Data source: Difference between revisions
From FANTOM5_SSTAR
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** [http://fantom.gsc.riken.jp/5/datafiles/phase1.1/extra/Co-expression_clusters/mm9.novel_motif.coexpression_clusters_overrepresentation.txt.gz mouse_novel_motif] | ** [http://fantom.gsc.riken.jp/5/datafiles/phase1.1/extra/Co-expression_clusters/mm9.novel_motif.coexpression_clusters_overrepresentation.txt.gz mouse_novel_motif] | ||
** [http://fantom.gsc.riken.jp/5/datafiles/phase1.1/extra/Co-expression_clusters/mm9.KNOWN_JASPAR_130.coexpression_clusters_overrepresentation.txt.gz mouse_jaspar_motif] | ** [http://fantom.gsc.riken.jp/5/datafiles/phase1.1/extra/Co-expression_clusters/mm9.KNOWN_JASPAR_130.coexpression_clusters_overrepresentation.txt.gz mouse_jaspar_motif] | ||
* [http://fantom.gsc.riken.jp/5/datafiles/ | * [http://fantom.gsc.riken.jp/5/datafiles/phase1.1/extra/Co-expression_clusters/ENCODE_TF_ChIP-seq_peak_enrichment_coexprclusterencode.filtered.csv.gz ENCODE_TF_ChIP-seq_peak enrichment analysis] | ||
* Relative expression of the co-expression module | * Relative expression of the co-expression module | ||
** [http://fantom.gsc.riken.jp/5/datafiles/ | ** [http://fantom.gsc.riken.jp/5/datafiles/phase1.1/extra/Co-expression_clusters/coexpression_DPI_cluster_scores_median_human_Aug3_2012.txt.gz human] | ||
** [http://fantom.gsc.riken.jp/5/datafiles/ | ** [http://fantom.gsc.riken.jp/5/datafiles/phase1.1/extra/Co-expression_clusters/coexpression_DPI_cluster_scores_median_mouse_Oct9_2012.txt.gz mouse] | ||
=== Motifs === | === Motifs === | ||
Revision as of 16:55, 12 February 2015
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
