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Coexpression cluster:C1661: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0002390!8.41e-40!98;UBERON:0003061!8.41e-40!98;UBERON:0002193!1.49e-38!108;UBERON:0002405!4.46e-28!93;UBERON:0002371!6.36e-23!76;UBERON:0001474!2.66e-20!82;UBERON:0004765!2.24e-17!90;UBERON:0001434!2.82e-15!100;UBERON:0000178!3.66e-12!15;UBERON:0000179!3.66e-12!15;UBERON:0000463!3.66e-12!15;UBERON:0003081!3.01e-11!203;UBERON:0002384!5.30e-11!371;UBERON:0004177!7.02e-09!7;UBERON:0005057!7.02e-09!7
|ontology_enrichment_uberon=UBERON:0002390!8.41e-40!98;UBERON:0003061!8.41e-40!98;UBERON:0002193!1.49e-38!108;UBERON:0002405!4.46e-28!93;UBERON:0002371!6.36e-23!76;UBERON:0001474!2.66e-20!82;UBERON:0004765!2.24e-17!90;UBERON:0001434!2.82e-15!100;UBERON:0000178!3.66e-12!15;UBERON:0000179!3.66e-12!15;UBERON:0000463!3.66e-12!15;UBERON:0003081!3.01e-11!203;UBERON:0002384!5.30e-11!371;UBERON:0004177!7.02e-09!7;UBERON:0005057!7.02e-09!7
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5,0.0918749,0.0686325,0.0569043,0.0639461,0.387306,0.267408,0.312064,0.080156,0.274185,0.53753,0.0015135,0.510703,0.33844,0.0649137,0.0974216,0.595767,0.195675,0.174786,0.176557,0.396547,0.0472148,0.735114,0.00241988,0.0639045,0.141461,0.0900204,0.228387,0.385962,0.334921,0.296227,0.208788,0.203834,0.36304,0.430936,0.123626,0.270619,0.132705,0.285556,0.493429,0.233835,0.224471,0.262929,0.223204,0.143824,0.460679,0.11021,0.0775891,0.153079,0.62577,0.211515,0.125701,0.175283,0.204954,0.209341,0.0472129,0.629422,0.084895,0.160115,0.0819954,0.10091,0.122658,0.151161,0.228398,0.056055,0.120552,0.41771,0.655862,0.830533,0.335207,0.434016,0.190688,0.299739,0.278645,0.733648,0.0940982,0.0780533,0.0103603,0.0993772,0.274769,0.448923,0.11602,0.344528,0.436413,0.0585992,0.20045,0.274438,0.911136,0.312298,0.319826,0.336512,0.173868,0.109708,0.174594,0.0809806,0.154589,0.0572856,0.122767,0.0749261,0.176858,0.114361,0.0690296,0.242462,0.0620267,0.211111,0.0738743,0.0882327,0.183058,0.150073,0.270522,0.16872,0.341388,0.0934526,0.0739908,0.123404,0.430769,0.240825,0.3033,0.336623,0.163542,0.142089,0.27134,0.500871,0.239667,0.10226,0.29809,0.235147,0.32673,0.245965,0.116923,0.148426,0.0983658,0.228743,0.238223,0.156976,0.244789,0.267391,0.301441,0.21807,0.350528,0.382904,0.432408,0.190404,0.135865,0.488841,0.18137,0.180609,0.291283,0.273972,0.153023,0.400137,0.37958,0.22307,0.160699,0.391307,0.166736,0.181253,0.0422294,0.263877,0.146486,0.769574,0.262486,0.294204,0.131936,0.288826,0.246621,0.463617,0.697373,0.0965376,0.0822869,0.279263,0.0643411,0.0720023,0.581771,0.800557,0.0594155,0.587524,0.208795,0.0713793,0.212621,0.228454,0.53612,0.629713,0.581874,0.355154,0.730614,0.619037,0.537088,0.236988,0.629445,0.0528459,0.0538109,0.526495,0.580285,0.550495,0.424482,0.248142,0.610475,0.629179,0.200159,0.672416,0.0066862,0.623136,0.349408,0.861766,0.445257,0.349068,0.70429,0.798758,0.557035,0.427789,0.689998,0.737642,0.639789,0.433702,0.258394,0.0212289,0.432123,0.416657,0.661773,0.494975,0.651196,0.392155,0.626931,0.371758,0.457109,0.20076,0.380618,0.85279,0.254547,0.901563,0.51445,0.680843,0.931136,0.0445246,0.47213,0.00506703,0.253789,0.666904,0.446908,0.315485,0.311289,0.318577,0.120474,0.389888,0.603509,0.511254,0.0482305,0.246387,0.224252,0.0603905,0.155054,0.466978,0.0379309,0.0365373,0.353942,0.192234,0.427276,0.0512135,0.466967,0.283682,0.424668,0.247468,0.078383,0.583101,0.702164,0.477016,0.0349115,0.498956,0.792095,0.55798,0.349033,0.50651,0.723248,0.34194,0.592696,0.592314,0.0212338,0.182727,0.423117,0.317485,0.633504,0.220564,0.845182,0.262394,0.307462,0.135076,0.469588,0.298027,0.274593,0.490712,0.541363,0.350314,0.0589911,0.176255