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{{Coexpression_clusters
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362898,0.302133,0.40806,0.151361,0.279606,0.286696,0.150674,0.251128,0.246177,0.35674,0.35852,0.318525,0.213257,0.287217,0.122782,0.410951,0.289049,0.266974,0.125746,0.112897,0.398354,0.222091,0.205977,0.34423,0.0936726,0.343425,0.132374,0.285122,0.22741,0.203996,0.276721,0.321965,0.264707,0.450113|tfbs_overrepresentation_for_novel_motifs=2.45545,1.54039,0.581696,0.741427,0.534346,0.739643,0.821651,0.395818,1.01802,1.44778,1.68405,0.867962,1.62243,0.809319,0.532789,0.559384,1.05593,0.471262,0.356737,0.223552,0.581762,0.505745,0.731221,0.528529,0.632849,0.892087,0.849366,0.728867,0.537869,0.297585,0.682839,1.09415,1.10579,0.344471,0.49475,24.7308,0.491074,0.740899,0.463978,11.9877,0.493145,0.66492,0.183156,0.53106,2.82841,0.61613,0.822818,0.694903,0.173425,0.538016,0.90714,0.83543,0.25073,1.17354,1.33024,0.812467,0.54284,0.777235,1.46445,0.776148,2.56328,0.825354,0.393426,1.02706,0.844545,0.991076,1.42026,1.79268,1.08337,1.62905,0.650393,0.402607,0.248021,1.32819,1.6033,0.321165,0.305238,1.00941,1.08,0.62601,0.362435,1.02594,0.844168,0.399165,1.27559,2.34631,0.221873,0.291738,0.934646,1.89266,1.51507,1.24792,1.11156,0.441618,0.535192,0.456994,0.354969,1.15558,0.939507,0.272395,0.465545,1.1057,1.14983,1.05974,0.979006,0.701817,1.04326,0.805616,1.52945,0.516141,0.594299,1.14697,1.40954,0.717043,1.46636,0.489254,2.51097,0.681522,0.988625,0.444962,1.31973,0.932085,0.736652,0.856196,1.57854,1.0102,0.814847,1.11673,1.36323,2.02143,1.24863,0.68598,1.37788,0.852645,1.52813,0.774456,0.676268,0.729481,1.48509,2.34913,1.94535,1.44718,0.8167,1.15194,0.980848,0.768101,0.963351,2.1895,0.661255,0.437774,4.4462,1.00204,1.24902,0.383416,3.20105,1.65997,0.917558,0.518428,0.632914,0.600782,1.44595,1.23002,1.07918,0.604379,0.997702,0.843324,1.08488,0.820225,0.644569|tfbs_overrepresentation_jaspar=MA0003.1;2.92335,MA0004.1;0.71247,MA0006.1;0.532262,MA0007.1;0.6918,MA0009.1;1.20602,MA0014.1;3.76953,MA0017.1;0.577281,MA0019.1;0.873355,MA0024.1;1.09684,MA0025.1;1.34373,MA0027.1;2.83281,MA0028.1;3.41834,MA0029.1;1.11704,MA0030.1;1.10506,MA0031.1;1.03735,MA0038.1;0.824639,MA0040.1;1.12314,MA0041.1;0.732902,MA0042.1;0.697662,MA0043.1;1.20635,MA0046.1;1.19471,MA0048.1;2.82503,MA0050.1;0.69864,MA0051.1;0.820063,MA0052.1;1.12718,MA0055.1;2.526,MA0056.1;0,MA0057.1;0.69331,MA0058.1;0.605914,MA0059.1;0.604454,MA0060.1;0.393285,MA0061.1;0.946082,MA0063.1;0,MA0066.1;0.825101,MA0067.1;1.53181,MA0068.1;0.313194,MA0069.1;1.19071,MA0070.1;1.17908,MA0071.1;0.782546,MA0072.1;1.1744,MA0073.1;0.100363,MA0074.1;0.819248,MA0076.1;3.73908,MA0077.1;1.16637,MA0078.1;0.926725,MA0081.1;0.604638,MA0083.1;1.21381,MA0084.1;1.72172,MA0087.1;1.17185,MA0088.1;1.02755,MA0089.1;0,MA0090.1;0.640115,MA0091.1;0.715356,MA0092.1;0.673508,MA0093.1;0.535768,MA0095.1;0,MA0098.1;0,MA0100.1;0.83965,MA0101.1;1.33363,MA0103.1;0.521546,MA0105.1;0.656404,MA0106.1;0.869173,MA0107.1;0.453492,MA0108.2;1.03412,MA0109.1;0,MA0111.1;0.655276,MA0113.1;0.886811,MA0114.1;1.13665,MA0115.1;1.45393,MA0116.1;0.457606,MA0117.1;1.24497,MA0119.1;0.586221,MA0122.1;1.27173,MA0124.1;1.41151,MA0125.1;1.32