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RegulonDB-Datamarts 1.2.0

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@andresloal andresloal released this 18 Mar 04:59
· 143 commits to master since this release
1.2.0
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The following changes were applied:

Fix

  • All "id" properties were updated to "_id".
  • Some property's name definitions were updated from snake_case to camelCase. The resume of the fields is here:

GeneDatamart

gene.id -> gene._id
gene.fragments.id -> gene.fragments._id
gene.multifunTerms.id -> gene.multifunTerms._id
products.id -> products._id
products.motifs.id -> products.motifs._id
regulation.operon.arrangement.[regulators, promoters, transcriptionUnit].id -> regulation.operon.arrangement.[regulators, promoters, transcriptionUnit]._id
organism.id -> organism._id

Operon

operon.id -> operon._id
transcriptionUnit.id -> transcriptionUnit._id
transcriptionUnit.firstGene.gene_id -> transcriptionUnit.firstGene._id
transcriptionUnit.firstGene.gene_name -> transcriptionUnit.firstGene.name
transcriptionUnit.genes.id -> transcriptionUnit.genes._id
transcriptionUnit.promoter.bindsSigmaFactor.id -> transcriptionUnit.promoter.bindsSigmaFactor._id
organism.id -> organism._id

Regulon

transcriptionFactor.id -> transcriptionFactor._id
transcriptionFactor.conformations.id -> transcriptionFactor.conformations._id
transcriptionFactor.encodedFrom.genes.gene_id -> transcriptionFactor.encodedFrom.genes._id
transcriptionFactor.encodedFrom.genes.gene_name -> transcriptionFactor.encodedFrom.genes.name
transcriptionFactor.encodedFrom.operon.operon_id -> transcriptionFactor.encodedFrom.operon._id
terms.multifun.id -> terms.multifun._id
terms.multifun.genes.gene_id -> terms.multifun.genes._id
terms.multifun.genes.gene_name -> terms.multifun.genes.name
terms.geneOntology.[cellularComponent, molecularFunction, biologicalProcess].id -> terms.geneOntology.[cellularComponent, molecularFunction, biologicalProcess]._id
terms.geneOntology.[cellularComponent, molecularFunction, biologicalProcess].genes.gene_id -> terms.geneOntology.[cellularComponent, molecularFunction, biologicalProcess].genes._id
terms.geneOntology.[cellularComponent, molecularFunction, biologicalProcess].genes.gene_name-> terms.geneOntology.[cellularComponent, molecularFunction, biologicalProcess].genes.name
regulates.[genes, transcriptionFactors, transcriptionUnits, operons, sigmaFactors].id -> regulates.[genes, transcriptionFactors, transcriptionUnits, operons, sigmaFactors]._id
regulates.transcriptionFactors.genes.id -> regulates.transcriptionFactors.genes._id
regulates.[transcriptionUnits, operons, sigmaFactors].firstGene.id -> regulates.[transcriptionUnits, operons, sigmaFactors].firstGene._id
regulatoryInteractions._id Added
regulatoryInteractions.regulatedGenes.id -> regulatoryInteractions.regulatedGenes._id
regulatoryInteractions.regulatoryBindingSite.id -> regulatoryInteractions.regulatoryBindingSite._id
organism.id -> organism._id

geneCoexpression

organism.id -> organism._id

Sigmulon

transcribedPromoters.operon_id -> transcribedPromoters.operonId
organism.id -> organism._id

SRNA

product.id -> product._id
organism.id -> organism._id

dnaFeatures

relatedGenes.id -> relatedGenes._id
organism.organim_id -> organism._id
organism.organism_name -> organism._id

Assets 2
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