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Coexpression cluster:C754

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Full id: C754_occipital_temporal_pineal_postcentral_Alveolar_colon_parietal



Phase1 CAGE Peaks

  Short description
Hg19::chr14:103987731..103987748,- p6@CKB
Hg19::chr14:103988257..103988300,- p10@CKB
Hg19::chr14:103988384..103988399,- p15@CKB
Hg19::chr14:103988406..103988482,- p4@CKB
Hg19::chr14:103988664..103988673,- p14@CKB
Hg19::chr14:103988694..103988705,- p13@CKB
Hg19::chr14:103988723..103988744,- p9@CKB
Hg19::chr14:103988768..103988787,- p2@CKB
Hg19::chr14:103988801..103988816,- p8@CKB
Hg19::chr14:103988826..103988852,- p5@CKB
Hg19::chr14:103989160..103989176,- p1@CKB


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


Uber Anatomy
Ontology termp-valuen
neural tube1.92e-3456
neural rod1.92e-3456
future spinal cord1.92e-3456
neural keel1.92e-3456
nervous system4.94e-3489
central nervous system5.67e-3481
regional part of nervous system1.71e-3253
regional part of brain1.71e-3253
adult organism2.59e-30114
brain3.07e-2768
future brain3.07e-2768
organ system subdivision3.79e-27223
regional part of forebrain4.00e-2741
forebrain4.00e-2741
anterior neural tube4.00e-2741
future forebrain4.00e-2741
brain grey matter4.11e-2534
gray matter4.11e-2534
neural plate9.49e-2582
presumptive neural plate9.49e-2582
telencephalon1.05e-2434
neurectoderm1.48e-2486
regional part of telencephalon8.72e-2432
cerebral hemisphere8.92e-2432
ectoderm-derived structure2.38e-20171
ectoderm2.38e-20171
presumptive ectoderm2.38e-20171
ecto-epithelium7.55e-20104
pre-chordal neural plate8.91e-2061
cerebral cortex4.58e-1925
pallium4.58e-1925
regional part of cerebral cortex6.91e-1722
neocortex2.22e-1520
organ part9.11e-15218
structure with developmental contribution from neural crest1.57e-14132
anatomical cluster4.21e-14373
multi-tissue structure4.95e-13342
organ9.08e-11503
multi-cellular organism1.00e-09656
posterior neural tube1.81e-0815
chordal neural plate1.81e-0815
embryo2.61e-08592
basal ganglion1.09e-079
nuclear complex of neuraxis1.09e-079
aggregate regional part of brain1.09e-079
collection of basal ganglia1.09e-079
cerebral subcortex1.09e-079
neural nucleus1.77e-079
nucleus of brain1.77e-079
segmental subdivision of nervous system2.01e-0713
anatomical system4.99e-07624
anatomical group6.56e-07625
developing anatomical structure9.50e-07581


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)
MA0003.113.2337
MA0004.10.349539
MA0006.10.605586
MA0007.10.332734
MA0009.10.79061
MA0014.17.37181
MA0017.11.26613
MA0019.10.486183
MA0024.10.688373
MA0025.10.921763
MA0027.12.39404
MA0028.10.224112
MA0029.10.707146
MA0030.10.696006
MA0031.10.633489
MA0038.10.443833
MA0040.10.712837
MA0041.10.366339
MA0042.10.337481
MA0043.10.790919
MA0046.10.779945
MA0048.13.94932
MA0050.10.338274
MA0051.10.439895
MA0052.10.716602
MA0055.10.480412
MA0056.10
MA0057.10.703296
MA0058.10.265212
MA0059.14.73115
MA0060.10.38025
MA0061.10.330174
MA0063.10
MA0066.10.444231
MA0067.11.1037
MA0068.10.0758327
MA0069.10.776171
MA0070.10.765217
MA0071.10.40788
MA0072.10.760818
MA0073.10.304769
MA0074.17.53723
MA0076.10.278993
MA0077.10.753278
MA0078.10.533387
MA0081.10.26424
MA0083.10.79797
MA0084.11.28962
MA0087.10.758426
MA0088.10.10094
MA0089.10
MA0090.10.291627
MA0091.10.351901
MA0092.10.318032
MA0093.10.213288
MA0095.10
MA0098.10
MA0100.10.456802
MA0101.10.216017
MA0103.10.203171
MA0105.13.03609
MA0106.10.482519
MA0107.11.47931
MA0108.20.630531
MA0109.10
MA0111.10.303543
MA0113.10.498009
MA0114.10.908082
MA0115.11.02805
MA0116.13.64606
MA0117.10.827487
MA0119.10.250314
MA0122.10.852927
MA0124.10.98702
MA0125.10.904129
MA0130.10
MA0131.10.550695
MA0132.10
MA0133.10
MA0135.10.820382
MA0136.10.450422
MA0139.11.06363
MA0140.10.405425
MA0141.13.76281
MA0142.10.602852
MA0143.10.498176
MA0144.11.39025
MA0145.10.277793
MA0146.10.951488
MA0147.10.946858
MA0148.10.372124
MA0149.10.396509
MA0062.20.0969238
MA0035.20.404774
MA0039.20.396868
MA0138.23.34637
MA0002.20.725804
MA0137.20.229531
MA0104.21.24411
MA0047.20.47109
MA0112.21.55811
MA0065.24.50088
MA0150.10.286461
MA0151.10
MA0152.10.411494
MA0153.10.887528
MA0154.11.41082
MA0155.12.45447
MA0156.10.231442
MA0157.10.576556
MA0158.10
MA0159.10.948902
MA0160.11.0031
MA0161.10
MA0162.11.74876
MA0163.119.8522
MA0164.10.509774
MA0080.20.21336
MA0018.23.11867
MA0099.20.411824
MA0079.214.3593
MA0102.21.32663
MA0258.13.35614
MA0259.12.21305
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
CCNT2#90595.184164926605792.45776684955985e-068.68064633078056e-05
E2F1#1869104.461262922617571.10540139252827e-064.58304946543312e-05
E2F6#1876115.017155731697391.96991453050942e-081.40818551438654e-06
ETS1#211365.306596866655820.0003440581432184970.00347414564629185
GTF2F1#296255.790754943980750.0009189250417807320.00668279454345365
POLR2A#5430112.147453176558070.0002231983422387430.00248513983636163
TAF7#687955.196849729510870.001505235623027780.00961441521823733
ZBTB7A#51341117.35190930787592.94291302586626e-102.98402809231502e-08



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.