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Coexpression cluster:C853: Difference between revisions

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|full_id=C853_Neutrophils_leiomyoma_Smooth_Monocytederived_CD14_Osteoblast_Prostate
|full_id=C853_Neutrophils_leiomyoma_Smooth_Monocytederived_CD14_Osteoblast_Prostate
|id=C853
|id=C853
|ontology_enrichment_celltype=CL:0002371!7.89e-32!591;CL:0000723!5.32e-28!436;CL:0000048!1.71e-27!430;CL:0000144!2.47e-27!625;CL:0000034!4.03e-26!444;CL:0002057!8.68e-20!42;CL:0000766!1.78e-18!76;CL:0002320!2.10e-17!365;CL:0000860!8.11e-17!45;CL:0000134!1.01e-16!358;CL:0000839!1.22e-16!70;CL:0000003!4.82e-16!722;CL:0000557!5.85e-16!71;CL:0002194!2.43e-15!63;CL:0000576!2.43e-15!63;CL:0000040!2.43e-15!63;CL:0000559!2.43e-15!63;CL:0002009!4.69e-15!65;CL:0000548!6.61e-15!679;CL:0000004!6.61e-15!679;CL:0000255!6.61e-15!679;CL:0000012!2.29e-14!682;CL:0000219!2.11e-12!390;CL:0000055!3.01e-10!180;CL:0000222!4.63e-10!119;CL:0000763!6.32e-10!112;CL:0000049!6.32e-10!112;CL:0000680!2.09e-09!57;CL:0000056!2.09e-09!57;CL:0000355!2.09e-09!57;CL:0000063!4.43e-09!578;CL:0000192!5.26e-09!42;CL:0000514!5.26e-09!42;CL:0000183!6.32e-09!59;CL:0000187!9.45e-09!54;CL:0000359!4.53e-08!32;CL:0000393!9.94e-08!60;CL:0000211!9.94e-08!60;CL:0000057!2.43e-07!75
|ontology_enrichment_celltype=CL:0002371!9.54e-33!588;CL:0000723!7.03e-29!433;CL:0000048!3.73e-28!427;CL:0000034!4.26e-27!441;CL:0000473!2.77e-22!48;CL:0000234!2.77e-22!48;CL:0000766!1.30e-20!72;CL:0000860!7.80e-20!42;CL:0002057!7.80e-20!42;CL:0000839!7.88e-19!66;CL:0002320!2.63e-18!361;CL:0000557!5.36e-18!67;CL:0000134!1.25e-17!354;CL:0002194!1.73e-17!59;CL:0000576!1.73e-17!59;CL:0000040!1.73e-17!59;CL:0000559!1.73e-17!59;CL:0002009!4.53e-17!61;CL:0000003!1.11e-16!722;CL:0000548!3.53e-15!679;CL:0000255!3.53e-15!679;CL:0000325!5.72e-15!87;CL:0000219!3.90e-13!386;CL:0000763!4.14e-11!108;CL:0000049!4.14e-11!108;CL:0000222!7.13e-10!121;CL:0000680!6.50e-09!58;CL:0000056!6.50e-09!58;CL:0000355!6.50e-09!58;CL:0000192!1.30e-08!43;CL:0000514!1.30e-08!43;CL:0000183!2.48e-08!59;CL:0000187!2.90e-08!55;CL:0000359!8.98e-08!32;CL:0000738!2.45e-07!136;CL:0000057!2.57e-07!76;CL:0002031!2.61e-07!120;CL:0000393!2.92e-07!61;CL:0000211!2.92e-07!61
|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0003081!1.53e-23!216;UBERON:0002204!5.99e-23!167;UBERON:0002384!1.37e-16!375;UBERON:0002371!1.68e-16!80;UBERON:0004765!1.46e-14!101;UBERON:0001434!1.46e-14!101;UBERON:0002390!2.20e-14!102;UBERON:0003061!2.20e-14!102;UBERON:0002193!2.76e-14!112;UBERON:0001474!1.30e-13!86;UBERON:0000914!1.92e-10!83;UBERON:0002329!1.92e-10!83;UBERON:0003077!1.92e-10!83;UBERON:0003059!1.92e-10!83;UBERON:0007282!1.92e-