534,MA0130.1;0,MA0131.1;0.94608,MA0132.1;0,MA0133.1;0,MA0135.1;1.23748,MA0136.1;0.832277,MA0139.1;0.912459,MA0140.1;0.779643,MA0141.1;0.602484,MA0142.1;1.00381,MA0143.1;0.887001,MA0144.1;0.430413,MA0145.1;0.569905,MA0146.1;2.92476,MA0147.1;0.46175,MA0148.1;0.739888,MA0149.1;0.769072,MA0062.2;5.55273,MA0035.2;0.778873,MA0039.2;1.13403,MA0138.2;0.928035,MA0002.2;0.379056,MA0137.2;0.558189,MA0104.2;0.392359,MA0047.2;0.856092,MA0112.2;1.05083,MA0065.2;0.199162,MA0150.1;0.633493,MA0151.1;0,MA0152.1;0.78681,MA0153.1;1.30799,MA0154.1;0.229241,MA0155.1;1.02191,MA0156.1;3.46273,MA0157.1;0.97481,MA0158.1;0,MA0159.1;0.462502,MA0160.1;0.756582,MA0161.1;0,MA0162.1;1.57817,MA0163.1;1.37853,MA0164.1;0.90014,MA0080.2;1.32578,MA0018.2;0.870662,MA0099.2;0.7872,MA0079.2;11.2591,MA0102.2;1.75932,MA0258.1;0.418966,MA0259.1;0.471671,MA0442.1;0}}
|full_id=C2895_immature_Mallassezderived_mesenchymal_CD14_Fibroblast_migratory_Endothelial
|id=C2895
|ontology_enrichment_celltype=CL:0000222!7.98e-19!119;CL:0002371!3.67e-16!591;CL:0000144!6.36e-16!625;CL:0000548!7.23e-16!679;CL:0000004!7.23e-16!679;CL:0000255!7.23e-16!679;CL:0000012!1.41e-15!682;CL:0000055!6.53e-14!180;CL:0002139!1.44e-13!24;CL:0000115!2.00e-12!35;CL:0000723!3.31e-12!436;CL:0000048!3.66e-12!430;CL:0000034!1.56e-11!444;CL:0000680!7.28e-11!57;CL:0000056!7.28e-11!57;CL:0000355!7.28e-11!57;CL:0000359!9.59e-11!32;CL:0000071!1.08e-10!18;CL:0002546!1.08e-10!18;CL:0000220!1.10e-10!246;CL:0002321!2.11e-10!248;CL:0000057!2.22e-10!75;CL:0000187!3.28e-10!54;CL:0000003!3.35e-10!722;CL:0000213!8.60e-10!57;CL:0000215!8.60e-10!57;CL:0002078!1.51e-09!44;CL:0000192!2.22e-09!42;CL:0000514!2.22e-09!42;CL:0002057!3.82e-09!42;CL:0000393!4.98e-09!60;CL:0000211!4.98e-09!60;CL:0000183!4.00e-08!59;CL:0000860!9.68e-08!45;CL:0000063!1.73e-07!578;CL:0002494!8.01e-07!16;CL:0002009!8.11e-07!65
|ontology_enrichment_disease=DOID:2394!1.02e-07!14
|ontology_enrichment_uberon=UBERON:0000055!9.44e-21!69;UBERON:0001981!2.92e-19!60;UBERON:0007500!2.92e-19!60;UBERON:0004537!2.92e-19!60;UBERON:0006965!2.92e-19!60;UBERON:0002049!3.70e-19!79;UBERON:0007798!3.70e-19!79;UBERON:0004872!7.01e-18!84;UBERON:0001637!3.00e-17!42;UBERON:0003509!3.00e-17!42;UBERON:0004572!3.00e-17!42;UBERON:0004573!1.86e-13!33;UBERON:0004571!1.86e-13!33;UBERON:0004535!1.09e-12!110;UBERON:0002204!3.43e-12!167;UBERON:0001009!2.72e-11!113;UBERON:0000914!5.22e-11!83;UBERON:0002329!5.22e-11!83;UBERON:0003077!5.22e-11!83;UBERON:0003059!5.22e-11!83;UBERON:0007282!5.22e-11!83;UBERON:0009618!5.22e-11!83;UBERON:0007285!5.22e-11!83;UBERON:0001986!1.08e-10!18;UBERON:0004638!1.08e-10!18;UBERON:0004852!1.08e-10!18;UBERON:0000947!3.96e-10!21;UBERON:0010191!3.96e-10!21;UBERON:0003914!2.51e-09!118;UBERON:0004290!2.72e-09!70;UBERON:0000926!3.70e-09!448;UBERON:0004120!3.70e-09!448;UBERON:0006603!3.70e-09!448;UBERON:0000487!5.79e-09!22;UBERON:0000486!7.10e-09!82;UBERON:0001134!7.26e-09!61;UBERON:0002036!7.26e-09!61;UBERON:0003082!7.26e-09!61;UBERON:0002385!1.58e-08!63;UBERON:0001015!1.58e-08!63;UBERON:0000383!1.58e-08!63;UBERON:0000467!4.43e-08!625;UBERON:0003081!6.09e-08!216;UBERON:0000480!6.19e-08!626;UBERON:0006914!9.35e-08!25;UBERON:0000490!1.77e-07!138;UBERON:0000468!7.82e-07!659
}}

