Data source: Difference between revisions
From FANTOM5_SSTAR
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=== Sample === | === Sample === | ||
* sample name and attributes | * sample name and attributes | ||
** [https:// | ** [https://fantom.gsc.riken.jp/5/datafiles/phase2.6/basic/HumanSamples2.0.sdrf.xlsx Human] | ||
** [https:// | ** [https://fantom.gsc.riken.jp/5/datafiles/phase2.6/basic/MouseSamples2.3.sdrf.xlsx Mouse] | ||
* [http://fantom.gsc.riken.jp/5/datafiles/phase1.1/extra/Transcription_factors/ Transcription factors, relative expression] | * [http://fantom.gsc.riken.jp/5/datafiles/phase1.1/extra/Transcription_factors/ Transcription factors, relative expression] | ||
* [http://fantom.gsc.riken.jp/5/datafiles/phase1.1/extra/Motifs/ HOMER motifs] | * [http://fantom.gsc.riken.jp/5/datafiles/phase1.1/extra/Motifs/ HOMER motifs] | ||
Revision as of 11:40, 3 February 2022
Data sources used in FANTOM5 SSTAR
CAGE peaks
- CAGE peak location (with the robust threshold) , annotation, and expression
- Ontology-based sample term enrichment analysis
Genes
- Gene details (obtained from EntrezGene)
Coexpression module
- FFCP member list
- Sample ontology enrichment analysis
- GOStat results on Coexpression module
- Pathway enrichment analysis
- TFBS overrepresentation
- ENCODE_TF_ChIP-seq_peak enrichment analysis
- Relative expression of the co-expression module
Motifs
- Novel motifs GREAT analysis results
- Novel motifs Significance of the correlation with CAGE expression
- Jaspar motifs Significance of the correlation with CAGE expression
Sample
- sample name and attributes
- Transcription factors, relative expression
- HOMER motifs
- Repeat family, relative expression
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