10!83;UBERON:0009618!1.92e-10!83;UBERON:0007285!1.92e-10!83;UBERON:0001637!2.99e-10!42;UBERON:0003509!2.99e-10!42;UBERON:0004572!2.99e-10!42;UBERON:0000486!3.45e-10!82;UBERON:0002405!5.93e-10!115;UBERON:0004290!1.79e-09!70;UBERON:0000926!2.96e-09!448;UBERON:0004120!2.96e-09!448;UBERON:0006603!2.96e-09!448;UBERON:0004535!1.19e-08!110;UBERON:0004872!1.21e-08!84;UBERON:0001981!2.35e-08!60;UBERON:0007500!2.35e-08!60;UBERON:0004537!2.35e-08!60;UBERON:0006965!2.35e-08!60;UBERON:0004573!4.08e-08!33;UBERON:0004571!4.08e-08!33;UBERON:0001009!5.48e-08!113;UBERON:0000055!7.92e-08!69;UBERON:0001134!1.21e-07!61;UBERON:0002036!1.21e-07!61;UBERON:0003082!1.21e-07!61;UBERON:0002049!2.24e-07!79;UBERON:0007798!2.24e-07!79;UBERON:0002385!4.07e-07!63;UBERON:0001015!4.07e-07!63;UBERON:0000383!4.07e-07!63
|ontology_enrichment_uberon=UBERON:0003081!3.10e-25!203;UBERON:0000926!1.01e-24!315;UBERON:0004120!1.01e-24!315;UBERON:0006603!1.01e-24!315;UBERON:0002204!8.62e-24!167;UBERON:0002371!2.57e-18!76;UBERON:0002384!1.66e-17!371;UBERON:0001434!8.44e-16!100;UBERON:0002390!9.47e-16!98;UBERON:0003061!9.47e-16!98;UBERON:0004765!9.96e-16!90;UBERON:0002193!1.43e-15!108;UBERON:0002405!1.47e-15!93;UBERON:0001474!4.46e-15!82;UBERON:0007503!4.50e-10!78;UBERON:0001637!4.93e-10!42;UBERON:0003509!4.93e-10!42;UBERON:0004572!4.93e-10!42;UBERON:0000486!1.26e-09!83;UBERON:0002329!5.62e-09!71;UBERON:0003059!5.62e-09!71;UBERON:0007282!5.62e-09!71;UBERON:0004290!5.62e-09!71;UBERON:0009618!5.62e-09!71;UBERON:0007524!7.24e-09!73;UBERON:0003077!1.14e-08!72;UBERON:0007285!1.14e-08!72;UBERON:0004535!1.46e-08!109;UBERON:0004872!1.47e-08!83;UBERON:0004573!4.35e-08!33;UBERON:0004571!4.35e-08!33;UBERON:0007500!4.75e-08!59;UBERON:0001981!4.75e-08!59;UBERON:0004537!4.75e-08!59;UBERON:0006965!4.75e-08!59;UBERON:0001009!6.26e-08!112;UBERON:0000055!1.16e-07!68;UBERON:0001134!2.86e-07!62;UBERON:0002036!2.86e-07!62;UBERON:0003082!2.86e-07!62;UBERON:0002049!4.50e-07!78;UBERON:0007798!4.50e-07!78;UBERON:0002385!8.20e-07!64;UBERON:0001015!8.20e-07!64;UBERON:0000383!8.20e-07!64
|tf_chipseq_enrich=FOSL1#8061;3:11.9140739149119:0.00167645723432795:0.0104798896927023
|tf_chipseq_enrich=FOSL1#8061;3:11.9140739149119:0.00167645723432795:0.0104798896927023
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345,0.00650764,0.376651,0.501939,0.000657228,0.00102591,0.517953,8.42226e-06,0.00431569,0.00519861,4.5703e-05,0.263426,0.283652,0.0370288,0.000236758,0.314351,0.658042,0.0159542,0.470608,0.0018427,0.0463469,0.0967614,0.0812919,0.140855,3.73056e-05,0.542033,0.000275501,0.00288717,1.0112e-16,0.0213526,0.355638,0.271481,0.174207,0.669506,0.912029,0.0138192,0.0478428,0.202693,0.000176048,0.0102991,0.243065,0.231042