FF:10758-110E2: Difference between revisions
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Revision as of 15:17, 7 March 2012
| Name: | fibrosarcoma cell line:HT-1080 |
|---|---|
| Species: | Human (Homo sapiens) |
| Library ID: | {{{library_id}}} |
| Sample type: | {{{sample_category}}} |
| Genomic View: | UCSC |
| CAGEd-oPOSSUM: | 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>data
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: CNhs11860
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: CNhs11860
| Novel motif | Logo | P-value |
|---|---|---|
| 1 | 1 | 0.118 |
| 10 | 10 | 0.358 |
| 100 | 100 | 0.783 |
| 101 | 101 | 0.463 |
| 102 | 102 | 0.294 |
| 103 | 103 | 0.498 |
| 104 | 104 | 0.675 |
| 105 | 105 | 0.254 |
| 106 | 106 | 0.41 |
| 107 | 107 | 0.11 |
| 108 | 108 | 0.155 |
| 109 | 109 | 0.334 |
| 11 | 11 | 0.293 |
| 110 | 110 | 0.344 |
| 111 | 111 | 0.0135 |
| 112 | 112 | 0.544 |
| 113 | 113 | 0.235 |
| 114 | 114 | 0.649 |
| 115 | 115 | 0.923 |
| 116 | 116 | 0.604 |
| 117 | 117 | 0.934 |
| 118 | 118 | 0.578 |
| 119 | 119 | 0.436 |
| 12 | 12 | 0.57 |
| 120 | 120 | 0.182 |
| 121 | 121 | 0.773 |
| 122 | 122 | 0.81 |
| 123 | 123 | 0.0128 |
| 124 | 124 | 0.735 |
| 125 | 125 | 0.184 |
| 126 | 126 | 1 |
| 127 | 127 | 0.104 |
| 128 | 128 | 0.612 |
| 129 | 129 | 0.69 |
| 13 | 13 | 0.901 |
| 130 | 130 | 0.384 |
| 131 | 131 | 0.149 |
| 132 | 132 | 0.748 |
| 133 | 133 | 0.359 |
| 134 | 134 | 0.717 |
| 135 | 135 | 0.111 |
| 136 | 136 | 0.0611 |
| 137 | 137 | 0.242 |
| 138 | 138 | 0.274 |
| 139 | 139 | 0.849 |
| 14 | 14 | 0.331 |
| 140 | 140 | 0.821 |
| 141 | 141 | 0.833 |
| 142 | 142 | 0.694 |
| 143 | 143 | 0.128 |
| 144 | 144 | 0.915 |
| 145 | 145 | 0.544 |
| 146 | 146 | 0.588 |
| 147 | 147 | 0.589 |
| 148 | 148 | 0.413 |
| 149 | 149 | 0.474 |
| 15 | 15 | 0.266 |
| 150 | 150 | 0.35 |
| 151 | 151 | 0.84 |
| 152 | 152 | 0.966 |
| 153 | 153 | 0.902 |
| 154 | 154 | 0.403 |
| 155 | 155 | 0.0967 |
| 156 | 156 | 0.663 |
| 157 | 157 | 0.795 |
| 158 | 158 | 0.154 |
| 159 | 159 | 0.0779 |
| 16 | 16 | 0.827 |
| 160 | 160 | 0.824 |
| 161 | 161 | 0.654 |
| 162 | 162 | 0.621 |
| 163 | 163 | 0.528 |
| 164 | 164 | 0.0125 |
| 165 | 165 | 0.98 |
| 166 | 166 | 0.754 |
| 167 | 167 | 0.0552 |
| 168 | 168 | 0.798 |
| 169 | 169 | 0.286 |
| 17 | 17 | 0.899 |
| 18 | 18 | 0.13 |
| 19 | 19 | 0.418 |
| 2 | 2 | 0.819 |
| 20 | 20 | 0.277 |
| 21 | 21 | 0.151 |
| 22 | 22 | 0.246 |
| 23 | 23 | 0.0907 |
| 24 | 24 | 0.688 |
| 25 | 25 | 0.435 |
| 26 | 26 | 0.5 |
| 27 | 27 | 0.288 |
| 28 | 28 | 0.302 |
