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Coexpression cluster:C397

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Full id: C397_mesenchymal_Myoblast_rhabdomyosarcoma_Hepatic_Melanocyte_astrocytoma_Skeletal



Phase1 CAGE Peaks

Hg19::chr10:124611862..124611895,-p@chr10:124611862..124611895
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Hg19::chr11:16916978..16916996,-p@chr11:16916978..16916996
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Hg19::chr11:19619705..19619737,+p@chr11:19619705..19619737
+
Hg19::chr11:47470490..47470498,-p1@AB527888
Hg19::chr11:47470591..47470604,-p4@RAPSN
Hg19::chr12:47414211..47414229,-p@chr12:47414211..47414229
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Hg19::chr12:81110684..81110700,+p1@MYF5
Hg19::chr12:81112790..81112800,+p@chr12:81112790..81112800
+
Hg19::chr12:81112806..81112813,+p@chr12:81112806..81112813
+
Hg19::chr12:81112863..81112872,+p@chr12:81112863..81112872
+
Hg19::chr13:66999851..66999857,-p@chr13:66999851..66999857
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Hg19::chr17:47572647..47572662,+p1@NGFR
Hg19::chr17:47587813..47587828,+p@chr17:47587813..47587828
+
Hg19::chr17:47589320..47589331,+p@chr17:47589320..47589331
+
Hg19::chr17:55365619..55365632,+p@chr17:55365619..55365632
+
Hg19::chr17:55365700..55365722,+p@chr17:55365700..55365722
+
Hg19::chr18:37550533..37550548,+p@chr18:37550533..37550548
+
Hg19::chr2:45419385..45419401,-p1@ENST00000427020
Hg19::chr2:47452905..47452914,+p1@ENST00000444361
Hg19::chr4:109810994..109811004,-p@chr4:109810994..109811004
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Hg19::chr4:12642027..12642049,-p2@ENST00000509155
Hg19::chr4:3465027..3465050,+p1@DOK7
Hg19::chr5:1278894..1278897,-p@chr5:1278894..1278897
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Hg19::chr6:39787581..39787589,-p@chr6:39787581..39787589
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Hg19::chr7:98258032..98258045,+p@chr7:98258032..98258045
+
Hg19::chr7:98258764..98258767,+p@chr7:98258764..98258767
+


Enriched pathways on this co-expression cluster<b>Summary:</b><br>Canonical pathway gene sets were compiled from Reactome, Wikipathways and KEGG. For the major signaling pathways, the transcriptionally-regulated genes (downstream targets) were obtained from Netpath. Combined, the canonical pathways and downstream targets totaled 489 human gene sets. The corresponding M. musculus gene sets were inferred by homology using the HomoloGene database. Enrichment for each of the canonical 489 pathways and gene sets included in the co-expression cluster was assessed by the hypergeometric probability. The resulting P values were also then adjusted by the Benjamini-Hochberg method for multiple comparisons.<br><b>Analyst: </b>Emmanuel Dimont<br><br>link to source dataset<br>data

No results for this coexpression

Enriched Gene Ontology terms on this co-expression cluster<b>Summary:</b> Results for GOStat analysis on co-expressed clusters. Each cluster with promoters mapping to at least two different genes was analysed with GOStat (PMID: 14962934) with default parameter. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br>data

GO IDGO nameFDR corrected p-value
GO:0042488positive regulation of odontogenesis of dentine-containing teeth0.0049452490286118
GO:0048635negative regulation of muscle development0.0049452490286118
GO:0005030neurotrophin receptor activity0.0049452490286118
GO:0042482positive regulation of odontogenesis0.0049452490286118
GO:0007517muscle development0.00510368093955047
GO:0042481regulation of odontogenesis0.00565146362241504
GO:0048406nerve growth factor binding0.00565146362241504
GO:0042487regulation of odontogenesis of dentine-containing teeth0.00659308309224691
GO:0048634regulation of muscle development0.00659308309224691
GO:0021675nerve development0.00719213669429478
GO:0016048detection of temperature stimulus0.00719213669429478
GO:0043121neurotrophin binding0.0082406260734007
GO:0009887organ morphogenesis0.0084756982616971
GO:0043588skin development0.0084756982616971
GO:0030054cell junction0.010513208766455
GO:0048704embryonic skeletal morphogenesis0.0109850757914487
GO:0044459plasma membrane part0.0109850757914487
GO:0005035death receptor activity0.0109850757914487
GO:0048706embryonic skeletal development0.01285083614425
GO:0001952regulation of cell-matrix adhesion0.01285083614425
GO:0048705skeletal morphogenesis0.01412055080712
GO:0001756somitogenesis0.016172306480016
GO:0042475odontogenesis of dentine-containing teeth0.016327839596185
GO:0005158insulin receptor binding0.0189383805889956
GO:0042476odontogenesis0.0197582979184786
GO:0035282segmentation0.0197582979184786
GO:0003705RNA polymerase II transcription factor activity, enhancer binding0.0197582979184786
GO:0009266response to temperature stimulus0.0204621440366349
GO:0005886plasma membrane0.0278112583159776
GO:0032501multicellular organismal process0.0278112583159776
GO:0009582detection of abiotic stimulus0.0278112583159776
GO:0030198extracellular matrix organization and biogenesis0.0278112583159776
GO:0009653anatomical structure morphogenesis0.0278112583159776
GO:0009581detection of external stimulus0.0290268206664025
GO:0009952anterior/posterior pattern formation0.0298661743075181
GO:0048513organ development0.0298661743075181
GO:0007411axon guidance0.0298661743075181
GO:0030155regulation of cell adhesion0.0338838289822843
GO:0007519skeletal muscle development0.0338838289822843
GO:0051093negative regulation of developmental process0.0379508218150131
GO:0051606detection of stimulus0.0384626346065112
GO:0043062extracellular structure organization and biogenesis0.0389706572423428
GO:0003002regionalization0.0389706572423428
GO:0014706striated muscle development0.0389706572423428
GO:0019838growth factor binding0.0389706572423428
GO:0048598embryonic morphogenesis0.0389876890311985
GO:0009792embryonic development ending in birth or egg hatching0.0389876890311985
GO:0043009chordate embryonic development0.0389876890311985
GO:0007160cell-matrix adhesion0.0397702834627644
GO:0032403protein complex binding0.0397702834627644
GO:0031589cell-substrate adhesion0.0397702834627644
GO:0048731system development0.0405695329663668
GO:0007409axonogenesis0.0423359748223512
GO:0048667neuron morphogenesis during differentiation0.0429322859394706
GO:0048812neurite morphogenesis0.0429322859394706
GO:0007389pattern specification process0.0434856550912361
GO:0000904cellular morphogenesis during differentiation0.0434856550912361
GO:0031175neurite development0.0436226376512858
GO:0008544epidermis development0.0436226376512858
GO:0048869cellular developmental process0.0436226376512858
GO:0030154cell differentiation0.0436226376512858
GO:0007398ectoderm development0.0462836611723014
GO:0045211postsynaptic membrane0.0464787764579897
GO:0048666neuron development0.0472774191380379
GO:0044456synapse part0.0483627566764478
GO:0048856anatomical structure development0.0483627566764478
GO:0009628response to abiotic stimulus0.0483627566764478