,0.444747,0.511132,0.171574,0.237076,0.175309,0.132555,0.110571,0.000348568,0.624606,0.463308,0.0402558,0.153887,0.473193,0.786122,0.000215938,0.418333,0.0101254,0.125614,0.185352,0.836596,5.31347e-20,0.319022,0.321942,0.0196184,0.0922004,0.00604047,0.405772,0.123725,0.00377016,0.171937,0.404613,0.622957,0.557671,8.51282e-13,0.373984,0.234869,4.40338e-05,0.676166,0.231968,0.00401187,0.247799,0.48957,0.00278314,2.72657e-14,7.05593e-08,1.86771e-08,0.396589,0.266963,0.709133,0.67635,0.149158,0.282725,0.00413593,0.378291,0.235602,0.319841,0.367901,0.0811809,0.898866,0.862672,0.162583,0.294593,0.157267,0.191637,0.230272,0.279473,1.73543e-05,0.108968,0.22657,1.25602e-11,1.24371e-06,0.47416,0.00154255,0.679662,5.55482e-06,6.89091e-08,0.000577697,0.929056,0.179342,0.150014,3.0448e-09,0.188879,1.84554e-09,0.000240989,6.19662e-06,0.0109051,0.1092,0.113765,0.00117049,0.47356,3.82461e-05,0.80891,1.64034e-05,0.559783,0.056792,0.20738,0.318705,9.95211e-07,0.000405898,1.5181e-06,0.230462,0.144238,3.98528e-10,0.215644,0.574582,2.53774e-05,0.120206,0.377654,0.142291,0.16868,0.00816291,0.277625,0.00400599,4.22851e-05,0.000231763,0.178172,0.589292,0.23158,0.0277774,0.423653,0.514609,0.559931,0.300338,0.0113377,0.0265107,0.750871,0.421894,0.194062,0.507323,6.23352e-09,0.414868,0.110399,0.220174,0.274822,0.187056,0.00200977,0.419696,0.289311,9.23827e-09,0.463283,0.000102848,0.388586,3.56269e-06,0.619193,2.47202e-05,0.344554,0.253271,0.152702,0.0616181,0.328599,0.000730394,0.472883,0.000389444,1.34321e-06,7.72037e-07,0.00181312,5.58947e-12,0.00355188,0.305672,0.329653,2.15661e-06,1.93537e-08,0.271514,0.791032,0.456073,0.501852,0.246465,0.494232,0.43242,0.353865,3.91009e-08,0.183756,0.612124,0.480538,0.559853,3.81277e-07,0.825084,0.000528912,2.07663e-07,3.91208e-07,0.373995,0.137664,0.380034,0.000571881,0.784815,5.79097e-13,0.00045773,0.00210345,0.927431,0.0141714,0.785712,0.843029,2.6826e-08,0.5197,3.85e-13,0.189945,0.00881344,0.00133208,0.329297,1.38013e-10,0.0127816,4.13145e-05,0.00158582,2.25383e-05,0.0854381,3.80268e-05,0.915143,0.000896165,0.998922,0.576288,0.699475,0.00178771,2.32807e-09,2.23432e-05,0.209318,0.05483,5.13577e-05,0.000181995,0.45002,0.00544467,0.677516,0.000189841,0.00180848,0.0129642,0.162586,0.630525,0.86082,0.605312,3.52893e-07,0.0267201,0.159445,0.00205518,0.444299,1.86558e-10,0.000909438,0.000136232,6.24795e-10,5.71757e-06,1.99412e-06,1.4422e-09,0.0358291,0.179414,0.125951,1.15471e-07,0.0399581,0.535663,0.00144672,1.0221e-06,0.116908,0.00356752,0.00138923,2.81139e-05,1.11033e-06,0.00961192,0.286066,0.715888,0.4289,0.0227613,0.582609,0.347515,0.671987,0.519721,0.00936972,0.486888,0.668993,2.14012e-08,3.05291e-05,0.826195,4.67193e-05,0.726487