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Coexpression cluster:C879

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Full id: C879_Osteoblast_Adipocyte_Olfactory_leiomyoma_Smooth_tenocyte_Fibroblast



Phase1 CAGE Peaks

Hg19::chr11:119289293..119289305,-p12@THY1
Hg19::chr11:119289671..119289701,-p10@THY1
Hg19::chr11:119289738..119289754,-p9@THY1
Hg19::chr11:119290792..119290808,-p4@BC009328
Hg19::chr11:119290830..119290845,-p6@BC009328
Hg19::chr11:119290894..119290943,-p1@BC009328
Hg19::chr11:119291028..119291044,-p3@BC009328
Hg19::chr11:119291053..119291082,-p2@BC009328
Hg19::chr11:119291603..119291653,-p4@THY1


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:0051281positive regulation of release of sequestered calcium ion into cytosol0.00232123933996064
GO:0046549retinal cone cell development0.00232123933996064
GO:0042670retinal cone cell differentiation0.00232123933996064
GO:0060042retina morphogenesis in camera-type eye0.00232123933996064
GO:0050860negative regulation of T cell receptor signaling pathway0.00232123933996064
GO:0051279regulation of release of sequestered calcium ion into cytosol0.00232123933996064
GO:0050858negative regulation of antigen receptor-mediated signaling pathway0.00232123933996064
GO:0060041retina development in camera-type eye0.00254881182427051
GO:0042462eye photoreceptor cell development0.00254881182427051
GO:0043547positive regulation of GTPase activity0.00254881182427051
GO:0050771negative regulation of axonogenesis0.00254881182427051
GO:0050856regulation of T cell receptor signaling pathway0.00254881182427051
GO:0001754eye photoreceptor cell differentiation0.00254881182427051
GO:0051283negative regulation of sequestering of calcium ion0.00254881182427051
GO:0042461photoreceptor cell development0.00254881182427051
GO:0051282regulation of sequestering of calcium ion0.00254881182427051
GO:0051209release of sequestered calcium ion into cytosol0.00254881182427051
GO:0051208sequestering of calcium ion0.00270811256328741
GO:0046530photoreceptor cell differentiation0.00270811256328741
GO:0050854regulation of antigen receptor-mediated signaling pathway0.00270811256328741
GO:0050768negative regulation of neurogenesis0.00293378861022803
GO:0048593camera-type eye morphogenesis0.00293378861022803
GO:0048041focal adhesion formation0.00293378861022803
GO:0051238sequestering of metal ion0.00293378861022803
GO:0050852T cell receptor signaling pathway0.00367529562160434
GO:0030426growth cone0.00367529562160434
GO:0030336negative regulation of cell migration0.00367529562160434
GO:0030427site of polarized growth0.00367529562160434
GO:0051271negative regulation of cell motility0.00419320654960631
GO:0005100Rho GTPase activator activity0.00419320654960631
GO:0040013negative regulation of locomotion0.00419320654960631
GO:0050770regulation of axonogenesis0.00426732888760441
GO:0048592eye morphogenesis0.00426732888760441
GO:0050851antigen receptor-mediated signaling pathway0.00430111995345648
GO:0002429immune response-activating cell surface receptor signaling pathway0.00464247867992128
GO:0002768immune response-regulating cell surface receptor signaling pathway0.00466397163677276
GO:0002757immune response-activating signal transduction0.00468430281217282
GO:0002764immune response-regulating signal transduction0.00470356392570971
GO:0043010camera-type eye development0.00472183728983446
GO:0050767regulation of neurogenesis0.00514541387024608
GO:0050870positive regulation of T cell activation0.00516430767882716
GO:0051235maintenance of localization0.00516430767882716
GO:0005178integrin binding0.00516430767882716
GO:0045121lipid raft0.00565694624331148
GO:0001654eye development0.00565694624331148
GO:0009897external side of plasma membrane0.00587718045649609
GO:0051251positive regulation of lymphocyte activation0.00587718045649609
GO:0006469negative regulation of protein kinase activity0.00624949053066326
GO:0033673negative regulation of kinase activity0.00624949053066326
GO:0051348negative regulation of transferase activity0.00624949053066326
GO:0050863regulation of T cell activation0.00624949053066326
GO:0030334regulation of cell migration0.00624949053066326
GO:0051270regulation of cell motility0.00681697300413728
GO:0051480cytosolic calcium ion homeostasis0.00681697300413728
GO:0007204elevation of cytosolic calcium ion concentration0.00681697300413728
GO:0002253activation of immune response0.00681697300413728
GO:0040012regulation of locomotion0.00681697300413728
GO:0040011locomotion0.00681697300413728
GO:0051345positive regulation of hydrolase activity0.00683687434010265
GO:0051249regulation of lymphocyte activation0.00683687434010265
GO:0051093negative regulation of developmental process0.00683687434010265
GO:0050865regulation of cell activation0.00698867758267719
GO:0050778positive regulation of immune response0.00713956948503045
GO:0007423sensory organ development0.00713956948503045
