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{{Coexpression_clusters
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filament severing!0.0340117855475839!2934$GO:0005737!cytoplasm!0.0340117855475839!6867;2934;23263;84708$GO:0051693!actin filament capping!0.0340117855475839!2934$GO:0051016!barbed-end actin filament capping!0.0340117855475839!2934$GO:0030835!negative regulation of actin filament depolymerization!0.0340117855475839!2934$GO:0030834!regulation of actin filament depolymerization!0.0340117855475839!2934$GO:0030042!actin filament depolymerization!0.0340117855475839!2934$GO:0030041!actin filament polymerization!0.036177181378452!2934$GO:0008064!regulation of actin polymerization and/or depolymerization!0.036177181378452!2934$GO:0051261!protein depolymerization!0.036177181378452!2934$GO:0030832!regulation of actin filament length!0.036177181378452!2934$GO:0032535!regulation of cellular component size!0.036177181378452!2934$GO:0032956!regulation of actin cytoskeleton organization and biogenesis!0.036177181378452!2934$GO:0051129!negative regulation of cellular component organization and biogenesis!0.036177181378452!2934$GO:0051493!regulation of cytoskeleton organization and biogenesis!0.036177181378452!2934$GO:0033043!regulation of organelle organization and biogenesis!0.036177181378452!2934$GO:0008154!actin polymerization and/or 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|full_id=C1700_heart_adipose_mature_breast_left_smooth_vagina
|gostat_on_coexpression_clusters=GO:0051014!actin filament severing!0.0340117855475839!2934$GO:0005737!cytoplasm!0.0340117855475839!6867;2934;23263;84708$GO:0051693!actin filament capping!0.0340117855475839!2934$GO:0051016!barbed-end actin filament capping!0.0340117855475839!2934$GO:0030835!negative regulation of actin filament depolymerization!0.0340117855475839!2934$GO:0030834!regulation of actin filament depolymerization!0.0340117855475839!2934$GO:0030042!actin filament depolymerization!0.0340117855475839!2934$GO:0030041!actin filament polymerization!0.036177181378452!2934$GO:0008064!regulation of actin polymerization and/or depolymerization!0.036177181378452!2934$GO:0051261!protein depolymerization!0.036177181378452!2934$GO:0030832!regulation of actin filament length!0.036177181378452!2934$GO:0032535!regulation of cellular component size!0.036177181378452!2934$GO:0032956!regulation of actin cytoskeleton organization and biogenesis!0.036177181378452!2934$GO:0051129!negative regulation of cellular component organization and biogenesis!0.036177181378452!2934$GO:0051493!regulation of cytoskeleton organization and biogenesis!0.036177181378452!2934$GO:0033043!regulation of organelle organization and biogenesis!0.036177181378452!2934$GO:0008154!actin polymerization and/or depolymerization!0.0370810211729326!2934
|id=C1700
}}

Latest revision as of 11:50, 17 September 2013


Full id: C1700_heart_adipose_mature_breast_left_smooth_vagina



Phase1 CAGE Peaks

Hg19::chr13:113633620..113633695,+p2@MCF2L
Hg19::chr1:112903200..112903261,-p1@ENST00000427290
Hg19::chr4:54518619..54518649,-p5@LNX1
Hg19::chr8:38586068..38586128,+p3@TACC1
Hg19::chr9:124062100..124062115,+p2@GSN


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:0051014actin filament severing0.0340117855475839
GO:0005737cytoplasm0.0340117855475839
GO:0051693actin filament capping0.0340117855475839
GO:0051016barbed-end actin filament capping0.0340117855475839
GO:0030835negative regulation of actin filament depolymerization0.0340117855475839
GO:0030834regulation of actin filament depolymerization0.0340117855475839
GO:0030042actin filament depolymerization0.0340117855475839
GO:0030041actin filament polymerization0.036177181378452
GO:0008064regulation of actin polymerization and/or depolymerization0.036177181378452
GO:0051261protein depolymerization0.036177181378452
GO:0030832regulation of actin filament length0.036177181378452
GO:0032535regulation of cellular component size0.036177181378452
GO:0032956regulation of actin cytoskeleton organization and biogenesis0.036177181378452
GO:0051129negative regulation of cellular component organization and biogenesis0.036177181378452
GO:0051493regulation of cytoskeleton organization and biogenesis0.036177181378452
GO:0033043regulation of organelle organization and biogenesis0.036177181378452
GO:0008154actin polymerization and/or depolymerization0.0370810211729326