,0.971507,0.748955,5.69141e-06,1.22325e-16,0.104157,0.995488,0.000342764,0.566957,0.834104,0.833792,0.00136227,0.00588513,2.20645e-06,0.534174,0.000243996,0.39248,0.00167649,0.455938,0.0385095,0.251906,0.0399882,0.641495,0.473785,0.390604,0.2061,0.91557,0.101175,7.65573e-08,0.00130622,0.0862095,0.777825,0.226545,0.53157,0.287986,1.33224e-08,3.22122e-09,2.0412e-05,0.658205,0.0565678,0.00160969,4.30742e-09,0.00516635,0.705001,0.700795,0.898038,0.803833,0.683791,7.9191e-08,0.800335,5.48951e-05,0.0887418,2.59984e-05,0.685295,0.518685,0.507693,0.157067,0.811064,5.68503e-06,0.871557,0.670798,0.521893,1.50728e-05,0.817382,1.59209e-05,0.198735,0.657798,0.000280667,0.00689582,6.07206e-08,0.749346,0.000116851,2.10693e-07,1.66066e-07,0.39035,0.918312,4.4976e-06,0.965046,0.00785183,5.86381e-05,0.236882,0.660591,1.576e-05,0.108025,0.503913,8.249e-05,0.501058,0.220257,0.641475,2.99829e-06,0.506723,0.447516,0.0101029,0.540386,0.269945,0.000397894,4.08776e-05,0.0171265,0.00577396,8.4981e-09,0.53945,0.138531,0.48269,0.51191,0.564853,0.00175191,0.751808,0.710655,2.41849e-05,0.000119756,5.21477e-08,2.30721e-08,1.17692e-06,0.10457,0.278571,0.00111487,0.483693,0.575859,0.663478,0.00353807,0.374056,0.541075,5.99978e-05,0.567518,0.023156,0.54127,0.644166,4.04536e-06,1.85669e-05,0.580521,0.445508,0.0118769,0.00368595,0.122652,9.3813e-05,0.163644,0.0108945,0.0043676,0.00106776,0.000127855,0.429455,0.347441,1.78165e-06,0.317977,0.185106,2.2619e-06,0.437378,2.60725e-05,0.00646034,0.357319,0.0191127,0.00846778,0.485196,0.440503,0.0184724,0.41993,2.34832e-05,0.00111024,7.63947e-05,0.495033,0.221402,0.630984,0.636345,0.532147,1.06115e-09,0.539507,0.093248,1.01628e-05,2.47179e-12,0.0644956,0.0545369,0.610026,0.132975,0.0399245,6.40156e-08,0.518957,0.000378603,0.432878,0.00138242,0.260574,0.010707,8.68965e-11,0.000559088,0.288135,0.000133121,0.0372358,0.300745,0.559725,0.248778,1.30917e-06,0.313572,0.167775,0.168268,1.78684e-06,0.237199,0.00876024,0.168156,1.16282e-10,0.0824214,0.546774,0.0333049,4.2278e-07,0.503708,0.246187,0.291231,0.198269,0.00104171,0.197483,0.308086,0.20448,1.42224e-08,0.00128849,0.319783,0.139615,0.206257,0.268704,9.14679e-06,0.383259,0.000142318,0.689269,0.675716,4.14603e-09,0.0018739,0.638663,7.61043e-05,0.52491,3.27688e-05,5.31985e-08,0.622646,0.479007,2.91591e-08,0.0846975,0.375599,2.75711e-06,0.536945,0.523194,0.0277872,0.593153,0.000423841,0.336551,0.00157002,0.00178511,0.335207,0.514691,8.23607e-07,0.668131,0.670422,0.249066,0.450988,0.571064,6.02395e-08,0.733696,0.573814,0.539957,0.285349,0.2588,0.000352012,1.48464e-09,0.00291717,0.65176,0.217989,0.650689,0.298817,2.80137e-05,0.475347,2.94055e-05,0.555097,0.000511364,0.536392,0.775775
}}
}}

