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Coexpression cluster:C2700: Difference between revisions

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|full_id=C2700_chorionic_lung_Fibroblast_Olfactory_Renal_Endothelial_Hepatic
|full_id=C2700_chorionic_lung_Fibroblast_Olfactory_Renal_Endothelial_Hepatic
|id=C2700
|id=C2700
|ontology_enrichment_celltype=CL:0000222!4.39e-10!119;CL:0000213!2.82e-09!57;CL:0000215!2.82e-09!57;CL:0000066!6.50e-09!254;CL:0000115!2.51e-08!35;CL:0000220!1.24e-07!246;CL:0002078!1.30e-07!44;CL:0002321!3.65e-07!248;CL:0002139!6.33e-07!24
|ontology_enrichment_celltype=CL:0000222!5.16e-11!121;CL:0000213!5.82e-10!58;CL:0000215!5.82e-10!58;CL:0000115!8.31e-09!36;CL:0000066!1.78e-08!253;CL:0002078!3.68e-08!45;CL:0002321!2.72e-07!250;CL:0002139!5.87e-07!24;CL:0000349!9.03e-07!19
|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000477!3.32e-20!286;UBERON:0000468!1.09e-19!659;UBERON:0000483!6.01e-18!309;UBERON:0004111!7.44e-18!241;UBERON:0000119!1.31e-17!312;UBERON:0000467!3.97e-17!625;UBERON:0000480!8.21e-17!626;UBERON:0000481!4.17e-14!347;UBERON:0000475!6.86e-13!365;UBERON:0000062!9.65e-13!511;UBERON:0003914!1.04e-12!118;UBERON:0000025!3.76e-12!194;UBERON:0000923!5.15e-12!604;UBERON:0005291!5.15e-12!604;UBERON:0006598!5.15e-12!604;UBERON:0002532!5.15e-12!604;UBERON:0002050!5.63e-12!605;UBERON:0005423!5.63e-12!605;UBERON:0000922!2.10e-11!612;UBERON:0000064!1.88e-10!219;UBERON:0004872!5.04e-10!84;UBERON:0000490!4.30e-09!138;UBERON:0002049!5.62e-09!79;UBERON:0007798!5.62e-09!79;UBERON:0002100!5.63e-09!216;UBERON:0007023!7.80e-09!115;UBERON:0004119!2.00e-08!169;UBERON:0000925!2.00e-08!169;UBERON:0006595!2.00e-08!169;UBERON:0003103!4.89e-08!69;UBERON:0000055!6.46e-08!69;UBERON:0005256!6.81e-08!143;UBERON:0001009!2.31e-07!113;UBERON:0003104!3.08e-07!238;UBERON:0009142!3.08e-07!238;UBERON:0009569!5.88e-07!113;UBERON:0007100!6.36e-07!27;UBERON:0000926!7.62e-07!448;UBERON:0004120!7.62e-07!448;UBERON:0006603!7.62e-07!448;UBERON:0001048!7.82e-07!168
|ontology_enrichment_uberon=UBERON:0000468!3.83e-18!656;UBERON:0000483!2.03e-17!306;UBERON:0000119!3.13e-17!309;UBERON:0004111!9.72e-17!240;UBERON:0000477!1.00e-15!373;UBERON:0000467!1.30e-15!624;UBERON:0000480!2.52e-15!625;UBERON:0000481!2.55e-13!342;UBERON:0003914!4.42e-12!117;UBERON:0000062!2.43e-11!503;UBERON:0000923!5.68e-11!560;UBERON:0010316!5.68e-11!560;UBERON:0005291!5.68e-11!560;UBERON:0006598!5.68e-11!560;UBERON:0010317!5.68e-11!560;UBERON:0002532!5.68e-11!560;UBERON:0000025!6.71e-11!192;UBERON:0000475!9.01e-11!264;UBERON:0002050!1.10e-10!564;UBERON:0005423!3.25e-10!581;UBERON:0000064!1.31e-09!218;UBERON:0000922!1.81e-09!592;UBERON:0004872!1.89e-09!83;UBERON:0004119!5.79e-09!160;UBERON:0000925!5.79e-09!160;UBERON:0006595!5.79e-09!160;UBERON:0002049!9.30e-09!78;UBERON:0007798!9.30e-09!78;UBERON:0000490!1.04e-08!148;UBERON:0002100!2.91e-08!199;UBERON:0003104!3.78e-08!160;UBERON:0009142!3.78e-08!160;UBERON:0005256!4.21e-08!122;UBERON:0000055!1.11e-07!68;UBERON:0001048!1.63e-07!160;UBERON:0007023!2.08e-07!114;UBERON:0004923!2.52e-07!66;UBERON:0003103!2.64e-07!68;UBERON:0005631!8.11e-07!14;UBERON:0000158!8.11e-07!14
