _).
table_n_type(best_gene_summary, 4, 'Summary', _).
table_n_type('Dmel_enzyme', 1, gene_group_id, _).
table_n_type('Dmel_enzyme', 2, gene_group_name, _).
table_n_type('Dmel_enzyme', 3, gene_group_GO_id, _).
table_n_type('Dmel_enzyme', 4, gene_group_GO_name, _).
table_n_type('Dmel_enzyme', 5, gene_group_EC_number, _).
table_n_type('Dmel_enzyme', 6, gene_group_EC_name, _).
table_n_type('Dmel_enzyme', 7, gene_id, 'FBgn').
table_n_type('Dmel_enzyme', 8, gene_symbol, _).
table_n_type('Dmel_enzyme', 9, gene_name, _).
table_n_type('Dmel_enzyme', 10, gene_EC_number, _).
table_n_type('Dmel_enzyme', 11, gene_EC_name, _).
table_n_type(dmel_unique_protein_isoforms, 1, 'FBgn', 'FBgn').
table_n_type(dmel_unique_protein_isoforms, 2, 'FB_gene_symbol', _).
table_n_type(dmel_unique_protein_isoforms, 3, representative_protein, _).
table_n_type(dmel_unique_protein_isoforms, 4, identical_protein, _).
table_n_type(fbgn_annotation_ID, 1, gene_symbol, _).
table_n_type(fbgn_annotation_ID, 2, organism_abbreviation, _).
table_n_type(fbgn_annotation_ID, 3, primary_FBgn, 'FBgn').
table_n_type(fbgn_annotation_ID, 4, secondary_FBgn, 'FBgn').
table_n_type(fbgn_annotation_ID, 5, annotation_ID, 'FBan').
table_n_type(fbgn_annotation_ID, 6, secondary_annotation_ID, 'FBan').
table_n_type(fbgn_exons2affy1_overlaps, 1, 'FBgn', 'FBgn').
table_n_type(fbgn_exons2affy1_overlaps, 2, affy, _).
table_n_type(fbgn_exons2affy2_overlaps, 1, 'FBgn', 'FBgn').
table_n_type(fbgn_exons2affy2_overlaps, 2, affy, _).
table_n_type(fbgn_fbtr_fbpp, 1, 'FBgn', 'FBgn').
table_n_type(fbgn_fbtr_fbpp, 2, 'FBtr', 'FBtr').
table_n_type(fbgn_fbtr_fbpp, 3, 'FBpp', 'FBpp').
table_n_type(fbgn_gleanr, 1, organism_abbreviation, _).
table_n_type(fbgn_gleanr, 2, gene_symbol, _).
table_n_type(fbgn_gleanr, 3, primary_FBgn, 'FBgn').
table_n_type(fbgn_gleanr, 4, 'GLEANR', _).
/*
table_n_type(fbgn_NAseq_Uniprot, 1, gene_symbol, _).
table_n_type(fbgn_NAseq_Uniprot, 2, organism_abbreviation, _).
table_n_type(fbgn_NAseq_Uniprot, 3, primary_FBgn, 'FBgn').
table_n_type(fbgn_NAseq_Uniprot, 4, nucleotide_accession, _).
table_n_type(fbgn_NAseq_Uniprot, 5, na_based_protein_accession, _).
table_n_type(fbgn_NAseq_Uniprot, 6, 'UniprotKB/Swiss-Prot/TrEMBL_accession', _).
table_n_type(fbgn_NAseq_Uniprot, 7, 'EntrezGene', _).
table_n_type(fbgn_NAseq_Uniprot, 8, 'RefSeq_transcripts', _).
table_n_type(fbgn_NAseq_Uniprot, 9, 'RefSeq_proteins', _).
*/
table_n_type(gene_functional_complementation, 1, 'Dmel_gene_symbol', _).
table_n_type(gene_functional_complementation, 2, 'Dmel_gene_FBgn', 'FBgn').
table_n_type(gene_functional_complementation, 3, ortholog_gene_symbol, _).
table_n_type(gene_functional_complementation, 4, ortholog_gene_FBgn_ID, 'FBgn').
table_n_type(gene_functional_complementation, 5, reference_FBrf, 'FBrf').
table_n_type(gene_group, 1, 'FB_group', 'FBgg').
table_n_type(gene_group, 2, 'FB_group_symbol', _).
table_n_type(gene_group, 3, 'FB_group_name', _).
table_n_type(gene_group, 4, 'Parent_FB_group', 'FBgg').
table_n_type(gene_group, 5, 'Parent_FB_group_symbol', _).
table_n_type(gene_group, 6, 'Group_member_FB_gene', 'FBgn').
table_n_type(gene_group, 7, 'Group_member_FB_gene_symbol', _).
table_n_type(gene_groups_HGNC, 1, 'FB_group', 'FBgg').
table_n_type(gene_groups_HGNC, 2, 'FB_group_symbol', _).
table_n_type(gene_groups_HGNC, 3, 'FB_group_name', _).
table_n_type(gene_groups_HGNC, 4, 'Parent_FB_group', 'FBgg').
