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{{Coexpression_clusters
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442008,MA0146.1;0.6031,MA0147.1;0.386018,MA0148.1;0.653474,MA0149.1;0.681935,MA0062.2;0.284987,MA0035.2;0.691506,MA0039.2;0.311551,MA0138.2;0.837782,MA0002.2;1.50443,MA0137.2;0.47779,MA0104.2;0.320919,MA0047.2;0.767096,MA0112.2;0.136971,MA0065.2;0.880827,MA0150.1;3.41602,MA0151.1;0,MA0152.1;0.69926,MA0153.1;1.21379,MA0154.1;0.172764,MA0155.1;0.130813,MA0156.1;0.480289,MA0157.1;0.883854,MA0158.1;0,MA0159.1;0.386729,MA0160.1;0.669748,MA0161.1;0,MA0162.1;0.0592265,MA0163.1;1.05321,MA0164.1;0.810347,MA0080.2;1.15604,MA0018.2;0.781393,MA0099.2;1.66926,MA0079.2;0.0198381,MA0102.2;1.66336,MA0258.1;0.914277,MA0259.1;0.395396,MA0442.1;0}}
|full_id=C1746_kidney_renal_Renal_mesothelioma_endometrial_Preadipocyte_Astrocyte
|gostat_on_coexpression_clusters=GO:0016323!basolateral plasma membrane!0.0200164841634287!84465
|id=C1746
}}

Latest revision as of 11:51, 17 September 2013


Full id: C1746_kidney_renal_Renal_mesothelioma_endometrial_Preadipocyte_Astrocyte



Phase1 CAGE Peaks

Hg19::chr15:66420804..66420837,-p4@MEGF11
Hg19::chr9:133986709..133986719,+p13@AIF1L
Hg19::chr9:133986740..133986750,+p7@AIF1L
Hg19::chr9:133986782..133986794,+p4@AIF1L
Hg19::chr9:133986807..133986821,+p3@AIF1L


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:0016323basolateral plasma membrane0.0200164841634287



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
kidney tubule cell4.32e-6910
nephron tubule epithelial cell4.32e-6910
kidney cell1.90e-4817
kidney epithelial cell1.90e-4817
epithelial cell of nephron1.55e-4515
kidney cortical cell2.96e-2812
renal cortical epithelial cell2.96e-2812
oligodendrocyte4.91e-247
macroglial cell4.91e-247
astrocyte4.91e-247
oligodendrocyte precursor cell4.91e-247
brush border epithelial cell2.30e-223
kidney cortex tubule cell2.30e-223
epithelial cell of proximal tubule2.30e-223
astrocyte of the cerebral cortex4.11e-213
mesangial cell3.61e-152
kidney interstitial cell3.61e-152
juxtaglomerular complex cell3.61e-152
renal interstitial pericyte3.61e-152
extraglomerular mesangial cell3.61e-152
neural cell1.63e-1125
astrocyte of the cerebellum7.13e-103
glial cell (sensu Vertebrata)8.08e-1015
glial cell8.08e-1015
glioblast8.08e-1015
glioblast (sensu Vertebrata)8.08e-1015
neuron associated cell9.15e-0917
neuron associated cell (sensu Vertebrata)9.15e-0917
pericyte cell5.08e-084
serous secreting cell5.82e-081
Uber Anatomy
Ontology termp-valuen
nephron tubule epithelium4.32e-6910
nephron epithelium1.55e-4515
renal tubule1.55e-4515
nephron tubule1.55e-4515
nephron1.55e-4515
uriniferous tubule1.55e-4515
nephrogenic mesenchyme1.55e-4515
kidney9.47e-4426
kidney mesenchyme9.47e-4426
upper urinary tract9.47e-4426
kidney rudiment9.47e-4426
kidney field9.47e-4426
excretory tube1.37e-4216
kidney epithelium1.37e-4216
cavitated compound organ2.66e-3631
cortex of kidney2.96e-2812
renal parenchyma2.96e-2812
urinary system structure4.19e-2347
renal system1.43e-2248
cortex1.89e-2215
parenchyma1.89e-2215
renal cortex tubule2.30e-223
region of nephron tubule2.30e-223
proximal tubule2.30e-223
abdomen element8.70e-2054
abdominal segment element8.70e-2054
abdominal segment of trunk1.47e-1760
abdomen1.47e-1760
compound organ3.36e-1568
abdomen connective tissue3.61e-152
abdominal segment connective tissue3.61e-152
trunk connective tissue3.61e-152
interstitial tissue3.61e-152
extraglomerular mesangium3.61e-152
kidney interstitium3.61e-152
juxtaglomerular apparatus3.61e-152
mesangium3.61e-152
trunk region element2.00e-09101
subdivision of trunk2.93e-08112
stroma5.08e-084
epithelium of female gonad5.82e-081
corpus callosum7.16e-081
central nervous system cell part cluster7.16e-081
axon tract7.16e-081
intercerebral commissure7.16e-081
dorsal telencephalic commissure7.16e-081
brain white matter7.16e-081
brain commissure7.16e-081
white matter7.16e-081
nervous system commissure7.16e-081
cerebral hemisphere white matter7.16e-081
Disease
Ontology termp-valuen
ovary epithelial cancer5.82e-081


