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Coexpression cluster:C1134: Difference between revisions

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|gostat_on_coexpression_clusters=GO:0004337!geranyltranstransferase activity!0.0141267875544012!9453$GO:0004161!dimethylallyltranstransferase activity!0.0141267875544012!9453$GO:0046582!Rap GTPase activator activity!0.0141267875544012!6494$GO:0004311!farnesyltranstransferase activity!0.0141267875544012!9453$GO:0046839!phospholipid dephosphorylation!0.0493942937796945!9107$GO:0004659!prenyltransferase activity!0.0493942937796945!9453
|gostat_on_coexpression_clusters=GO:0004337!geranyltranstransferase activity!0.0141267875544012!9453$GO:0004161!dimethylallyltranstransferase activity!0.0141267875544012!9453$GO:0046582!Rap GTPase activator activity!0.0141267875544012!6494$GO:0004311!farnesyltranstransferase activity!0.0141267875544012!9453$GO:0046839!phospholipid dephosphorylation!0.0493942937796945!9107$GO:0004659!prenyltransferase activity!0.0493942937796945!9453
|id=C1134
|id=C1134
|ontology_enrichment_celltype=CL:0000738!2.33e-49!140;CL:0000037!8.22e-41!172;CL:0000566!8.22e-41!172;CL:0002087!3.27e-39!119;CL:0002031!3.54e-39!124;CL:0000988!1.12e-37!182;CL:0002032!7.11e-37!165;CL:0000837!7.11e-37!165;CL:0000542!1.64e-28!53;CL:0000051!1.64e-28!53;CL:0000838!4.11e-28!52;CL:0000766!7.66e-17!76;CL:0002057!1.08e-16!42;CL:0000860!5.78e-15!45;CL:0000084!8.82e-14!25;CL:0000827!8.82e-14!25;CL:0000557!1.26e-13!71;CL:0000945!2.11e-13!24;CL:0000826!2.11e-13!24;CL:0000763!1.85e-12!112;CL:0000049!1.85e-12!112;CL:0000839!2.32e-12!70;CL:0000791!3.56e-12!18;CL:0000789!3.56e-12!18;CL:0002420!3.56e-12!18;CL:0002419!3.56e-12!18;CL:0000790!3.56e-12!18;CL:0002009!5.56e-12!65;CL:0002194!3.36e-11!63;CL:0000576!3.36e-11!63;CL:0000040!3.36e-11!63;CL:0000559!3.36e-11!63;CL:0000134!7.00e-11!358;CL:0002320!7.16e-10!365;CL:0000236!2.51e-09!14;CL:0000625!4.54e-08!11;CL:0000219!2.12e-07!390;CL:0000048!2.94e-07!430
|ontology_enrichment_celltype=CL:0000738!4.59e-72!136;CL:0000037!6.24e-59!168;CL:0000566!6.24e-59!168;CL:0002087!1.07e-54!115;CL:0000988!3.05e-54!177;CL:0002031!4.44e-52!120;CL:0002032!7.93e-52!161;CL:0000837!7.93e-52!161;CL:0000542!7.69e-44!53;CL:0000051!7.69e-44!53;CL:0000838!4.56e-43!52;CL:0002242!1.28e-41!55;CL:0000791!1.65e-23!18;CL:0000789!1.65e-23!18;CL:0002420!1.65e-23!18;CL:0002419!1.65e-23!18;CL:0000790!1.65e-23!18;CL:0000945!1.06e-21!24;CL:0000826!1.06e-21!24;CL:0000766!3.11e-20!72;CL:0000860!5.54e-20!42;CL:0002057!5.54e-20!42;CL:0000084!2.31e-18!25;CL:0000827!2.31e-18!25;CL:0000473!3.00e-16!48;CL:0000234!3.00e-16!48;CL:0000236!1.76e-15!14;CL:0000763!3.48e-15!108;CL:0000049!3.48e-15!108;CL:0000625!8.06e-15!11;CL:0000557!3.44e-14!67;CL:0002009!1.20e-13!61;CL:0000134!3.20e-13!354;CL:0000839!1.89e-12!66;CL:0002320!2.00e-12!361;CL:0002194!3.13e-12!59;CL:0000576!3.13e-12!59;CL:0000040!3.13e-12!59;CL:0000559!3.13e-12!59;CL:0000094!4.76e-12!8;CL:0000219!1.09e-09!386;CL:0000624!1.36e-09!6;CL:0000081!3.76e-08!11;CL:0000048!7.39e-07!427
|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002390!5.25e-20!102;UBERON:0003061!5.25e-20!102;UBERON:0002193!5.61e-18!112;UBERON:0002371!1.22e-11!80;UBERON:0001474!5.63e-11!86;UBERON:0002405!2.74e-09!115;UBERON:0004765!4.24e-09!101;UBERON:0001434!4.24e-09!101;UBERON:0002384!3.04e-08!375;UBERON:0000178!5.80e-08!15;UBERON:0000179!5.80e-08!15;UBERON:0000463!5.80e-08!15