Enriched sample ontology terms on this co-expression cluster<b>Summary:</b>To summarize promoter activities (expression profile of a TSS region) across ~1000 samples, we performed enrichment analysis based on FANTOM5 Sample Ontology (FF ontology). The question here is “in which type of samples the promoter is more active”. To answer this question, we compared expressions (TPMs) in the samples associated with a sample ontology term and the rest of the samples by using the Mann-Whitney rank sum test. To summarize ontologies enriched in this co-expression cluster, we ran the same analysis on an averaged expression profile of all promoters that make up. <b>Analyst:</b> Hideya Kawaji <br><br>links to source dataset<br><br>cell_data<br>uberon_data<br><br>

Cell Type
Ontology termp-valuen
cell of skeletal muscle3.42e-079
Uber Anatomy
Ontology termp-valuen
adult organism1.20e-21115
multi-cellular organism1.73e-16659
ectoderm2.37e-16173
presumptive ectoderm2.37e-16173
organism subdivision9.32e-16365
regional part of nervous system1.97e-1594
nervous system1.97e-1594
ectoderm-derived structure5.06e-15169
central nervous system1.32e-1482
neurectoderm6.87e-1490
anterior region of body5.56e-13129
craniocervical region5.56e-13129
head9.91e-13123
neural tube1.61e-1257
neural rod1.61e-1257
future spinal cord1.61e-1257
neural keel1.61e-1257
neural plate1.85e-1286
presumptive neural plate1.85e-1286
embryo5.13e-12612
regional part of brain5.46e-1259
brain5.47e-1269
future brain5.47e-1269
multi-tissue structure3.13e-11347
anatomical system4.51e-11625
anatomical group7.15e-11626
embryonic structure5.12e-10605
developing anatomical structure5.12e-10605
germ layer9.25e-10604
embryonic tissue9.25e-10604
presumptive structure9.25e-10604
epiblast (generic)9.25e-10604
organ5.89e-09511
cell layer1.61e-08312
epithelium2.37e-08309
posterior neural tube8.21e-0815
chordal neural plate8.21e-0815
anterior neural tube5.39e-0742
regional part of forebrain9.20e-0741
forebrain9.20e-0741
future forebrain9.20e-0741


Overrepresented TFBS (DNA) motifs on this co-expression cluster<b>Summary:</b>The values shown are the p-values for overrepresentation of the motif in this coexpression cluster. So a small p-value means a strong overrepresentation. <b>Analyst:</b> Michiel de Hoon <br><br>link to source data <br> Novel motifs <br>data <br><br> Jaspar motifs <br>data

Novel motifs



JASPAR motifs

Motifs-log10(p-value)

{{{tfbs_overrepresentation_jaspar}}}



ENCODE TF ChIP-seq peak enrichment analysis<b>Summary:</b> For each TF and each co-expression cluster, the number of promoters with ENCODE TF ChIP signal was compared with the rest of promoters from the robust set using Fisher's exact test. Clusters with significant ChIP enrichment (q <= 0.05) after Benjamini-Hochberg correction were retained. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br><br>data

No analysis results for this cluster

Relative expression of the co-expression cluster<b>Summary:</b>Co-expression clusters are compared against FANTOM5 samples to obtain relative expression. <br><b>Analyst:</b>NA<br><br>link to data source<br> data

This analysis result is provided for C0 - C305 clusters.

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