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Coexpression cluster:C361

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Full id: C361_Neural_Astrocyte_Neurons_spinal_Chondrocyte_Fibroblast_sacrococcigeal



Phase1 CAGE Peaks

  Short description
Hg19::chr11:33912780..33912786,- p@chr11:33912780..33912786
-
Hg19::chr12:106976837..106976850,+ p5@RFX4
Hg19::chr12:56075553..56075558,+ p5@METTL7B
Hg19::chr14:29236460..29236467,+ p12@FOXG1
Hg19::chr14:51562037..51562053,- p2@TRIM9
Hg19::chr17:61228693..61228707,+ p@chr17:61228693..61228707
+
Hg19::chr19:19356203..19356221,+ p@chr19:19356203..19356221
+
Hg19::chr1:205306210..205306228,- p@chr1:205306210..205306228
-
Hg19::chr1:205325850..205325870,- p2@KLHDC8A
Hg19::chr1:23696308..23696339,- p2@ZNF436
Hg19::chr1:23696348..23696363,- p4@ZNF436
Hg19::chr20:20472232..20472244,- p@chr20:20472232..20472244
-
Hg19::chr21:34186006..34186019,- p2@C21orf62
Hg19::chr2:210288885..210288888,+ p33@MAP2
Hg19::chr3:62228762..62228795,+ p6@PTPRG
Hg19::chr3:62228807..62228819,+ p10@PTPRG
Hg19::chr3:78719376..78719409,- p8@ROBO1
Hg19::chr3:78719410..78719451,- p5@ROBO1
Hg19::chr3:78719667..78719679,- p17@ROBO1
Hg19::chr4:48545900..48545919,- p@chr4:48545900..48545919
-
Hg19::chr4:48545952..48545965,- p@chr4:48545952..48545965
-
Hg19::chr5:140857085..140857104,+ p@chr5:140857085..140857104
+
Hg19::chr5:63510296..63510308,+ p@chr5:63510296..63510308
+
Hg19::chr7:121513374..121513415,+ p5@PTPRZ1
Hg19::chr7:121513478..121513517,+ p4@PTPRZ1
Hg19::chr7:121513532..121513545,+ p6@PTPRZ1
Hg19::chr7:137028222..137028235,- p7@PTN
Hg19::chr7:137028246..137028346,- p1@PTN
Hg19::chr7:137028364..137028380,- p4@PTN
Hg19::chr7:137028392..137028410,- p5@PTN
Hg19::chr9:126774091..126774098,+ p4@LHX2


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:0007399nervous system development0.000557336611267514
GO:0019198transmembrane receptor protein phosphatase activity0.00126058469449034
GO:0005001transmembrane receptor protein tyrosine phosphatase activity0.00126058469449034
GO:0007417central nervous system development0.00332990684368422
GO:0004089carbonate dehydratase activity0.00416377714289835
GO:0048731system development0.00453165753797798
GO:0048856anatomical structure development0.0109183876950834
GO:0016836hydro-lyase activity0.0109183876950834
GO:0016835carbon-oxygen lyase activity0.012211174528187
GO:0007275multicellular organismal development0.0145106528423907
GO:0008046axon guidance receptor activity0.0172644645043749
GO:0007420brain development0.0172644645043749
GO:0006730one-carbon compound metabolic process0.0197690695565447
GO:0007185transmembrane receptor protein tyrosine phosphatase signaling pathway0.0273903705317438
GO:0050789regulation of biological process0.0273903705317438
GO:0004725protein tyrosine phosphatase activity0.0314416979328173
GO:0006470protein amino acid dephosphorylation0.037793969519023
GO:0065007biological regulation0.0387732940610384
GO:0032502developmental process0.0387732940610384
GO:0016829lyase activity0.0387732940610384
GO:0016311dephosphorylation0.0387732940610384
GO:0050772positive regulation of axonogenesis0.0387732940610384
GO:0007610behavior0.0387732940610384
GO:0007167enzyme linked receptor protein signaling pathway0.0387732940610384
GO:0009888tissue development0.0387732940610384
GO:0004721phosphoprotein phosphatase activity0.0392051887455054
GO:0050769positive regulation of neurogenesis0.0405101214388895
GO:0007612learning0.0414980733231299
GO:0048513organ development0.0442590823351491
GO:0030282bone mineralization0.0442590823351491
GO:0032501multicellular organismal process0.0442590823351491
GO:0007026negative regulation of microtubule depolymerization0.0442590823351491
GO:0031114regulation of microtubule depolymerization0.0442590823351491
GO:0031111negative regulation of microtubule polymerization or depolymerization0.0442590823351491
GO:0007019microtubule depolymerization0.0442590823351491
GO:0050794regulation of cellular process0.0442590823351491
GO:0050770regulation of axonogenesis0.0460191143005335
GO:0009953dorsal/ventral pattern formation0.0460191143005335
GO:0016791phosphoric monoester hydrolase activity0.0460191143005335
GO:0005887integral to plasma membrane0.0460191143005335
GO:0031110regulation of microtubule polymerization or depolymerization0.0460191143005335
GO:0019222regulation of metabolic process0.0460191143005335
GO:0008270zinc ion binding0.0460191143005335
GO:0031226intrinsic to plasma membrane0.0460191143005335
GO:0031109microtubule polymerization or depolymerization0.0484864686669324
GO:0004864protein phosphatase inhibitor activity0.0489067669941368



