FF:10054-101G9: Difference between revisions
From FANTOM5_SSTAR
No edit summary |
No edit summary |
||
| Line 67: | Line 67: | ||
|fonse_treatment_closure= | |fonse_treatment_closure= | ||
|top_motifs= | |top_motifs= | ||
|comment= | |||
|created_by= | |||
|creation_date= | |||
|def= | |||
|has_quality= | |||
|is_a=EFO:0002091;;FF:0000004;;FF:0000210;;FF:0010054 | |||
|namespace=FANTOM5 | |||
|part_of= | |||
}} | }} | ||
Revision as of 15:07, 7 March 2012
| Name: | eye, fetal, donor1 |
|---|---|
| Species: | Human (Homo sapiens) |
| Library ID: | {{{library_id}}} |
| Sample type: | {{{sample_category}}} |
| Genomic View: | UCSC |
| CAGEd-oPOSSUM: | link |
| Additional information | ||||||||||||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Sample information
RNA information
|
| Download raw sequence, BAM & CTSS | ||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
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: CNhs11762
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: CNhs11762
| Novel motif | Logo | P-value |
|---|---|---|
| 1 | 1 | 0.0354 |
| 10 | 10 | 0.0134 |
| 100 | 100 | 0.368 |
| 101 | 101 | 0.916 |
| 102 | 102 | 0.837 |
| 103 | 103 | 0.173 |
| 104 | 104 | 0.591 |
| 105 | 105 | 0.371 |
| 106 | 106 | 0.441 |
| 107 | 107 | 0.829 |
| 108 | 108 | 0.815 |
| 109 | 109 | 0.0126 |
| 11 | 11 | 0.036 |
| 110 | 110 | 0.0913 |
| 111 | 111 | 0.00667 |
| 112 | 112 | 0.846 |
| 113 | 113 | 0.0335 |
| 114 | 114 | 0.103 |
| 115 | 115 | 0.135 |
| 116 | 116 | 0.816 |
| 117 | 117 | 0.00254 |
| 118 | 118 | 0.0315 |
| 119 | 119 | 0.376 |
| 12 | 12 | 0.861 |
| 120 | 120 | 0.448 |
| 121 | 121 | 0.763 |
| 122 | 122 | 0.919 |
| 123 | 123 | 0.0107 |
| 124 | 124 | 0.444 |
| 125 | 125 | 0.69 |
| 126 | 126 | 0.112 |
| 127 | 127 | 0.629 |
| 128 | 128 | 0.83 |
| 129 | 129 | 0.324 |
| 13 | 13 | 0.00372 |
| 130 | 130 | 0.912 |
| 131 | 131 | 0.227 |
| 132 | 132 | 0.194 |
| 133 | 133 | 0.0493 |
| 134 | 134 | 0.476 |
| 135 | 135 | 0.819 |
| 136 | 136 | 0.046 |
| 137 | 137 | 0.494 |
| 138 | 138 | 0.334 |
| 139 | 139 | 0.596 |
| 14 | 14 | 0.748 |
| 140 | 140 | 0.4 |
| 141 | 141 | 0.145 |
| 142 | 142 | 0.83 |
| 143 | 143 | 0.00503 |
| 144 | 144 | 0.708 |
| 145 | 145 | 0.466 |
| 146 | 146 | 0.336 |
| 147 | 147 | 0.146 |
| 148 | 148 | 0.213 |
| 149 | 149 | 0.768 |
| 15 | 15 | 0.0116 |
| 150 | 150 | 0.304 |
| 151 | 151 | 0.702 |
| 152 | 152 | 0.122 |
| 153 | 153 | 0.795 |
| 154 | 154 | 0.768 |
| 155 | 155 | 0.119 |
| 156 | 156 | 0.792 |
| 157 | 157 | 0.274 |
| 158 | 158 | 0.215 |
| 159 | 159 | 0.961 |
| 16 | 16 | 0.661 |
| 160 | 160 | 0.523 |
| 161 | 161 | 0.153 |
| 162 | 162 | 0.349 |
| 163 | 163 | 0.759 |
| 164 | 164 | 0.00696 |