table_n_type(gene_groups_HGNC, 5, 'Parent_FB_group_symbol', _).
table_n_type(gene_groups_HGNC, 6, 'Group_member_FB_gene', 'FBgn').
table_n_type(gene_groups_HGNC, 7, 'Group_member_FB_gene_symbol', _).
table_n_type(gene_rpkm_matrix, 1, gene_primary_id, 'FBgn').
table_n_type(gene_rpkm_matrix, 2, gene_symbol, _).
table_n_type(gene_rpkm_matrix, 3, gene_fullname, _).
table_n_type(gene_rpkm_matrix, 4, gene_type, _).
table_n_type(gene_rpkm_matrix, 5, 'BCM_1_E2-4hr_(FBlc0000061)', 'FBlc').
table_n_type(gene_rpkm_matrix, 6, 'BCM_1_E14-16hr_(FBlc0000062)', 'FBlc').
table_n_type(gene_rpkm_matrix, 7, 'BCM_1_E2-16hr_(FBlc0000063)', 'FBlc').
table_n_type(gene_rpkm_matrix, 8, 'BCM_1_E2-16hr100_(FBlc0000064)', 'FBlc').
table_n_type(gene_rpkm_matrix, 9, 'BCM_1_L3i_(FBlc0000065)', 'FBlc').
table_n_type(gene_rpkm_matrix, 10, 'BCM_1_L3i100_(FBlc0000066)', 'FBlc').
table_n_type(gene_rpkm_matrix, 11, 'BCM_1_P3d_(FBlc0000067)', 'FBlc').
table_n_type(gene_rpkm_matrix, 12, 'BCM_1_FA3d_(FBlc0000068)', 'FBlc').
table_n_type(gene_rpkm_matrix, 13, 'BCM_1_MA3d_(FBlc0000069)', 'FBlc').
table_n_type(gene_rpkm_matrix, 14, 'BCM_1_P_(FBlc0000070)', 'FBlc').
table_n_type(gene_rpkm_matrix, 15, 'BCM_1_L_(FBlc0000071)', 'FBlc').
table_n_type(gene_rpkm_matrix, 16, 'BCM_1_A17d_(FBlc0000072)', 'FBlc').
table_n_type(gene_rpkm_report, 1, 'Release_ID', _).
table_n_type(gene_rpkm_report, 2, 'FBgn', 'FBgn').
table_n_type(gene_rpkm_report, 3, 'GeneSymbol', _).
table_n_type(gene_rpkm_report, 4, 'Parent_library_FBlc', 'FBlc').
table_n_type(gene_rpkm_report, 5, 'Parent_library_name', _).
table_n_type(gene_rpkm_report, 6, 'RNASource_FBlc', 'FBlc').
table_n_type(gene_rpkm_report, 7, 'RNASource_name', _).
table_n_type(gene_rpkm_report, 8, 'RPKM_value', _).
table_n_type(gene_rpkm_report, 9, 'Bin_value', _).
table_n_type(gene_rpkm_report, 10, 'Unique_exon_base_count', _).
table_n_type(gene_rpkm_report, 11, 'Total_exon_base_count', _).
table_n_type(gene_rpkm_report, 12, 'Count_used', _).
table_n_type(gene_snapshots, 1, 'FBgn', 'FBgn').
table_n_type(gene_snapshots, 2, 'GeneSymbol', _).
table_n_type(gene_snapshots, 3, 'GeneName', _).
table_n_type(gene_snapshots, 4, datestamp, _).
table_n_type(gene_snapshots, 5, gene_snapshot_text, _).
table_n_type(pathway_group, 1, 'FB_group', 'FBgg').
table_n_type(pathway_group, 2, 'FB_group_symbol', _).
table_n_type(pathway_group, 3, 'FB_group_name', _).
table_n_type(pathway_group, 4, 'Parent_FB_group', 'FBgg').
table_n_type(pathway_group, 5, 'Parent_FB_group_symbol', _).
table_n_type(pathway_group, 6, 'Group_member_FB_gene', 'FBgn').
table_n_type(pathway_group, 7, 'Group_member_FB_gene_symbol', _).
table_n_type(insertion_mapping, 1, insertion_symbol, _).
table_n_type(insertion_mapping, 2, 'FBti', 'FBti').
table_n_type(insertion_mapping, 3, genomic_location, _).
table_n_type(insertion_mapping, 4, range, _).
table_n_type(insertion_mapping, 5, orientation, _).
table_n_type(insertion_mapping, 6, estimated_cytogenetic_location, _).
table_n_type(insertion_mapping, 7, observed_cytogenetic_location, _).
table_n_type('cyto-genetic-seq', 1, 'Cytogenetic_map_position', _).
table_n_type('cyto-genetic-seq', 2, 'Genetic_map_position', _).
table_n_type('cyto-genetic-seq', 3, 'Sequence_coordinates_(release_6)', _).
table_n_type('cyto-genetic-seq', 4, 'R6_conversion_notes', _).
