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Coexpression cluster:C1164

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Full id: C1164_pineal_cerebellum_neuroblastoma_insula_rectum_frontal_olfactory



Phase1 CAGE Peaks

  Short description
Hg19::chr12:119420500..119420503,+ p@chr12:119420500..119420503
+
Hg19::chr12:71079250..71079254,- p@chr12:71079250..71079254
-
Hg19::chr12:71314342..71314347,- p12@PTPRR
Hg19::chr12:71314356..71314378,- p4@PTPRR
Hg19::chr12:71314392..71314444,- p2@PTPRR
Hg19::chr17:48243713..48243722,- p@chr17:48243713..48243722
-
Hg19::chr17:77997890..77997901,+ +
p@chr17:77997890..77997901


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


No GOStat results

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
disease_data


Uber Anatomy
Ontology termp-valuen
regional part of nervous system2.51e-7953
regional part of brain2.51e-7953
neural tube7.57e-7556
neural rod7.57e-7556
future spinal cord7.57e-7556
neural keel7.57e-7556
brain2.09e-6468
future brain2.09e-6468
nervous system2.15e-6289
brain grey matter2.69e-5734
gray matter2.69e-5734
central nervous system2.90e-5781
cerebral hemisphere2.64e-5532
neural plate2.87e-5382
presumptive neural plate2.87e-5382
regional part of forebrain6.69e-5341
forebrain6.69e-5341
anterior neural tube6.69e-5341
future forebrain6.69e-5341
telencephalon6.60e-5234
neurectoderm1.52e-5086
regional part of telencephalon2.30e-4932
regional part of cerebral cortex2.79e-4322
neocortex7.15e-4120
ecto-epithelium7.41e-41104
adult organism4.53e-40114
cerebral cortex6.00e-3825
pallium6.00e-3825
pre-chordal neural plate7.41e-3861
structure with developmental contribution from neural crest1.89e-33132
ectoderm-derived structure4.20e-32171
ectoderm4.20e-32171
presumptive ectoderm4.20e-32171
segmental subdivision of hindbrain6.13e-2812
hindbrain6.13e-2812
presumptive hindbrain6.13e-2812
segmental subdivision of nervous system1.06e-2513
organ system subdivision3.58e-23223
gyrus3.87e-226
posterior neural tube4.06e-2215
chordal neural plate4.06e-2215
brainstem9.44e-226
regional part of metencephalon1.90e-219
metencephalon1.90e-219
future metencephalon1.90e-219
neural nucleus5.75e-219
nucleus of brain5.75e-219
tube6.14e-18192
pons4.43e-163
basal ganglion3.10e-159
nuclear complex of neuraxis3.10e-159
aggregate regional part of brain3.10e-159
collection of basal ganglia3.10e-159
cerebral subcortex3.10e-159
organ part1.14e-13218
anatomical conduit3.59e-13240
corpus striatum3.64e-134
striatum3.64e-134
ventral part of telencephalon3.64e-134
future corpus striatum3.64e-134
pineal body9.14e-132
regional part of epithalamus9.14e-132
secretory circumventricular organ9.14e-132
circumventricular organ9.14e-132
epithalamus9.14e-132
telencephalic nucleus9.45e-137
temporal lobe1.00e-126
anatomical cluster2.63e-12373
middle temporal gyrus1.65e-112
locus ceruleus2.82e-112
brainstem nucleus2.82e-112
hindbrain nucleus2.82e-112
limbic system9.94e-115
sympathetic nervous system2.47e-105
autonomic nervous system2.47e-105
occipital lobe2.72e-105
parietal lobe3.74e-105
epithelium5.88e-10306
cell layer8.42e-10309
cerebellum2.59e-096
rhombic lip2.59e-096
multi-tissue structure4.23e-09342
caudate-putamen1.90e-083
dorsal striatum1.90e-083
frontal cortex2.95e-083
medulla oblongata3.67e-083
myelencephalon3.67e-083
future myelencephalon3.67e-083
putamen4.69e-071
insula4.97e-071
olfactory region5.26e-071
primary subdivision of skull5.26e-071
cranium5.26e-071
neurocranium5.26e-071
chondrocranium5.26e-071
cartilaginous neurocranium5.26e-071
head paraxial mesoderm5.26e-071
paracentral gyrus6.24e-071
nucleus accumbens7.82e-071
ventral striatum7.82e-071

Disease
Ontology termp-valuen


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)
MA0003.10.110456
MA0004.10.502801
MA0006.10.341337
MA0007.10.483857
MA0009.10.973289
MA0014.10.0723474
MA0017.10.380797
MA0019.10.652951
MA0024.12.01466
MA0025.11.10816
MA0027.12.59001
MA0028.10.35747
MA0029.10.886702
MA0030.10.875089
MA0031.10.809638
MA0038.10.60704
MA0040.10.892629
MA0041.11.29551
MA0042.10.48922
MA0043.10.973609
MA0046.10.962263
MA0048.11.8235
MA0050.10.490116
MA0051.10.602745
MA0052.10.896548
MA0055.10.649431
MA0056.10
MA0057.10.369442
MA0058.10.406232
MA0059.10.404929
MA0060.10.224688
MA0061.10.198335
MA0063.10
MA0066.10.607474
MA0067.11.29359
MA0068.10.488375
MA0069.10.958358
MA0070.10.947018
MA0071.10.567661
MA0072.10.942461
MA0073.128.4426
MA0074.10.60198
MA0076.10.422297
MA0077.10.934645
MA0078.10.703614
MA0081.11.84202
MA0083.10.980893
MA0084.11.48179
MA0087.10.939982
MA0088.10.0723293
MA0089.10
MA0090.10.436918
MA0091.10.505453
MA0092.10.467172
MA0093.10.344385
MA0095.10
MA0098.10
MA0100.10.621149
MA0101.10.347695
MA0103.10.332048
MA0105.10.104569
MA0106.10.648997
MA0107.10.752965
MA0108.20.806528
MA0109.10
MA0111.11.14351
MA0113.10.665691
MA0114.10.269076
MA0115.11.21667
MA0116.10.277571
MA0117.11.01134
MA0119.10.388712
MA0122.11.03753
MA0124.11.17486
MA0125.11.0901
MA0130.10
MA0131.10.722072
MA0132.10
MA0133.10
MA0135.11.00402
MA0136.10.614215
MA0139.10.186511
MA0140.10.564957
MA0141.10.403171
MA0142.10.777365
MA0143.10.66587
MA0144.10.254954
MA0145.10.581146
MA0146.10.162729
MA0147.10.281049
MA0148.10.528066
MA0149.10.555119
MA0062.20.193221
MA0035.20.564239
MA0039.20.854285
MA0138.20.704862
MA0002.21.15032
MA0137.20.36398
MA0104.20.223944
MA0047.20.636643
MA0112.20.944394
MA0065.20.282161
MA0150.10.430951
MA0151.10
MA0152.10.571637
MA0153.11.07307
MA0154.10.102476
MA0155.10.910701
MA0156.10.36627
MA0157.10.749547
MA0158.10
MA0159.10.281681
MA0160.10.543522
MA0161.10
MA0162.10.0249953
MA0163.10.0167306
MA0164.10.678332
MA0080.20.344472
MA0018.20.650405
MA0099.20.572
MA0079.20.615165
MA0102.21.51913
MA0258.10.687127
MA0259.10.289405
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.