FF:10778-110G4
From FANTOM5_SSTAR
| Name: | hepatic mesenchymal tumor cell line:LI90 |
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| 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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Relative expression to median (log10)
Transcription factors with enriched expression in this sampleRanked list of transcription factor promoter expression in this sample relative to the median expression in the FANTOM5 collection is shown. Value is log10 transformed.
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: CNhs11868
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: CNhs11868
| Novel motif | Logo | P-value |
|---|---|---|
| 1 | 1 | 0.797 |
| 10 | 10 | 0.69 |
| 100 | 100 | 0.499 |
| 101 | 101 | 0.631 |
| 102 | 102 | 0.133 |
| 103 | 103 | 0.449 |
| 104 | 104 | 0.564 |
| 105 | 105 | 0.28 |
| 106 | 106 | 0.00377 |
| 107 | 107 | 0.00916 |
| 108 | 108 | 0.423 |
| 109 | 109 | 0.813 |
| 11 | 11 | 0.575 |
| 110 | 110 | 0.468 |
| 111 | 111 | 0.604 |
| 112 | 112 | 0.429 |
| 113 | 113 | 0.553 |
| 114 | 114 | 0.214 |
| 115 | 115 | 0.239 |
| 116 | 116 | 0.0206 |
| 117 | 117 | 0.261 |
| 118 | 118 | 0.757 |
| 119 | 119 | 0.0893 |
| 12 | 12 | 0.138 |
| 120 | 120 | 0.402 |
| 121 | 121 | 0.443 |
| 122 | 122 | 0.142 |
| 123 | 123 | 0.941 |
| 124 | 124 | 0.655 |
| 125 | 125 | 0.875 |
| 126 | 126 | 0.632 |
| 127 | 127 | 0.938 |
| 128 | 128 | 0.0527 |
| 129 | 129 | 0.352 |
| 13 | 13 | 0.0822 |
| 130 | 130 | 0.508 |
| 131 | 131 | 0.188 |
| 132 | 132 | 0.517 |
| 133 | 133 | 0.932 |
| 134 | 134 | 0.637 |
| 135 | 135 | 0.429 |
| 136 | 136 | 0.379 |
| 137 | 137 | 0.473 |
| 138 | 138 | 0.736 |
| 139 | 139 | 0.034 |
| 14 | 14 | 0.311 |
| 140 | 140 | 0.476 |
| 141 | 141 | 0.566 |
| 142 | 142 | 0.712 |
| 143 | 143 | 0.75 |
| 144 | 144 | 0.509 |
| 145 | 145 | 0.812 |
| 146 | 146 | 0.269 |
| 147 | 147 | 0.135 |
| 148 | 148 | 0.938 |
| 149 | 149 | 0.00502 |
| 15 | 15 | 0.692 |
| 150 | 150 | 0.0609 |
| 151 | 151 | 0.468 |
| 152 | 152 | 0.0338 |
| 153 | 153 | 0.63 |
| 154 | 154 | 0.354 |
| 155 | 155 | 0.0467 |
| 156 | 156 | 0.415 |
| 157 | 157 | 0.532 |
| 158 | 158 | 0.13 |
| 159 | 159 | 0.461 |
| 16 | 16 | 0.0937 |
| 160 | 160 | 0.655 |
| 161 | 161 | 0.978 |
| 162 | 162 | 0.864 |
| 163 | 163 | 0.551 |
| 164 | 164 | 0.0466 |
| 165 | 165 | 0.591 |
| 166 | 166 | 0.037 |
| 167 | 167 | 0.911 |
| 168 | 168 | 0.482 |
| 169 | 169 | 0.405 |
| 17 | 17 | 0.271 |
| 18 | 18 | 0.24 |
| 19 | 19 | 0.0761 |
| 2 | 2 | 0.161 |
| 20 | 20 | 0.403 |
| 21 | 21 | 0.421 |
| 22 | 22 | 0.637 |
| 23 | 23 | 0.005 |
| 24 | 24 | 0.316 |
| 25 | 25 | 0.139 |
| 26 | 26 | 0.498 |
| 27 | 27 | 0.974 |
| 28 | 28 | 0.416 |
| 29 | 29 | 0.465 |
| 3 | 3 | 0.545 |
| 30 | 30 | 0.724 |
| 31 | 31 | 0.392 |
| 32 | 32 | 2.84197e-14 |
| 33 | 33 | 0.183 |
| 34 | 34 | 0.674 |
| 35 | 35 | 0.921 |
| 36 | 36 | 0.0814 |
