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Coexpression cluster:C1552

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Full id: C1552_parietal_pituitary_small_hippocampus_duodenum_temporal_occipital



Phase1 CAGE Peaks

Hg19::chrX:110187526..110187538,+p6@PAK3
Hg19::chrX:110187607..110187635,+p2@PAK3
Hg19::chrX:110187748..110187755,+p11@PAK3
Hg19::chrX:110187765..110187776,+p7@PAK3
Hg19::chrX:110187799..110187810,+p5@PAK3
Hg19::chrX:110187812..110187830,+p9@PAK3


Enriched pathways on this co-expression cluster<b>Summary:</b><br>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.<br><b>Analyst: </b>Emmanuel Dimont<br><br>link to source dataset<br>data


No results for this coexpression

Enriched Gene Ontology terms on this co-expression cluster<b>Summary:</b> 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. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br>data


No GOStat results

Enriched sample ontology terms on this co-expression cluster<b>Summary:</b>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. <b>Analyst:</b> Hideya Kawaji <br><br>links to source dataset<br><br>cell_data<br>uberon_data<br><br>


Cell Type
Ontology termp-valuen
neuronal stem cell6.34e-108
neural cell1.93e-0725
embryonic stem cell3.30e-075
neurectodermal cell5.89e-0759
neuron7.13e-076
neuroblast7.13e-076
electrically signaling cell7.13e-076
Uber Anatomy
Ontology termp-valuen
neural tube2.80e-6656
neural rod2.80e-6656
future spinal cord2.80e-6656
neural keel2.80e-6656
central nervous system2.95e-6481
nervous system1.06e-6289
regional part of nervous system3.32e-6253
regional part of brain3.32e-6253
regional part of forebrain2.89e-5741
forebrain2.89e-5741
anterior neural tube2.89e-5741
future forebrain2.89e-5741
adult organism2.84e-52114
brain grey matter6.65e-5034
gray matter6.65e-5034
telencephalon7.34e-5034
brain1.06e-4868
future brain1.06e-4868
neural plate1.19e-4782
presumptive neural plate1.19e-4782
cerebral hemisphere2.14e-4732
regional part of telencephalon7.30e-4732
neurectoderm1.21e-4486
cerebral cortex2.98e-4425
pallium2.98e-4425
pre-chordal neural plate2.67e-4261
ecto-epithelium3.97e-40104
regional part of cerebral cortex9.98e-4022
ectoderm-derived structure1.44e-38171
ectoderm1.44e-38171
presumptive ectoderm1.44e-38171
neocortex2.08e-3620
structure with developmental contribution from neural crest1.19e-29132
organ system subdivision1.39e-28223
anatomical cluster1.10e-16373
tube2.38e-13192
anatomical conduit4.70e-13240
temporal lobe8.40e-136
embryo9.06e-12592
gyrus2.13e-116
posterior neural tube6.42e-1115
chordal neural plate6.42e-1115
multi-cellular organism1.65e-10656
multi-tissue structure1.97e-10342
brainstem3.89e-106
parietal lobe3.95e-105
occipital lobe4.74e-105
limbic system1.24e-095
epithelium2.59e-09306
organ part4.45e-09218
cell layer4.67e-09309
embryonic structure5.08e-09564
developing anatomical structure7.39e-09581
germ layer8.99e-09560
germ layer / neural crest8.99e-09560
embryonic tissue8.99e-09560
presumptive structure8.99e-09560
germ layer / neural crest derived structure8.99e-09560
epiblast (generic)8.99e-09560
diencephalon9.83e-097
future diencephalon9.83e-097
basal ganglion2.78e-089
nuclear complex of neuraxis2.78e-089
aggregate regional part of brain2.78e-089
collection of basal ganglia2.78e-089
cerebral subcortex2.78e-089
neural nucleus4.17e-089
nucleus of brain4.17e-089
segmental subdivision of hindbrain1.51e-0712
hindbrain1.51e-0712
presumptive hindbrain1.51e-0712
anatomical system2.67e-07624
anatomical group3.03e-07625
organ4.62e-07503
segmental subdivision of nervous system7.54e-0713


