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Coexpression cluster:C545

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Full id: C545_Astrocyte_Neural_Neurons_parietal_neuroectodermal_occipital_temporal



Phase1 CAGE Peaks

Hg19::chr17:42988599..42988605,-p46@GFAP
Hg19::chr18:56248019..56248037,-p@chr18:56248019..56248037
-
Hg19::chr18:56248051..56248065,-p@chr18:56248051..56248065
-
Hg19::chr1:39874999..39875038,+p5@KIAA0754
Hg19::chr20:35856764..35856768,+p25@RPN2
Hg19::chr2:104096987..104096993,-p@chr2:104096987..104096993
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Hg19::chr2:104490710..104490719,+p2@ENST00000537492
Hg19::chr2:104490735..104490784,+p1@ENST00000537492
Hg19::chr2:104490799..104490827,+p1@ENST00000544869
Hg19::chr2:104517092..104517093,+p@chr2:104517092..104517093
+
Hg19::chr2:104580974..104580979,+p@chr2:104580974..104580979
+
Hg19::chr5:71479431..71479458,+p@chr5:71479431..71479458
+
Hg19::chr5:71479469..71479482,+p@chr5:71479469..71479482
+
Hg19::chr6:123100819..123100828,+p3@FABP7
Hg19::chr6:123100853..123100874,+p1@FABP7
Hg19::chr7:42192043..42192057,-p10@GLI3
Hg19::chr7:42192092..42192108,-p13@GLI3