table_n_type(dataset_metadata, 1, 'Dataset_Metadata_ID', _).
table_n_type(dataset_metadata, 2, 'Dataset_Metadata_Name', _).
table_n_type(dataset_metadata, 3, 'Item_ID', _).
table_n_type(dataset_metadata, 4, 'Item_Name', _).
table_n_type(dmel_paralogs, 1, 'FBgn', 'FBgn').
table_n_type(dmel_paralogs, 2, 'GeneSymbol', _).
table_n_type(dmel_paralogs, 3, 'Arm/Scaffold', _).
table_n_type(dmel_paralogs, 4, 'Location', _).
table_n_type(dmel_paralogs, 5, 'Strand', _).
table_n_type(dmel_paralogs, 6, 'Paralog_FBgn', 'FBgn').
table_n_type(dmel_paralogs, 7, 'Paralog_GeneSymbol', _).
table_n_type(dmel_paralogs, 8, 'Paralog_Arm/Scaffold', _).
table_n_type(dmel_paralogs, 9, 'Paralog_Location', _).
table_n_type(dmel_paralogs, 10, 'Paralog_Strand', _).
table_n_type(dmel_paralogs, 11, 'DIOPT_score', _).
table_n_type(entity_publication, 1, entity_id, _).
table_n_type(entity_publication, 2, entity_name, _).
table_n_type(entity_publication, 3, 'FlyBase_publication', 'FBrf').
table_n_type(entity_publication, 4, 'PubMed', _).
table_n_type(organism_list, 1, genus, _).
table_n_type(organism_list, 2, species, _).
table_n_type(organism_list, 3, abbreviation, _).
table_n_type(organism_list, 4, common_name, _).
table_n_type(organism_list, 5, 'NCBI_taxon', _).
table_n_type(organism_list, 6, 'drosophilid?', _).
table_n_type(stocks, 1, stock_id, 'FBst').
table_n_type(stocks, 2, dbxref_id, _).
table_n_type(stocks, 3, organism_id, _).
table_n_type(stocks, 4, name, _).
table_n_type(stocks, 5, uniquename, _).
table_n_type(stocks, 6, description, _).
table_n_type(stocks, 7, type_id, _).
table_n_type(stocks, 8, is_obsolete, _).
table_n_type(synonym, 1, primary_FBid, 'FBgn').
table_n_type(synonym, 2, organism_abbreviation, _).
table_n_type(synonym, 3, current_symbol, _).
table_n_type(synonym, 4, current_fullname, _).
table_n_type(synonym, 5, fullname_synonym, _).
table_n_type(synonym, 6, symbol_synonym, _).
guess_rest(P,N,T,Guess):- table_n_type(P,N,T,Guess),var(Guess),fb_pred(P,A),functor(C,P,A),arg(N,C,Guess),once(call(C)).
:- dynamic numeric_value_p_n/3.
:- module_transparent numeric_value_p_n/3.
numeric_value_p_n(dmel_human_orthologs_disease, 6, 'DIOPT_score').
numeric_value_p_n(dmel_human_orthologs_disease, 7, 'OMIM_Phenotype_IDs').
numeric_value_p_n(fbrf_pmid_pmcid_doi, 2, 'PMID').
numeric_value_p_n(pmid_fbgn_uniprot, 2, gene_symbol).
numeric_value_p_n(fbgn_NAseq_Uniprot, 7, 'EntrezGene').
numeric_value_p_n(gene_groups_HGNC, 4, 'Parent_FB_group').
numeric_value_p_n(gene_rpkm_matrix, 5, 'BCM_1_E2-4hr_(FBlc0000061)').
numeric_value_p_n(gene_rpkm_matrix, 6, 'BCM_1_E14-16hr_(FBlc0000062)').
numeric_value_p_n(gene_rpkm_matrix, 7, 'BCM_1_E2-16hr_(FBlc0000063)').
numeric_value_p_n(gene_rpkm_matrix, 8, 'BCM_1_E2-16hr100_(FBlc0000064)').
numeric_value_p_n(gene_rpkm_matrix, 9, 'BCM_1_L3i_(FBlc0000065)').
numeric_value_p_n(gene_rpkm_matrix, 10, 'BCM_1_L3i100_(FBlc0000066)').
numeric_value_p_n(gene_rpkm_matrix, 11, 'BCM_1_P3d_(FBlc0000067)').
numeric_value_p_n(gene_rpkm_matrix, 12, 'BCM_1_FA3d_(FBlc0000068)').
numeric_value_p_n(gene_rpkm_matrix, 13, 'BCM_1_MA3d_(FBlc0000069)').
numeric_value_p_n(gene_rpkm_matrix, 14, 'BCM_1_P_(FBlc0000070)').
numeric_value_p_n(gene_rpkm_matrix, 15, 'BCM_1_L_(FBlc0000071)').
numeric_value_p_n(gene_rpkm_matrix, 16, 'BCM_1_A17d_(FBlc0000072)').
numeric_value_p_n(gene_rpkm_matrix, 17, 'mE_mRNA_em0-2hr_(FBlc0000086)').
