Personal tools

Coexpression cluster:C3452

From FANTOM5_SSTAR

Jump to: navigation, search


Full id: C3452_Mammary_Keratinocyte_salivary_Bronchial_Small_Prostate_Placental



Phase1 CAGE Peaks

Hg19::chr14:75034880..75034927,-p@chr14:75034880..75034927
-
Hg19::chr14:75035094..75035113,-p@chr14:75035094..75035113
-
Hg19::chr14:75035178..75035211,-p@chr14:75035178..75035211
-


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
endo-epithelial cell3.04e-2742
respiratory epithelial cell1.57e-1913
general ecto-epithelial cell7.33e-1914
endodermal cell2.83e-1858
acinar cell2.40e-175
epithelial cell of alimentary canal4.72e-1520
epithelial cell1.91e-14253
protein secreting cell2.13e-146
extraembryonic cell3.46e-1219
gingival epithelial cell3.73e-113
acinar cell of salivary gland3.86e-113
bronchial epithelial cell6.40e-113
chorionic membrane mesenchymal stem cell1.09e-103
epidermal cell7.93e-109
stratified squamous epithelial cell9.92e-106
keratin accumulating cell9.92e-106
stratified epithelial cell9.92e-106
keratinizing barrier epithelial cell9.92e-106
epithelial fate stem cell9.92e-106
stratified epithelial stem cell9.92e-106
surface ectodermal cell9.92e-106
glandular epithelial cell1.79e-099
epithelial cell of tracheobronchial tree1.99e-099
epithelial cell of lower respiratory tract1.99e-099
mammary gland epithelial cell9.31e-094
ecto-epithelial cell3.47e-0834
sebum secreting cell6.50e-082
epithelial cell of sweat gland6.50e-082
epithelial cell of skin gland6.50e-082
acinar cell of sebaceous gland6.50e-082
corneal epithelial cell1.04e-072
amniotic epithelial cell2.71e-072
squamous epithelial cell2.86e-0763
keratinocyte3.21e-075
Uber Anatomy
Ontology termp-valuen
extraembryonic membrane3.61e-1714
membranous layer3.61e-1714
chorion1.80e-167
respiratory system1.37e-1174
extraembryonic structure2.00e-1124
gingival epithelium3.73e-113
lower respiratory tract epithelium6.40e-113
epithelium of bronchus6.40e-113
oral opening6.74e-1122
acellular anatomical structure1.09e-103
egg chorion1.09e-103
surface structure6.35e-1099
mouth1.15e-0929
stomodeum1.15e-0929
saliva-secreting gland2.34e-096
gland of oral region2.34e-096
gland of foregut2.34e-096
oral gland2.34e-096
oral cavity2.34e-096
endoderm-derived structure3.64e-09160
endoderm3.64e-09160
presumptive endoderm3.64e-09160
orifice4.09e-0936
organ component layer8.23e-0966
mammary gland9.31e-094
mammary bud9.31e-094
mammary ridge9.31e-094
mammary placode9.31e-094
mouth mucosa1.01e-0813
head1.37e-0856
skin gland6.50e-082
epidermis gland6.50e-082
gland of integumental system6.50e-082
sebaceous gland6.50e-082
skin sebaceous gland6.50e-082
sweat gland6.50e-082
sweat gland placode6.50e-082
sebaceous gland placode6.50e-082
placenta7.13e-084
allantois7.13e-084
tracheobronchial tree1.64e-0715
lower respiratory tract1.64e-0715
anterior region of body1.84e-0762
craniocervical region1.84e-0762
exocrine gland1.87e-0731
exocrine system1.87e-0731
subdivision of head2.77e-0749


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)
MA0003.10.708947
MA0004.10.826076
MA0006.10.639288
MA0007.10.804807
MA0009.11.3275
MA0014.10.118426
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
MA0055.10.190716
MA0056.10
MA0057.10.333427
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
MA0073.10.0185922
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
MA0090.11.77664
MA0091.10.829044
MA0092.10.785956
MA0093.10.642957
MA0095.10
MA0098.10
MA0100.10.956299
MA0101.10.646932
MA0103.10.628063
MA0105.10.31555
MA0106.13.70241
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
MA0145.11.37817
MA0146.10.107247
MA0147.10.565108
MA0148.10.854239
MA0149.10.884158
MA0062.20.449458
MA0035.20.894194
MA0039.20.432958
MA0138.21.04628
MA0002.20.476938
MA0137.20.666381
MA0104.20.491226
MA0047.20.973066
MA0112.20.264678
MA0065.20.760954
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
MA0162.10.149099
MA0163.10.122425
MA0164.11.01792
MA0080.21.55139
MA0018.20.987913
MA0099.20.902716
MA0079.20.311277
MA0102.21.88331
MA0258.10.519674
MA0259.10.575594
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.