|ontology_enrichment_uberon=UBERON:0002390!2.93e-22!98;UBERON:0003061!2.93e-22!98;UBERON:0002193!1.03e-20!108;UBERON:0002405!3.57e-15!93;UBERON:0002371!5.83e-13!76;UBERON:0002384!2.37e-11!371;UBERON:0001474!3.14e-11!82;UBERON:0004765!2.54e-09!90;UBERON:0001434!2.00e-07!100;UBERON:0000178!2.88e-07!15;UBERON:0000179!2.88e-07!15;UBERON:0000463!2.88e-07!15
|tf_chipseq_enrich=CHD2#1106;5:7.3885877386549:0.000149868960082067:0.00193165053955461!EBF1#1879;5:6.36176203326358:0.000307843991861182:0.00316913934608083!ELF1#1997;6:3.64979825040646:0.000937747978262069:0.00678895474155776!NFKB1#4790;7:5.48806342419384:6.66568321176054e-06:0.000194566039394371!PAX5#5079;4:3.81118030353019:0.0120826168155519:0.043824978037071!POU2F2#5452;4:5.20349946156716:0.00386671431017981:0.019061445097747!TBP#6908;6:3.17723201751119:0.00207411205185266:0.0120156527947326!ZEB1#6935;4:9.65053258145363:0.000371891664568925:0.00369834255912341
|tf_chipseq_enrich=CHD2#1106;5:7.3885877386549:0.000149868960082067:0.00193165053955461!EBF1#1879;5:6.36176203326358:0.000307843991861182:0.00316913934608083!ELF1#1997;6:3.64979825040646:0.000937747978262069:0.00678895474155776!NFKB1#4790;7:5.48806342419384:6.66568321176054e-06:0.000194566039394371!PAX5#5079;4:3.81118030353019:0.0120826168155519:0.043824978037071!POU2F2#5452;4:5.20349946156716:0.00386671431017981:0.019061445097747!TBP#6908;6:3.17723201751119:0.00207411205185266:0.0120156527947326!ZEB1#6935;4:9.65053258145363:0.000371891664568925:0.00369834255912341
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83646,0.496336,0.353144,0.407665,0.11039,0.361507,0.293511,0.0754745,0.264499,0.439214,0.0896836,0.133679,0.361823,0.262768,0.235824,0.23812,0.506939,0.0654706,0.844302,0.305348,0.0883079,0.192275,0.123717,0.3044,0.494788,0.435034,0.388488,0.27954,0.689314,0.468189,0.0086744,0.168686,0.35711,0.180717,0.375467,0.614081,0.311267,0.299453,0.347601,0.297851,0.195385,0.0117735,0.546003,0.106912,0.0232022,0.399867,0.283013,0.17144,0.0304669,0.0417384,0.280244,0.753667,0.404629,0.1168,0.216736,0.112879,0.138362,0.1674,0.205022,0.304414,0.0775871,0.1646,0.530976,0.38424,0.916686,0.435374,0.54926,0.25636,0.392755,0.366993,0.843094,0.12921,0.107541,0.112963,0.136306,0.362226,0.0104549,0.158567,0.446426,0.192217,0.0810658,0.268889,0.0751905,0.49704,0.882829,0.417001,0.436925,0.234633,0.150144,0.235575,0.111506,0.209512,0.415762,0.167545,0.1033,0.238509,0.156356,0.121335,0.322099,0.0857464,0.282499,0.101873,0.121306,0.246526,0.203595,0.356991,0.227948,0.44271,0.128341,0.463619,0.168391,0.545636,0.320047,0.397073,0.113603,0.221207,0.603174,0.358,0.621995,0.318595,0.140173,0.390753,0.312917,0.805801,0.0602813,0.15977,0.201434,0.134947,0.304849,0.316782,0.212636,0.0597011,0.353123,0.394821,0.291345,0.453507,0.491263,0.188656,0.255995,0.0182561,0.609179,0.244347,0.243363,0.382464,0.361244,0.207462,0.51104,0.487422,0.29768,0.217499,0.154075,0.225368,0.244195,0.0586175,0.348776,0.198885,0.608664,0.347052,0.386025,0.1797,0.379465,0.327304,0.581915,0.0279513,0.132491,0.48467,0.367752,0.436987,0.458334,0.704893,0.392559,0.0821811,0.