Overrepresented TFBS (DNA) motifs on this co-expression cluster<b>Summary:</b>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. <b>Analyst:</b> Michiel de Hoon <br><br>link to source data <br> Novel motifs <br>data <br><br> Jaspar motifs <br>data


Novel motifs



JASPAR motifs

Motifs-log10(p-value)
MA0003.10.00461978
MA0004.13.45359
MA0006.10.391183
MA0007.10.539222
MA0009.11.03681
MA0014.10.108006
MA0017.10.432438
MA0019.10.7124
MA0024.10.929647
MA0025.11.17262
MA0027.12.65688
MA0028.10.408079
MA0029.10.949428
MA0030.10.937696
MA0031.10.871496
MA0038.10.665566
MA0040.10.955415
MA0041.10.578072
MA0042.10.544748
MA0043.11.03713
MA0046.11.02569
MA0048.13.56533
MA0050.12.3112
MA0051.12.6843
MA0052.10.959373
MA0055.12.26581
MA0056.10
MA0057.10.147053
MA0058.11.16137
MA0059.10.457555
MA0060.10.267412
MA0061.10.23892
MA0063.10
MA0066.10.66601
MA0067.11.35893
MA0068.10.199491
MA0069.11.02175
MA0070.11.01032
MA0071.10.625297
MA0072.11.00572
MA0073.11.87192
MA0074.11.58758
MA0076.10.475586
MA0077.10.997832
MA0078.10.763954
MA0081.10.457725
MA0083.11.04447
MA0084.11.5477
MA0087.11.00322
MA0088.10.0971959
MA0089.10
MA0090.10.490736
MA0091.10.561458
MA0092.10.522012
MA0093.13.70023
MA0095.10
MA0098.10
MA0100.10.679972
MA0101.10.397846
MA0103.10.381434
MA0105.10.134725
MA0106.10.70837
MA0107.10.320267
MA0108.20.868347
MA0109.10
MA0111.10.504913
MA0113.10.725375
MA0114.10.314898
MA0115.11.28169
MA0116.10.323925
MA0117.11.07516
MA0119.10.440684
MA0122.11.10154
MA0124.11.23968
MA0125.11.15445
MA0130.10
MA0131.10.782708
MA0132.10
MA0133.10
MA0135.11.06778
MA0136.10.672893
MA0139.10.226048
MA0140.10.622527
MA0141.11.15452
MA0142.10.838805
MA0143.10.725558
MA0144.10.299851
MA0145.10.347815
MA0146.10.093337
MA0147.10.327615
MA0148.10.584698
MA0149.10.612449
MA0062.21.22729
MA0035.20.621793
MA0039.20.0313803
MA0138.20.765223
MA0002.20.255126
MA0137.20.414885
MA0104.20.735746
MA0047.20.695777
MA0112.22.25875
MA0065.20.718489
MA0150.10.484557
MA0151.10
MA0152.10.629368
MA0153.11.13732
MA0154.10.132326
MA0155.11.60937
MA0156.10.417278
MA0157.10.810597
MA0158.10
MA0159.10.328286
MA0160.10.600559
MA0161.10
MA0162.10.150673
MA0163.12.60605
MA0164.10.738243
MA0080.20.394469
MA0018.20.709805
MA0099.20.629739
MA0079.20.792956
MA0102.21.58513
MA0258.10.289793
MA0259.10.893594
MA0442.10



ENCODE TF ChIP-seq peak enrichment analysis<b>Summary:</b> 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. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br><br>data


No analysis results for this cluster

Relative expression of the co-expression cluster<b>Summary:</b>Co-expression clusters are compared against FANTOM5 samples to obtain relative expression. <br><b>Analyst:</b>NA<br><br>link to data source<br> data


This analysis result is provided for C0 - C305 clusters.