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Coexpression cluster:C364: Difference between revisions

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|full_id=C364_CD14_immature_CD14CD16_Aortic_CD4_Reticulocytes_Basophils
|full_id=C364_CD14_immature_CD14CD16_Aortic_CD4_Reticulocytes_Basophils
|id=C364
|id=C364
|ontology_enrichment_celltype=CL:0000037!7.53e-38!172;CL:0000566!7.53e-38!172;CL:0002032!1.00e-36!165;CL:0000837!1.00e-36!165;CL:0000738!7.31e-36!140;CL:0000988!2.00e-33!182;CL:0002031!9.81e-32!124;CL:0000763!9.10e-31!112;CL:0000049!9.10e-31!112;CL:0000766!3.86e-28!76;CL:0002087!5.74e-28!119;CL:0000557!6.09e-27!71;CL:0000839!1.91e-26!70;CL:0002057!3.69e-26!42;CL:0000860!3.78e-25!45;CL:0002009!2.05e-24!65;CL:0002194!2.71e-23!63;CL:0000576!2.71e-23!63;CL:0000040!2.71e-23!63;CL:0000559!2.71e-23!63;CL:0000134!1.12e-11!358;CL:0002320!4.50e-10!365;CL:0000219!1.74e-09!390;CL:0000048!1.12e-07!430;CL:0000034!1.33e-07!444;CL:0000723!5.16e-07!436
|ontology_enrichment_celltype=CL:0000860!8.12e-47!42;CL:0002057!8.12e-47!42;CL:0000473!3.83e-46!48;CL:0000234!3.83e-46!48;CL:0000839!1.55e-38!66;CL:0000557!3.58e-38!67;CL:0002009!9.63e-36!61;CL:0000766!2.06e-35!72;CL:0000325!5.85e-34!87;CL:0002194!1.37e-33!59;CL:0000576!1.37e-33!59;CL:0000040!1.37e-33!59;CL:0000559!1.37e-33!59;CL:0000763!1.83e-30!108;CL:0000049!1.83e-30!108;CL:0000738!1.47e-24!136;CL:0002031!7.18e-24!120;CL:0002032!6.09e-21!161;CL:0000837!6.09e-21!161;CL:0000037!1.27e-20!168;CL:0000566!1.27e-20!168;CL:0000988!1.83e-18!177;CL:0002087!2.84e-17!115;CL:0000134!1.50e-07!354;CL:0000034!2.30e-07!441;CL:0000048!2.34e-07!427;CL:0000453!2.35e-07!5;CL:0002320!5.47e-07!361;CL:0000723!6.47e-07!433
|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002390!1.89e-21!102;UBERON:0003061!1.89e-21!102;UBERON:0002371!2.44e-21!80;UBERON:0001474!1.09e-20!86;UBERON:0002193!2.83e-19!112;UBERON:0004765!7.85e-17!101;UBERON:0001434!7.85e-17!101;UBERON:0002405!1.62e-12!115;UBERON:0002384!5.32e-09!375
|ontology_enrichment_uberon=UBERON:0002371!3.93e-33!76;UBERON:0001474!2.04e-29!82;UBERON:0004765!4.16e-28!90;UBERON:0002405!4.33e-27!93;UBERON:0001434!1.62e-23!100;UBERON:0002390!8.99e-23!98;UBERON:0003061!8.99e-23!98;UBERON:0002193!7.16e-21!108;UBERON:0002204!9.05e-14!167;UBERON:0001737!2.15e-10!9;UBERON:0003081!4.26e-08!203
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5605,0.801226,0.708351,0.331486,0.459358,0.459837,0.729237,0.684209,0.688254,0.583614,0.251882,0.542946,0.790174,0.327146,0.59954,0.432207,0.788944,0.946399,0.913456,0.878495,0.754666,0.736359,0.933216,0.252586,0.546959,0.564359,0.5744,0.328061,0.386895,0.797729,0.450593,0.839655,0.780295,0.606107,0.50682,0.851364,0.384048,0.630974,0.93329,0.759696,0.193366,0.685348,0.747446,0.755693,0.723468,0.70903,0.412747,0.64899,0.401493,0.0270602,0.54395,0.625931,0.788962,0.292575,0.53734,0.961021,0.372513,0.980911,0.913678,0.444948,0.135905,0.882088,0.859106,0.107473,0.447304,0.385906,0.959297,0.466349,0.854501,0.871858,0.52285,0.920691,0.857699,0.303939,0.73874,0.854103,0.880739,0.7751,0.900981,0.91469,0.317775,0.50204,0.319696,0.397512,0.634903,0.404848,0.544289,0.373302,0.688937,0.517452,0.472508,0.811015,0.319006,0.416004,0.0784629,0.425481,0.702732,0.623046,0.849314,0.670022,0.713875,0.444936,0.498904,0.546271,0.850966,0.808551,0.88564,0.234433,0.657496,0.756142,0.566048,0.92007,0.806793,0.476515,0.880412,0.799799,0.404823,0.816199,0.525766,0.618642,0.0252695,0.789527,0.485538,0.641046,0.814471,0.556758,0.883797,0.771437,0.924948,0.944778,0.659897,0.718414