FF:12158-128G7: Difference between revisions
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Revision as of 14:51, 15 February 2012
| Name: | Math1- Inner ear hair cells - organ of corti, pool1 |
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| Species: | Mouse (Mus musculus) |
| 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
CNhs12533
| 0 | 0 |
| 1 | 0.073 |
| 10 | 0 |
| 100 | 0.0645 |
| 1000 | 0 |
| 1001 | -0.0749 |
| 1002 | 0.246 |
| 1003 | -0.0306 |
| 1004 | 0 |
| 1005 | 0 |
| 1006 | 0.113 |
| 1007 | 0.246 |
| 1008 | 0 |
| 1009 | 0.168 |
| 101 | -0.0178 |
| 1010 | 0 |
| 1011 | 0.0288 |
| 1012 | 0 |
| 1013 | -0.00408 |
| 1014 | -0.0874 |
| 1015 | 0.239 |
| 1016 | 0.31 |
| 1017 | 0 |
| 1018 | 0 |
| 1019 | 0 |
| 102 | 0 |
| 1020 | 0 |
| 1021 | 0 |
| 1022 | 0.0503 |
| 1023 | 0 |
| 1024 | 0 |
| 1025 | 0 |
| 1026 | 0 |
| 1027 | 0.237 |
| 1028 | 0 |
| 1029 | -0.176 |
| 103 | -0.0142 |
| 1030 | 0 |
| 1031 | 0.435 |
| 1032 | 0.203 |
| 1033 | 0.00678 |
| 1034 | 0 |
| 1035 | 0 |
| 1036 | 0.0695 |
| 1037 | 0.121 |
| 1038 | 0.047 |
| 1039 | 0.00983 |
| 104 | 0 |
| 1040 | -0.0382 |
| 1041 | 0 |
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: CNhs12533This 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: CNhs12533This 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: CNhs12533
FANTOM5 (FF) ontology
Direct parent terms
is_a relathionship
{{{is_a}}}
part_of relathionship
{{{part_of}}}
has_quality relathionship
{{{has_quality}}}
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)
0000006 (neuronal receptor cell)
0000031 (neuroblast)
0000034 (stem cell)
0000047 (neuronal stem cell)
0000048 (multi fate stem cell)
0000055 (non-terminally differentiated cell)
0000066 (epithelial cell)
0000098 (sensory epithelial cell)
0000133 (neurectodermal cell)
0000197 (receptor cell)
0000199 (mechanoreceptor cell)
0000202 (auditory hair cell)
0000211 (electrically active cell)
0000221 (ectodermal cell)
0000255 (eukaryotic cell)
0000393 (electrically responsive cell)
0000404 (electrically signaling cell)
0000540 (neuron)
0000548 (animal cell)
0000589 (cochlear inner hair cell)
0000723 (somatic stem cell)
0000855 (sensory hair cell)
0002319 (neural cell)
0002321 (embryonic cell)
0002371 (somatic cell)
0002374 (ear hair cell)
0002491 (auditory epithelial cell)
UBERON: Anatomy
0000020 (sense organ)
0000033 (head)
0000058 (duct)
0000061 (anatomical structure)
0000062 (organ)
0000064 (organ part)
0000073 (regional part of nervous system)
0000075 (subdivision of skeletal system)
0000153 (anterior region of body)
0000465 (material anatomical entity)
0000467 (anatomical system)
0000468 (multi-cellular organism)
0000475 (organism subdivision)
0000477 (anatomical cluster)
0000479 (tissue)
0000480 (anatomical group)
0000481 (multi-tissue structure)
0000922 (embryo)
0000923 (germ layer)
0000924 (ectoderm)
0000926 (mesoderm)
0001016 (nervous system)
0001017 (central nervous system)
0001032 (sensory system)
0001062 (anatomical entity)
0001434 (skeletal system)
0001474 (bone element)
0001678 (temporal bone)
0001690 (ear)
0001694 (petrous part of temporal bone)
0001703 (neurocranium)
0001839 (bony labyrinth)
0001844 (cochlea)
0001846 (internal ear)
0001849 (membranous labyrinth)
0001855 (cochlear duct of membranous labyrinth)
0002050 (embryonic structure)
0002105 (vestibulo-auditory system)
0002204 (musculoskeletal system)
0002227 (spiral organ of cochlea)
0002241 (chondrocranium)
0002329 (somite)
0002342 (neural crest)
0002346 (neurectoderm)
0002499 (cochlear labyrinth)
0002532 (epiblast (generic))
0003059 (presomitic mesoderm)
0003075 (neural plate)
0003077 (paraxial mesoderm)
0003089 (sclerotome)
0003104 (mesenchyme)
0003128 (cranium)
0003129 (skull)
0003457 (head bone)
0004111 (anatomical conduit)
0004120 (mesoderm-derived structure)
0004121 (ectoderm-derived structure)
0004288 (skeleton)
0004456 (entire sense organ system)
0004681 (vestibular system)
0004765 (skeletal element)
0004766 (cranial bone)
0005291 (embryonic tissue)
0005423 (developing anatomical structure)
0005744 (cranial conduit)
0006598 (presumptive structure)
0007284 (presumptive neural plate)
0008001 (irregular bone)
0008193 (pneumatized bone)
0009142 (entire embryonic mesenchyme)
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