numeric_value_p_n(gene_rpkm_matrix, 18, 'mE_mRNA_em2-4hr_(FBlc0000087)').
numeric_value_p_n(gene_rpkm_matrix, 19, 'mE_mRNA_em4-6hr_(FBlc0000088)').
numeric_value_p_n(gene_rpkm_matrix, 20, 'mE_mRNA_em6-8hr_(FBlc0000089)').
numeric_value_p_n(gene_rpkm_matrix, 21, 'mE_mRNA_em8-10hr_(FBlc0000090)').
numeric_value_p_n(gene_rpkm_matrix, 22, 'mE_mRNA_em10-12hr_(FBlc0000091)').
numeric_value_p_n(gene_rpkm_matrix, 23, 'mE_mRNA_em12-14hr_(FBlc0000092)').
numeric_value_p_n(gene_rpkm_matrix, 24, 'mE_mRNA_em14-16hr_(FBlc0000093)').
numeric_value_p_n(gene_rpkm_matrix, 25, 'mE_mRNA_em16-18hr_(FBlc0000094)').
numeric_value_p_n(gene_rpkm_matrix, 26, 'mE_mRNA_em18-20hr_(FBlc0000095)').
numeric_value_p_n(gene_rpkm_matrix, 27, 'mE_mRNA_em20-22hr_(FBlc0000096)').
numeric_value_p_n(gene_rpkm_matrix, 28, 'mE_mRNA_em22-24hr_(FBlc0000097)').
numeric_value_p_n(gene_rpkm_matrix, 29, 'mE_mRNA_L1_(FBlc0000098)').
numeric_value_p_n(gene_rpkm_matrix, 30, 'mE_mRNA_L2_(FBlc0000099)').
numeric_value_p_n(gene_rpkm_matrix, 31, 'mE_mRNA_L3_12hr_(FBlc0000100)').
numeric_value_p_n(gene_rpkm_matrix, 32, 'mE_mRNA_L3_PS1-2_(FBlc0000101)').
numeric_value_p_n(gene_rpkm_matrix, 33, 'mE_mRNA_L3_PS3-6_(FBlc0000102)').
numeric_value_p_n(gene_rpkm_matrix, 34, 'mE_mRNA_L3_PS7-9_(FBlc0000103)').
numeric_value_p_n(gene_rpkm_matrix, 35, 'mE_mRNA_WPP_(FBlc0000104)').
numeric_value_p_n(gene_rpkm_matrix, 36, 'mE_mRNA_P5_(FBlc0000105)').
numeric_value_p_n(gene_rpkm_matrix, 37, 'mE_mRNA_P6_(FBlc0000106)').
numeric_value_p_n(gene_rpkm_matrix, 38, 'mE_mRNA_P8_(FBlc0000107)').
numeric_value_p_n(gene_rpkm_matrix, 39, 'mE_mRNA_P9-10_(FBlc0000108)').
numeric_value_p_n(gene_rpkm_matrix, 40, 'mE_mRNA_P15_(FBlc0000109)').
numeric_value_p_n(gene_rpkm_matrix, 41, 'mE_mRNA_AdF_Ecl_1days_(FBlc0000110)').
numeric_value_p_n(gene_rpkm_matrix, 42, 'mE_mRNA_AdF_Ecl_5days_(FBlc0000111)').
numeric_value_p_n(gene_rpkm_matrix, 43, 'mE_mRNA_AdF_Ecl_30days_(FBlc0000112)').
numeric_value_p_n(gene_rpkm_matrix, 44, 'mE_mRNA_AdM_Ecl_1days_(FBlc0000113)').
numeric_value_p_n(gene_rpkm_matrix, 45, 'mE_mRNA_AdM_Ecl_5days_(FBlc0000114)').
numeric_value_p_n(gene_rpkm_matrix, 46, 'mE_mRNA_AdM_Ecl_30days_(FBlc0000115)').
numeric_value_p_n(gene_rpkm_matrix, 47, 'mE_mRNA_A_MateF_1d_head_(FBlc0000207)').
numeric_value_p_n(gene_rpkm_matrix, 48, 'mE_mRNA_A_MateF_4d_ovary_(FBlc0000208)').
numeric_value_p_n(gene_rpkm_matrix, 49, 'mE_mRNA_A_MateM_1d_head_(FBlc0000209)').
numeric_value_p_n(gene_rpkm_matrix, 50, 'mE_mRNA_A_VirF_1d_head_(FBlc0000210)').
numeric_value_p_n(gene_rpkm_matrix, 51, 'mE_mRNA_A_VirF_4d_head_(FBlc0000211)').
numeric_value_p_n(gene_rpkm_matrix, 52, 'mE_mRNA_A_MateF_20d_head_(FBlc0000212)').
numeric_value_p_n(gene_rpkm_matrix, 53, 'mE_mRNA_A_MateF_4d_head_(FBlc0000213)').
numeric_value_p_n(gene_rpkm_matrix, 54, 'mE_mRNA_A_MateM_20d_head_(FBlc0000214)').
