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{{Coexpression_clusters
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00934383,MA0074.1;0.421793,MA0076.1;0.0525452,MA0077.1;0.364942,MA0078.1;0.197204,MA0081.1;0.176635,MA0083.1;0.40206,MA0084.1;0.847335,MA0087.1;0.369175,MA0088.1;0.0677455,MA0089.1;0,MA0090.1;1.22013,MA0091.1;1.51788,MA0092.1;0.525602,MA0093.1;0.838049,MA0095.1;0,MA0098.1;0,MA0100.1;0.146599,MA0101.1;0.121552,MA0103.1;0.263087,MA0105.1;0.0358691,MA0106.1;0.949623,MA0107.1;0.0650129,MA0108.2;0.267801,MA0109.1;0,MA0111.1;0.845209,MA0113.1;0.173209,MA0114.1;0.327715,MA0115.1;0.603788,MA0116.1;0.0672762,MA0117.1;0.427006,MA0119.1;0.654601,MA0122.1;0.44876,MA0124.1;1.39112,MA0125.1;0.493194,MA0130.1;0,MA0131.1;0.2093,MA0132.1;0,MA0133.1;0,MA0135.1;0.420972,MA0136.1;0.439289,MA0139.1;0.150363,MA0140.1;0.115685,MA0141.1;0.393986,MA0142.1;0.690612,MA0143.1;0.173319,MA0144.1;0.144799,MA0145.1;0.00552415,MA0146.1;0.054037,MA0147.1;0.892487,MA0148.1;0.321092,MA0149.1;0.110599,MA0062.2;0.004042,MA0035.2;0.11531,MA0039.2;0.00714428,MA0138.2;0.198014,MA0002.2;0.0316769,MA0137.2;0.136268,MA0104.2;0.620363,MA0047.2;0.471915,MA0112.2;0.481538,MA0065.2;0.163186,MA0150.1;0.44969,MA0151.1;0,MA0152.1;0.379376,MA0153.1;0.478697,MA0154.1;0.0764611,MA0155.1;0.0659219,MA0156.1;0.323801,MA0157.1;0.227782,MA0158.1;0,MA0159.1;0.597825,MA0160.1;0.104733,MA0161.1;0,MA0162.1;0.00415725,MA0163.1;0.00338151,MA0164.1;0.534334,MA0080.2;0.284607,MA0018.2;0.163878,MA0099.2;0.119388,MA0079.2;0.103268,MA0102.2;0.88257,MA0258.1;0.272176,MA0259.1;0.933859,MA0442.1;0}}
|full_id=C347_carcinoid_retinoblastoma_neuroblastoma_Mast_Smooth_parietal_Fibroblast
|id=C347
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0007023!2.47e-25!115;UBERON:0001017!7.03e-24!82;UBERON:0000073!3.97e-23!94;UBERON:0001016!3.97e-23!94;UBERON:0005743!4.71e-23!86;UBERON:0001049!8.17e-23!57;UBERON:0005068!8.17e-23!57;UBERON:0006241!8.17e-23!57;UBERON:0007135!8.17e-23!57;UBERON:0003080!1.33e-21!42;UBERON:0002780!1.60e-21!41;UBERON:0001890!1.60e-21!41;UBERON:0006240!1.60e-21!41;UBERON:0002616!9.37e-21!59;UBERON:0000955!1.13e-20!69;UBERON:0006238!1.13e-20!69;UBERON:0002020!1.11e-18!34;UBERON:0003528!1.11e-18!34;UBERON:0001893!1.75e-18!34;UBERON:0001869!5.76e-18!32;UBERON:0002791!6.76e-18!33;UBERON:0002346!6.01e-17!90;UBERON:0003075!1.61e-16!86;UBERON:0007284!1.61e-16!86;UBERON:0002619!2.00e-14!22;UBERON:0000956!2.60e-14!25;UBERON:0000203!2.60e-14!25;UBERON:0003056!2.66e-14!61;UBERON:0001950!3.35e-13!20;UBERON:0000924!6.56e-12!173;UBERON:0006601!6.56e-12!173;UBERON:0004121!1.90e-11!169;UBERON:0000153!8.99e-11!129;UBERON:0007811!8.99e-11!129;UBERON:0000033!3.62e-10!123
}}

Latest revision as of 11:20, 17 September 2013


Full id: C347_carcinoid_retinoblastoma_neuroblastoma_Mast_Smooth_parietal_Fibroblast



