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|ontology_enrichment_uberon=UBERON:0002390!1.11e-37!102;UBERON:0003061!1.11e-37!102;UBERON:0002193!2.67e-36!112;UBERON:0002371!1.53e-30!80;UBERON:0001474!2.68e-28!86;UBERON:0004765!7.42e-24!101;UBERON:0001434!7.42e-24!101;UBERON:0002405!7.63e-21!115;UBERON:0003081!4.02e-19!216;UBERON:0002384!3.04e-15!375;UBERON:0002204!3.02e-13!167;UBERON:0007023!1.03e-11!115
|ontology_enrichment_uberon=UBERON:0002390!1.11e-37!102;UBERON:0003061!1.11e-37!102;UBERON:0002193!2.67e-36!112;UBERON:0002371!1.53e-30!80;UBERON:0001474!2.68e-28!86;UBERON:0004765!7.42e-24!101;UBERON:0001434!7.42e-24!101;UBERON:0002405!7.63e-21!115;UBERON:0003081!4.02e-19!216;UBERON:0002384!3.04e-15!375;UBERON:0002204!3.02e-13!167;UBERON:0007023!1.03e-11!115
|pathway_enrichment=3.28059829023111e-05;0.0133922329919482;2;95;G Protein Signaling Pathways (Wikipathways):WP35!5.33094045966131e-05;0.0133922329919482;2;121;Signaling by Rho GTPases (Reactome):REACT_11044!6.34702985400389e-05;0.0133922329919482;2;132;{RAC1,133} (Static Module):NA
|pathway_enrichment=3.28059829023111e-05;0.0133922329919482;2;95;G Protein Signaling Pathways (Wikipathways):WP35!5.33094045966131e-05;0.0133922329919482;2;121;Signaling by Rho GTPases (Reactome):REACT_11044!6.34702985400389e-05;0.0133922329919482;2;132;{RAC1,133} (Static Module):NA
|tfbs_overrepresentation=0.23317,0.0958562,0.162009,0.078254,0.0064802,0.43203,0.0706464,0.0615998,0.0539364,0.0424746,0.221396,0.0685476,0.294377,0.201017,0.235304,0.101024,0.000140133,0.158251,0.0865245,0.173528,0.0482758,0.211047,0.13286,0.153106,0.0683222,0.332688,0.0593111,0.146582,0.227906,0.150721,0.31768,0.182756,0.0298713,0.322378,0.108398,0.136785,0.578129,0.070583,0.0198308,0.108683,0.155571,0.0406818,0.222325,0.0459718,0.193292,0.0596699,0.0625547,0.0447422,0.0169745,0.193726,0.243359,0.0886583,0.114185,0.150136,0.308837,0.0632035,0.172598,0.328738,0.127101,0.169687,0.0485674,0.236408,0.174369,0.123348,0.0892839,0.0827236,0.164127,0.0980005,0.139298,0.262613,0.547889,0.110232,0.143944,0.190944,0.012429,0.0283664,0.155593,0.0717582,0.0613084,0.0120583,0.154245,0.348799,0.0698251,0.183986,0.113395,0.38341,0.104918,0.323505,0.021784,0.102375,0.138802,0.0812726,0.153861,0.0777027,0.138224,0.184264,0.430512,0.242703,0.149747,0.100676,0.0939617,0.416542,0.0274811,0.0610111,0.0648403,0.0672793,0.109136,0.15155,0.228612,0.407248,0.0049262,0.0560173,0.23661,0.0293017,0.162943,0.0556189,0.0336673,0.0926302,0.220791,0.13579,0.262107,0.331577,0.222452,0.138843,0.164723,0.277102,0.146529,0.0245339,0.136609,0.214614,0.0973103,0.121587,0.0935301,0.000719272,0.200735,0.173595,0.00580006,0.0905147,0.0544577,0.0065834,0.037671,0.203496,0.0562971,0.246229,0.0672699,0.112838,0.159217,0.1364,0.0640569,0.193163,0.311509,0.227801,0.282656,0.0439093,0.070163,0.188135,0.121467,0.350865,0.0846706,0.0555742,0.349932,0.153706,0.186743,0.23397,0.412853,0.183121,0.065826,0.203135,0.0663482,0.0255003,0.281162,0.218835,0.646289,0.0885874,0.129639,0.145577,0.0268933,0.284267,0.27935,0.0586816,0.250461,0.195671,0.0452583,0.185103,0.11983,0.190123,0.286036,0.0660586,0.134265,0.272191,0.172119,0.292239,0.196376,0.351465,0.18064,0.0772176,0.126988,0.