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
fat cell1.82e-0815
Uber Anatomy
Ontology termp-valuen
adult organism1.37e-83114
neural tube1.64e-2956
neural rod1.64e-2956
future spinal cord1.64e-2956
neural keel1.64e-2956
regional part of nervous system5.91e-2753
regional part of brain5.91e-2753
regional part of forebrain2.86e-2241
forebrain2.86e-2241
anterior neural tube2.86e-2241
future forebrain2.86e-2241
brain1.39e-2168
future brain1.39e-2168
neural plate2.77e-2182
presumptive neural plate2.77e-2182
central nervous system3.53e-2181
neurectoderm1.74e-1986
nervous system1.54e-1889
structure with developmental contribution from neural crest3.58e-18132
brain grey matter3.96e-1734
gray matter3.96e-1734
organ system subdivision4.06e-17223
telencephalon4.44e-1734
regional part of telencephalon1.46e-1532
ecto-epithelium2.02e-15104
anatomical cluster2.14e-15373
cerebral hemisphere2.97e-1532
multi-tissue structure1.69e-14342
anatomical conduit1.14e-13240
pre-chordal neural plate1.61e-1361
regional part of cerebral cortex1.84e-1222
ectoderm-derived structure7.81e-12171
ectoderm7.81e-12171
presumptive ectoderm7.81e-12171
organ6.15e-11503
neocortex6.35e-1120
multi-cellular organism1.98e-10656
cerebral cortex2.55e-1025
pallium2.55e-1025
tube2.36e-09192
neural nucleus5.22e-099
nucleus of brain5.22e-099
basal ganglion5.91e-099
nuclear complex of neuraxis5.91e-099
aggregate regional part of brain5.91e-099
collection of basal ganglia5.91e-099
cerebral subcortex5.91e-099
organ part6.44e-09218
posterior neural tube2.29e-0815
chordal neural plate2.29e-0815
telencephalic nucleus2.39e-077
anatomical system2.41e-07624
anatomical group2.90e-07625
brainstem4.33e-076
segmental subdivision of nervous system6.10e-0713
diencephalon7.11e-077
future diencephalon7.11e-077
compound organ7.19e-0768
embryonic structure7.91e-07564
epithelium8.31e-07306
germ layer9.78e-07560
germ layer / neural crest9.78e-07560
embryonic tissue9.78e-07560
presumptive structure9.78e-07560
germ layer / neural crest derived structure9.78e-07560
epiblast (generic)9.78e-07560


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)
MA0003.10.136928
MA0004.10.626788
MA0006.10.452993
MA0007.11.47524
MA0009.11.11255
MA0014.10.369468
MA0017.10.496101
MA0019.10.784036
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
MA0042.11.48719
MA0043.11.11288
MA0046.11.10134
MA0048.11.08193
MA0050.10.613347
MA0051.10.731787
MA0052.11.03442
MA0055.10.288856
MA0056.10
MA0057.10.189508
MA0058.10.523638
MA0059.10.522232
MA0060.10.321781
MA0061.10.791444
MA0063.10
MA0066.10.736721
MA0067.11.43651
MA0068.10.247962
MA0069.11.09737
MA0070.11.08584
MA0071.10.695094
MA0072.11.0812
MA0073.10.00220137
MA0074.10.730989
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
MA0090.10.556637
MA0091.10.629594
MA0092.11.43794
MA0093.10.456342
MA0095.10
MA0098.10
MA0100.10.750974
MA0101.10.459973
MA0103.10.442769
MA0105.11.00065
MA0106.10.779931
MA0107.10.985964
MA0108.20.94238
MA0109.10
MA0111.10.5713
MA0113.11.8711
MA0114.10.372523
MA0115.11.35895
MA0116.11.76306
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
MA0139.10.277033
MA0140.10.692258
MA0141.10.520334
MA0142.10.912455
MA0143.10.797437
MA0144.10.356507
MA0145.10.868598
MA0146.10.946108
MA0147.10.386018
MA0148.10.653474
MA0149.10.681935
MA0062.20.284987
MA0035.20.691506
MA0039.20.311551
MA0138.21.95446
MA0002.20.30855
MA0137.20.47779
MA0104.20.320919
MA0047.20.767096
MA0112.20.136971
MA0065.20.146576
MA0150.10.550239
MA0151.10
MA0152.10.69926
MA0153.11.21379
MA0154.10.98952
MA0155.10.130813
MA0156.11.20729
MA0157.10.883854
MA0158.10
MA0159.10.386729
MA0160.10.669748
MA0161.10
MA0162.10.469165
MA0163.10.0439995
MA0164.10.810347
MA0080.21.15604
MA0018.20.781393
MA0099.20.699641
MA0079.20.0442129
MA0102.21.66336
MA0258.10.345771
MA0259.11.02361
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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