,0.720644,0.562305,0.528646,0.361524,0.31558,0.412744,0.54408,0.259136,0.513592,0.415367,0.503942,0.124718,0.36864,0.538745,0.456862,0.453004,0.316163,0.196391,0.330982,0.382214,0.553161,0.271769,0.68995,0.339393,0.0325448,0.306231,0.0497423,0.278436,0.784543,0.125872,0.641611,0.426239,0.0517097,0.656093,0.209347,0.412586,0.534679,0.41502,0.55475,0.0245278,0.523749,0.499347,0.307426,0.0736126,0.196912,0.490527,0.00919513,0.44799,0.499536,0.318338,0.276338,0.126433,0.417412,0.318174,0.0555558,0.295666,0.393022,0.293641,0.116969,0.401231,0.255983,0.297663,0.256708,0.338258,0.322052,0.145568,0.153833,0.0375572,0.38389,0.188453,0.388459,0.321362,0.627637,0.280757,0.301366,0.340343,0.343265,0.501812,0.462092,0.0642137,0.308589,0.291523,0.19697,0.0538978,0.0537285,0.15063,0.198077,0.281455,0.348739,0.419895,0.138495,0.208834,0.32256,0.377566,0.342366,0.109684,0.322704,0.403482,0.181288,0.230841,0.352328,0.255358,0.351665,0.265112,0.0633313,0.10772,0.0854747,0.0747609,0.0968383,0.312881,0.162482,0.244656,0.192188,0.158985,0.174153,0.0972854,0.333309,0.249919,0.339517,0.303699,0.198326,0.394084,0.458518,0.282501,0.252005,0.390891,0.238377,0.334983,0.197875,0.287909,0.289389,0.117618,0.392533,0.396962,0.316002,0.330317,0.321404,0.225079,0.300542,0.379651,0.185715,0.345505,0.375521,0.271405,0.311201,0.221943,0.306427,0.367733,0.246925,0.208775,0.390438,0.343014,0.270094,0.276922,0.156279,0.313647,0.461742,0.422872,0.336468,0.13327,0.313545,0.17149,0.0877361,0.0880065,0.238969,0.126615,0.0669467,0.0879453,0.474066,0.396935,0.326779,0.292869,0.358198,0.29552,0.131776,0.158116,0.104606,0.194814,0.104167,0.168186,0.108081,0.123829,0.205215,0.175247,0.0724304,0.109077,0.144842,0.0604892,0.214671,0.316879,0.442567,0.430541,0.508546,0.224871,0.398887,0.389061,0.310732,0.349611,0.11881,0.385709,0.278202,0.426488,0.400591,0.209809,0.0351523,0.319519,0.309489,0.430805,0.362154,0.480785,0.185476,0.336314,0.344469,0.0182065,0.303359,0.297596,0.42392,0.425912,0.0840133,0.259046,0.345068,0.151046,0.483953,0.347171,0.321735,0.15463,0.13907,0.470121,0.269432,0.250466,0.409882,0.115686,0.408975,0.162633,0.342661,0.27567,0.248127,0.33299,0.384731,0.319112,0.526476
|tfbs_overrepresentation_for_novel_motifs=0.508327,0.205703,1.25018,0.654974,0.454983,0.653236,0.733342,0.324142,0.321368,0.703495,0.621241,0.778743,2.11893,0.721271,0.453496,0.478935,0.963929,0.395009,0.287891,0.501863,0.500405,0.770467,0.645033,0.44943,0.549618,0.802434,0.700122,0.642741,1.16016,0.659743,0.598009,1.00172,0.359091,1.38854,0.417272,0.757784,0.413782,0.654459,0.388123,0.301779,0.415749,0.580638,0.414516,0.451846,2.30038,0.533483,0.734485,0.609718,0.124583,0.458489,0.817229,0.746838,0.191745,1.08035,1.2359,0.724351,0.4631,0.689906,0.659455,0.688844,1.04369,0.736968,0.321912,0.935408,0.755773,0.899893,1.32544,1.69665,0.991065,1.53343,0.566575,0.880217,0.189341,1.23387,0.269111,0.255232,0.675933,0.917983,0.987729,0.543014,0.796279,0.934302,0.755403,0.873042,1.18161,0.251545,0.49825,1.20877,0.844289,1.79645,1.41984,1.15413,1.01895,0.367039,0.455791,0.381528,0.28626,1.06255,0.849074,2.52127,0.389604,1.01316,1.05685,0.967698,0.88799,0.616433,0.951411,0.717647,0.549347,0.437618,0.512457,1.05402,0.494368,0.631235,1.37132,0.412056,0.285668,0.596731,0.897476,2.59175,1.22546,0.841768,0.650322,0.767198,1.48307,0.918767,0.72668,1.02407,1.2687,0.382577,1.15483,0.601055,1.28328,0.763715,1.43285,0.221105,0.591636,0.643339,1.38998,2.25246,1.84906,1.35224,0.728494,1.05895,0.889806,0.680988,0.87256,2.09294,0.577088,0.363423,0.177807,0.126633,1.15522,0.312599,0.736459,1.56426,0.827475,1.12014,0.54968,0.518696,1.35101,1.13636,0.98692,1.29666,0.906429,0.754576,0.923751,0.731946,0.443702
}}
}}