| 37 | 37 | 0.781 |
| 38 | 38 | 0.81 |
| 39 | 39 | 0.523 |
| 4 | 4 | 0.679 |
| 40 | 40 | 0.181 |
| 41 | 41 | 0.955 |
| 42 | 42 | 0.64 |
| 43 | 43 | 0.479 |
| 44 | 44 | 0.704 |
| 45 | 45 | 0.937 |
| 46 | 46 | 0.183 |
| 47 | 47 | 0.672 |
| 48 | 48 | 0.672 |
| 49 | 49 | 0.426 |
| 5 | 5 | 0.172 |
| 50 | 50 | 0.636 |
| 51 | 51 | 0.94 |
| 52 | 52 | 0.263 |
| 53 | 53 | 0.858 |
| 54 | 54 | 0.401 |
| 55 | 55 | 0.168 |
| 56 | 56 | 0.853 |
| 57 | 57 | 0.226 |
| 58 | 58 | 0.538 |
| 59 | 59 | 0.389 |
| 6 | 6 | 0.462 |
| 60 | 60 | 0.225 |
| 61 | 61 | 0.399 |
| 62 | 62 | 0.617 |
| 63 | 63 | 0.19 |
| 64 | 64 | 0.938 |
| 65 | 65 | 0.323 |
| 66 | 66 | 0.172 |
| 67 | 67 | 0.191 |
| 68 | 68 | 0.794 |
| 69 | 69 | 0.619 |
| 7 | 7 | 0.277 |
| 70 | 70 | 0.263 |
| 71 | 71 | 0.919 |
| 72 | 72 | 0.435 |
| 73 | 73 | 0.0756 |
| 74 | 74 | 0.0839 |
| 75 | 75 | 0.249 |
| 76 | 76 | 0.991 |
| 77 | 77 | 0.0684 |
| 78 | 78 | 0.988 |
| 79 | 79 | 0.0015 |
| 8 | 8 | 0.29 |
| 80 | 80 | 0.204 |
| 81 | 81 | 0.854 |
| 82 | 82 | 0.0927 |
| 83 | 83 | 0.592 |
| 84 | 84 | 0.789 |
| 85 | 85 | 9.40643e-4 |
| 86 | 86 | 0.916 |
| 87 | 87 | 0.832 |
| 88 | 88 | 0.608 |
| 89 | 89 | 0.352 |
| 9 | 9 | 0.778 |
| 90 | 90 | 0.452 |
| 91 | 91 | 0.538 |
| 92 | 92 | 0.0146 |
| 93 | 93 | 0.915 |
| 94 | 94 | 0.197 |
| 95 | 95 | 0.737 |
| 96 | 96 | 0.684 |
| 97 | 97 | 0.26 |
| 98 | 98 | 0.246 |
| 99 | 99 | 0.0192 |
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: CNhs11868
FANTOM5 (FF) ontology
Direct parent terms
is_a relathionship
DOID:3350 mesenchymal cell neoplasm
DOID:3571 liver cancer
EFO:0002091 biological replicate
FF:0000210 human sample
FF:0103519 LI90 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)
0000723 (somatic stem cell)
0000048 (multi fate stem cell)
0000988 (hematopoietic cell)
0000839 (myeloid lineage restricted progenitor cell)
0000548 (animal cell)
0002194 (monopoietic cell)
0000034 (stem cell)
0002032 (hematopoietic oligopotent progenitor cell)
0000763 (myeloid cell)
0002320 (connective tissue cell)
0002371 (somatic cell)
0000864 (tissue-resident macrophage)
0000766 (myeloid leukocyte)
0000219 (motile cell)
0000134 (mesenchymal cell)
0000738 (leukocyte)
0002087 (nongranular leukocyte)
0000255 (eukaryotic cell)
0002031 (hematopoietic lineage restricted progenitor cell)
0000576 (monocyte)
0000235 (macrophage)
0000037 (hematopoietic stem cell)
0000566 (angioblastic mesenchymal cell)
0000049 (common myeloid progenitor)
0000557 (granulocyte monocyte progenitor cell)
0000837 (hematopoietic multipotent progenitor cell)
0002009 (macrophage dendritic cell progenitor)
0000040 (monoblast)
0000559 (promonocyte)
DOID: Disease
4 (disease)
0050686 (organ system cancer)
162 (cancer)
14566 (disease of cellular proliferation)
0050687 (cell type cancer)
3119 (gastrointestinal system cancer)
3350 (mesenchymal cell neoplasm)
3571 (liver cancer)
