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Coexpression cluster:C2199

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Full id: C2199_caudate_parietal_occipital_middle_medial_globus_thalamus



Phase1 CAGE Peaks

  Short description
Hg19::chr12:19358228..19358248,+ p7@PLEKHA5
Hg19::chr2:152527863..152527893,- p4@NEB
Hg19::chr2:3050387..3050399,- p@chr2:3050387..3050399
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Hg19::chr9:138594018..138594036,+ p4@KCNT1


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:0007525somatic muscle development0.027319432152077
GO:0030018Z disc0.027319432152077
GO:0031674I band0.027319432152077
GO:0005545phosphatidylinositol binding0.027319432152077
GO:0015269calcium-activated potassium channel activity0.027319432152077
GO:0022839ion gated channel activity0.027319432152077
GO:0005227calcium activated cation channel activity0.027319432152077
GO:0008307structural constituent of muscle0.027319432152077
GO:0030832regulation of actin filament length0.027319432152077
GO:0032535regulation of cellular component size0.027319432152077
GO:0032956regulation of actin cytoskeleton organization and biogenesis0.027319432152077
GO:0030017sarcomere0.027319432152077
GO:0030016myofibril0.027319432152077
GO:0051493regulation of cytoskeleton organization and biogenesis0.027319432152077
GO:0033043regulation of organelle organization and biogenesis0.027319432152077
GO:0044449contractile fiber part0.027438161099036
GO:0043292contractile fiber0.0275425165044705
GO:0051128regulation of cellular component organization and biogenesis0.0406012548667762



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
neural tube1.11e-11756
neural rod1.11e-11756
future spinal cord1.11e-11756
neural keel1.11e-11756
regional part of nervous system1.63e-11253
regional part of brain1.63e-11253
regional part of forebrain3.35e-10541
forebrain3.35e-10541
anterior neural tube3.35e-10541
future forebrain3.35e-10541
brain grey matter1.94e-9734
gray matter1.94e-9734
telencephalon2.99e-9134
central nervous system6.90e-9181
cerebral hemisphere1.63e-9032
regional part of telencephalon5.26e-9032
brain1.29e-8968
future brain1.29e-8968
neural plate4.04e-8282
presumptive neural plate4.04e-8282
nervous system3.84e-8189
neurectoderm6.01e-7886
pre-chordal neural plate4.69e-7361
regional part of cerebral cortex1.20e-7022
adult organism7.58e-67114
ecto-epithelium4.23e-63104
neocortex6.40e-6320
cerebral cortex6.40e-6225
pallium6.40e-6225
structure with developmental contribution from neural crest2.39e-53132
ectoderm-derived structure9.07e-41171
ectoderm9.07e-41171
presumptive ectoderm9.07e-41171
basal ganglion4.06e-389
nuclear complex of neuraxis4.06e-389
aggregate regional part of brain4.06e-389
collection of basal ganglia4.06e-389
cerebral subcortex4.06e-389
neural nucleus1.54e-379
nucleus of brain1.54e-379
telencephalic nucleus2.69e-307
organ system subdivision2.73e-29223
tube1.16e-28192
gyrus3.84e-266
occipital lobe2.44e-215
limbic system3.15e-215
anatomical conduit3.33e-21240
corpus striatum1.77e-184
striatum1.77e-184
ventral part of telencephalon1.77e-184
future corpus striatum1.77e-184
brainstem2.33e-166
organ part4.98e-16218
posterior neural tube7.68e-1615
chordal neural plate7.68e-1615
epithelium9.12e-16306
cell layer1.58e-15309
temporal lobe2.27e-156
anatomical cluster6.09e-15373
diencephalon6.26e-157
future diencephalon6.26e-157
caudate-putamen1.78e-143
dorsal striatum1.78e-143
parietal lobe2.07e-145
frontal cortex5.09e-143
pons1.27e-123
multi-tissue structure3.07e-12342
segmental subdivision of hindbrain2.02e-1112
hindbrain2.02e-1112
presumptive hindbrain2.02e-1112
segmental subdivision of nervous system1.69e-1013
caudate nucleus2.50e-102
future caudate nucleus2.50e-102
globus pallidus4.46e-102
pallidum4.46e-102
middle temporal gyrus5.09e-102
middle frontal gyrus6.63e-102
dorsal plus ventral thalamus1.12e-092
thalamic complex1.12e-092
amygdala1.51e-092
Ammon's horn2.13e-092
lobe parts of cerebral cortex2.13e-092
hippocampal formation2.13e-092
limbic lobe2.13e-092
meninx3.68e-092
membrane organ3.68e-092
meningeal cluster3.68e-092
locus ceruleus5.57e-092
brainstem nucleus5.57e-092
hindbrain nucleus5.57e-092
pituitary gland5.81e-092
organ1.22e-08503
germ layer1.78e-07560
germ layer / neural crest1.78e-07560
embryonic tissue1.78e-07560
presumptive structure1.78e-07560
germ layer / neural crest derived structure1.78e-07560
epiblast (generic)1.78e-07560
embryonic structure2.36e-07564
regional part of metencephalon2.51e-079


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)
MA0003.10.0938548
MA0004.10.71247
MA0006.10.532262
MA0007.10.6918
MA0009.11.20602
MA0014.10.0695829
MA0017.10.577281
MA0019.10.873355
MA0024.11.09684
MA0025.11.34373
MA0027.12.83281
MA0028.10.550763
MA0029.11.11704
MA0030.12.49947
MA0031.11.03735
MA0038.10.824639
MA0040.12.53613
MA0041.10.732902
MA0042.10.697662
MA0043.11.20635
MA0046.11.19471
MA0048.10.25531
MA0050.10.69864
MA0051.10.820063
MA0052.11.12718
MA0055.10.125954
MA0056.10
MA0057.10.248209
MA0058.10.605914
MA0059.10.604454
MA0060.10.393285
MA0061.10.360128
MA0063.10
MA0066.10.825101
MA0067.11.53181
MA0068.10.313194
MA0069.11.19071
MA0070.11.17908
MA0071.13.06856
MA0072.12.63991
MA0073.10.0343867
MA0074.10.819248
MA0076.10.623864
MA0077.11.16637
MA0078.10.926725
MA0081.10.604638
MA0083.11.21381
MA0084.11.72172
MA0087.11.17185
MA0088.10.182167
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
MA0139.10.344952
MA0140.10.779643
MA0141.10.602484
MA0142.11.00381
MA0143.10.887001
MA0144.10.430413
MA0145.10.569905
MA0146.10.221129
MA0147.10.46175
MA0148.10.739888
MA0149.10.769072
MA0062.20.353589
MA0035.20.778873
MA0039.20.10559
MA0138.20.928035
MA0002.20.379056
MA0137.20.558189
MA0104.20.392359
MA0047.20.856092
MA0112.20.551048
MA0065.20.199162
MA0150.10.633493
MA0151.10
MA0152.10.78681
MA0153.11.30799
MA0154.11.21162
MA0155.10.533581
MA0156.10.560797
MA0157.10.97481
MA0158.10
MA0159.10.462502
MA0160.10.756582
MA0161.10
MA0162.10.0928415
MA0163.10.539587
MA0164.10.90014
MA0080.20.535868
MA0018.20.870662
MA0099.20.7872
MA0079.20.00910927
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


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.