Revision as of 15:01, 26 November 2012


Full id: C1661_CD4_Eosinophils_Neutrophils_CD8_CD14_CD14CD16_Whole



Phase1 CAGE Peaks

Hg19::chr12:12877074..12877097,+p@chr12:12877074..12877097
+
Hg19::chr15:65187070..65187088,+p@chr15:65187070..65187088
+
Hg19::chr15:65187099..65187110,+p@chr15:65187099..65187110
+
Hg19::chr22:37637659..37637679,-p2@M64595
Hg19::chr6:31785453..31785500,-p1@uc011dok.1


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><br>

Cell Type
Ontology termp-valuen
leukocyte4.03e-64136
nongranular leukocyte2.75e-57115
hematopoietic stem cell4.04e-52168
angioblastic mesenchymal cell4.04e-52168
hematopoietic lineage restricted progenitor cell1.86e-51120
hematopoietic cell2.68e-49177
hematopoietic oligopotent progenitor cell1.08e-47161
hematopoietic multipotent progenitor cell1.08e-47161
myeloid leukocyte5.75e-3672
defensive cell5.98e-2948
phagocyte5.98e-2948
monopoietic cell1.12e-2659
monocyte1.12e-2659
monoblast1.12e-2659
promonocyte1.12e-2659
mature alpha-beta T cell2.65e-2618
alpha-beta T cell2.65e-2618
immature T cell2.65e-2618
mature T cell2.65e-2618
immature alpha-beta T cell2.65e-2618
lymphoid lineage restricted progenitor cell3.60e-2652
classical monocyte5.65e-2642
CD14-positive, CD16-negative classical monocyte5.65e-2642
lymphocyte1.86e-2553
common lymphoid progenitor1.86e-2553
macrophage dendritic cell progenitor2.08e-2561
myeloid lineage restricted progenitor cell3.34e-2566
granulocyte monocyte progenitor cell1.22e-2467
nucleate cell4.12e-2455
T cell1.64e-2325
pro-T cell1.64e-2325
myeloid cell7.20e-22108
common myeloid progenitor7.20e-22108
CD8-positive, alpha-beta T cell1.40e-1611
intermediate monocyte3.62e-139
CD14-positive, CD16-positive monocyte3.62e-139
granulocyte5.44e-138
mesenchymal cell1.13e-12354
connective tissue cell5.80e-12361
stuff accumulating cell3.85e-1187
CD4-positive, alpha-beta T cell2.37e-106
motile cell1.66e-09386
blood cell6.72e-0911
multi fate stem cell5.35e-07427
Uber Anatomy
Ontology termp-valuen
hematopoietic system8.41e-4098
blood island8.41e-4098
hemolymphoid system1.49e-38108
immune system4.46e-2893
bone marrow6.36e-2376
bone element2.66e-2082
skeletal element2.24e-1790
skeletal system2.82e-15100
blood3.66e-1215
haemolymphatic fluid3.66e-1215
organism substance3.66e-1215
lateral plate mesoderm3.01e-11203
connective tissue5.30e-11371
hemopoietic organ7.02e-097
immune organ7.02e-097


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.

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