35171,0.279549,0.0984834,0.284421,0.71736,0.658832,0.751141,0.344864,0.458949,0.279105,0.391162,0.659829,0.726427,0.750889,0.401507,0.330231,0.648881,0.703424,0.308086,0.86822,0.432485,0.732853,0.35015,0.684866,0.790371,0.481522,0.158399,0.515017,0.536258,0.703208,0.0232232,0.50853,0.656157,0.107763,0.542303,0.805952,0.558605,0.363477,0.54891,0.341975,0.425103,0.00878366,0.863925,0.780774,0.615729,0.771117,0.501908,0.401378,0.478352,0.143053,0.111342,0.201361,0.134463,0.337191,0.407631,0.694783,0.797881,0.321651,0.0978461,0.154175,0.446842,0.692633,0.398911,0.45244,0.0996414,0.40673,0.415502,0.565657,0.499305,0.371455,0.632958,0.311148,0.327011,0.299176,0.129041,0.210121,0.585578,0.0844703,0.341296,0.457524,0.258349,0.541728,0.574271,0.220515,0.0803913,0.0437479,0.280793,0.654029,0.125952,0.816529,0.230258,0.10758,0.619962,0.645172,0.681127,0.249468,0.522572,0.108465,0.443364,0.715629,0.715255,0.425138,0.373992,0.867478,0.100922,0.7547,0.294507,0.484505,0.346938,0.40211,0.183851,0.588416,0.198404,0.362009,0.611179,0.664218,0.822766,0.0361263,0.286826,0.265466,0.685486,0.651111,0.466416,0.411899,0.171664,0.667,0.748565,0.635414,0.528332,0.21448,0.209988,0.474724,0.294861,0.210935,0.0540539,0.797742,0.315643,0.0866156,0.490466,0.676249,0.760368,0.805909,0.0212266,0.232264,0.400622,0.391073,0.766374,0.0670949,0.575489,0.762263,0.540565,0.576036,0.440278,0.695855,0.171531,0.657348,0.173588,0.67786,0.780554,0.278413,0.620377,0.0945637,0.642069,0.680876,0.610982,0.826815,0.0521131,0.679978,0.415214,0.364157,0.172412,0.53064,0.415017,0.0769041,0.387804,0.502902,0.385339,0.159832,0.512288,0.338978,0.390233,0.339879,0.438999,0.41967,0.197678,0.208523,0.34551,0.4924,0.670197,0.497662,0.418843,0.0135943,0.369586,0.394729,0.441472,0.444932,0.622992,0.0577066,0.436618,0.0952884,0.382758,0.264429,0.404954,0.0744027,0.204325,0.265849,0.0791221,0.122027,0.177748,0.188364,0.279598,0.420279,0.485091,0.443868,0.150111,0.420451,0.514853,0.244241,0.307495,0.455626,0.3382,0.124108,0.350305,0.0875262,0.147486,0.117583,0.103076,0.518238,0.40865,0.634608,0.324846,0.25829,0.215261,0.235004,0.133496,0.433115,0.331422,0.440492,0.397558,0.266168,0.504119,0.57634,0.371725,0.334024,0.500457,0.316975,0.435107,0.26559,0.378345,0.380153,0.160696,0.0338793,0.507413,0.412407,0.42955,0.418893,0.300222,0.393729,0.487504,0.249956,0.447581,0.482721,0.35808,0.016105,0.296254,0.400859,0.473667,0.327684,0.279523,0.00555762,0.444635,0.356463,0.364875,0.211724,0.0984714,0.579867,0.536787,0.436872,0.181464,0.40945,0.231548,0.120636,0.121001,0.317719,0.172653,0.0924531,0.120918,0.0627928,0.507382,0.425328,0.384398,0.462521,0.387627,0.179489,0.214126,0.143317,0.261663,0.14273,0.227254,0.147968,0.168955,0.274981,0.236422,0.0999117,0.149301,0.196723,0.0836477,0.287028,0.413461,0.197757,0.545381,0.630108,0.299959,0.160183,0.498355,0.406059,0.452427,0.0513553,0.0320119,0.0772865,0.540845,0.511559,0.280842,0.335456,0.00229313,0.404559,0.545676,0.467154,0.600528,0.249647,0.113392,0.446356,0.248584,0.397145,0.390152,0.537963,0.540199,0.14583,0.342785,0.447064,0.20487,0.603936,0.449548,0.41929,0.0236771,0.189123,0.588995,0.355645,0.332105,0.169259,0.158122,0.168501,0.220023,0.117762,0.363335,0.0613546,0.432735,0.493369,0.416144,0.648861
}}
}}

