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* we are focusing on phase1 freeze, and we are '''still keep updating''' this.
* we are focusing on phase1 freeze, and we are '''still keep updating''' this.
* contact: KAWAJI, Hideya <kawaji@gsc.riken.jp>, SHIMOJI, Hisashi <hisashi.shimoji@dnaform.jp>, or WP4 <fantom5-wp4@gsc.riken.jp>  
* contact: KAWAJI, Hideya <kawaji@gsc.riken.jp>, SHIMOJI, Hisashi <hisashi.shimoji@dnaform.jp>, or WP4 <fantom5-wp4@gsc.riken.jp>  
=== Data source ===
* CAGE peaks (only the robust set), their association with genes, and their expression based on RLE TPM.
** https://fantom5-collaboration.gsc.riken.jp/webdav/home/kawaji/111220-DPI/hg19/tc.decompose_smoothing_merged.ctssMaxCounts11_ctssMaxTpm1.tpm.selected.clustername_update.osc.txt.gz
** https://fantom5-collaboration.gsc.riken.jp/webdav/home/kawaji/111220-DPI/mm9/tc.decompose_smoothing_merged.ctssMaxCounts11_ctssMaxTpm1.tpm.selected.clustername_update.osc.txt.gz
* Swissregulon motifs, and Motif Activity Response Analysis (MARA)
** http://www.swissregulon.unibas.ch/
** https://fantom5-collaboration.gsc.riken.jp/webdav/home/mdehoon/MotifActivity/
* FF Ontology
** https://fantom5-collaboration.gsc.riken.jp/files/data/shared/contrib/sample_ontology/FANTOM5v5/
* facet classification based on FF ontology
** http://yuri.lbl.gov:8600/fonse/ FONSE (Fantomy ONtology Sample Explorer)


= Other browsers/resources =  
= Other browsers/resources =  

Revision as of 19:40, 11 June 2012

Genes, TSS regions, motifs, samples, etc profiled in FANTOM5.

Usage

  • Just click any in the left menue
  • Or, keyword search on top of this page.
  • Or, make a complex query at Special:Ask, if you are familiar with Semantic MediaWIki

Note

  • we are focusing on phase1 freeze, and we are still keep updating this.
  • contact: KAWAJI, Hideya <kawaji@gsc.riken.jp>, SHIMOJI, Hisashi <hisashi.shimoji@dnaform.jp>, or WP4 <fantom5-wp4@gsc.riken.jp>

Other browsers/resources

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