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Latest revision as of 15:23, 14 November 2019
FANTOM5 SSTAR (Semantic catalog of Samples, Transcription initiation And Regulators) provide a way to explore samples, transcriptional initiations, and regulators analyzed in the FANTOM5 project. If you have any questions or comments, please contact to fantom-help@riken.jp
| Search genes | |||
|---|---|---|---|
| Examples | Browse | ||
| Time courses | Promoters and enhancers activity in 19 human and 14 mouse time courses covering a wide range of cell types and biological stimuli | ||
| Samples | Details of profiled samples (incl. primary cells, cell lines, and tissues) | ||
| Sample classifications |
Samples profiled in FANTOM5 are systematically classified by defining FANTON5 sample ontology (FF), consisting of Cell type (CL), Diseases (DOID), and Anatomy (UBERON). |
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| Co-expression |
CAGE peaks (TSS regions) are grouped based on expression, by using MCL |
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| Motifs |
known and de-novo motifs discovered in the proximal region to the CAGE peaks |
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| Transcription factors |
Transcription factors. |
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Please cite SSTAR as:
Abugessaisa, I., H. Shimoji, S. Sahin, A. Kondo, J. Harshbarger, M. Lizio, Y. Hayashizaki, P. Carninci, F. consortium, A. Forrest, T. Kasukawa and H. Kawaji (2016). "FANTOM5 transcriptome catalog of cellular states based on Semantic MediaWiki." Database (Oxford) 2016