numeric_value_p_n(gene_rpkm_matrix, 55, 'mE_mRNA_A_MateM_4d_acc_gland_(FBlc0000215)').
numeric_value_p_n(gene_rpkm_matrix, 56, 'mE_mRNA_A_MateM_4d_head_(FBlc0000216)').
numeric_value_p_n(gene_rpkm_matrix, 57, 'mE_mRNA_A_MateM_4d_testis_(FBlc0000217)').
numeric_value_p_n(gene_rpkm_matrix, 58, 'mE_mRNA_A_1d_carcass_(FBlc0000218)').
numeric_value_p_n(gene_rpkm_matrix, 59, 'mE_mRNA_A_1d_dig_sys_(FBlc0000219)').
numeric_value_p_n(gene_rpkm_matrix, 60, 'mE_mRNA_A_20d_carcass_(FBlc0000220)').
numeric_value_p_n(gene_rpkm_matrix, 61, 'mE_mRNA_A_20d_dig_sys_(FBlc0000221)').
numeric_value_p_n(gene_rpkm_matrix, 62, 'mE_mRNA_A_4d_carcass_(FBlc0000222)').
numeric_value_p_n(gene_rpkm_matrix, 63, 'mE_mRNA_A_4d_dig_sys_(FBlc0000223)').
numeric_value_p_n(gene_rpkm_matrix, 64, 'mE_mRNA_P8_CNS_(FBlc0000224)').
numeric_value_p_n(gene_rpkm_matrix, 65, 'mE_mRNA_L3_CNS_(FBlc0000225)').
numeric_value_p_n(gene_rpkm_matrix, 66, 'mE_mRNA_L3_Wand_carcass_(FBlc0000226)').
numeric_value_p_n(gene_rpkm_matrix, 67, 'mE_mRNA_L3_Wand_dig_sys_(FBlc0000227)').
numeric_value_p_n(gene_rpkm_matrix, 68, 'mE_mRNA_L3_Wand_fat_(FBlc0000228)').
numeric_value_p_n(gene_rpkm_matrix, 69, 'mE_mRNA_L3_Wand_imag_disc_(FBlc0000229)').
numeric_value_p_n(gene_rpkm_matrix, 70, 'mE_mRNA_L3_Wand_saliv_(FBlc0000230)').
numeric_value_p_n(gene_rpkm_matrix, 71, 'mE_mRNA_A_VirF_20d_head_(FBlc0000231)').
numeric_value_p_n(gene_rpkm_matrix, 72, 'mE_mRNA_A_VirF_4d_ovary_(FBlc0000232)').
numeric_value_p_n(gene_rpkm_matrix, 73, 'mE_mRNA_WPP_fat_(FBlc0000233)').
numeric_value_p_n(gene_rpkm_matrix, 74, 'mE_mRNA_WPP_saliv_(FBlc0000234)').
numeric_value_p_n(gene_rpkm_matrix, 75, 'mE_mRNA_P8_fat_(FBlc0000235)').
numeric_value_p_n(gene_rpkm_matrix, 76, 'mE_mRNA_A_4d_Cold1_(FBlc0000237)').
numeric_value_p_n(gene_rpkm_matrix, 77, 'mE_mRNA_A_4d_Cold2_(FBlc0000238)').
numeric_value_p_n(gene_rpkm_matrix, 78, 'mE_mRNA_L3_Cu_0.5mM_(FBlc0000239)').
numeric_value_p_n(gene_rpkm_matrix, 79, 'mE_mRNA_L3_late_Zn_5mM_(FBlc0000240)').
numeric_value_p_n(gene_rpkm_matrix, 80, 'mE_mRNA_A_4d_Cu_15mM_(FBlc0000241)').
numeric_value_p_n(gene_rpkm_matrix, 81, 'mE_mRNA_A_4d_Zn_4.5mM_(FBlc0000242)').
numeric_value_p_n(gene_rpkm_matrix, 82, 'mE_mRNA_A_4d_Caffeine_25mg/ml_(FBlc0000243)').
numeric_value_p_n(gene_rpkm_matrix, 83, 'mE_mRNA_A_4d_Caffeine_2.5mg/ml_(FBlc0000244)').
numeric_value_p_n(gene_rpkm_matrix, 84, 'mE_mRNA_L3_Caffeine_1.5mg/ml_(FBlc0000245)').
numeric_value_p_n(gene_rpkm_matrix, 85, 'mE_mRNA_A_4d_Cd_0.1M_(FBlc0000246)').
numeric_value_p_n(gene_rpkm_matrix, 86, 'mE_mRNA_A_4d_Cd_0.05M_(FBlc0000247)').
numeric_value_p_n(gene_rpkm_matrix, 87, 'mE_mRNA_L3_Cd_12h_(FBlc0000248)').
numeric_value_p_n(gene_rpkm_matrix, 88, 'mE_mRNA_L3_Cd_6hr_(FBlc0000249)').
numeric_value_p_n(gene_rpkm_matrix, 89, 'mE_mRNA_A_4d_Paraquat_5mM_(FBlc0000250)').
