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Difference between revisions of "Coexpression cluster:C1712"

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|ontology_enrichment_disease=
 
|ontology_enrichment_disease=
 
|ontology_enrichment_uberon=UBERON:0002390!1.03e-20!102;UBERON:0003061!1.03e-20!102;UBERON:0002371!3.06e-20!80;UBERON:0001474!1.72e-19!86;UBERON:0002193!4.60e-17!112;UBERON:0004765!6.83e-15!101;UBERON:0001434!6.83e-15!101;UBERON:0002405!8.07e-14!115;UBERON:0003081!3.18e-09!216;UBERON:0002384!1.15e-08!375;UBERON:0002204!6.08e-08!167
 
|ontology_enrichment_uberon=UBERON:0002390!1.03e-20!102;UBERON:0003061!1.03e-20!102;UBERON:0002371!3.06e-20!80;UBERON:0001474!1.72e-19!86;UBERON:0002193!4.60e-17!112;UBERON:0004765!6.83e-15!101;UBERON:0001434!6.83e-15!101;UBERON:0002405!8.07e-14!115;UBERON:0003081!3.18e-09!216;UBERON:0002384!1.15e-08!375;UBERON:0002204!6.08e-08!167
 +
|tfbs_overrepresentation=0.23317,0.0958562,0.877965,0.078254,0.310241,0.43203,0.0706464,0.5903,0.0539364,0.0424746,0.221396,0.346629,0.294377,0.201017,0.235304,0.101024,0.223746,0.158251,0.00385613,0.173528,0.29418,0.211047,0.13286,0.153106,0.0683222,0.332688,0.0593111,0.146582,0.227906,0.150721,0.31768,0.182756,0.0298713,0.322378,0.108398,0.136785,0.856615,0.070583,0.192426,0.108683,0.155571,0.0406818,0.222325,0.287476,0.193292,0.0596699,0.0625547,0.28382,0.178503,0.193726,0.243359,0.0886583,0.114185,0.150136,0.308837,0.0632035,0.172598,0.328738,0.127101,0.169687,0.0485674,0.236408,0.174369,0.123348,0.0892839,0.0827236,0.515105,0.0980005,0.139298,0.262613,0.547889,0.110232,0.143944,0.190944,0.012429,0.0283664,0.155593,0.0717582,0.0613084,0.0120583,0.154245,0.348799,0.0698251,0.183986,0.436695,0.38341,0.104918,0.323505,0.790836,0.102375,0.138802,0.0812726,0.153861,0.0777027,0.138224,0.184264,0.430512,0.242703,0.149747,0.413729,0.0939617,0.416542,0.225088,0.0610111,0.0648403,0.0672793,0.109136,0.497282,0.228612,0.407248,0.285407,0.0560173,0.23661,0.0293017,0.162943,0.0556189,0.0336673,0.0926302,0.220791,0.13579,0.262107,0.331577,0.222452,0.138843,0.164723,0.277102,0.146529,0.0245339,0.136609,0.214614,0.0973103,0.121587,0.0935301,0.0376876,0.200735,0.173595,0.105753,0.0905147,0.0544577,0.0065834,0.037671,0.022273,0.316207,0.246229,0.779726,0.112838,0.159217,0.1364,0.0640569,0.193163,0.311509,0.227801,0.0443545,0.0439093,0.070163,0.188135,0.121467,0.350865,0.0846706,0.0555742,0.349932,0.153706,0.186743,0.23397,0.412853,0.183121,0.065826,0.203135,0.0663482,0.463935,0.281162,0.218835,0.646289,0.0885874,0.129639,0.145577,0.22277,0.284267,0.27935,0.0586816,0.250461,0.195671,0.0452583,0.185103,0.11983,0.190123,0.286036,0.0660586,0.134265,0.272191,0.172119,0.292239,0.196376,0.351465,0.18064,0.0772176,0.126988,0.0984435,0.110187,0.176022,0.144361,0.0986228,0.0508565,0.0989516,0.0254385,0.393782,0.412989,0.240045,0.319604,0.279218,0.0752697,0.167805,0.193654,0.180992,0.464566,0.265567,0.258402,0.162511,0.102771,0.165687,0.225173,0.540012,0.246322,0.253