UBERON: Anatomy
0000468 (multi-cellular organism)
0000922 (embryo)
0002107 (liver)
0002371 (bone marrow)
0002100 (trunk)
0000483 (epithelium)
0002530 (gland)
0001474 (bone element)
0002384 (connective tissue)
0000926 (mesoderm)
0000479 (tissue)
0001007 (digestive system)
0000055 (vessel)
0000064 (organ part)
0000077 (mixed endoderm/mesoderm-derived structure)
0002368 (endocrine gland)
0000466 (immaterial anatomical entity)
0000062 (organ)
0004111 (anatomical conduit)
0000475 (organism subdivision)
0004765 (skeletal element)
0004120 (mesoderm-derived structure)
0000025 (tube)
0004119 (endoderm-derived structure)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000480 (anatomical group)
0000923 (germ layer)
0003914 (epithelial tube)
0007499 (epithelial sac)
0002050 (embryonic structure)
0005911 (endo-epithelium)
0004921 (subdivision of digestive tract)
0005423 (developing anatomical structure)
0000477 (anatomical cluster)
0000481 (multi-tissue structure)
0000467 (anatomical system)
0001062 (anatomical entity)
0000119 (cell layer)
0000490 (unilaminar epithelium)
0009569 (subdivision of trunk)
0005291 (embryonic tissue)
0009854 (digestive tract diverticulum)
0003929 (gut epithelium)
0000353 (parenchyma)
0003497 (abdomen blood vessel)
0003909 (sinusoid)
0001981 (blood vessel)
0002049 (vasculature)
0005177 (trunk region element)
0002365 (exocrine gland)
0007500 (epithelial tube open at both ends)
0003104 (mesenchyme)
0005057 (immune organ)
0005172 (abdomen element)
0006925 (digestive gland)
0005256 (trunk mesenchyme)
0001048 (primordium)
0000925 (endoderm)
0003835 (abdominal segment blood vessel)
0003513 (trunk blood vessel)
0006598 (presumptive structure)
0007798 (vascular system)
0009497 (epithelium of foregut-midgut junction)
0004185 (endodermal part of digestive tract)
0005173 (abdominal segment element)
0000015 (anatomical boundary)
0009856 (sac)
0002532 (epiblast (generic))
0001281 (hepatic sinusoid)
0001555 (digestive tract)
0002204 (musculoskeletal system)
0001434 (skeletal system)
0002390 (hematopoietic system)
0004535 (cardiovascular system)
0002417 (abdominal segment of trunk)
0007026 (primitive gut)
0001041 (foregut)
0000949 (endocrine system)
0001280 (liver parenchyma)
0004647 (liver lobule)
0002193 (hemolymphoid system)
0002330 (exocrine system)
0004537 (blood vasculature)
0000916 (abdomen)
0002405 (immune system)
0002423 (hepatobiliary system)
0009142 (entire embryonic mesenchyme)
0003081 (lateral plate mesoderm)
0001009 (circulatory system)
0006235 (foregut-midgut junction)
0006595 (presumptive endoderm)
0006603 (presumptive mesoderm)
0008835 (hepatic diverticulum)
0004872 (splanchnic layer of lateral plate mesoderm)
0006965 (vascular cord)
0003894 (liver primordium)
0004161 (septum transversum)
0008836 (liver bud)
0003061 (blood island)
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