numeric_value_p_n(gene_rpkm_matrix, 90, 'mE_mRNA_A_4d_Paraquat_10mM_(FBlc0000251)').
numeric_value_p_n(gene_rpkm_matrix, 91, 'mE_mRNA_L3_Rotenone_8ug_(FBlc0000252)').
numeric_value_p_n(gene_rpkm_matrix, 92, 'mE_mRNA_L3_Rotenone_2ug_(FBlc0000253)').
numeric_value_p_n(gene_rpkm_matrix, 93, 'mE_mRNA_L3_EtOH_10_(FBlc0000254)').
numeric_value_p_n(gene_rpkm_matrix, 94, 'mE_mRNA_L3_EtOH_5_(FBlc0000255)').
numeric_value_p_n(gene_rpkm_matrix, 95, 'mE_mRNA_L3_EtOH_2.5_(FBlc0000256)').
numeric_value_p_n(gene_rpkm_matrix, 96, 'mE_mRNA_A_4d_Heatshock_(FBlc0000257)').
numeric_value_p_n(gene_rpkm_matrix, 97, 'mE_mRNA_A_10d_Resveratrol_100uM_(FBlc0000672)').
numeric_value_p_n(gene_rpkm_matrix, 98, 'mE_mRNA_A_10d_Rotenone_Starved_(FBlc0000673)').
numeric_value_p_n(gene_rpkm_matrix, 99, 'mE_mRNA_F_Sindbis_virus_(FBlc0000674)').
numeric_value_p_n(gene_rpkm_matrix, 100, 'mE_mRNA_L_Sindbis_virus_(FBlc0000675)').
numeric_value_p_n(gene_rpkm_matrix, 101, 'mE_mRNA_M_Sindbis_virus_(FBlc0000676)').
numeric_value_p_n(gene_rpkm_matrix, 102, 'mE_mRNA_P_Sindbis_virus_(FBlc0000677)').
numeric_value_p_n(gene_rpkm_matrix, 103, 'mE_mRNA_CME-W2_cells_(FBlc0000261)').
numeric_value_p_n(gene_rpkm_matrix, 104, 'mE_mRNA_GM2_cells_(FBlc0000262)').
numeric_value_p_n(gene_rpkm_matrix, 105, 'mE_mRNA_mbn2_cells_(FBlc0000263)').
numeric_value_p_n(gene_rpkm_matrix, 106, 'mE_mRNA_BG2-c2_cells_(FBlc0000264)').
numeric_value_p_n(gene_rpkm_matrix, 107, 'mE_mRNA_D20-c5_cells_(FBlc0000265)').
numeric_value_p_n(gene_rpkm_matrix, 108, 'mE_mRNA_S3_cells_(FBlc0000266)').
numeric_value_p_n(gene_rpkm_matrix, 109, 'mE_mRNA_1182-4H_cells_(FBlc0000267)').
numeric_value_p_n(gene_rpkm_matrix, 110, 'mE_mRNA_CME_L1_cells_(FBlc0000268)').
numeric_value_p_n(gene_rpkm_matrix, 111, 'mE_mRNA_Kc167_cells_(FBlc0000269)').
numeric_value_p_n(gene_rpkm_matrix, 112, 'mE_mRNA_BG1-c1_cells_(FBlc0000270)').
numeric_value_p_n(gene_rpkm_matrix, 113, 'mE_mRNA_D11_cells_(FBlc0000271)').
numeric_value_p_n(gene_rpkm_matrix, 114, 'mE_mRNA_D16-c3_cells_(FBlc0000272)').
numeric_value_p_n(gene_rpkm_matrix, 115, 'mE_mRNA_D17-c3_cells_(FBlc0000273)').
numeric_value_p_n(gene_rpkm_matrix, 116, 'mE_mRNA_D21_cells_(FBlc0000274)').
numeric_value_p_n(gene_rpkm_matrix, 117, 'mE_mRNA_D32_cells_(FBlc0000275)').
numeric_value_p_n(gene_rpkm_matrix, 118, 'mE_mRNA_D4-c1_cells_(FBlc0000276)').
numeric_value_p_n(gene_rpkm_matrix, 119, 'mE_mRNA_D8_cells_(FBlc0000277)').
numeric_value_p_n(gene_rpkm_matrix, 120, 'mE_mRNA_D9_cells_(FBlc0000278)').
numeric_value_p_n(gene_rpkm_matrix, 121, 'mE_mRNA_S1_cells_(FBlc0000279)').
numeric_value_p_n(gene_rpkm_matrix, 122, 'mE_mRNA_S2R+_cells_(FBlc0000280)').
numeric_value_p_n(gene_rpkm_matrix, 123, 'mE_mRNA_Sg4_cells_(FBlc0000281)').
numeric_value_p_n(gene_rpkm_matrix, 124, 'mE_mRNA_OSS_cells_(FBlc0000282)').
numeric_value_p_n(gene_rpkm_matrix, 125, 'mE_mRNA_OSC_cells_(FBlc0000283)').
