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Data source

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Data sources used in the database(s)


FANTOM5 Resource Browser

CAGE peaks

  • CAGE peak location (with the robust threshold) , annotation, and expression
  • Ontology-based sample term enrichment analysis

Transcription Factors

  • TF entrezgene list

MCL co expression

  • CP member list
  • Sample ontology enrichment analysis
  • GOstat analysis
  • KEGG enrichment
  • TFBS overrepresentation for the novel motifs

Gene

Motifs

  • MacroAPE_1083: Position weight matrices and p-value for sample specificity
  • TomTom analysis results for MacroAPE_1083 motifs
  • SwissRegulon (known)

Sample information

  • sample name and attributes
  • GOstat analysis based on ranked expression for human libraries in phase 1 freeze samples
  • TF expression and enrichment table on FF sample page
  • Top motif activities with MARA (same value imported in Swissregulon pages)

Ontology

  • Sample ontology(FF), Cell ontology(CL), Human disease ontology(DOID) and Uber anatomy ontology (UBERON)
  • Ontology mapping: FF sample <--> CL, DOID, UBERON, FF term

Network

FANTOM5 BioMart

CAGE peak annotation


Sample Names and IDs

tc.decompose_smoothing_merged.ctssMaxCounts11_ctssMaxTpm1.counts.selected.sync015.clustername_update.osc.txt.gz]

CAGE peak expression (for the ones with the robust threshold)