GO:0002684positive regulation of immune system process0.00713956948503045
GO:0043086negative regulation of catalytic activity0.00713956948503045
GO:0050776regulation of immune response0.00770477095470503
GO:0042110T cell activation0.00770477095470503
GO:0007160cell-matrix adhesion0.00770477095470503
GO:0002682regulation of immune system process0.00770477095470503
GO:0032403protein complex binding0.00770477095470503
GO:0031589cell-substrate adhesion0.00774821094496121
GO:0051240positive regulation of multicellular organismal process0.00779046079849803
GO:0007409axonogenesis0.00826686993003526
GO:0006874cellular calcium ion homeostasis0.00826686993003526
GO:0055074calcium ion homeostasis0.00826686993003526
GO:0048667neuron morphogenesis during differentiation0.00832249226766375
GO:0048812neurite morphogenesis0.00832249226766375
GO:0006875cellular metal ion homeostasis0.00832249226766375
GO:0055065metal ion homeostasis0.00832249226766375
GO:0000904cellular morphogenesis during differentiation0.00832249226766375
GO:0048503GPI anchor binding0.00832249226766375
GO:0001525angiogenesis0.00841798844973677
GO:0031175neurite development0.0087046475248524
GO:0048514blood vessel morphogenesis0.00932094556666365
GO:0009986cell surface0.00932094556666365
GO:0048646anatomical structure formation0.00943275162493369
GO:0048666neuron development0.00943275162493369
GO:0046649lymphocyte activation0.00943275162493369
GO:0001568blood vessel development0.00977275403273284
GO:0005099Ras GTPase activator activity0.00977275403273284
GO:0001944vasculature development0.00977275403273284
GO:0045321leukocyte activation0.0103714949232284
GO:0030005cellular di-, tri-valent inorganic cation homeostasis0.0103714949232284
GO:0055066di-, tri-valent inorganic cation homeostasis0.0104333599806652
GO:0030003cellular cation homeostasis0.0110490992582126
GO:0055080cation homeostasis0.0110490992582126
GO:0032990cell part morphogenesis0.0110490992582126
GO:0048858cell projection morphogenesis0.0110490992582126
GO:0030030cell projection organization and biogenesis0.0110490992582126
GO:0001775cell activation0.0110953738029834
GO:0030182neuron differentiation0.0110953738029834
GO:0043087regulation of GTPase activity0.0110953738029834
GO:0016477cell migration0.0118856051388725
GO:0050793regulation of developmental process0.0118856051388725
GO:0045859regulation of protein kinase activity0.0118856051388725
GO:0055082cellular chemical homeostasis0.0118856051388725
GO:0006873cellular ion homeostasis0.0118856051388725
GO:0048699generation of neurons0.0119156952784646
GO:0043549regulation of kinase activity0.0119156952784646
GO:0051338regulation of transferase activity0.012052320777153
GO:0035091phosphoinositide binding0.0121381473818775
GO:0043085positive regulation of catalytic activity0.0122703861274615
GO:0022008neurogenesis0.0124478156417772
GO:0050801ion homeostasis0.0125750618156129
GO:0051239regulation of multicellular organismal process0.0129335720694933
GO:0048878chemical homeostasis0.013980341779706
GO:0051336regulation of hydrolase activity0.014091365371682
GO:0005543phospholipid binding0.0152018419518991
GO:0016337cell-cell adhesion0.0155772425127937
GO:0005096GTPase activator activity0.0155772425127937
GO:0009887organ morphogenesis0.0160710942280335
GO:0019725cellular homeostasis0.0165128814834598
GO:0006928cell motility0.0165953137878253
GO:0051674localization of cell0.0165953137878253
GO:0008047enzyme activator activity0.0195585907348535
GO:0005083small GTPase regulator activity0.0199983696981224
GO:0000902cell morphogenesis0.0199983696981224
GO:0032989cellular structure morphogenesis0.0199983696981224
GO:0042592homeostatic process0.0199983696981224
GO:0005829cytosol0.0234840906251489
GO:0008289lipid binding0.0237575329415669
GO:0050790regulation of catalytic activity0.0246377158013366
GO:0065009regulation of a molecular function0.027121545223371
GO:0007010cytoskeleton organization and biogenesis0.0275224476802247
GO:0030695GTPase regulator activity0.0278776293279587
GO:0007399nervous system development0.0283066948220991
GO:0005783endoplasmic reticulum0.0355586953962086
GO:0065008regulation of biological quality0.0368764263937009
GO:0022610biological adhesion0.0368764263937009
GO:0007155cell adhesion0.0368764263937009
GO:0005102receptor binding0.0395537003961838
GO:0009653anatomical structure morphogenesis0.0396558580945723
GO:0048518positive regulation of biological process0.0399446603084893
GO:0048523negative regulation of cellular process0.042328170338506
GO:0048513organ development0.042328170338506
GO:0048519negative regulation of biological process0.0435127815911991
GO:0006955immune response0.0435127815911991
GO:0048468cell development0.0451473262228586
GO:0005887integral to plasma membrane0.0480238627889635
GO:0031226intrinsic to plasma membrane0.04827972861172
GO:0002376immune system process0.049387421219952