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:0021545cranial nerve development0.00435633654227826
GO:0021776smoothened signaling pathway involved in spinal cord motor neuron cell fate specification0.00435633654227826
GO:0021602cranial nerve morphogenesis0.00435633654227826
GO:0021520spinal cord motor neuron cell fate specification0.00435633654227826
GO:0021554optic nerve development0.00435633654227826
GO:0021631optic nerve morphogenesis0.00435633654227826
GO:0021521ventral spinal cord interneuron specification0.00435633654227826
GO:0021910smoothened signaling pathway in ventral spinal cord patterning0.00435633654227826
GO:0048558embryonic gut morphogenesis0.00435633654227826
GO:0021514ventral spinal cord interneuron differentiation0.00435633654227826
GO:0048557embryonic digestive tract morphogenesis0.00435633654227826
GO:0021775smoothened signaling pathway involved in ventral spinal cord interneuron specification0.00435633654227826
GO:0008285negative regulation of cell proliferation0.00443560970264724
GO:0021522spinal cord motor neuron differentiation0.00497823067105098
GO:0007439ectodermal gut development0.00497823067105098
GO:0021675nerve development0.00497823067105098
GO:0007442hindgut morphogenesis0.00497823067105098
GO:0048567ectodermal gut morphogenesis0.00497823067105098
GO:0021513spinal cord dorsal/ventral patterning0.00497823067105098
GO:0021517ventral spinal cord development0.00497823067105098
GO:0048665neuron fate specification0.00497823067105098
GO:0048547gut morphogenesis0.00544469936992546
GO:0021511spinal cord patterning0.00544469936992546
GO:0048546digestive tract morphogenesis0.00544469936992546
GO:0009954proximal/distal pattern formation0.00603078530159217
GO:0021515cell differentiation in spinal cord0.00603078530159217
GO:0048566embryonic gut development0.00677502752287089
GO:0042127regulation of cell proliferation0.00816524606819734
GO:0017053transcriptional repressor complex0.00816524606819734
GO:0001658ureteric bud branching0.00816524606819734
GO:0048562embryonic organ morphogenesis0.00816524606819734
GO:0021510spinal cord development0.00816524606819734
GO:0048565gut development0.0087092112142118
GO:0048593camera-type eye morphogenesis0.00988482206017364
GO:0007224smoothened signaling pathway0.00988482206017364
GO:0048663neuron fate commitment0.00988482206017364
GO:0030879mammary gland development0.00988482206017364
GO:0001708cell fate specification0.0101938987098659
GO:0008250oligosaccharyl transferase complex0.0101938987098659
GO:0018279protein amino acid N-linked glycosylation via asparagine0.0101938987098659
GO:0018196peptidyl-asparagine modification0.0101938987098659
GO:0004579dolichyl-diphosphooligosaccharide-protein glycotransferase activity0.0105726691186438
GO:0004576oligosaccharyl transferase activity0.0107880368760508
GO:0001657ureteric bud development0.0107880368760508
GO:0042475odontogenesis of dentine-containing teeth0.0107880368760508
GO:0021915neural tube development0.0107880368760508
GO:0005737cytoplasm0.0108821882084746
GO:0048568embryonic organ development0.0108821882084746
GO:0007399nervous system development0.0114905758440886
GO:0000060protein import into nucleus, translocation0.0114905758440886
GO:0008283cell proliferation0.012051987083627
GO:0001656metanephros development0.012051987083627
GO:0042476odontogenesis0.012316738462079
GO:0048592eye morphogenesis0.0125716415467752
GO:0048754branching morphogenesis of a tube0.0130540131932628
GO:0009953dorsal/ventral pattern formation0.0130540131932628
GO:0001763morphogenesis of a branching structure0.0145995702918233
GO:0030326embryonic limb morphogenesis0.0145995702918233
GO:0035113embryonic appendage morphogenesis0.0145995702918233
GO:0043010camera-type eye development0.0146305015267709
GO:0001822kidney development0.0146305015267709
GO:0060173limb development0.0146305015267709
GO:0035107appendage morphogenesis0.0146305015267709
GO:0035108limb morphogenesis0.0146305015267709
GO:0048589developmental growth0.0146305015267709
GO:0048736appendage development0.0146305015267709
GO:0001655urogenital system development0.0155786231932965
GO:0030324lung development0.0161155785367846
GO:0030323respiratory tube development0.0162594446306115
GO:0030900forebrain development0.0169016180438877
GO:0048732gland development0.0169016180438877
GO:0001654eye development0.0170284445874101
GO:0006487protein amino acid N-linked glycosylation0.0188208178361548
GO:0048523negative regulation of cellular process0.0188208178361548
GO:0009952anterior/posterior pattern formation0.0188208178361548
GO:0044446intracellular organelle part0.0188208178361548
GO:0044422organelle part0.0188208178361548
GO:0048519negative regulation of biological process0.0197118215554276
GO:0045596negative regulation of cell differentiation0.0214462127169151
GO:0045165cell fate commitment0.0231269098369947
GO:0051093negative regulation of developmental process0.0247650865459521
GO:0035239tube morphogenesis0.0266527868964115
GO:0005200structural constituent of cytoskeleton0.0266527868964115
GO:0007423sensory organ development0.0266527868964115
GO:0003002regionalization0.0266527868964115
GO:0048598embryonic morphogenesis0.0277650433714627
GO:0007507heart development0.0277650433714627
GO:0009792embryonic development ending in birth or egg hatching0.0277650433714627
GO:0043009chordate embryonic development0.0277650433714627
GO:0006606protein import into nucleus0.0277650433714627
GO:0051170nuclear import0.0280295383176914
GO:0048731system development0.0303011573863702
GO:0035295tube development0.0326438729366966
GO:0003682chromatin binding0.0326438729366966
GO:0018193peptidyl-amino acid modification0.0330414707869852
GO:0017038protein import0.0330414707869852
GO:0007389pattern specification process0.0332339795160174
GO:0007420brain development0.0368496431624614
GO:0045595regulation of cell differentiation0.0377812141129488
GO:0048646anatomical structure formation0.0395873156007333
GO:0006913nucleocytoplasmic transport0.0395873156007333
GO:0051169nuclear transport0.0397047760353869
GO:0048856anatomical structure development0.0415630502381958
GO:0006486protein amino acid glycosylation0.0433999046355241
GO:0043413biopolymer glycosylation0.0437219229245242
GO:0044424intracellular part0.0441069401277718
GO:0009101glycoprotein biosynthetic process0.0441069401277718
GO:0006631fatty acid metabolic process0.0458412218466548
GO:0009100glycoprotein metabolic process0.0494261849602594
GO:0030182neuron differentiation0.0494434162419841



