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Coexpression cluster:C4853

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Full id: C4853_Renal_aorta_Mesenchymal_pituitary_Smooth_Fibroblast_mesothelioma



Phase1 CAGE Peaks

  Short description
Hg19::chrX:140270547..140270568,- p4@LDOC1
Hg19::chrX:140270647..140270745,- p3@LDOC1
Hg19::chrX:140271249..140271333,- p1@LDOC1


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
cell layer4.48e-31309
epithelium7.69e-31306
anatomical cluster1.62e-28373
multi-tissue structure1.96e-25342
anatomical conduit2.43e-25240
tube2.42e-23192
structure with developmental contribution from neural crest7.60e-21132
neural plate3.20e-2082
presumptive neural plate3.20e-2082
ecto-epithelium5.34e-20104
neural tube7.60e-1956
neural rod7.60e-1956
future spinal cord7.60e-1956
neural keel7.60e-1956
neurectoderm9.70e-1986
regional part of nervous system1.32e-1853
regional part of brain1.32e-1853
central nervous system1.89e-1781
ectoderm-derived structure5.38e-17171
ectoderm5.38e-17171
presumptive ectoderm5.38e-17171
brain5.80e-1768
future brain5.80e-1768
pre-chordal neural plate1.43e-1661
regional part of forebrain1.31e-1541
forebrain1.31e-1541
anterior neural tube1.31e-1541
future forebrain1.31e-1541
nervous system3.63e-1589
multi-cellular organism1.29e-14656
epithelial vesicle4.07e-1478
anatomical group7.24e-14625
anatomical system7.65e-14624
vasculature9.48e-1478
vascular system9.48e-1478
organ part2.17e-13218
telencephalon3.81e-1334
epithelial tube open at both ends4.65e-1359
blood vessel4.65e-1359
blood vasculature4.65e-1359
vascular cord4.65e-1359
brain grey matter7.62e-1334
gray matter7.62e-1334
splanchnic layer of lateral plate mesoderm1.55e-1283
cerebral hemisphere1.68e-1232
developing anatomical structure1.94e-12581
regional part of telencephalon2.37e-1232
artery4.10e-1242
arterial blood vessel4.10e-1242
arterial system4.10e-1242
vessel4.20e-1268
dense mesenchyme tissue4.62e-1273
paraxial mesoderm6.29e-1272
presumptive paraxial mesoderm6.29e-1272
somite1.71e-1171
presomitic mesoderm1.71e-1171
presumptive segmental plate1.71e-1171
dermomyotome1.71e-1171
trunk paraxial mesoderm1.71e-1171
multilaminar epithelium3.68e-1183
embryo4.09e-11592
embryonic structure4.38e-11564
germ layer5.35e-11560
germ layer / neural crest5.35e-11560
embryonic tissue5.35e-11560
presumptive structure5.35e-11560
germ layer / neural crest derived structure5.35e-11560
epiblast (generic)5.35e-11560
regional part of cerebral cortex7.17e-1122
skeletal muscle tissue1.57e-1062
striated muscle tissue1.57e-1062
myotome1.57e-1062
mesenchyme1.77e-10160
entire embryonic mesenchyme1.77e-10160
organism subdivision2.68e-10264
muscle tissue2.85e-1064
musculature2.85e-1064
musculature of body2.85e-1064
cerebral cortex3.16e-1025
pallium3.16e-1025
neocortex3.69e-1020
epithelial tube7.34e-10117
systemic artery1.73e-0933
systemic arterial system1.73e-0933
trunk mesenchyme3.15e-09122
trunk9.33e-09199
organ system subdivision2.35e-08223


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)
MA0003.11.0927
MA0004.10.826076
MA0006.10.639288
MA0007.10.804807
MA0009.11.3275
MA0014.11.80735
MA0017.10.686276
MA0019.10.990656
MA0024.11.21731
MA0025.11.46617
MA0027.12.95767
MA0028.10.658629
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
MA0048.10.341392
MA0050.10.81185
MA0051.10.936307
MA0052.11.24796
MA0055.10.557638
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
MA0073.12.78116
MA0074.10.935474
MA0076.10.734647
MA0077.11.28751
MA0078.11.04495
MA0081.10.714712
MA0083.11.33535
MA0084.11.84562
MA0087.11.29304
MA0088.11.31954
MA0089.10
MA0090.10.751469
MA0091.10.829044
MA0092.10.785956
MA0093.10.642957
MA0095.10
MA0098.10
MA0100.10.956299
MA0101.11.55947
MA0103.10.628063
MA0105.10.846801
MA0106.10.986396
MA0107.10.556367
MA0108.21.15387
MA0109.10
MA0111.10.767139
MA0113.11.00436
MA0114.11.35563
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
MA0144.12.26598
MA0145.10.273764
MA0146.11.16674
MA0147.10.565108
MA0148.10.854239
MA0149.10.884158
MA0062.20.449458
MA0035.20.894194
MA0039.22.74132
MA0138.21.04628
MA0002.20.476938
MA0137.20.666381
MA0104.20.491226
MA0047.20.973066
MA0112.20.264678
MA0065.21.39232
MA0150.10.744617
MA0151.10
MA0152.10.902317
MA0153.11.43021
MA0154.10.312019
MA0155.12.02721
MA0156.10.669101
MA0157.11.09377
MA0158.10
MA0159.10.565904
MA0160.10.871361
MA0161.10
MA0162.10.8915
MA0163.15.63764
MA0164.11.01792
MA0080.20.643061
MA0018.20.987913
MA0099.20.902716
MA0079.24.10519
MA0102.21.88331
MA0258.10.519674
MA0259.11.40979
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.