,0.218807,0.765747,0.699029,0.697346,0.873282,0.572189,0.630828,0.953408,0.779622,0.780066,0.650451,0.949138,0.66527,0.698769,0.228086,0.840888,0.613399,0.975685,0.839075,0.617955,0.572131,0.870624,0.242545,0.976185,0.842088,0.456173,0.54031,0.584406,0.446387,0.927748,0.765834,0.62923,0.307552,0.612688,0.754679,0.358746,0.174844,0.300719,0.675723,0.387412,0.966699,0.928099,0.892658,0.979242,0.944687,0.914969,0.936063,0.0249113,0.993644,0.824791,0.420673,0.523313,0.973531,0.807374,0.976746,0.987834,0.870983,0.990489,0.915218,0.530796,0.460721,0.973868,0.0963091,0.92393,0.853477,0.622751,0.539208,0.964898,0.919634,0.113976,0.6531,0.967019,0.267672,0.946839,0.966463,0.853984,0.631572,0.983409,0.444871,0.949562,0.997304,0.938516,0.98222,0.871847,0.457115,0.886018,0.828398,0.966779,0.809623,0.528077,0.957833,0.327597,0.985523,0.887355,0.968286,0.0664407,0.979621,0.897128,0.893286,0.899885,0.971955,0.56885,0.650313,0.802077,0.529835,0.816815,0.782066,0.899095,0.636106,0.890489,0.812682,0.832907,0.486878,0.366395,0.964708,0.964598,0.890478,0.864906,0.843441,0.983409,0.961753,0.768263,0.931146,0.745212,0.998412,0.984178,0.34531,0.541503,0.746778,0.819982,0.882371,0.458943,0.451997,0.904153,0.587776,0.184003,0.498983,0.898918,0.997577,0.775776,0.784705,0.276371,0.889678,0.0581161,0.977732,0.891664,0.85429,0.575937,0.845371,0.861655,0.967396,0.941303,0.878609,0.871714,0.470337,0.749889,0.663364,0.396093,0.507725,0.997306,0.929488,0.624385,0.319918,0.706212,0.520783,0.681225,0.974328,0.297367,0.910042,0.865445,0.835418,0.944406,0.710796,0.413411,0.99287,0.916889,0.972818,0.888497,0.0647319,0.744746,0.98171,0.974576,0.997881,0.964323,0.448092,0.313304,0.962843,0.958917,0.989849,0.959927,0.862566,0.888145,0.936396,0.984252,0.889643,0.983683,0.866224,0.768598,0.979968,0.971707,0.549703,0.899674,0.85638,0.555598,0.960901,0.668658,0.0469442,0.621159,0.949992,0.875791,0.525917,0.953915,0.529428,0.625515,0.831361,0.916029,0.412457,0.610896,0.632941,0.83744,0.331715,0.698727,0.341711,0.902315,0.997334,0.861563,0.883722,0.455215,0.462034,0.920796,0.316723,0.704212,0.890751,0.87354,0.731842,0.891909,0.00473924,0.256724,0.734053,0.139851,0.923699,0.96189,0.591165,0.754752,0.903345,0.776425,0.715694,0.501958,0.677787,0.954945,0.698848,0.792939,0.483133,0.829515,0.732632,0.842483,0.32467,0.495332,0.414975,0.37263,0.38184,0.0781814,0.986631,0.814275,0.722118,0.646148,0.682753,0.458869,0.912189,0.821905,0.916982,0.17514,0.734548,0.801758,0.882019,0.863565,0.824857,0.797018,0.804817,0.701791,0.733651,0.86962,0.871237,0.528003,0.799465,0.951908,0.897594,0.909798,0.902351,0.783457,0.882896,0.943008,0.708487,0.921397,0.940693,0.566201,0.893204,0.778145,0.888685,0.760387,0.817598,0.409905,0.948701,0.716895,0.848783,0.857075,0.639262,0.659388,0.509286,0.841177,0.704619,0.57606,0.392604,0.676566,0.423601,0.424626,0.805726,0.556153,0.34016,0.424394,0.537797,0.805928,0.685876,0.874974,0.930112,0.87776,0.571658,0.643948,0.48467,0.727493,0.483153,0.668749,0.496554,0.547588,0.747943,0.685267,0.363089,0.49992,0.608908,0.312282,0.76541,0.898378,0.969998,0.965898,0.985911,0.783108,0.808749,0.794268,0.892767,0.92431,0.148188,0.789164,0.858585,0.964416,0.953619,0.75656,0.826465,0.900712,0.891601,0.965993,0.932657,0.903359,0.707973,0.704327,0.920648,0.706194,0.885698,0.879906,0.8425,0.646529,0.548513,0.536837,0.921082,0.625626,0.981114,0.92259,0.902637,0.635009,0.592801,0.732817,0.847958,0.822683,0.957769,0.521768,0.957378,0.655258,0.919325,0.855583,0.819339,0.911936,0.945751,0.900355,0.938162
}}
}}

