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Coexpression cluster:C417

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Full id: C417_HES3GFP_iPS_teratocarcinoma_H9_testicular_prostate_cerebellum



Phase1 CAGE Peaks

Hg19::chr12:98954543..98954552,-p@chr12:98954543..98954552
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Hg19::chr13:54908893..54908895,+p@chr13:54908893..54908895
+
Hg19::chr15:89537331..89537336,+p@chr15:89537331..89537336
+
Hg19::chr1:232362379..232362384,+p@chr1:232362379..232362384
+
Hg19::chr1:83313885..83313893,-p@chr1:83313885..83313893
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Hg19::chr3:32907334..32907339,+p@chr3:32907334..32907339
+
Hg19::chr3:62936098..62936110,+p1@ENST00000475886
Hg19::chr4:62615896..62615901,-p@chr4:62615896..62615901
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Hg19::chr4:93555912..93555916,+p@chr4:93555912..93555916
+
Hg19::chr4:93568059..93568069,+p@chr4:93568059..93568069
+
Hg19::chr4:93600137..93600143,+p@chr4:93600137..93600143
+
Hg19::chr5:147055054..147055055,+p@chr5:147055054..147055055
+
Hg19::chr5:165501125..165501130,-p@chr5:165501125..165501130
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Hg19::chr5:176069923..176069930,+p4@EIF4E1B
Hg19::chr5:2750472..2750474,+p@chr5:2750472..2750474
+
Hg19::chr9:133826616..133826622,+p@chr9:133826616..133826622
+
Hg19::chr9:79633656..79633659,+p1@FOXB2
Hg19::chrX:113179768..113179772,-p@chrX:113179768..113179772
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Hg19::chrX:113761667..113761672,-p@chrX:113761667..113761672
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Hg19::chrX:113815390..113815394,-p@chrX:113815390..113815394
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Hg19::chrX:121373039..121373041,+p@chrX:121373039..121373041
+
Hg19::chrX:16141567..16141572,+p4@GRPR
Hg19::chrX:16141711..16141725,+p2@GRPR
Hg19::chrX:97971560..97971561,+p@chrX:97971560..97971561
+
Hg19::chrX:98051581..98051584,+p@chrX:98051581..98051584
+


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

GO IDGO nameFDR corrected p-value
GO:0004946bombesin receptor activity0.0131867484523018
GO:0008188neuropeptide receptor activity0.048687554451759
GO:0042923neuropeptide binding0.048687554451759
GO:0006413translational initiation0.048687554451759
GO:0003743translation initiation factor activity0.048687554451759
GO:0022618protein-RNA complex assembly0.048687554451759
GO:0030594neurotransmitter receptor activity0.048687554451759
GO:0042165neurotransmitter binding0.048687554451759
GO:0001653peptide receptor activity0.048687554451759
GO:0008528peptide receptor activity, G-protein coupled0.048687554451759



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>disease_data<br>

Cell Type
Ontology termp-valuen
embryonic stem cell1.57e-815
neuron9.27e-266
neuroblast9.27e-266
electrically signaling cell9.27e-266
neuronal stem cell1.66e-198
melanocyte2.12e-1510
melanoblast2.12e-1510
pigment cell3.48e-1114
germ line cell3.11e-107
germ cell3.11e-107
neurectodermal cell1.30e-0959
neurecto-epithelial cell5.29e-0820
ectodermal cell7.02e-0872
Uber Anatomy
Ontology termp-valuen
testis4.54e-098
male reproductive organ7.82e-0711
Disease
Ontology termp-valuen
germ cell and embryonal cancer2.58e-0722
germ cell cancer2.58e-0722


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)
MA0003.11.71169e-05
MA0004.10.409228
MA0006.10.0525289
MA0007.10.120068
MA0009.10.480543
MA0014.10.00104451
MA0017.10.0687354
MA0019.10.227177
MA0024.10.391254
MA0025.10.599238
MA0027.12.03861
MA0028.10.0589063
MA0029.10.407394
MA0030.10.397801
MA0031.10.912186
MA0038.11.7022
MA0040.10.412311
MA0041.10.860371
MA0042.11.2704
MA0043.10.480818
MA0046.11.18753
MA0048.10.128228
MA0050.10.781212
MA0051.10.562815
MA0052.10.41557
MA0055.10.440389
MA0056.10
MA0057.10.378103
MA0058.10.0802423
MA0059.10.0796335
MA0060.10.079013
MA0061.10.0591371
MA0063.10
MA0066.10.570377
MA0067.10.769322
MA0068.11.9788
MA0069.10.467738
MA0070.10.458064
MA0071.10.170069
MA0072.10.454189
MA0073.11.52238
MA0074.11.06825
MA0076.10.0879186
MA0077.10.44756
MA0078.10.72884
MA0081.10.27336
MA0083.11.22186
MA0084.10.947429
MA0087.10.452083
MA0088.10.0983632
MA0089.10
MA0090.10.0951695
MA0091.10.132307
MA0092.10.357807
MA0093.10.198309
MA0095.10
MA0098.10
MA0100.10.205224
MA0101.10.0550002
MA0103.10.184112
MA0105.10.00176673
MA0106.10.224407
MA0107.10.0298601
MA0108.20.342362
MA0109.10
MA0111.10.102187
MA0113.10.236174
MA0114.10.118114
MA0115.10.697973
MA0116.10.126338
MA0117.10.513502
MA0119.10.537943
MA0122.10.53644
MA0124.10.659634
MA0125.10.583056
MA0130.10
MA0131.10.277285
MA0132.10
MA0133.10
MA0135.11.26465
MA0136.10.200538
MA0139.10.285737
MA0140.10.168354
MA0141.10.270862
MA0142.11.54345
MA0143.10.665621
MA0144.10.104952
MA0145.10.00568815
MA0146.10.000129083
MA0147.10.129769
MA0148.10.446835
MA0149.10.162171
MA0062.20.0113502
MA0035.20.167901
MA0039.20.0064561
MA0138.20.264522
MA0002.20.182759
MA0137.20.0615777
MA0104.20.0784157
MA0047.20.617535
MA0112.20.00476632
MA0065.20.0605685
MA0150.10.636869
MA0151.10
MA0152.10.988857
MA0153.12.38364
MA0154.10.0381572
MA0155.10.016004
MA0156.10.224407
MA0157.10.807311
MA0158.10
MA0159.10.0320844
MA0160.10.154993
MA0161.10
MA0162.10.00361818
MA0163.10.136492
MA0164.10.245213
MA0080.20.19841
MA0018.20.225392
MA0099.20.172833
MA0079.20.0205303
MA0102.20.983247
MA0258.10.0965466
MA0259.10.0344451
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.

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