Latest revision as of 12:15, 17 September 2013


Full id: C2895_immature_Mallassezderived_mesenchymal_CD14_Fibroblast_migratory_Endothelial



Phase1 CAGE Peaks

Hg19::chr7:39663146..39663225,+p1@RALA
Hg19::chr7:39663255..39663276,+p3@RALA
Hg19::chr7:39663286..39663317,+p2@RALA
Hg19::chr7:39663534..39663558,+p5@RALA


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>cell_data<br>uberon_data<br>disease_data<br>

Cell Type
Ontology termp-valuen
mesodermal cell1.82e-19121
somatic cell2.35e-16588
animal cell2.46e-15679
eukaryotic cell2.46e-15679
endothelial cell of vascular tree2.29e-1324
somatic stem cell2.84e-13433
multi fate stem cell3.79e-13427
endothelial cell6.75e-1336
stem cell1.21e-12441
muscle precursor cell6.07e-1158
myoblast6.07e-1158
multi-potent skeletal muscle stem cell6.07e-1158
native cell1.11e-10722
blood vessel endothelial cell1.71e-1018
embryonic blood vessel endothelial progenitor cell1.71e-1018
vascular associated smooth muscle cell1.98e-1032
lining cell2.65e-1058
barrier cell2.65e-1058
muscle cell3.01e-1055
fibroblast3.30e-1076
embryonic cell3.44e-10250
meso-epithelial cell7.45e-1045
defensive cell3.08e-0948
phagocyte3.08e-0948
smooth muscle cell3.64e-0943
smooth muscle myoblast3.64e-0943
electrically responsive cell5.86e-0961
electrically active cell5.86e-0961
classical monocyte1.66e-0842
CD14-positive, CD16-negative classical monocyte1.66e-0842
contractile cell8.44e-0859
stuff accumulating cell2.96e-0787
macrophage dendritic cell progenitor4.06e-0761
cardiocyte4.88e-0716
Uber Anatomy
Ontology termp-valuen
vessel2.86e-2068
epithelial tube open at both ends1.02e-1859
blood vessel1.02e-1859
blood vasculature1.02e-1859
vascular cord1.02e-1859
vasculature1.84e-1878
vascular system1.84e-1878
splanchnic layer of lateral plate mesoderm1.94e-1783
artery1.39e-1642
arterial blood vessel1.39e-1642
arterial system1.39e-1642
mesoderm3.00e-13315
mesoderm-derived structure3.00e-13315
presumptive mesoderm3.00e-13315
systemic artery5.77e-1333
systemic arterial system5.77e-1333
cardiovascular system3.03e-12109
musculoskeletal system1.08e-11167
circulatory system7.19e-11112
blood vessel endothelium1.71e-1018
endothelium1.71e-1018
cardiovascular system endothelium1.71e-1018
aorta1.32e-0921
aortic system1.32e-0921
epithelial tube1.62e-09117
somite2.40e-0971
presomitic mesoderm2.40e-0971
presumptive segmental plate2.40e-0971
dermomyotome2.40e-0971
trunk paraxial mesoderm2.40e-0971
skeletal muscle tissue5.11e-0962
striated muscle tissue5.11e-0962
myotome5.11e-0962
multilaminar epithelium5.18e-0983
simple squamous epithelium5.67e-0922
paraxial mesoderm5.68e-0972
presumptive paraxial mesoderm5.68e-0972
dense mesenchyme tissue5.98e-0973
lateral plate mesoderm6.38e-09203
muscle tissue1.06e-0864
musculature1.06e-0864
musculature of body1.06e-0864
epithelial vesicle1.48e-0878
squamous epithelium6.47e-0825
unilaminar epithelium1.10e-07148
Disease
Ontology termp-valuen
ovarian cancer9.52e-0814


