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Coexpression cluster:C1785

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Full id: C1785_Cardiac_umbilical_colon_uterus_throat_trachea_Smooth



Phase1 CAGE Peaks

Hg19::chr17:48262709..48262724,-p27@COL1A1
Hg19::chr2:189876607..189876629,+p6@AF130082
Hg19::chr2:189876978..189876985,+p21@AF130082
Hg19::chr2:189876995..189877006,+p13@AF130082
Hg19::chr2:189877092..189877097,+p20@AF130082


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:0005584collagen type I0.00341457671023196
GO:0008147structural constituent of bone0.00341457671023196
GO:0051591response to cAMP0.00443894972330154
GO:0005583fibrillar collagen0.00443894972330154
GO:0031960response to corticosteroid stimulus0.00443894972330154
GO:0009612response to mechanical stimulus0.00469504297656894
GO:0042542response to hydrogen peroxide0.00469504297656894
GO:0043434response to peptide hormone stimulus0.00469504297656894
GO:0000302response to reactive oxygen species0.00512186506534793
GO:0048545response to steroid hormone stimulus0.00597550924290592
GO:0007584response to nutrient0.00597550924290592
GO:0010035response to inorganic substance0.00597550924290592
GO:0005581collagen0.0070425644648534
GO:0031667response to nutrient levels0.0070425644648534
GO:0010033response to organic substance0.0070425644648534
GO:0009991response to extracellular stimulus0.0070425644648534
GO:0009725response to hormone stimulus0.00763258323463613
GO:0001503ossification0.00790744080264242
GO:0031214biomineral formation0.00790744080264242
GO:0046849bone remodeling0.00819498410455669
GO:0048771tissue remodeling0.00853644177557988
GO:0006979response to oxidative stress0.00853644177557989
GO:0005201extracellular matrix structural constituent0.00853644177557989
GO:0044420extracellular matrix part0.00853644177557989
GO:0007605sensory perception of sound0.00853644177557989
GO:0050954sensory perception of mechanical stimulus0.00853644177557989
GO:0008544epidermis development0.00853644177557989
GO:0006817phosphate transport0.00859531378782526
GO:0007398ectoderm development0.00859531378782526
GO:0009628response to abiotic stimulus0.00939008595313787
GO:0001501skeletal development0.0115104279425561
GO:0015698inorganic anion transport0.0138717178853173
GO:0009888tissue development0.0157794832821325
GO:0006820anion transport0.0162192393736018
GO:0005578proteinaceous extracellular matrix0.0205362399286807
GO:0009719response to endogenous stimulus0.0250876538848987
GO:0042221response to chemical stimulus0.0271781848963057
GO:0009605response to external stimulus0.0284398297049582
GO:0044421extracellular region part0.0398367282860395
GO:0007600sensory perception0.0405480984340045
GO:0048513organ development0.0475125856874959
GO:0006950response to stress0.0496739611893268



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
muscle cell4.50e-0755
contractile cell6.33e-0759
Uber Anatomy
Ontology termp-valuen
skeletal muscle tissue2.39e-0762
striated muscle tissue2.39e-0762
myotome2.39e-0762
muscle tissue6.29e-0764
musculature6.29e-0764
musculature of body6.29e-0764
intestine7.38e-0717
mesenchyme9.40e-07160
entire embryonic mesenchyme9.40e-07160


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)
MA0003.10.00991994
MA0004.10.626788
MA0006.10.452993
MA0007.10.606704
MA0009.11.11255
MA0014.10.0418333
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
MA0042.10.612397
MA0043.11.11288
MA0046.11.10134
MA0048.10.195817
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
MA0061.10.291022
MA0063.10
MA0066.10.736721
MA0067.11.43651
MA0068.10.247962
MA0069.11.09737
MA0070.11.08584
MA0071.10.695094
MA0072.11.0812
MA0073.10.0140295
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
MA0092.10.588959
MA0093.10.456342
MA0095.10
MA0098.10
MA0100.10.750974
MA0101.10.459973
MA0103.10.442769
MA0105.10.175503
MA0106.10.779931
MA0107.10.378225
MA0108.20.94238
MA0109.10
MA0111.10.5713
MA0113.10.797251
MA0114.10.372523
MA0115.11.35895
MA0116.10.382106
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
MA0144.11.67417
MA0145.10.143698
MA0146.10.0359558
MA0147.10.386018
MA0148.10.653474
MA0149.10.681935
MA0062.20.284987
MA0035.20.691506
MA0039.20.0118463
MA0138.20.837782
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
MA0154.10.172764
MA0155.10.130813
MA0156.10.480289
MA0157.10.883854
MA0158.10
MA0159.10.386729
MA0160.10.669748
MA0161.10
MA0162.10.0592265
MA0163.10.0439995
MA0164.10.810347
MA0080.20.456437
MA0018.20.781393
MA0099.20.699641
MA0079.23.83292e-05
MA0102.21.66336
MA0258.10.345771
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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