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)
MA0003.10.280184
MA0004.10.626788
MA0006.10.452993
MA0007.10.606704
MA0009.11.11255
MA0014.10.0418333
MA0017.12.14806
MA0019.13.07324
MA0024.11.00439
MA0025.11.24931
MA0027.12.73598
MA0028.10.470679
MA0029.11.02437
MA0030.11.01252
MA0031.10.945567
MA0038.10.736268
MA0040.11.03042
MA0041.10.64667
MA0042.10.612397
MA0043.11.11288
MA0046.11.10134
MA0048.11.08193
MA0050.10.613347
MA0051.10.731787
MA0052.11.03442
MA0055.10.0853006
MA0056.10
MA0057.10.189508
MA0058.10.523638
MA0059.10.522232
MA0060.10.321781
MA0061.13.99021
MA0063.10
MA0066.10.736721
MA0067.11.43651
MA0068.10.247962
MA0069.11.09737
MA0070.11.08584
MA0071.10.695094
MA0072.11.0812
MA0073.10.215829
MA0074.11.73427
MA0076.10.540943
MA0077.11.07324
MA0078.10.836493
MA0081.10.522409
MA0083.11.12028
MA0084.11.62584
MA0087.11.07867
MA0088.10.132006
MA0089.10
MA0090.15.90569
MA0091.10.629594
MA0092.10.588959
MA0093.10.456342
MA0095.10
MA0098.10
MA0100.10.750974
MA0101.10.459973
MA0103.10.442769
MA0105.13.01153
MA0106.10.779931
MA0107.10.378225
MA0108.20.94238
MA0109.10
MA0111.10.5713
MA0113.10.797251
MA0114.10.372523
MA0115.11.35895
MA0116.12.64838
MA0117.11.1512
MA0119.10.504689
MA0122.11.17777
MA0124.11.31673
MA0125.11.23103
MA0130.10
MA0131.10.855546
MA0132.10
MA0133.10
MA0135.11.14377
MA0136.10.743749
MA0139.11.39016
MA0140.10.692258
MA0141.10.520334
MA0142.10.912455
MA0143.10.797437
MA0144.10.356507
MA0145.10.442008
MA0146.10.6031
MA0147.10.386018
MA0148.10.653474
MA0149.10.681935
MA0062.20.284987
MA0035.20.691506
MA0039.20.311551
MA0138.20.837782
MA0002.21.50443
MA0137.20.47779
MA0104.20.320919
MA0047.20.767096
MA0112.20.136971
MA0065.20.880827
MA0150.13.41602
MA0151.10
MA0152.10.69926
MA0153.11.21379
MA0154.10.172764
MA0155.10.130813
MA0156.10.480289
MA0157.10.883854
MA0158.10
MA0159.10.386729
MA0160.10.669748
MA0161.10
MA0162.10.0592265
MA0163.11.05321
MA0164.10.810347
MA0080.21.15604
MA0018.20.781393
MA0099.21.66926
MA0079.20.0198381
MA0102.21.66336
MA0258.10.914277
MA0259.10.395396
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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