Revision as of 10:53, 19 October 2012


Full id: C1134_Eosinophils_Neutrophils_CD19_CD8_Natural_CD4_Basophils



Phase1 CAGE Peaks

Hg19::chr11:121323670..121323687,-p1@ENST00000501964
p1@uc001pxw.1
Hg19::chr11:65407331..65407354,+p5@SIPA1
Hg19::chr13:25861394..25861408,-p7@MTMR6
Hg19::chr1:235490214..235490232,+p7@GGPS1
Hg19::chr22:40440895..40440904,+p12@TNRC6B
Hg19::chr6:30034656..30034686,-p@chr6:30034656..30034686
-
Hg19::chr7:43688351..43688370,-p3@C7orf44


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


GO IDGO nameFDR corrected p-value
GO:0004337geranyltranstransferase activity0.0141267875544012
GO:0004161dimethylallyltranstransferase activity0.0141267875544012
GO:0046582Rap GTPase activator activity0.0141267875544012
GO:0004311farnesyltranstransferase activity0.0141267875544012
GO:0046839phospholipid dephosphorylation0.0493942937796945
GO:0004659prenyltransferase activity0.0493942937796945



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
leukocyte4.59e-72136
hematopoietic stem cell6.24e-59168
angioblastic mesenchymal cell6.24e-59168
nongranular leukocyte1.07e-54115
hematopoietic cell3.05e-54177
hematopoietic lineage restricted progenitor cell4.44e-52120
hematopoietic oligopotent progenitor cell7.93e-52161
hematopoietic multipotent progenitor cell7.93e-52161
lymphocyte7.69e-4453
common lymphoid progenitor7.69e-4453
lymphoid lineage restricted progenitor cell4.56e-4352
nucleate cell1.28e-4155
mature alpha-beta T cell1.65e-2318
alpha-beta T cell1.65e-2318
immature T cell1.65e-2318
mature T cell1.65e-2318
immature alpha-beta T cell1.65e-2318
lymphocyte of B lineage1.06e-2124
pro-B cell1.06e-2124
myeloid leukocyte3.11e-2072
classical monocyte5.54e-2042
CD14-positive, CD16-negative classical monocyte5.54e-2042
T cell2.31e-1825
pro-T cell2.31e-1825
defensive cell3.00e-1648
phagocyte3.00e-1648
B cell1.76e-1514
myeloid cell3.48e-15108
common myeloid progenitor3.48e-15108
CD8-positive, alpha-beta T cell8.06e-1511
granulocyte monocyte progenitor cell3.44e-1467
macrophage dendritic cell progenitor1.20e-1361
mesenchymal cell3.20e-13354
myeloid lineage restricted progenitor cell1.89e-1266
connective tissue cell2.00e-12361
monopoietic cell3.13e-1259
monocyte3.13e-1259
monoblast3.13e-1259
promonocyte3.13e-1259
granulocyte4.76e-128
motile cell1.09e-09386
CD4-positive, alpha-beta T cell1.36e-096
blood cell3.76e-0811
multi fate stem cell7.39e-07427
Uber Anatomy
Ontology termp-valuen
hematopoietic system2.93e-2298
blood island2.93e-2298
hemolymphoid system1.03e-20108
immune system3.57e-1593
bone marrow5.83e-1376
connective tissue2.37e-11371
bone element3.14e-1182
skeletal element2.54e-0990
skeletal system2.00e-07100
blood2.88e-0715
haemolymphatic fluid2.88e-0715
organism substance2.88e-0715


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
CHD2#110657.38858773865490.0001498689600820670.00193165053955461
EBF1#187956.361762033263580.0003078439918611820.00316913934608083
ELF1#199763.649798250406460.0009377479782620690.00678895474155776
NFKB1#479075.488063424193846.66568321176054e-060.000194566039394371
PAX5#507943.811180303530190.01208261681555190.043824978037071
POU2F2#545245.203499461567160.003866714310179810.019061445097747
TBP#690863.177232017511190.002074112051852660.0120156527947326
ZEB1#693549.650532581453630.0003718916645689250.00369834255912341



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.