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Coexpression cluster:C3421

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Full id: C3421_Neural_caudate_medulloblastoma_Neurons_small_Astrocyte_putamen



Phase1 CAGE Peaks

  Short description
Hg19::chr14:29236997..29237007,+ p11@FOXG1
Hg19::chr14:29237009..29237049,+ p4@FOXG1
Hg19::chr14:29241984..29242013,+ p1@C14orf23


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

cell_data
uberon_data


Uber Anatomy
Ontology termp-valuen
central nervous system1.33e-5581
cerebral hemisphere1.14e-5332
telencephalon3.09e-5334
nervous system3.74e-5289
regional part of forebrain3.75e-5141
forebrain3.75e-5141
anterior neural tube3.75e-5141
future forebrain3.75e-5141
regional part of telencephalon5.08e-5032
brain5.80e-5068
future brain5.80e-5068
pre-chordal neural plate3.66e-4861
brain grey matter1.53e-4634
gray matter1.53e-4634
regional part of nervous system1.02e-4353
regional part of brain1.02e-4353
cerebral cortex6.81e-4225
pallium6.81e-4225
neural plate5.06e-4182
presumptive neural plate5.06e-4182
neural tube9.99e-4156
neural rod9.99e-4156
future spinal cord9.99e-4156
neural keel9.99e-4156
neurectoderm2.06e-3886
regional part of cerebral cortex6.10e-3722
neocortex3.01e-3320
ectoderm-derived structure1.45e-32171
ectoderm1.45e-32171
presumptive ectoderm1.45e-32171
ecto-epithelium3.57e-29104
structure with developmental contribution from neural crest2.08e-24132
organ system subdivision2.63e-24223
adult organism2.62e-18114
anatomical cluster1.76e-17373
organ part9.21e-14218
basal ganglion4.78e-139
nuclear complex of neuraxis4.78e-139
aggregate regional part of brain4.78e-139
collection of basal ganglia4.78e-139
cerebral subcortex4.78e-139
gyrus1.42e-116
tube1.85e-11192
limbic system1.19e-105
temporal lobe2.48e-106
occipital lobe7.30e-105
parietal lobe1.03e-095
telencephalic nucleus1.31e-097
epithelium2.26e-09306
cell layer4.01e-09309
multi-tissue structure6.21e-09342
embryo8.75e-09592
germ layer1.04e-08560
germ layer / neural crest1.04e-08560
embryonic tissue1.04e-08560
presumptive structure1.04e-08560
germ layer / neural crest derived structure1.04e-08560
epiblast (generic)1.04e-08560
embryonic structure1.78e-08564
developing anatomical structure1.80e-08581
corpus striatum2.02e-084
striatum2.02e-084
ventral part of telencephalon2.02e-084
future corpus striatum2.02e-084
organ1.48e-07503
atypical epithelium2.57e-074
pigment epithelium of eye2.89e-0711
neural nucleus2.96e-079
nucleus of brain2.96e-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)
MA0003.11.54338
MA0004.10.826076
MA0006.10.639288
MA0007.11.88666
MA0009.11.3275
MA0014.11.24048
MA0017.10.686276
MA0019.10.990656
MA0024.11.21731
MA0025.11.46617
MA0027.12.95767
MA0028.11.58389
MA0029.11.23771
MA0030.11.22561
MA0031.11.15713
MA0038.10.94098
MA0040.11.24388
MA0041.10.847069
MA0042.10.810843
MA0043.11.32783
MA0046.11.31611
MA0048.11.62115
MA0050.10.81185
MA0051.10.936307
MA0052.11.24796
MA0055.16.81928
MA0056.10
MA0057.10.886807
MA0058.10.716037
MA0059.10.714521
MA0060.10.492218
MA0061.10.456531
MA0063.10
MA0066.10.941452
MA0067.11.65513
MA0068.10.405474
MA0069.11.31207
MA0070.11.30033
MA0071.10.897953
MA0072.11.29561
MA0073.10.211629
MA0074.10.935474
MA0076.10.734647
MA0077.11.28751
MA0078.11.04495
MA0081.10.714712
MA0083.11.33535
MA0084.11.84562
MA0087.11.29304
MA0088.10.257905
MA0089.10
MA0090.10.751469
MA0091.10.829044
MA0092.10.785956
MA0093.10.642957
MA0095.10
MA0098.10
MA0100.10.956299
MA0101.10.646932
MA0103.10.628063
MA0105.10.846801
MA0106.10.986396
MA0107.10.556367
MA0108.21.15387
MA0109.10
MA0111.10.767139
MA0113.11.00436
MA0114.10.549955
MA0115.11.57693
MA0116.10.560723
MA0117.11.36676
MA0119.10.695578
MA0122.11.39371
MA0124.11.53432
MA0125.11.44766
MA0130.10
MA0131.11.06461
MA0132.10
MA0133.10
MA0135.11.35921
MA0136.10.948776
MA0139.10.440097
MA0140.10.894983
MA0141.10.712476
MA0142.11.12317
MA0143.11.00455
MA0144.10.531867
MA0145.10.273764
MA0146.10.107247
MA0147.10.565108
MA0148.10.854239
MA0149.10.884158
MA0062.20.449458
MA0035.20.894194
MA0039.20.195278
MA0138.21.04628
MA0002.20.476938
MA0137.20.666381
MA0104.20.491226
MA0047.20.973066
MA0112.20.264678
MA0065.20.277623
MA0150.10.744617
MA0151.10
MA0152.10.902317
MA0153.11.43021
MA0154.10.312019
MA0155.10.256269
MA0156.10.669101
MA0157.11.09377
MA0158.10
MA0159.10.565904
MA0160.10.871361
MA0161.10
MA0162.11.43223
MA0163.12.48891
MA0164.11.01792
MA0080.20.643061
MA0018.20.987913
MA0099.20.902716
MA0079.25.16052
MA0102.21.88331
MA0258.10.519674
MA0259.10.575594
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.