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Coexpression cluster:C2684

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Full id: C2684_adrenal_occipital_parietal_temporal_amygdala_hippocampus_putamen



Phase1 CAGE Peaks

  Short description
Hg19::chr2:210288760..210288849,+ p1@MAP2
Hg19::chr2:213403485..213403534,- p3@ERBB4
Hg19::chr2:213403573..213403584,- p11@ERBB4
Hg19::chr2:213403690..213403704,- p6@ERBB4


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:0007026negative regulation of microtubule depolymerization0.0295010355120949
GO:0031114regulation of microtubule depolymerization0.0295010355120949
GO:0007019microtubule depolymerization0.0295010355120949
GO:0031111negative regulation of microtubule polymerization or depolymerization0.0295010355120949
GO:0031110regulation of microtubule polymerization or depolymerization0.0295010355120949
GO:0031109microtubule polymerization or depolymerization0.0295010355120949
GO:0051261protein depolymerization0.0359437983519393
GO:0051129negative regulation of cellular component organization and biogenesis0.0359437983519393
GO:0051128regulation of cellular component organization and biogenesis0.0463264455314587
GO:0000226microtubule cytoskeleton organization and biogenesis0.0463264455314587
GO:0051248negative regulation of protein metabolic process0.0463264455314587
GO:0046982protein heterodimerization activity0.0463264455314587
GO:0004714transmembrane receptor protein tyrosine kinase activity0.0463264455314587



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


uberon_data


Uber Anatomy
Ontology termp-valuen
adult organism7.10e-65114
neural tube1.77e-5056
neural rod1.77e-5056
future spinal cord1.77e-5056
neural keel1.77e-5056
regional part of nervous system1.97e-4753
regional part of brain1.97e-4753
central nervous system3.17e-4681
neural plate3.23e-4482
presumptive neural plate3.23e-4482
regional part of forebrain1.83e-4341
forebrain1.83e-4341
anterior neural tube1.83e-4341
future forebrain1.83e-4341
nervous system2.63e-4389
neurectoderm2.57e-4286
brain6.46e-4068
future brain6.46e-4068
telencephalon1.05e-3634
brain grey matter1.25e-3634
gray matter1.25e-3634
pre-chordal neural plate4.87e-3661
cerebral hemisphere7.11e-3532
regional part of telencephalon1.13e-3432
ecto-epithelium3.32e-34104
structure with developmental contribution from neural crest3.73e-30132
ectoderm-derived structure2.47e-29171
ectoderm2.47e-29171
presumptive ectoderm2.47e-29171
cerebral cortex1.26e-2725
pallium1.26e-2725
regional part of cerebral cortex1.85e-2622
neocortex2.95e-2420
organ system subdivision5.37e-21223
anatomical cluster1.51e-19373
anatomical conduit4.61e-16240
tube8.85e-16192
multi-tissue structure8.51e-14342
organ part1.26e-12218
multi-cellular organism5.55e-11656
basal ganglion1.82e-109
nuclear complex of neuraxis1.82e-109
aggregate regional part of brain1.82e-109
collection of basal ganglia1.82e-109
cerebral subcortex1.82e-109
neural nucleus2.42e-109
nucleus of brain2.42e-109
epithelium3.09e-10306
cell layer7.11e-10309
organ1.05e-09503
posterior neural tube8.52e-0915
chordal neural plate8.52e-0915
temporal lobe1.04e-086
embryo1.15e-08592
telencephalic nucleus1.82e-087
developing anatomical structure2.16e-08581
anatomical system2.93e-08624
anatomical group3.57e-08625
gyrus3.84e-086
diencephalon4.73e-087
future diencephalon4.73e-087
parietal lobe3.46e-075
occipital lobe4.04e-075
brainstem5.03e-076
segmental subdivision of nervous system5.69e-0713
limbic system7.10e-075


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)
MA0003.11.05935
MA0004.10.71247
MA0006.11.31813
MA0007.10.6918
MA0009.11.20602
MA0014.12.45009
MA0017.10.577281
MA0019.10.873355
MA0024.11.09684
MA0025.11.34373
MA0027.12.83281
MA0028.12.32784
MA0029.11.11704
MA0030.11.10506
MA0031.11.03735
MA0038.10.824639
MA0040.11.12314
MA0041.10.732902
MA0042.10.697662
MA0043.11.20635
MA0046.11.19471
MA0048.12.82503
MA0050.10.69864
MA0051.10.820063
MA0052.11.12718
MA0055.13.24355
MA0056.10
MA0057.11.28333
MA0058.10.605914
MA0059.10.604454
MA0060.10.393285
MA0061.10.360128
MA0063.10
MA0066.10.825101
MA0067.11.53181
MA0068.15.1904
MA0069.11.19071
MA0070.11.17908
MA0071.10.782546
MA0072.11.1744
MA0073.10.100363
MA0074.10.819248
MA0076.10.623864
MA0077.11.16637
MA0078.10.926725
MA0081.11.4709
MA0083.11.21381
MA0084.11.72172
MA0087.11.17185
MA0088.11.02755
MA0089.10
MA0090.10.640115
MA0091.10.715356
MA0092.10.673508
MA0093.10.535768
MA0095.10
MA0098.10
MA0100.10.83965
MA0101.10.539569
MA0103.10.521546
MA0105.10.232357
MA0106.10.869173
MA0107.10.453492
MA0108.21.03412
MA0109.10
MA0111.10.655276
MA0113.10.886811
MA0114.10.447443
MA0115.11.45393
MA0116.10.457606
MA0117.11.24497
MA0119.10.586221
MA0122.11.27173
MA0124.11.41151
MA0125.11.32534
MA0130.10
MA0131.10.94608
MA0132.10
MA0133.10
MA0135.11.23748
MA0136.10.832277
MA0139.10.912459
MA0140.10.779643
MA0141.10.602484
MA0142.11.00381
MA0143.10.887001
MA0144.10.430413
MA0145.10.195821
MA0146.10.481
MA0147.10.46175
MA0148.10.739888
MA0149.10.769072
MA0062.20.353589
MA0035.20.778873
MA0039.21.13403
MA0138.20.928035
MA0002.20.379056
MA0137.20.558189
MA0104.20.392359
MA0047.20.856092
MA0112.20.187982
MA0065.20.577908
MA0150.10.633493
MA0151.10
MA0152.10.78681
MA0153.11.30799
MA0154.10.229241
MA0155.10.180766
MA0156.10.560797
MA0157.10.97481
MA0158.10
MA0159.10.462502
MA0160.10.756582
MA0161.10
MA0162.10.640035
MA0163.10.253219
MA0164.10.90014
MA0080.20.535868
MA0018.20.870662
MA0099.20.7872
MA0079.23.5408
MA0102.21.75932
MA0258.10.418966
MA0259.10.471671
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


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

TF#promotersEnrichmentp-valueq-value
SUZ12#23512337.58683568329723.12785741999833e-050.000632101975787936



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.