0984435,0.110187,0.176022,0.144361,0.0986228,0.0508565,0.0989516,0.21691,0.0903603,0.00219974,0.240045,0.319604,0.279218,0.0752697,0.0149404,0.193654,0.180992,0.464566,0.265567,0.258402,0.0139847,0.102771,0.165687,0.225173,0.00820962,0.000212748,0.253699,0.120044,0.201982,0.220536,0.139142,0.0987108,0.09782,0.0144737,0.194677,0.0687568,0.124225,0.0126357,0.150448,0.0774663,0.398789,0.257365,0.331711,0.285222,0.511,0.158559,0.134615,0.186192,0.217494,0.132125,0.179065,0.00824338,0.187334,0.250769,0.0465383,0.289982,0.157983,0.158078,0.251693,0.172268,0.313249,0.113261,0.180042,0.101058,0.274448,0.25718,0.204241,0.0568578,0.131428,0.131579,0.148683,0.188945,0.122666,0.0179186,0.103245,0.0872199,0.627158,0.14011,0.0626022,0.2074,0.182534,0.0196969,0.467941,0.00765365,0.0514824,0.944588,0.295676,0.14923,0.808889,0.014796,0.626645,0.541514,0.460217,0.0277761,0.000643343,0.568246,0.0301802,0.137214,0.0779993,0.410803,0.43779,0.215646,0.569955,0.426202,0.0193103,0.292173,0.0406515,0.284119,0.234606,0.176507,0.030558,0.336705,0.0675788,0.187073,0.277796,0.0989863,0.0384969,0.0360622,0.537972,0.225841,0.302575,0.385794,0.417358,0.12148,0.299354,0.0267294,0.344006,0.11323,0.785741,0.426591,0.467379,0.420732,0.437202,0.628658,0.761311,0.592924,0.438692,0.000132768,0.251384,0.541742,0.420673,0.0217892,0.285074,0.605239,0.323515,0.199887,0.0173305,0.362164,0.289863,0.507647,0.00997624,0.409489,0.0842683,0.688223,0.338121,0.036478,0.0831446,0.106096,0.655494,0.256985,0.109234,0.11883,0.288602,0.000973683,0.0956851,0.179485,0.222918,0.117662,0.732646,0.737273,0.260733,0.0645699,0.130279,0.139288,0.0740433,0.121457,0.351733,0.00220507,0.773103,0.112469,0.441154,0.000790049,0.660832,0.43388,0.483295,0.013711,0.418989,0.144008,0.0151512,0.350461,0.150002,0.307173,0.246694,0.0533615,0.598317,0.666615,0.00245348,0.00803686,0.836729,0.148956,0.0286189,0.230597,0.00953273,0.544572,0.627794,0.0206727,0.383956,0.241286,0.0764074,0.217887,0.393543,0.214395,0.158849,0.0112212,0.439833,0.019185,0.156494,0.456725,0.455709,0.784142,0.688249,0.708682,0.427794,0.398041,0.170667,0.347879,0.215832,0.227327,0.040963,0.64728,0.207705,0.319495,0.352541,0.524241,0.248788,0.407113,0.000740343,0.152069,0.423517,0.0274367,0.268941,0.125979,0.251608,0.365107,0.539805,0.0102753,0.0487212,0.144104,0.0972855,0.00885669,0.486648,0.159658,0.725283,0.0363258,0.291494,3.36718e-05,0.244483,0.809533,0.133028,0.113555,0.0910724,0.299839,0.00837337,0.0940929,0.22877,0.343849,0.315824,0.622796,0.621499,0.0498759,0.179502,0.111889,0.0715061,0.023355,0.201779,0.214491,0.171725,0.0169414,0.102448,0.191372,0.029672,0.453305,0.421335,0.00161202,0.00298503,0.0391282,0.183582,0.168118,0.145381,0.140277,0.251925,0.172066,0.0720324,0.00647589,0.19738,0.205854,0.32541,0.0508541,0.158833,0.0818982,0.134306,0.108669,0.284804,0.0169728,0.338195,0.490571,0.304235,0.210475,0.294266,0.0790025,0.310539,0.215892,0.203728,0.275452,0.288155,0.265827,0.141761,0.153627,0.0186891,0.0668022,0.171961,0.415228,0.00800917,0.272406,0.223952,0.327153,0.0496113,0.20949,0.0730994,0.0857377,0.323267,0.24204,0.129414,0.157037,0.252398,0.197279,0.146467,0.0912686,0.425114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}}
}}