Revision as of 15:17, 19 October 2012


Full id: C364_CD14_immature_CD14CD16_Aortic_CD4_Reticulocytes_Basophils



Phase1 CAGE Peaks

Hg19::chr10:107445974..107445984,+p1@YWHAZP5
Hg19::chr10:86998558..86998561,+p@chr10:86998558..86998561
+
Hg19::chr11:59844699..59844715,+p1@ENST00000528891
Hg19::chr12:69004707..69004718,+p2@RAP1B
Hg19::chr14:35898950..35898961,+p@chr14:35898950..35898961
+
Hg19::chr15:37110690..37110722,-p1@CSNK1A1P1
Hg19::chr15:45344875..45344879,+p@chr15:45344875..45344879
+
Hg19::chr15:50086217..50086255,+p1@ENST00000558657
Hg19::chr16:22448582..22448637,+p1@ENST00000309865
Hg19::chr16:52689141..52689186,+p1@ENST00000540332
Hg19::chr16:86469492..86469500,-p@chr16:86469492..86469500
-
Hg19::chr17:74533416..74533417,+p@chr17:74533416..74533417
+
Hg19::chr19:42011981..42012002,+p@chr19:42011981..42012002
+
Hg19::chr19:54705025..54705034,+p7@RPS9
Hg19::chr1:24286287..24286326,+p1@PNRC2
Hg19::chr1:247289721..247289729,+p@chr1:247289721..247289729
+
Hg19::chr20:32990563..32990582,-p1@CDC42P1
Hg19::chr2:171608209..171608242,+p1@EIF2S2P4
Hg19::chr2:240497949..240497953,+p@chr2:240497949..240497953
+
Hg19::chr2:87754989..87755007,+p1@LINC00152
Hg19::chr2:87755107..87755119,+p4@LINC00152
Hg19::chr3:72978005..72978023,+p2@FTH1P23
Hg19::chr4:28829856..28829859,+p@chr4:28829856..28829859
+
Hg19::chr6:127676824..127676831,+p1@YWHAZP4
Hg19::chr7:156971838..156971846,+p@chr7:156971838..156971846
+
Hg19::chr7:5938351..5938379,+p2@CCZ1B
p2@CCZ1
Hg19::chr7:72395617..72395665,+p3@POM121
Hg19::chrX:109590174..109590203,-p1@GNG5P2
Hg19::chrX:43887933..43887952,+p@chrX:43887933..43887952
+
Hg19::chrX:63833271..63833273,-p1@YWHAZP7


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
classical monocyte8.12e-4742
CD14-positive, CD16-negative classical monocyte8.12e-4742
defensive cell3.83e-4648
phagocyte3.83e-4648
myeloid lineage restricted progenitor cell1.55e-3866
granulocyte monocyte progenitor cell3.58e-3867
macrophage dendritic cell progenitor9.63e-3661
myeloid leukocyte2.06e-3572
stuff accumulating cell5.85e-3487
monopoietic cell1.37e-3359
monocyte1.37e-3359
monoblast1.37e-3359
promonocyte1.37e-3359
myeloid cell1.83e-30108
common myeloid progenitor1.83e-30108
leukocyte1.47e-24136
hematopoietic lineage restricted progenitor cell7.18e-24120
hematopoietic oligopotent progenitor cell6.09e-21161
hematopoietic multipotent progenitor cell6.09e-21161
hematopoietic stem cell1.27e-20168
angioblastic mesenchymal cell1.27e-20168
hematopoietic cell1.83e-18177
nongranular leukocyte2.84e-17115
mesenchymal cell1.50e-07354
stem cell2.30e-07441
multi fate stem cell2.34e-07427
Langerhans cell2.35e-075
connective tissue cell5.47e-07361
somatic stem cell6.47e-07433
Uber Anatomy
Ontology termp-valuen
bone marrow3.93e-3376
bone element2.04e-2982
skeletal element4.16e-2890
immune system4.33e-2793
skeletal system1.62e-23100
hematopoietic system8.99e-2398
blood island8.99e-2398
hemolymphoid system7.16e-21108
musculoskeletal system9.05e-14167
larynx2.15e-109
lateral plate mesoderm4.26e-08203


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)

{{{tfbs_overrepresentation_jaspar}}}



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.