numeric_value_p_n(gene_rpkm_matrix, 126, 'mE_mRNA_fGS_cells_(FBlc0000284)').
numeric_value_p_n(gene_rpkm_matrix, 127, 'Knoblich_mRNA_L3_CNS_neuroblast_(FBlc0000505)').
numeric_value_p_n(gene_rpkm_matrix, 128, 'Knoblich_mRNA_L3_CNS_neuron_(FBlc0000506)').
numeric_value_p_n(gene_rpkm_matrix, 129, 'RNA-Seq_Profile_FlyAtlas2_Adult_Female_Brain_(FBlc0003619)').
numeric_value_p_n(gene_rpkm_matrix, 130, 'RNA-Seq_Profile_FlyAtlas2_Adult_Female_Crop_(FBlc0003620)').
numeric_value_p_n(gene_rpkm_matrix, 131, 'RNA-Seq_Profile_FlyAtlas2_Adult_Female_Carcass_(FBlc0003621)').
numeric_value_p_n(gene_rpkm_matrix, 132, 'RNA-Seq_Profile_FlyAtlas2_Adult_Female_Eye_(FBlc0003622)').
numeric_value_p_n(gene_rpkm_matrix, 133, 'RNA-Seq_Profile_FlyAtlas2_Adult_Female_FatBody_(FBlc0003623)').
numeric_value_p_n(gene_rpkm_matrix, 134, 'RNA-Seq_Profile_FlyAtlas2_Adult_Female_Head_(FBlc0003624)').
numeric_value_p_n(gene_rpkm_matrix, 135, 'RNA-Seq_Profile_FlyAtlas2_Adult_Female_Hindgut_(FBlc0003625)').
numeric_value_p_n(gene_rpkm_matrix, 136, 'RNA-Seq_Profile_FlyAtlas2_Adult_Female_Midgut_(FBlc0003626)').
numeric_value_p_n(gene_rpkm_matrix, 137, 'RNA-Seq_Profile_FlyAtlas2_Adult_Female_Ovary_(FBlc0003627)').
numeric_value_p_n(gene_rpkm_matrix, 138, 'RNA-Seq_Profile_FlyAtlas2_Adult_Female_RectalPad_(FBlc0003628)').
numeric_value_p_n(gene_rpkm_matrix, 139, 'RNA-Seq_Profile_FlyAtlas2_Adult_Female_SalivaryGland_(FBlc0003629)').
numeric_value_p_n(gene_rpkm_matrix, 140, 'RNA-Seq_Profile_FlyAtlas2_Adult_Female_ThoracicoAbdominalGanglion_(FBlc0003630)').
numeric_value_p_n(gene_rpkm_matrix, 141, 'RNA-Seq_Profile_FlyAtlas2_Adult_Female_MalpighianTubule_(FBlc0003631)').
numeric_value_p_n(gene_rpkm_matrix, 142, 'RNA-Seq_Profile_FlyAtlas2_Adult_Female_Mated_Spermathecum_(FBlc0003632)').
numeric_value_p_n(gene_rpkm_matrix, 143, 'RNA-Seq_Profile_FlyAtlas2_Adult_Female_Virgin_Spermathecum_(FBlc0003633)').
numeric_value_p_n(gene_rpkm_matrix, 144, 'RNA-Seq_Profile_FlyAtlas2_Adult_Female_Whole_(FBlc0003634)').
numeric_value_p_n(gene_rpkm_matrix, 145, 'RNA-Seq_Profile_FlyAtlas2_Adult_Male_Brain_(FBlc0003635)').
numeric_value_p_n(gene_rpkm_matrix, 146, 'RNA-Seq_Profile_FlyAtlas2_Adult_Male_Crop_(FBlc0003636)').
numeric_value_p_n(gene_rpkm_matrix, 147, 'RNA-Seq_Profile_FlyAtlas2_Adult_Male_Carcass_(FBlc0003637)').
numeric_value_p_n(gene_rpkm_matrix, 148, 'RNA-Seq_Profile_FlyAtlas2_Adult_Male_Eye_(FBlc0003638)').
numeric_value_p_n(gene_rpkm_matrix, 149, 'RNA-Seq_Profile_FlyAtlas2_Adult_Male_FatBody_(FBlc0003639)').
numeric_value_p_n(gene_rpkm_matrix, 150, 'RNA-Seq_Profile_FlyAtlas2_Adult_Male_Head_(FBlc0003640)').
numeric_value_p_n(gene_rpkm_matrix, 151, 'RNA-Seq_Profile_FlyAtlas2_Adult_Male_Hindgut_(FBlc0003641)').
numeric_value_p_n(gene_rpkm_matrix, 152, 'RNA-Seq_Profile_FlyAtlas2_Adult_Male_Midgut_(FBlc0003642)').
numeric_value_p_n(gene_rpkm_matrix, 153, 'RNA-Seq_Profile_FlyAtlas2_Adult_Male_RectalPad_(FBlc0003643)').