Phase1 CAGE Peaks

Hg19::chr12:54785226..54785254,+p@chr12:54785226..54785254
+
Hg19::chr14:101543984..101544000,-p1@ENST00000448840
Hg19::chr19:39402846..39402860,-p2@LOC643669
Hg19::chr19:39402882..39402892,-p3@LOC643669
Hg19::chr19:48876344..48876351,+p@chr19:48876344..48876351
+
Hg19::chr2:15473961..15473965,-p@chr2:15473961..15473965
-
Hg19::chr2:15475295..15475299,-p@chr2:15475295..15475299
-
Hg19::chr2:15500451..15500455,-p@chr2:15500451..15500455
-
Hg19::chr2:15532443..15532446,-p@chr2:15532443..15532446
-
Hg19::chr2:15541260..15541264,-p@chr2:15541260..15541264
-
Hg19::chr2:15603910..15603913,-p@chr2:15603910..15603913
-
Hg19::chr2:15701422..15701473,-p1@NBAS
Hg19::chr2:15702269..15702273,+p@chr2:15702269..15702273
+
Hg19::chr2:15737546..15737570,-p@chr2:15737546..15737570
-
Hg19::chr2:15753167..15753197,+p@chr2:15753167..15753197
+
Hg19::chr2:15753227..15753238,+p@chr2:15753227..15753238
+
Hg19::chr2:15753319..15753328,+p@chr2:15753319..15753328
+
Hg19::chr2:16220969..16220973,+p@chr2:16220969..16220973
+
Hg19::chr2:16234420..16234421,-p@chr2:16234420..16234421
-
Hg19::chr2:16263512..16263529,+p@chr2:16263512..16263529
+
Hg19::chr2:16406083..16406088,+p@chr2:16406083..16406088
+
Hg19::chr2:16526810..16526812,-p@chr2:16526810..16526812
-
Hg19::chr2:3681021..3681026,+p@chr2:3681021..3681026
+
Hg19::chr6:169003803..169003812,+p@chr6:169003803..169003812
+
Hg19::chr7:105779651..105779654,+p@chr7:105779651..105779654
+
Hg19::chr7:1327587..1327610,+p@chr7:1327587..1327610
+
Hg19::chr7:1327611..1327629,+p@chr7:1327611..1327629
+
Hg19::chr9:111511810..111511812,-p@chr9:111511810..111511812
-
Hg19::chr9:111580176..111580180,-p@chr9:111580176..111580180
-
Hg19::chr9:111605395..111605408,-p@chr9:111605395..111605408
-
Hg19::chrX:44085038..44085051,-p5@EFHC2
Hg19::chrX:50024304..50024331,+p@chrX:50024304..50024331
+


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><br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
postcentral gyrus4.61e-261
caudate nucleus1.21e-132
future caudate nucleus1.21e-132
nervous system8.55e-1089
medulla oblongata1.41e-093
myelencephalon1.41e-093
future myelencephalon1.41e-093
caudate-putamen1.54e-093
dorsal striatum1.54e-093
frontal cortex1.81e-093
brain4.45e-0968
future brain4.45e-0968
regional part of nervous system9.77e-0853
regional part of brain9.77e-0853
central nervous system1.11e-0781
neural plate1.11e-0782
presumptive neural plate1.11e-0782
corpus striatum1.80e-074
striatum1.80e-074
ventral part of telencephalon1.80e-074
future corpus striatum1.80e-074
regional part of telencephalon2.17e-0732
cerebral hemisphere2.17e-0732
neural tube2.39e-0756
neural rod2.39e-0756
future spinal cord2.39e-0756
neural keel2.39e-0756
neurectoderm2.46e-0786
brain grey matter5.30e-0734
gray matter5.30e-0734
telencephalon5.30e-0734
pre-chordal neural plate8.39e-0761


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)
MA0003.10.0020467
MA0004.10.288849
MA0006.10.279119
MA0007.10.0768943
MA0009.10.395891
MA0014.10.00669098
MA0017.10.152238
MA0019.10.959468
MA0024.10.312615
MA0025.10.508683
MA0027.11.93196
MA0028.10.032054
MA0029.10.873668
MA0030.10.318663
MA0031.10.270046
MA0038.10.429002
MA0040.10.332103
MA0041.11.07631
MA0042.10.573458
MA0043.10.39615
MA0046.10.386991
MA0048.10.110797
MA0050.10.273123
MA0051.10.422881
MA0052.10.335128
MA0055.10.653817
MA0056.10
MA0057.10.185206
MA0058.11.09049
MA0059.11.53355
MA0060.10.0369498
MA0061.10.0254374
MA0063.10
MA0066.10.138793
MA0067.10.673046
MA0068.13.85143
MA0069.10.383853
MA0070.10.374777
MA0071.10.373925
MA0072.10.371146
MA0073.10.000934383
MA0074.10.421793
MA0076.10.0525452
MA0077.10.364942
MA0078.10.197204
MA0081.10.176635
MA0083.10.40206
MA0084.10.847335
MA0087.10.369175
MA0088.10.0677455
MA0089.10
MA0090.11.22013
MA0091.11.51788
MA0092.10.525602
MA0093.10.838049
MA0095.10
MA0098.10
MA0100.10.146599
MA0101.10.121552
MA0103.10.263087
MA0105.10.0358691
MA0106.10.949623
MA0107.10.0650129
MA0108.20.267801
MA0109.10
MA0111.10.845209
MA0113.10.173209
MA0114.10.327715
MA0115.10.603788
MA0116.10.0672762
MA0117.10.427006
MA0119.10.654601
MA0122.10.44876
MA0124.11.39112
MA0125.10.493194
MA0130.10
MA0131.10.2093
MA0132.10
MA0133.10
MA0135.10.420972
MA0136.10.439289
MA0139.10.150363
MA0140.10.115685
MA0141.10.393986
MA0142.10.690612
MA0143.10.173319
MA0144.10.144799
MA0145.10.00552415
MA0146.10.054037
MA0147.10.892487
MA0148.10.321092
MA0149.10.110599
MA0062.20.004042
MA0035.20.11531
MA0039.20.00714428
MA0138.20.198014
MA0002.20.0316769
MA0137.20.136268
MA0104.20.620363
MA0047.20.471915
MA0112.20.481538
MA0065.20.163186
MA0150.10.44969
MA0151.10
MA0152.10.379376
MA0153.10.478697
MA0154.10.0764611
MA0155.10.0659219
MA0156.10.323801
MA0157.10.227782
MA0158.10
MA0159.10.597825
MA0160.10.104733
MA0161.10
MA0162.10.00415725
MA0163.10.00338151
MA0164.10.534334
MA0080.20.284607
MA0018.20.163878
MA0099.20.119388
MA0079.20.103268
MA0102.20.88257
MA0258.10.272176
MA0259.10.933859
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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