FF:10495-107B9: Difference between revisions
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{{f5samples | {{f5samples | ||
|DRA_sample_Accession=CAGE@SAMD00021190 | |DRA_sample_Accession=CAGE@SAMD00021190 | ||
|accession_numbers=CAGE;DRX022766;DRR025105;DRZ003530;DRZ004413 | |accession_numbers=CAGE;DRX022766;DRR025105;DRZ003530;DRZ004413;DRZ008271;DRZ009154 | ||
|ancestors_in_anatomy_facet= | |ancestors_in_anatomy_facet= | ||
|ancestors_in_cell_lineage_facet= | |ancestors_in_cell_lineage_facet= | ||
| Line 48: | Line 48: | ||
|is_a=DOID:6193;;EFO:0002091;;FF:0000003;;FF:0000210 | |is_a=DOID:6193;;EFO:0002091;;FF:0000003;;FF:0000210 | ||
|is_obsolete= | |is_obsolete= | ||
|library_id= | |library_id=CNhs14239 | ||
|library_id_phase_based=2: | |library_id_phase_based=2: | ||
|microRNAs= | |microRNAs= | ||
|microRNAs_nn= | |microRNAs_nn= | ||
|microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/ | |microRNAs_nonnovel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer/#/human#cage;sample;10495 | ||
|microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/ | |microRNAs_novel_cage=http://fantom.gsc.riken.jp/5/suppl/De_Rie_et_al_2017/vis_viewer_novel/#/human#cage;sample;10495 | ||
|name=epithelioid sarcoma cell line:HS-ES-2R | |name=epithelioid sarcoma cell line:HS-ES-2R | ||
|namespace=FANTOM5 | |namespace=FANTOM5 | ||
| Line 95: | Line 95: | ||
|top_motifs= | |top_motifs= | ||
|xref= | |xref= | ||
|zenbu_report=https://fantom.gsc.riken.jp/zenbu/reports/#miRNA_expression_atlas_human;search_select_hide=table111:FF:10495-107B9;search_select_hide=table117:FF:10495-107B9 | |||
}} | }} | ||
Latest revision as of 14:27, 3 June 2020
| Name: | epithelioid sarcoma cell line:HS-ES-2R |
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| Species: | Human (Homo sapiens) |
| Library ID: | CNhs14239 |
| Sample type: | cell lines |
| Genomic View: | UCSC |
| CAGEd-oPOSSUM: | link |
| ZENBU report : | link |
| Additional information | ||||||||||||||||||||||||||||
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Sample information
RNA information
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| Download raw sequence, BAM & CTSS | ||||||||||||||
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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: CNhs14239This 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: CNhs14239This 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: CNhs14239
FANTOM5 (FF) ontology
Direct parent terms
is_a relathionship
DOID:6193 epithelioid sarcoma
EFO:0002091 biological replicate
FF:0000003 cell line sample
FF:0000210 human sample
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
DOID: Disease
4 (disease)
162 (cancer)
14566 (disease of cellular proliferation)
0050687 (cell type cancer)
3350 (mesenchymal cell neoplasm)
6193 (epithelioid sarcoma)
FF: FANTOM5
0000102 (sample by type)
0000003 (cell line sample)
0000210 (human sample)
0000101 (sample by species)
0000001 (sample)
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
