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Coexpression cluster:C397

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Full id: C397_mesenchymal_Myoblast_rhabdomyosarcoma_Hepatic_Melanocyte_astrocytoma_Skeletal



Phase1 CAGE Peaks

  Short description
Hg19::chr10:124611862..124611895,- p@chr10:124611862..124611895
-
Hg19::chr11:16916978..16916996,- p@chr11:16916978..16916996
-
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
-
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
-
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
-
Hg19::chr4:12642027..12642049,- p2@ENST00000509155
Hg19::chr4:3465027..3465050,+ p1@DOK7
Hg19::chr5:1278894..1278897,- p@chr5:1278894..1278897
-
Hg19::chr6:39787581..39787589,- p@chr6:39787581..39787589
-
Hg19::chr7:98258032..98258045,+ p@chr7:98258032..98258045
+
Hg19::chr7:98258764..98258767,+ +
p@chr7:98258764..98258767


Enriched pathways on this co-expression clusterSummary:
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.
Analyst: Emmanuel Dimont

link to source dataset
data


No results for this coexpression

Enriched Gene Ontology terms on this co-expression clusterSummary: 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.
Analyst: Erik Arner

link to source dataset
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 clusterSummary: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. Analyst: Hideya Kawaji

links to source dataset

cell_data
uberon_data



Overrepresented TFBS (DNA) motifs on this co-expression clusterSummary: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. Analyst: Michiel de Hoon

link to source data
Novel motifs
data

Jaspar motifs
data


Novel motifs



JASPAR motifs

Motifs-log10(p-value)
MA0003.10.00551548
MA0004.10.778021
MA0006.10.180714
MA0007.10.112494
MA0009.10.46676
MA0014.10.101213
MA0017.10.0632603
MA0019.11.16376
MA0024.10.378349
MA0025.10.584598
MA0027.12.02165
MA0028.10.0539336
MA0029.10.394311
MA0030.10.384823
MA0031.10.33249
MA0038.10.186009
MA0040.10.399176
MA0041.10.133492
MA0042.10.74466
MA0043.10.467032
MA0046.10.457379
MA0048.10.217815
MA0050.10.115873
MA0051.10.183217
MA0052.10.402401
MA0055.10.537703
MA0056.10
MA0057.10.0126772
MA0058.11.39582
MA0059.10.927345
MA0060.10.0152409
MA0061.10.0105788
MA0063.10
MA0066.11.04408
MA0067.10.753856
MA0068.10.830893
MA0069.10.454067
MA0070.10.44448
MA0071.10.48514
MA0072.11.12196
MA0073.10.00977799
MA0074.10.538325
MA0076.10.0815705
MA0077.10.434073
MA0078.10.252504
MA0081.10.256536
MA0083.10.473254
MA0084.10.931415
MA0087.10.438554
MA0088.10.0842883
MA0089.10
MA0090.11.03717
MA0091.11.27849
MA0092.11.14278
MA0093.11.57294
MA0095.10
MA0098.10
MA0100.10.568627
MA0101.10.0502397
MA0103.10.386056
MA0105.10.0340105
MA0106.10.214057
MA0107.10.0266946
MA0108.20.330055
MA0109.10
MA0111.10.0952636
MA0113.11.19765
MA0114.10.107626
MA0115.10.682809
MA0116.10.82319
MA0117.10.499451
MA0119.10.872474
MA0122.11.29679
MA0124.10.644657
MA0125.11.39486
MA0130.10
MA0131.10.26595
MA0132.10
MA0133.10
MA0135.10.493123
MA0136.10.190708
MA0139.10.451865
MA0140.10.15932
MA0141.11.3818
MA0142.10.307468
MA0143.10.225712
MA0144.11.4648
MA0145.10.191385
MA0146.10.0220243
MA0147.10.284471
MA0148.10.137223
MA0149.10.153304
MA0062.20.0491752
MA0035.21.4907
MA0039.20.029627
MA0138.20.253407
MA0002.20.166167
MA0137.20.453998
MA0104.20.599481
MA0047.20.205658
MA0112.20.824712
MA0065.20.324559
MA0150.11.01654
MA0151.10
MA0152.10.163454
MA0153.10.553438
MA0154.10.443033
MA0155.10.259024
MA0156.10.0573678
MA0157.10.286356
MA0158.10
MA0159.10.528033
MA0160.10.879768
MA0161.10
MA0162.10.0772066
MA0163.10.173916
MA0164.10.661297
MA0080.20.184213
MA0018.20.215022
MA0099.20.491785
MA0079.20.000751534
MA0102.20.967149
MA0258.11.01611
MA0259.10.300465
MA0442.10



ENCODE TF ChIP-seq peak enrichment analysisSummary: 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.
Analyst: Erik Arner

link to source dataset

data


No analysis results for this cluster

Relative expression of the co-expression clusterSummary:Co-expression clusters are compared against FANTOM5 samples to obtain relative expression.
Analyst:NA

link to data source
data


This analysis result is provided for C0 - C305 clusters.