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
fibroblast2.33e-2176
preadipocyte5.78e-0912
skin fibroblast6.80e-0923
mesenchymal stem cell of adipose7.40e-078
Uber Anatomy
Ontology termp-valuen
neural tube4.12e-1456
neural rod4.12e-1456
future spinal cord4.12e-1456
neural keel4.12e-1456
regional part of nervous system6.18e-1453
regional part of brain6.18e-1453
cerebral hemisphere7.16e-1432
brain grey matter3.36e-1334
gray matter3.36e-1334
telencephalon3.73e-1334
regional part of telencephalon9.19e-1332
regional part of forebrain1.12e-1241
forebrain1.12e-1241
anterior neural tube1.12e-1241
future forebrain1.12e-1241
central nervous system4.95e-1281
brain2.31e-1168
future brain2.31e-1168
cerebral cortex2.37e-1125
pallium2.37e-1125
structure with developmental contribution from neural crest2.94e-11132
regional part of cerebral cortex1.74e-1022
nervous system1.11e-0989
adipose tissue1.32e-0914
integument1.41e-0946
integumental system1.41e-0946
neural plate1.71e-0982
presumptive neural plate1.71e-0982
neocortex1.77e-0920
neurectoderm6.38e-0986
surface structure8.66e-0999
dense mesenchyme tissue3.75e-0873
paraxial mesoderm1.06e-0772
presumptive paraxial mesoderm1.06e-0772
pre-chordal neural plate1.23e-0761
ecto-epithelium1.84e-07104
somite2.18e-0771
presomitic mesoderm2.18e-0771
presumptive segmental plate2.18e-0771
dermomyotome2.18e-0771
trunk paraxial mesoderm2.18e-0771
skin of body7.50e-0741
ectoderm-derived structure7.62e-07171
ectoderm7.62e-07171
presumptive ectoderm7.62e-07171


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)
MA0003.10.169975
MA0004.13.82528
MA0006.10.265592
MA0007.10.397529
MA0009.10.870971
MA0014.10.0324647
MA0017.10.301634
MA0019.10.558663
MA0024.10.766783
MA0025.11.00397
MA0027.12.48103
MA0028.10.280275
MA0029.10.785955
MA0030.10.774581
MA0031.10.710608
MA0038.10.514558
MA0040.10.791764
MA0041.10.433167
MA0042.10.402577
MA0043.10.871285
MA0046.10.860127
MA0048.10.0764047
MA0050.10.403421
MA0051.10.510444
MA0052.10.795605
MA0055.10.0199484
MA0056.10
MA0057.10.539841
MA0058.13.27605
MA0059.15.28745
MA0060.10.162248
MA0061.10.432181
MA0063.10
MA0066.10.514973
MA0067.11.18766
MA0068.10.354973
MA0069.10.856287
MA0070.10.845142
MA0071.11.20007
MA0072.10.840664
MA0073.10.0776172
MA0074.10.509711
MA0076.10.339975
MA0077.10.832987
MA0078.10.607575
MA0081.10.324031
MA0083.10.878452
MA0084.11.37471
MA0087.10.838229
MA0088.11.01254
MA0089.10
MA0090.10.353576
MA0091.10.417885
MA0092.10.381858
MA0093.12.08959
MA0095.10
MA0098.10
MA0100.10.528088
MA0101.10.271368
MA0103.10.714036
MA0105.10.229733
MA0106.11.366
MA0107.10.205358
MA0108.20.707575
MA0109.10
MA0111.10.959847
MA0113.10.57094
MA0114.10.582067
MA0115.11.11137
MA0116.10.599942
MA0117.10.908433
MA0119.10.308914
MA0122.10.934245
MA0124.11.06995
MA0125.10.986127
MA0130.10
MA0131.10.625452
MA0132.10
MA0133.10
MA0135.10.90122
MA0136.10.521435
MA0139.10.129876
MA0140.10.474342
MA0141.10.861836
MA0142.10.679161
MA0143.10.571113
MA0144.10.1885
MA0145.10.177438
MA0146.10.0794051
MA0147.11.7891
MA0148.11.11902
MA0149.11.17441
MA0062.20.135498
MA0035.20.473658
MA0039.20.109483
MA0138.20.608783
MA0002.20.152495
MA0137.20.28622
MA0104.21.50683
MA0047.20.542971
MA0112.23.76262
MA0065.20.0483532
MA0150.10.34802
MA0151.10
MA0152.10.480711
MA0153.10.969315
MA0154.10.488402
MA0155.10.0402662
MA0156.10.288314
MA0157.10.652111
MA0158.10
MA0159.10.212043
MA0160.10.453945
MA0161.10
MA0162.10.14518
MA0163.10.00648562
MA0164.10.583138
MA0080.20.268439
MA0018.20.556211
MA0099.20.481058
MA0079.20.0127399
MA0102.21.41188
MA0258.12.29832
MA0259.11.82941
MA0442.10



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

(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
ESR1#2099517.09366849786364.08817970262758e-060.000129895162751056



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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