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)
MA0003.12.92335
MA0004.10.71247
MA0006.10.532262
MA0007.10.6918
MA0009.11.20602
MA0014.13.76953
MA0017.10.577281
MA0019.10.873355
MA0024.11.09684
MA0025.11.34373
MA0027.12.83281
MA0028.13.41834
MA0029.11.11704
MA0030.11.10506
MA0031.11.03735
MA0038.10.824639
MA0040.11.12314
MA0041.10.732902
MA0042.10.697662
MA0043.11.20635
MA0046.11.19471
MA0048.12.82503
MA0050.10.69864
MA0051.10.820063
MA0052.11.12718
MA0055.12.526
MA0056.10
MA0057.10.69331
MA0058.10.605914
MA0059.10.604454
MA0060.10.393285
MA0061.10.946082
MA0063.10
MA0066.10.825101
MA0067.11.53181
MA0068.10.313194
MA0069.11.19071
MA0070.11.17908
MA0071.10.782546
MA0072.11.1744
MA0073.10.100363
MA0074.10.819248
MA0076.13.73908
MA0077.11.16637
MA0078.10.926725
MA0081.10.604638
MA0083.11.21381
MA0084.11.72172
MA0087.11.17185
MA0088.11.02755
MA0089.10
MA0090.10.640115
MA0091.10.715356
MA0092.10.673508
MA0093.10.535768
MA0095.10
MA0098.10
MA0100.10.83965
MA0101.11.33363
MA0103.10.521546
MA0105.10.656404
MA0106.10.869173
MA0107.10.453492
MA0108.21.03412
MA0109.10
MA0111.10.655276
MA0113.10.886811
MA0114.11.13665
MA0115.11.45393
MA0116.10.457606
MA0117.11.24497
MA0119.10.586221
MA0122.11.27173
MA0124.11.41151
MA0125.11.32534
MA0130.10
MA0131.10.94608
MA0132.10
MA0133.10
MA0135.11.23748
MA0136.10.832277
MA0139.10.912459
MA0140.10.779643
MA0141.10.602484
MA0142.11.00381
MA0143.10.887001
MA0144.10.430413
MA0145.10.569905
MA0146.12.92476
MA0147.10.46175
MA0148.10.739888
MA0149.10.769072
MA0062.25.55273
MA0035.20.778873
MA0039.21.13403
MA0138.20.928035
MA0002.20.379056
MA0137.20.558189
MA0104.20.392359
MA0047.20.856092
MA0112.21.05083
MA0065.20.199162
MA0150.10.633493
MA0151.10
MA0152.10.78681
MA0153.11.30799
MA0154.10.229241
MA0155.11.02191
MA0156.13.46273
MA0157.10.97481
MA0158.10
MA0159.10.462502
MA0160.10.756582
MA0161.10
MA0162.11.57817
MA0163.11.37853
MA0164.10.90014
MA0080.21.32578
MA0018.20.870662
MA0099.20.7872
MA0079.211.2591
MA0102.21.75932
MA0258.10.418966
MA0259.10.471671
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

(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
CCNT2#90546.336201576962630.0006203100587215640.00513673978931347
E2F6#187645.017155731697390.00157802193473060.00999375616041047
EBF1#187936.679850134926750.005184294118278910.0240641108186192
ELF1#199744.258097958807540.003041525565781240.016127018762483
ETS1#211337.296570691651750.00400857377511390.0192130076410794
GABPB1#255347.067683836182170.0004006876864423170.00390878211137204
HEY1#2346244.040111043105710.00375304636917980.0186631944458037
HMGN3#932436.133910792512940.006640696683324720.0283161605728065
IRF1#365947.63716375356390.0002938853996185490.00308039916205958
NFKB1#479045.488063424193840.001102199566301980.0076941795672089
NR2C2#7182432.61461090524098.82887529809196e-073.82446664146589e-05
POU2F2#545236.829593043306890.004860473775203740.0227766420159063
SIN3A#2594245.408884726815140.001168172384885160.00798133950706665
SIX5#147912417.0867153554591.17257016123224e-050.000297816281782426
TAF7#687938.574802053692940.00250055433515240.0140406125918807
TBP#690843.706770687096390.005296377814784350.0245059543947485
TCF7L2#6934410.77017656313737.42969445082454e-050.00115778850902665
USF1#739146.361499277207960.0006105011399140830.00509144203078231
ZBTB7A#5134135.513931980906920.009038352821081090.0342621512932702
ZNF263#1012748.221841637010680.0002187871180958320.00249971642345592



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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