FF:13643-147A7: Difference between revisions
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|ancestors_in_ff_facet= | |ancestors_in_ff_facet= | ||
|data_phase=2 | |data_phase=2 | ||
|datafreeze_phase=2 | |||
|has_quality= | |has_quality= | ||
|id=FF:13643-147A7 | |id=FF:13643-147A7 | ||
|is_a= | |is_a= | ||
|library_id=CNhs14482 | |||
|library_id_phase_based=2:CNhs14482 | |library_id_phase_based=2:CNhs14482 | ||
|name=ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr40min, biol_rep1 | |name="ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr40min, biol_rep1" | ||
|part_of= | |part_of= | ||
|profile_cagescan= | |profile_cagescan= | ||
|profile_hcage=CNhs14482,LSID1293,release020,COMPLETED | |profile_hcage="CNhs14482,LSID1293,release020,COMPLETED" | ||
|profile_rnaseq= | |profile_rnaseq= | ||
|profile_srnaseq= | |profile_srnaseq= | ||
Revision as of 20:57, 27 November 2014
| Name: | "ARPE-19 EMT induced with TGF-beta and TNF-alpha, 01hr40min, biol_rep1" |
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| Species: | Human (Homo sapiens) |
| Library ID: | CNhs14482 |
| Sample type: | time courses |
| Genomic View: | UCSC |
| CAGEd-oPOSSUM: | link |
| Additional information | ||||||||||||||||||||||||||||
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Sample information
RNA information
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Co-expression clusters with enriched expression in this sampleRanked list of co-expression cluster expression in this sample relative to the median expression in the FANTOM5 collection is shown. Value is log10 transformed. <br>Analyst:NA <br><br>link to dataset.<br>dataNo results for this sample
Repeat families with enriched expression in this sample<b>Summary:</b>Ranked list of repeat family expression in this sample relative tothe median expression in the FANTOM5 collection is shown. Value is log10transformed.<br><b>Analyst:</b>NA<br><br>link to dataset.<br>data
no result for this sample
TFBS(DNA)motifs over-represented in proximal region of promoters active in this sample
JASPAR motifs<b>Summary:</b>Association of JASPAR motif to the promoter expression in thissample. Pearson's correlation between the number of TFBSs estimated byusing the position-weight matrix for each promoter and its expression isexpressed as Z-score by taking the ones based on random position-weightmatrix, and the tail probability of the normal distribution correspondingto the Z-score is taken as the resulting P-value. Lower P-value indicatesmore (non-random) association of the motif to promoter expression<br><b>Analyst:</b> Michiel de Hoon <br><br><br>link to dataset.<br>data
library id: "CNhs14482This sample isn't target for the analysis
FANTOM5 phase1 novel unique motifs<b>Summary:</b>Association of the 169 novel and unique motifs discovered in FANTOM5 phase1 in this sample. Among the de-novo motifs discovered by DMF, HOMER,ChIPMunk, and ScanAll, only novel motifs are selected after comparison with known motif sets, and their clustering based on MACRO-APE resulted in169 novel and unique motifs. Their association to the promoter expression is evaluated in the same way to the JASPAR motif above<br><b>Analyst:</b> Michiel de Hoon <br><br><br>link to dataset.<br>data
library id: "CNhs14482This sample isn't target for the analysis
de novo motifs identified by HOMER in promoters active in this sample<b>Summary:</b>The result of HOMER in this sample is shown.<br><b>Analyst:</b>NA <br>
library id: "CNhs14482
FANTOM5 (FF) ontology
Direct parent terms
Ancestor terms (non development)<b>Summary:</b>Connected ontology terms with is_a, part_of or located_in relationship <br><b>Analyst:</b> Hideya Kawaji<br><br>link to source data<br>data
Ancestor terms (development)<b>Summary:</b>Connected ontology terms with develops_from, derives_from or preceded_by relationship <br><b>Analyst:</b> Hideya Kawaji <br><br>link to source data<br>data
NA
