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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. | ||
* expression view on genes are little bit slow now. We are now investigating alternative ways. | * expression view on genes are little bit slow now. We are now investigating alternative ways. | ||
* contact: KAWAJI, Hideya <kawaji@gsc.riken.jp>, SHIMOJI, Hisashi <hisashi.shimoji@dnaform.jp>, or WP4 <fantom5-wp4@gsc.riken.jp> | |||
=== | === Data sources === | ||
* CAGE peaks (only the robust set), their association with genes, and their expression based on RLE TPM. | * 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/hg19/tc.decompose_smoothing_merged.ctssMaxCounts11_ctssMaxTpm1.tpm.selected.clustername_update.osc.txt.gz | ||
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* FF Ontology | * FF Ontology | ||
** https://fantom5-collaboration.gsc.riken.jp/files/data/shared/contrib/sample_ontology/FANTOM5v5/ | ** https://fantom5-collaboration.gsc.riken.jp/files/data/shared/contrib/sample_ontology/FANTOM5v5/ | ||
= Other browsers = | = Other browsers = | ||
Revision as of 18:44, 29 February 2012
Genes, TSS regions, motifs, samples, etc profiled in FANTOM5 are accessible from here.
Note
- we are focusing on phase1 freeze, and we are still keep updating this.
- expression view on genes are little bit slow now. We are now investigating alternative ways.
- contact: KAWAJI, Hideya <kawaji@gsc.riken.jp>, SHIMOJI, Hisashi <hisashi.shimoji@dnaform.jp>, or WP4 <fantom5-wp4@gsc.riken.jp>
Data sources
- 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)
- FF Ontology
Other browsers
- FANTOM5 collaboration wiki
- zenbu
- UCSC mirror (at RIKEN)
- FONSE (Fantomy ONtology Sample Explorer) (user:terry , pass: T34s377)
- BioLayout