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>

Uber Anatomy
Ontology termp-valuen
central nervous system6.90e-2381
nervous system1.88e-2089
neural plate2.17e-1682
presumptive neural plate2.17e-1682
neurectoderm1.48e-1586
ectoderm-derived structure4.03e-15171
ectoderm4.03e-15171
presumptive ectoderm4.03e-15171
ciliary epithelium1.15e-143
ciliary body1.15e-143
regional part of nervous system1.20e-1453
regional part of brain1.20e-1453
cerebral cortex1.95e-1425
pallium1.95e-1425
neural tube8.14e-1456
neural rod8.14e-1456
future spinal cord8.14e-1456
neural keel8.14e-1456
pre-chordal neural plate1.27e-1261
ecto-epithelium1.37e-12104
regional part of telencephalon2.72e-1132
cerebral hemisphere2.72e-1132
atypical epithelium3.07e-114
brain4.91e-1168
future brain4.91e-1168
brain grey matter1.27e-1034
gray matter1.27e-1034
telencephalon1.27e-1034
structure with developmental contribution from neural crest1.46e-09132
pigment epithelium of eye5.36e-0911
regional part of forebrain8.81e-0941
forebrain8.81e-0941
anterior neural tube8.81e-0941
future forebrain8.81e-0941
segmental subdivision of hindbrain2.87e-0812
hindbrain2.87e-0812
presumptive hindbrain2.87e-0812
organ system subdivision2.95e-08223
cerebellum8.13e-086
rhombic lip8.13e-086
vasculature of eye8.71e-086
uvea8.71e-086
vasculature of head8.71e-086
segmental subdivision of nervous system1.14e-0713
anterior segment of eyeball3.55e-0714


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)
MA0003.10.0121715
MA0004.10.221943
MA0006.10.112549
MA0007.10.599001
MA0009.10.621697
MA0014.10.249137
MA0017.10.137108
MA0019.10.901513
MA0024.10.525161
MA0025.10.747404
MA0027.12.20546
MA0028.10.122394
MA0029.10.542771
MA0030.10.532314
MA0031.10.474026
MA0038.10.817744
MA0040.10.548121
MA0041.10.236024
MA0042.10.211928
MA0043.10.621991
MA0046.11.48543
MA0048.10.0140676
MA0050.10.609862
MA0051.10.299199
MA0052.10.551663
MA0055.10.157354
MA0056.10
MA0057.10.0616251
MA0058.10.153757
MA0059.10.15289
MA0060.10.18988
MA0061.10.0397345
MA0063.10
MA0066.10.302992
MA0067.10.924196
MA0068.10.0264141
MA0069.10.607975
MA0070.10.597583
MA0071.10.27142
MA0072.10.593415
MA0073.10.000143211
MA0074.10.298586
MA0076.10.164578
MA0077.10.586275
MA0078.10.995054
MA0081.10.465308
MA0083.15.03485
MA0084.11.10674
MA0087.10.591148
MA0088.10.00460154
MA0089.10
MA0090.10.174619
MA0091.10.223914
MA0092.10.195947
MA0093.10.114388
MA0095.10
MA0098.10
MA0100.10.314026
MA0101.10.372085
MA0103.10.10701
MA0105.10.14145
MA0106.10.33677
MA0107.10.259598
MA0108.20.471286
MA0109.10
MA0111.10.541878
MA0113.10.924932
MA0114.10.25223
MA0115.10.850405
MA0116.10.0765991
MA0117.10.656858
MA0119.10.142224
MA0122.10.681203
MA0124.10.810546
MA0125.11.73305
MA0130.10
MA0131.10.398042
MA0132.10
MA0133.10
MA0135.10.650071
MA0136.10.30842
MA0139.10.140313
MA0140.10.269307
MA0141.10.462123
MA0142.12.94498
MA0143.13.43529
MA0144.10.5008
MA0145.10.0322091
MA0146.10.000760962
MA0147.10.0784275
MA0148.10.240905
MA0149.10.261654
MA0062.20.0377014
MA0035.20.268747
MA0039.21.99256e-06
MA0138.20.997372
MA0002.20.0459391
MA0137.22.53112
MA0104.20.0505812
MA0047.20.87164
MA0112.20.08608
MA0065.20.098884
MA0150.10.508545
MA0151.10
MA0152.13.85913
MA0153.10.714423
MA0154.10.137179
MA0155.10.025611
MA0156.10.12788
MA0157.10.421609
MA0158.10
MA0159.10.0787617
MA0160.10.252705
MA0161.10
MA0162.10.00317087
MA0163.10.000152387
MA0164.10.361105
MA0080.20.366978
MA0018.20.337929
MA0099.20.754549
MA0079.22.92288e-06
MA0102.21.14323
MA0258.10.218609
MA0259.10.28219
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

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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