| 29 | 29 | 0.113 |
| 3 | 3 | 0.307 |
| 30 | 30 | 0.125 |
| 31 | 31 | 0.975 |
| 32 | 32 | 0.0706 |
| 33 | 33 | 0.878 |
| 34 | 34 | 0.187 |
| 35 | 35 | 0.446 |
| 36 | 36 | 0.592 |
| 37 | 37 | 0.917 |
| 38 | 38 | 0.975 |
| 39 | 39 | 0.518 |
| 4 | 4 | 0.926 |
| 40 | 40 | 0.256 |
| 41 | 41 | 0.512 |
| 42 | 42 | 0.33 |
| 43 | 43 | 0.411 |
| 44 | 44 | 0.675 |
| 45 | 45 | 0.318 |
| 46 | 46 | 0.287 |
| 47 | 47 | 0.496 |
| 48 | 48 | 0.208 |
| 49 | 49 | 0.519 |
| 5 | 5 | 0.5 |
| 50 | 50 | 0.957 |
| 51 | 51 | 0.612 |
| 52 | 52 | 0.0216 |
| 53 | 53 | 0.575 |
| 54 | 54 | 0.808 |
| 55 | 55 | 0.706 |
| 56 | 56 | 0.941 |
| 57 | 57 | 0.0591 |
| 58 | 58 | 0.442 |
| 59 | 59 | 0.329 |
| 6 | 6 | 0.507 |
| 60 | 60 | 0.257 |
| 61 | 61 | 0.301 |
| 62 | 62 | 0.741 |
| 63 | 63 | 0.771 |
| 64 | 64 | 0.549 |
| 65 | 65 | 0.907 |
| 66 | 66 | 0.00107 |
| 67 | 67 | 0.357 |
| 68 | 68 | 0.15 |
| 69 | 69 | 0.474 |
| 7 | 7 | 0.526 |
| 70 | 70 | 0.551 |
| 71 | 71 | 0.626 |
| 72 | 72 | 0.364 |
| 73 | 73 | 0.556 |
| 74 | 74 | 0.634 |
| 75 | 75 | 0.748 |
| 76 | 76 | 0.903 |
| 77 | 77 | 0.987 |
| 78 | 78 | 0.633 |
| 79 | 79 | 0.464 |
| 8 | 8 | 0.115 |
| 80 | 80 | 0.0335 |
| 81 | 81 | 0.628 |
| 82 | 82 | 0.148 |
| 83 | 83 | 0.425 |
| 84 | 84 | 0.835 |
| 85 | 85 | 0.0183 |
| 86 | 86 | 0.711 |
| 87 | 87 | 0.2 |
| 88 | 88 | 0.139 |
| 89 | 89 | 0.386 |
| 9 | 9 | 0.144 |
| 90 | 90 | 0.362 |
| 91 | 91 | 0.174 |
| 92 | 92 | 0.635 |
| 93 | 93 | 0.525 |
| 94 | 94 | 0.514 |
| 95 | 95 | 0.233 |
| 96 | 96 | 0.898 |
| 97 | 97 | 0.523 |
| 98 | 98 | 0.897 |
| 99 | 99 | 0.072 |
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: CNhs11860
FANTOM5 (FF) ontology
Direct parent terms
is_a relathionship
EFO:0002091 biological replicate
FF:0000003 cell line sample
FF:0000210 human sample
FF:0101282 HT-1080 cell 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
CL: Cell type
0000000 (cell), 0000000 (cell)
0000003 (native cell)
0000034 (stem cell)
0000048 (multi fate stem cell)
0000055 (non-terminally differentiated cell)
0000057 (fibroblast)
0000134 (mesenchymal cell)
0000219 (motile cell)
0000255 (eukaryotic cell)
0000548 (animal cell)
0000723 (somatic stem cell)
0002320 (connective tissue cell)
0002371 (somatic cell)
DOID: Disease
0050687 (cell type cancer)
1115 (sarcoma)
14566 (disease of cellular proliferation)
162 (cancer)
4 (disease)
UBERON: Anatomy
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000479 (tissue)
0001062 (anatomical entity)
0002384 (connective tissue)
FF: FANTOM5
NA
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
