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FF:12218-129E4

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Name:Inner ear stem cells, differentiation, day10, pool1
Species:Mouse (Mus musculus)
Library ID:{{{library_id}}}
Sample type:{{{sample_category}}}
Genomic View: UCSC
CAGEd-oPOSSUM:link
Additional information
Sample information
strainNA
tissueorgan of corti
dev stageNA
sexNA
ageNA
cell typehair cell, organ of corti, inner
cell lineNA
companyNA
collaborationAlbert Edge (Department of Otolaryngology, Harvard Medical School)
External link for information[{{{sample_info_link}}} {{{sample_info_link}}}]
RNA information
lot numberNA
catalog numberNA
sample typeNA
extraction protocol (Details)NA
Download raw sequence, BAM & CTSS
Mm9
BAMCTSS
[{{{mm9bam}}} download][{{{mm9ctss}}} donwload]
Mm10
BAMCTSS
[{{{mm10bam}}} download][{{{mm10ctss}}} donwload]





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.
Analyst:NA

link to dataset.
data

CNhs12190



Repeat families with enriched expression in this sampleSummary:Ranked list of repeat family expression in this sample relative to the median expression in the FANTOM5 collection is shown. Value is log10 transformed.
Analyst:NA

link to dataset.
data
no result for this sample


TFBS(DNA)motifs over-represented in proximal region of promoters active in this sample


JASPAR motifsSummary:Association of JASPAR motif to the promoter expression in this sample. Pearson's correlation between the number of TFBSs estimated by using the position-weight matrix for each promoter and its expression is expressed as Z-score by taking the ones based on random position-weight matrix, and the tail probability of the normal distribution corresponding to the Z-score is taken as the resulting P-value. Lower P-value indicates more (non-random) association of the motif to promoter expression
Analyst: Michiel de Hoon


link to dataset.
data

library id: CNhs12190This sample isn't target for the analysis

FANTOM5 phase1 novel unique motifsSummary: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 in 169 novel and unique motifs. Their association to the promoter expression is evaluated in the same way to the JASPAR motif above
Analyst: Michiel de Hoon


link to dataset.
data

library id: CNhs12190This sample isn't target for the analysis

de novo motifs identified by HOMER in promoters active in this sampleSummary:The result of HOMER in this sample is shown.
Analyst:NA
library id: CNhs12190


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)Summary:Connected ontology terms with is_a, part_of or located_in relationship
Analyst: Hideya Kawaji

link to source data
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)Summary:Connected ontology terms with develops_from, derives_from or preceded_by relationship
Analyst: Hideya Kawaji

link to source data
data

NA