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


Cell Type
Ontology termp-valuen
neuronal stem cell1.16e-118
astrocyte of the cerebral cortex5.69e-113
neural cell2.71e-0725
Uber Anatomy
Ontology termp-valuen
neural tube1.01e-10956
neural rod1.01e-10956
future spinal cord1.01e-10956
neural keel1.01e-10956
central nervous system1.87e-10481
regional part of nervous system1.62e-10053
regional part of brain1.62e-10053
nervous system4.31e-9389
regional part of forebrain3.86e-8541
forebrain3.86e-8541
anterior neural tube3.86e-8541
future forebrain3.86e-8541
neural plate2.86e-8282
presumptive neural plate2.86e-8282
telencephalon1.26e-8034
brain grey matter1.73e-8034
gray matter1.73e-8034
brain3.04e-7968
future brain3.04e-7968
neurectoderm5.68e-7886
cerebral hemisphere1.35e-7432
regional part of telencephalon2.40e-7432
pre-chordal neural plate3.87e-6561
cerebral cortex1.62e-6425
pallium1.62e-6425
ecto-epithelium1.11e-62104
regional part of cerebral cortex3.55e-5522
structure with developmental contribution from neural crest8.26e-52132
ectoderm-derived structure1.67e-49171
ectoderm1.67e-49171
presumptive ectoderm1.67e-49171
neocortex9.46e-4920
adult organism2.34e-41114
organ system subdivision6.09e-34223
tube9.30e-25192
posterior neural tube2.34e-2415
chordal neural plate2.34e-2415
brainstem1.28e-196
anatomical cluster2.37e-18373
temporal lobe8.60e-186
limbic system1.06e-175
anatomical conduit1.09e-17240
basal ganglion1.15e-179
nuclear complex of neuraxis1.15e-179
aggregate regional part of brain1.15e-179
collection of basal ganglia1.15e-179
cerebral subcortex1.15e-179
neural nucleus3.17e-179
nucleus of brain3.17e-179
parietal lobe7.79e-175
segmental subdivision of hindbrain2.72e-1612
hindbrain2.72e-1612
presumptive hindbrain2.72e-1612
segmental subdivision of nervous system6.19e-1513
organ part9.54e-15218
gyrus3.49e-146
epithelium4.60e-14306
cell layer8.05e-14309
telencephalic nucleus1.18e-117
occipital lobe3.24e-115
medulla oblongata9.43e-113
myelencephalon9.43e-113
future myelencephalon9.43e-113
spinal cord1.11e-103
dorsal region element1.11e-103
dorsum1.11e-103
multi-tissue structure1.17e-10342
pons1.36e-103
regional part of metencephalon8.19e-099
metencephalon8.19e-099
future metencephalon8.19e-099
corpus striatum2.44e-084
striatum2.44e-084
ventral part of telencephalon2.44e-084
future corpus striatum2.44e-084
amygdala2.59e-082
Ammon's horn3.56e-082
lobe parts of cerebral cortex3.56e-082
hippocampal formation3.56e-082
limbic lobe3.56e-082
embryo3.61e-08592
middle temporal gyrus4.39e-082
germ layer4.63e-08560
germ layer / neural crest4.63e-08560
embryonic tissue4.63e-08560
presumptive structure4.63e-08560
germ layer / neural crest derived structure4.63e-08560
epiblast (generic)4.63e-08560
embryonic structure6.48e-08564
locus ceruleus1.03e-072
brainstem nucleus1.03e-072
hindbrain nucleus1.03e-072
diencephalon1.80e-077
future diencephalon1.80e-077
meninx2.23e-072
membrane organ2.23e-072
meningeal cluster2.23e-072