| 165 | 165 | 0.613 |
| 166 | 166 | 0.245 |
| 167 | 167 | 0.0351 |
| 168 | 168 | 0.937 |
| 169 | 169 | 0.00934 |
| 17 | 17 | 0.268 |
| 18 | 18 | 0.138 |
| 19 | 19 | 0.878 |
| 2 | 2 | 0.258 |
| 20 | 20 | 0.0327 |
| 21 | 21 | 0.183 |
| 22 | 22 | 0.446 |
| 23 | 23 | 0.731 |
| 24 | 24 | 0.185 |
| 25 | 25 | 0.406 |
| 26 | 26 | 0.00212 |
| 27 | 27 | 0.769 |
| 28 | 28 | 0.569 |
| 29 | 29 | 0.00289 |
| 3 | 3 | 0.0252 |
| 30 | 30 | 0.0559 |
| 31 | 31 | 0.759 |
| 32 | 32 | 0.0376 |
| 33 | 33 | 0.0408 |
| 34 | 34 | 0.466 |
| 35 | 35 | 0.672 |
| 36 | 36 | 0.114 |
| 37 | 37 | 0.0341 |
| 38 | 38 | 0.478 |
| 39 | 39 | 0.902 |
| 4 | 4 | 0.848 |
| 40 | 40 | 0.135 |
| 41 | 41 | 0.117 |
| 42 | 42 | 0.0815 |
| 43 | 43 | 0.175 |
| 44 | 44 | 0.934 |
| 45 | 45 | 0.708 |
| 46 | 46 | 0.148 |
| 47 | 47 | 0.0361 |
| 48 | 48 | 0.081 |
| 49 | 49 | 0.133 |
| 5 | 5 | 0.355 |
| 50 | 50 | 0.608 |
| 51 | 51 | 0.518 |
| 52 | 52 | 0.682 |
| 53 | 53 | 0.778 |
| 54 | 54 | 0.668 |
| 55 | 55 | 0.138 |
| 56 | 56 | 0.705 |
| 57 | 57 | 0.14 |
| 58 | 58 | 0.434 |
| 59 | 59 | 0.859 |
| 6 | 6 | 0.859 |
| 60 | 60 | 0.43 |
| 61 | 61 | 0.0104 |
| 62 | 62 | 0.378 |
| 63 | 63 | 0.246 |
| 64 | 64 | 0.472 |
| 65 | 65 | 0.742 |
| 66 | 66 | 0.0282 |
| 67 | 67 | 0.575 |
| 68 | 68 | 0.24 |
| 69 | 69 | 0.877 |
| 7 | 7 | 0.104 |
| 70 | 70 | 0.11 |
| 71 | 71 | 0.00604 |
| 72 | 72 | 0.308 |
| 73 | 73 | 0.0171 |
| 74 | 74 | 0.26 |
| 75 | 75 | 0.00242 |
| 76 | 76 | 0.039 |
| 77 | 77 | 0.773 |
| 78 | 78 | 0.0966 |
| 79 | 79 | 0.781 |
| 8 | 8 | 0.0586 |
| 80 | 80 | 0.736 |
| 81 | 81 | 0.498 |
| 82 | 82 | 0.918 |
| 83 | 83 | 0.927 |
| 84 | 84 | 0.423 |
| 85 | 85 | 0.676 |
| 86 | 86 | 0.158 |
| 87 | 87 | 0.00166 |
| 88 | 88 | 0.5 |
| 89 | 89 | 0.845 |
| 9 | 9 | 0.823 |
| 90 | 90 | 0.0801 |
| 91 | 91 | 0.787 |
| 92 | 92 | 0.803 |
| 93 | 93 | 0.921 |
| 94 | 94 | 0.0346 |
| 95 | 95 | 0.0129 |
| 96 | 96 | 0.43 |
| 97 | 97 | 0.793 |
| 98 | 98 | 0.256 |
| 99 | 99 | 0.371 |
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: CNhs11762
FANTOM5 (FF) ontology
Direct parent terms
is_a relathionship
EFO:0002091 biological replicate
FF:0000004 tissue sample
FF:0000210 human sample
FF:0010054 human eye - fetal 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
UBERON: Anatomy
0000020 (sense organ)
0000061 (anatomical structure)
0000062 (organ)
0000465 (material anatomical entity)
0000467 (anatomical system)
0000468 (multi-cellular organism)
0000479 (tissue)
0000480 (anatomical group)
0000922 (embryo)
0000970 (eye)
0001032 (sensory system)
0001062 (anatomical entity)
0002104 (visual system)
0004456 (entire sense organ system)
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