699,0.120044,0.201982,0.220536,0.139142,0.0987108,0.09782,0.754769,0.554981,0.0687568,0.124225,0.1547,0.150448,0.0774663,0.398789,0.257365,0.331711,0.285222,0.511,0.158559,0.134615,0.186192,0.217494,0.132125,0.179065,0.540443,0.187334,0.250769,0.289141,0.289982,0.157983,0.158078,0.251693,0.172268,0.313249,0.113261,0.766691,0.101058,0.274448,0.25718,0.204241,0.0568578,0.131428,0.131579,0.148683,0.188945,0.122666,0.419402,0.103245,0.387442,0.627158,0.14011,0.0626022,0.2074,0.430549,0.875285,0.72202,0.814323,0.401202,0.552405,0.75925,0.493893,0.808889,0.396701,0.626645,0.541514,0.460217,0.675971,0.487888,0.0533299,0.486439,0.137214,0.473154,0.0166818,0.114025,0.215646,0.569955,0.179363,0.780281,0.292173,0.173748,0.284119,0.066081,0.0165844,0.488132,0.336705,0.604733,0.545464,0.645432,0.824163,0.132079,0.0360622,0.0434995,0.0621042,0.668584,0.385794,0.0176185,0.450485,0.299354,0.470142,0.344006,0.32506,0.45566,0.426591,0.467379,0.762263,0.437202,0.628658,0.761311,0.592924,0.438692,0.660225,0.251384,0.541742,0.420673,0.790857,0.285074,0.870229,0.943261,0.402961,0.415372,0.362164,0.289863,0.158786,0.721501,0.0984273,0.226746,0.688223,0.699429,0.348378,0.379008,0.423719,0.288374,0.256985,0.109234,0.11883,0.288602,0.194485,0.69124,0.179485,0.588284,0.117662,0.147327,0.151407,0.0785559,0.337121,0.464864,0.317914,0.0740433,0.121457,0.351733,0.522291,0.436555,0.687274,0.441154,0.503865,0.294103,0.43388,0.483295,0.852766,0.418989,0.759561,0.606622,0.350461,0.495024,0.307173,0.246694,0.752605,0.231945,0.300406,0.23106,0.34136,0.632906,0.493489,0.229501,0.230597,0.195392,0.544572,0.627794,0.641833,0.383956,0.241286,0.0764074,0.217887,0.393543,0.214395,0.158849,0.379156,0.439833,0.427746,0.156494,0.456725,0.455709,0.784142,0.688249,0.708682,0.427794,0.398041,0.524026,0.347879,0.215832,0.593219,0.529253,0.64728,0.413091,0.319495,0.711229,0.524241,0.248788,0.0971807,0.152579,0.738012,0.423517,0.224914,0.268941,0.346389,0.251608,0.365107,0.182645,0.356278,0.0487212,0.0109212,0.0972855,0.710825,0.80526,0.159658,0.370345,0.512109,0.291494,0.0570792,0.818493,0.493686,0.469232,0.113555,0.0910724,0.299839,0.126587,0.0940929,0.22877,0.343849,0.315824,0.622796,0.621499,0.29873,0.0171715,0.43406,0.0715061,0.452515,0.201779,0.214491,0.171725,0.412647,0.102448,0.550877,0.029672,0.453305,0.421335,0.200188,0.0762646,0.0391282,0.0179888,0.168118,0.000574654,0.140277,0.0347948,0.172066,0.0720324,0.00647589,0.19738,0.205854,0.32541,0.301472,0.507714,0.0818982,0.134306,0.108669,0.284804,0.178494,0.338195,0.0311089,0.304235,0.210475,0.294266,0.0790025,0.310539,0.580279,0.0223257,0.275452,0.288155,0.265827,0.141761,0.153627,0.0186891,0.0668022,0.171961,0.415228,0.00800917,0.0410224,0.223952,0.327153,0.0496113,0.20949,0.0730994,0.0857377,0.323267,0.24204,0.129414,0.157037,0.252398,0.197279,0.146467,0.0912686,0.425114,0.7034,0.218241,0.0242146,0.10708,0.327369,0.339826,0.12998,0.123097,0.254847,0.300809,0.08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}}
 