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)
MA0003.10.070629
MA0004.10.0905471
MA0006.10.296883
MA0007.10.586462
MA0009.10.406485
MA0014.10.0345374
MA0017.10.162552
MA0019.10.172846
MA0024.10.862091
MA0025.10.520106
MA0027.11.94566
MA0028.10.592768
MA0029.10.337465
MA0030.10.875776
MA0031.10.279263
MA0038.10.446179
MA0040.10.342075
MA0041.14.37402
MA0042.13.35354
MA0043.10.406746
MA0046.10.397506
MA0048.10.736563
MA0050.10.0846723
MA0051.10.142882
MA0052.10.912859
MA0055.14.69372
MA0056.10
MA0057.10.332705
MA0058.10.0506385
MA0059.10.0501787
MA0060.10.041198
MA0061.10.0861879
MA0063.10
MA0066.10.446809
MA0067.10.685278
MA0068.11.41977
MA0069.10.394339
MA0070.10.385179
MA0071.10.390117
MA0072.10.381514
MA0073.10.148778
MA0074.10.438848
MA0076.10.790149
MA0077.10.37525
MA0078.11.11907
MA0081.11.59185
MA0083.10.412707
MA0084.10.860109
MA0087.10.988819
MA0088.10.0152526
MA0089.10
MA0090.10.484662
MA0091.10.306639
MA0092.10.549657
MA0093.10.0312422
MA0095.10
MA0098.10
MA0100.10.153602
MA0101.10.130624
MA0103.10.027975
MA0105.10.0036969
MA0106.10.170405
MA0107.10.185157
MA0108.20.276987
MA0109.10
MA0111.10.239028
MA0113.10.180801
MA0114.10.0677467
MA0115.10.615724
MA0116.10.190388
MA0117.10.437859
MA0119.10.686178
MA0122.10.459779
MA0124.10.578498
MA0125.10.50452
MA0130.10
MA0131.10.217579
MA0132.10
MA0133.10
MA0135.10.431776
MA0136.10.8933
MA0139.10.302773
MA0140.10.121887
MA0141.10.0495619
MA0142.11.31221
MA0143.11.02251
MA0144.10.315342
MA0145.10.278532
MA0146.10.00211819
MA0147.10.0166023
MA0148.10.68695
MA0149.10.116654
MA0062.20.323682
MA0035.20.121502
MA0039.26.401e-05
MA0138.20.20609
MA0002.20.0354968
MA0137.20.0368453
MA0104.20.00782014
MA0047.20.162866
MA0112.20.0870721
MA0065.20.0223142
MA0150.10.0597704
MA0151.10
MA0152.10.395672
MA0153.10.489927
MA0154.10.0870334
MA0155.10.225669
MA0156.10.967882
MA0157.10.236372
MA0158.10
MA0159.10.196704
MA0160.10.110614
MA0161.10
MA0162.10.00544395
MA0163.10.00454359
MA0164.10.188828
MA0080.20.302552
MA0018.20.171273
MA0099.21.28721
MA0079.20.147187
MA0102.20.895427
MA0258.10.499828
MA0259.10.66181
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.