numeric_value_p_n(gene_rpkm_matrix, 154, 'RNA-Seq_Profile_FlyAtlas2_Adult_Male_SalivaryGland_(FBlc0003644)').
numeric_value_p_n(gene_rpkm_matrix, 155, 'RNA-Seq_Profile_FlyAtlas2_Adult_Male_ThoracicoAbdominalGanglion_(FBlc0003645)').
numeric_value_p_n(gene_rpkm_matrix, 156, 'RNA-Seq_Profile_FlyAtlas2_Adult_Male_MalpighianTubule_(FBlc0003646)').
numeric_value_p_n(gene_rpkm_matrix, 157, 'RNA-Seq_Profile_FlyAtlas2_Adult_Male_Testis_(FBlc0003647)').
numeric_value_p_n(gene_rpkm_matrix, 158, 'RNA-Seq_Profile_FlyAtlas2_Adult_Male_AccessoryGland_(FBlc0003648)').
numeric_value_p_n(gene_rpkm_matrix, 159, 'RNA-Seq_Profile_FlyAtlas2_Adult_Male_Whole_(FBlc0003649)').
numeric_value_p_n(gene_rpkm_matrix, 160, 'RNA-Seq_Profile_FlyAtlas2_L3_CNS_(FBlc0003650)').
numeric_value_p_n(gene_rpkm_matrix, 161, 'RNA-Seq_Profile_FlyAtlas2_L3_FatBody_(FBlc0003651)').
numeric_value_p_n(gene_rpkm_matrix, 162, 'RNA-Seq_Profile_FlyAtlas2_L3_Hindgut_(FBlc0003652)').
numeric_value_p_n(gene_rpkm_matrix, 163, 'RNA-Seq_Profile_FlyAtlas2_L3_MalpighianTubule_(FBlc0003653)').
numeric_value_p_n(gene_rpkm_matrix, 164, 'RNA-Seq_Profile_FlyAtlas2_L3_Midgut_(FBlc0003654)').
numeric_value_p_n(gene_rpkm_matrix, 165, 'RNA-Seq_Profile_FlyAtlas2_L3_SalivaryGland_(FBlc0003655)').
numeric_value_p_n(gene_rpkm_matrix, 166, 'RNA-Seq_Profile_FlyAtlas2_L3_Trachea_(FBlc0003656)').
numeric_value_p_n(gene_rpkm_matrix, 167, 'RNA-Seq_Profile_FlyAtlas2_L3_Carcass_(FBlc0003657)').
numeric_value_p_n(gene_rpkm_matrix, 168, 'RNA-Seq_Profile_FlyAtlas2_L3_Whole_(FBlc0003658)').
numeric_value_p_n(gene_rpkm_matrix, 169, 'RNA-Seq_Profile_FlyAtlas2_Adult_Female_Heart_(FBlc0003724)').
numeric_value_p_n(gene_rpkm_matrix, 170, 'RNA-Seq_Profile_FlyAtlas2_Adult_Male_Heart_(FBlc0003725)').
numeric_value_p_n(gene_rpkm_report, 8, 'RPKM_value').
numeric_value_p_n(gene_rpkm_report, 9, 'Bin_value').
numeric_value_p_n(gene_rpkm_report, 10, 'Unique_exon_base_count').
numeric_value_p_n(gene_rpkm_report, 11, 'Total_exon_base_count').
numeric_value_p_n(gene_snapshots, 4, datestamp).
numeric_value_p_n(insertion_mapping, 5, orientation).
numeric_value_p_n(dmel_paralogs, 5, 'Strand').
numeric_value_p_n(dmel_paralogs, 10, 'Paralog_Strand').
numeric_value_p_n(dmel_paralogs, 11, 'DIOPT_score').
numeric_value_p_n(entity_publication, 4, 'PubMed').
numeric_value_p_n(organism_list, 5, 'NCBI_taxon').
ncRNA_genes_fb_scheme(
'
{
"$schema": "http://json-schema.org/draft-04/schema#",
"title": "RNAcentral ncRNA object",
"description": "A sequence to import to RNAcentral. These entries must not be pseudogenes or coding RNA transcripts.",
"id": "ncrna.json#",
"type": "object",
"required": ["primaryId", "taxonId", "soTermId", "sequence", "url"],
"additionalProperties": false,
"properties": {
"primaryId": {
"$ref" : "global-id.json#/properties/globalId",
"description": "The prefixed primary (MOD) ID for an entity. For internal use, e.g. FLYBASE:FBgn0003301, MGI:87917."
},
"taxonId": {
"$ref" : "global-id.json#/properties/globalId",
"description" : "The NCBI taxonId for the species of the gene entity."
},
"soTermId": {
"$ref" : "global-id.json#/properties/globalId",
"description": "The SO Term that represents as best we can, the bioType, or featureType of the object in the file."
},
"ecoTermId": {
"$ref" : "global-id.json#/properties/globalId",
"description": "The ECO Term that represents the evidence for this sequence having the given SO term."
},
"sequence": {
"$ref": "sequence.json#properties/sequence",
"description": "The DNA sequence of this entry."
},
"name": {