Revision as of 17:37, 8 August 2012


Full id: C1754_immature_CD14_Dendritic_CD34_Basophils_Mast_migratory



Phase1 CAGE Peaks

Hg19::chr15:86123791..86123808,+p22@AKAP13
Hg19::chr15:86124854..86124875,+p30@AKAP13
Hg19::chr19:3136115..3136165,+p2@GNA15
Hg19::chr3:119013434..119013460,+p3@ARHGAP31
Hg19::chr3:119013476..119013540,+p2@ARHGAP31


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


p.valueFDRnGenesnPathwayName
3.28059829023111e-050.0133922329919482295G Protein Signaling Pathways (Wikipathways):WP35
5.33094045966131e-050.01339223299194822121Signaling by Rho GTPases (Reactome):REACT_11044
6.34702985400389e-050.01339223299194822132{RAC1,133} (Static Module):NA



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:0007207muscarinic acetylcholine receptor, phospholipase C activating pathway0.0192505813106471
GO:0004691cAMP-dependent protein kinase activity0.0256625304030679
GO:0004690cyclic nucleotide-dependent protein kinase activity0.0256625304030679
GO:0007202phospholipase C activation0.0256625304030679
GO:0006471protein amino acid ADP-ribosylation0.0333563781795267
GO:0005834heterotrimeric G-protein complex0.0395508365680418
GO:0019897extrinsic to plasma membrane0.0405964492107154
GO:0007242intracellular signaling cascade0.0405964492107154
GO:0019992diacylglycerol binding0.0405964492107154
GO:0051480cytosolic calcium ion homeostasis0.0405964492107154
GO:0007204elevation of cytosolic calcium ion concentration0.0405964492107154
GO:0051345positive regulation of hydrolase activity0.0405964492107154
GO:0007200G-protein signaling, coupled to IP3 second messenger (phospholipase C activating)0.0433828646488185
GO:0019898extrinsic to membrane0.043486306495677
GO:0055074calcium ion homeostasis0.043486306495677
GO:0006874cellular calcium ion homeostasis0.043486306495677
GO:0006875cellular metal ion homeostasis0.043486306495677
GO:0055065metal ion homeostasis0.043486306495677
GO:0048015phosphoinositide-mediated signaling0.043486306495677
GO:0005089Rho guanyl-nucleotide exchange factor activity0.0448398258562391
GO:0035023regulation of Rho protein signal transduction0.0448398258562391
GO:0005088Ras guanyl-nucleotide exchange factor activity0.0448398258562391
GO:0030005cellular di-, tri-valent inorganic cation homeostasis0.0448398258562391
GO:0055066di-, tri-valent inorganic cation homeostasis0.0448398258562391
GO:0007266Rho protein signal transduction0.0448398258562391
GO:0030003cellular cation homeostasis0.0448398258562391
GO:0055080cation homeostasis0.0448398258562391
GO:0060089molecular transducer activity0.0448398258562391
GO:0004871signal transducer activity0.0448398258562391
GO:0055082cellular chemical homeostasis0.0488889669249315
GO:0006873cellular ion homeostasis0.0488889669249315



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
leukocyte1.98e-42140
hematopoietic cell5.02e-40182
hematopoietic stem cell5.53e-40172
angioblastic mesenchymal cell5.53e-40172
hematopoietic oligopotent progenitor cell2.79e-36165
hematopoietic multipotent progenitor cell2.79e-36165
myeloid leukocyte1.54e-3476
granulocyte monocyte progenitor cell1.38e-3271
myeloid cell4.16e-32112
common myeloid progenitor4.16e-32112
hematopoietic lineage restricted progenitor cell7.10e-32124
nongranular leukocyte4.57e-31119
macrophage dendritic cell progenitor2.53e-2965
myeloid lineage restricted progenitor cell6.41e-2970
monopoietic cell6.23e-2863
monocyte6.23e-2863
monoblast6.23e-2863
promonocyte6.23e-2863
CD14-positive, CD16-negative classical monocyte3.26e-2742
classical monocyte1.94e-2245
mesenchymal cell1.59e-17358
connective tissue cell3.38e-16365
motile cell1.96e-12390
multi fate stem cell5.81e-12430
somatic stem cell2.48e-11436
stem cell7.25e-11444
dendritic cell5.88e-0810
conventional dendritic cell9.68e-078
Uber Anatomy
Ontology termp-valuen
hematopoietic system1.11e-37102
blood island1.11e-37102
hemolymphoid system2.67e-36112
bone marrow1.53e-3080
bone element2.68e-2886
skeletal element7.42e-24101
skeletal system7.42e-24101
immune system7.63e-21115
lateral plate mesoderm4.02e-19216
connective tissue3.04e-15375
musculoskeletal system3.02e-13167
adult organism1.03e-11115


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)

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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.