}}

Revision as of 08:34, 8 August 2012


Full id: C1712_CD14_Peripheral_Basophils_Mast_CD14CD16_CD34_Natural



Phase1 CAGE Peaks

  Short description
Hg19::chr13:99934429..99934435,+ p@chr13:99934429..99934435
+
Hg19::chr15:67413848..67413862,+ p@chr15:67413848..67413862
+
Hg19::chr17:72776166..72776178,- p@chr17:72776166..72776178
-
Hg19::chr19:2495374..2495386,- p@chr19:2495374..2495386
-
Hg19::chr8:48540648..48540655,+ p@chr8:48540648..48540655
+


Enriched pathways on this co-expression clusterSummary:
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.
Analyst: Emmanuel Dimont

link to source dataset
data


No results for this coexpression

Enriched Gene Ontology terms on this co-expression clusterSummary: 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.
Analyst: Erik Arner

link to source dataset
data


No GOStat results

Enriched sample ontology terms on this co-expression clusterSummary: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. Analyst: Hideya Kawaji

links to source dataset

cell_data
uberon_data


Cell Type
Ontology termp-valuen
CD14-positive, CD16-negative classical monocyte1.32e-3342
classical monocyte2.88e-3045
leukocyte1.86e-23140
granulocyte monocyte progenitor cell1.90e-2271
myeloid leukocyte1.34e-2176
nongranular leukocyte1.29e-20119
hematopoietic lineage restricted progenitor cell1.75e-20124
macrophage dendritic cell progenitor2.17e-2065
myeloid lineage restricted progenitor cell2.49e-1970
monopoietic cell4.19e-1963
monocyte4.19e-1963
monoblast4.19e-1963
promonocyte4.19e-1963
hematopoietic stem cell6.05e-18172
angioblastic mesenchymal cell6.05e-18172
hematopoietic cell4.48e-16182
hematopoietic oligopotent progenitor cell1.63e-15165
hematopoietic multipotent progenitor cell1.63e-15165
myeloid cell1.66e-13112
common myeloid progenitor1.66e-13112
intermediate monocyte1.43e-119
CD14-positive, CD16-positive monocyte1.43e-119
mesenchymal cell1.01e-09358
connective tissue cell2.12e-09365
motile cell7.19e-09390
Uber Anatomy
Ontology termp-valuen
hematopoietic system1.03e-20102
blood island1.03e-20102
bone marrow3.06e-2080
bone element1.72e-1986
hemolymphoid system4.60e-17112
skeletal element6.83e-15101
skeletal system6.83e-15101
immune system8.07e-14115
lateral plate mesoderm3.18e-09216
connective tissue1.15e-08375
musculoskeletal system6.08e-08167


Overrepresented TFBS (DNA) motifs on this co-expression clusterSummary: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. Analyst: Michiel de Hoon

link to source data
Novel motifs
data

Jaspar motifs
data


Novel motifs



JASPAR motifs

Motifs-log10(p-value)

{{{tfbs_overrepresentation_jaspar}}}



ENCODE TF ChIP-seq peak enrichment analysisSummary: 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.
Analyst: Erik Arner

link to source dataset

data


No analysis results for this cluster

Relative expression of the co-expression clusterSummary:Co-expression clusters are compared against FANTOM5 samples to obtain relative expression.
Analyst:NA

link to data source
data


This analysis result is provided for C0 - C305 clusters.