Revision as of 16:47, 19 October 2012


Full id: C853_Neutrophils_leiomyoma_Smooth_Monocytederived_CD14_Osteoblast_Prostate



Phase1 CAGE Peaks

Hg19::chr1:26607267..26607285,+p@chr1:26607267..26607285
+
Hg19::chr1:26607290..26607307,+p@chr1:26607290..26607307
+
Hg19::chr1:26607342..26607393,+p@chr1:26607342..26607393
+
Hg19::chr1:26607542..26607556,+p@chr1:26607542..26607556
+
Hg19::chr1:26607565..26607584,+p@chr1:26607565..26607584
+
Hg19::chr1:26607589..26607601,+p@chr1:26607589..26607601
+
Hg19::chr1:26607604..26607669,+p@chr1:26607604..26607669
+
Hg19::chr1:26607679..26607701,+p@chr1:26607679..26607701
+
Hg19::chr1:26607704..26607714,+p@chr1:26607704..26607714
+
Hg19::chr1:26607717..26607763,+p@chr1:26607717..26607763
+


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
somatic cell9.54e-33588
somatic stem cell7.03e-29433
multi fate stem cell3.73e-28427
stem cell4.26e-27441
defensive cell2.77e-2248
phagocyte2.77e-2248
myeloid leukocyte1.30e-2072
classical monocyte7.80e-2042
CD14-positive, CD16-negative classical monocyte7.80e-2042
myeloid lineage restricted progenitor cell7.88e-1966
connective tissue cell2.63e-18361
granulocyte monocyte progenitor cell5.36e-1867
mesenchymal cell1.25e-17354
monopoietic cell1.73e-1759
monocyte1.73e-1759
monoblast1.73e-1759
promonocyte1.73e-1759
macrophage dendritic cell progenitor4.53e-1761
native cell1.11e-16722
animal cell3.53e-15679
eukaryotic cell3.53e-15679
stuff accumulating cell5.72e-1587
motile cell3.90e-13386
myeloid cell4.14e-11108
common myeloid progenitor4.14e-11108
mesodermal cell7.13e-10121
muscle precursor cell6.50e-0958
myoblast6.50e-0958
multi-potent skeletal muscle stem cell6.50e-0958
smooth muscle cell1.30e-0843
smooth muscle myoblast1.30e-0843
contractile cell2.48e-0859
muscle cell2.90e-0855
vascular associated smooth muscle cell8.98e-0832
leukocyte2.45e-07136
fibroblast2.57e-0776
hematopoietic lineage restricted progenitor cell2.61e-07120
electrically responsive cell2.92e-0761
electrically active cell2.92e-0761
Uber Anatomy
Ontology termp-valuen
lateral plate mesoderm3.10e-25203
mesoderm1.01e-24315
mesoderm-derived structure1.01e-24315
presumptive mesoderm1.01e-24315
musculoskeletal system8.62e-24167
bone marrow2.57e-1876
connective tissue1.66e-17371
skeletal system8.44e-16100
hematopoietic system9.47e-1698
blood island9.47e-1698
skeletal element9.96e-1690
hemolymphoid system1.43e-15108
immune system1.47e-1593
bone element4.46e-1582
epithelial vesicle4.50e-1078
artery4.93e-1042
arterial blood vessel4.93e-1042
arterial system4.93e-1042
multilaminar epithelium1.26e-0983
somite5.62e-0971
presomitic mesoderm5.62e-0971
presumptive segmental plate5.62e-0971
dermomyotome5.62e-0971
trunk paraxial mesoderm5.62e-0971
dense mesenchyme tissue7.24e-0973
paraxial mesoderm1.14e-0872
presumptive paraxial mesoderm1.14e-0872
cardiovascular system1.46e-08109
splanchnic layer of lateral plate mesoderm1.47e-0883
systemic artery4.35e-0833
systemic arterial system4.35e-0833
epithelial tube open at both ends4.75e-0859
blood vessel4.75e-0859
blood vasculature4.75e-0859
vascular cord4.75e-0859
circulatory system6.26e-08112
vessel1.16e-0768
skeletal muscle tissue2.86e-0762
striated muscle tissue2.86e-0762
myotome2.86e-0762
vasculature4.50e-0778
vascular system4.50e-0778
muscle tissue8.20e-0764
musculature8.20e-0764
musculature of body8.20e-0764


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

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

TF#promotersEnrichmentp-valueq-value
FOSL1#8061311.91407391491190.001676457234327950.0104798896927023



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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