|tfbs_overrepresentation=0.191353,0.0774498,0.50138,0.0631091,0.0363006,0.363996,0.0569281,0.510252,0.043387,0.0341265,0.181435,0.288577,0.243414,0.0143109,0.193153,0.0816702,0.183412,0.128744,0.0698403,0.0105071,0.243245,0.172742,0.107781,0.124486,0.0550418,0.0423226,0.268949,0.000309089,0.186914,0.122514,0.26347,0.0117122,0.0239693,0.267529,0.0877018,0.00640354,0.788552,0.0568767,0.157159,0.0879352,0.126525,0.0326801,0.182216,0.2375,0.157881,0.0480278,0.0503649,0.000171338,0.0111479,0.158244,0.19996,0.0715789,0.0924421,0.12203,0.0359423,0.0508907,0.0103896,0.0412226,0.103044,0.138225,0.0390464,0.194086,0.142115,0.0999599,0.0720888,0.0667453,0.439574,0.0792005,0.00664966,0.0252868,0.470097,0.0892037,0.116917,0.155921,0.00995563,0.0227583,0.126543,0.0578308,0.0493551,0.00965832,0.125428,0.0469922,0.0562614,0.150119,0.368178,0.320801,0.0848546,0.268505,0.713984,0.0827752,0.112676,0.0655645,0.12511,0.0626609,0.112199,0.150351,0.690341,0.199405,0.121709,0.347653,0.0759036,0.350158,0.184542,0.0491142,0.280878,0.0541957,0.0883058,0.105785,0.187509,0.34189,0.23573,0.0450707,0.194256,0.0235108,0.132631,0.0447483,0.0270258,0.0748174,0.180926,0.110194,0.025182,0.275495,0.0177346,0.112709,0.00942364,0.00240277,0.119051,0.0196757,0.110868,0.175735,0.078637,0.0985137,0.0755515,0.0302655,0.164103,0.000527803,0.085537,0.0730922,0.0438087,0.0052702,0.0302521,0.166414,0.0378473,0.202388,0.701894,0.0913381,0.129544,0.110696,0.00135386,0.157774,0.258146,0.186826,0.000168201,0.0352845,0.0565357,0.153577,0.0984158,0.0476129,0.0683304,0.0447121,0.291455,0.124982,0.152417,0.192028,0.346873,0.149398,0.0530169,0.000872371,0.0534404,0.392741,0.2321,0.017128,0.564569,0.0715212,0.105131,0.118265,0.182591,0.234755,0.230552,0.0472274,0.205973,0.159869,0.0363736,0.15105,0.0970713,0.155237,0.236268,0.0532055,0.108938,0.224443,0.140245,0.241581,0.160458,0.292792,0.147332,0.00198009,0.00549132,0.0795624,0.000126612,0.14349,0.117261,0.0797088,0.0408965,0.0799774,0.177664,0.329956,0.346995,0.197158,0.265132,0.230439,0.0606832,0.136664,0.158184,0.147626,0.0143681,0.218801,0.21271,0.132273,0.0830988,0.134907,0.0181987,0.462724,0.202467,0.208718,0.0972471,0.165147,0.180711,0.112956,0.0797807,0.0790532,0.00108189,0.476758,0.0553945,0.00524748,0.125804,0.122288,0.0624687,0.334388,0.21183,0.0420489,0.235571,0.435782,0.128998,0.109226,0.151958,0.0169062,0.107176,0.146021,0.129196,0.15291,0.0229006,0.00276785,0.239646,0.128521,0.1286,0.0230819,0.000515086,0.0370757,0.0916845,0.324438,0.0816983,0.00232734,0.211672,0.167038,0.0457509,0.106603,0.106727,0.12083,0.154253,0.0993998,0.352707,0.0834863,0.324356,0.545829,0.113754,0.0504034,0.000932717,0.114577,0.495926,0.0560372,0.153844,0.100371,0.20358,0.888682,0.00238365,0.148431,0.332539,0.0457383,0.129819,0.0138826,0.0631104,0.017212,0.00499259,0.413223,0.271656,0.0406667,0.34505,0.0785304,0.00558459,0.147194,0.112403,0.0348478,0.241524,0.0232022,0.234628,0.0386001,0.143893,0.000236055,0.0434592,0.524104,0.467825,0.563725,0.164225,0.019108,0.076794,0.460819,0.00622965,0.586668,0.0588752,6.25489e-06,0.0838963,0.0590382,0.398372,0.286293,0.00272999,0.708425,0.359128,0.0018021,0.683133,0.0782875,0.188516,0.682118,0.162437,0.0116693,0.578349,0.00804842,0.0255795,0.00120723,0.714007,0.235444,0.804772,0.899283,0.114723,0.349116,0.005939,0.239545,0.432689,0.272581,0.343881,0.0110284,0.000413209,0.0733855,9.16409e-06,0.316925,0.356561,0.210197,0.211506,0.0883859,0.0962508,0.238465,0.341199,0.853221,0.112487,0.159267,0.00423142,0.0907578,0.656755,0.0013537,0.000375458,0.393583,0.076625,0.0596868,0.0984075,0.0478748,0.408321,0.00740265,0.23849,0.0799295,0.109146,0.214741,0.0112154,0.0988815,0.784024,0.0710032,0.644643,0.0071728,0.291917,0.104649,0.25441,0.202782,0.672876,0.0378508,0.219758,0.0376034,0.0746589,0.73448,0.419676,0.188259,0.189182,0.477589,0.131612,0.0460871,0.0505495,0.321282,0.198207,0.0616078,5.32213e-05,0.0615778,0.175552,0.129238,0.0224473,0.0117791,0.074448,0.109421,0.386216,0.0133933,0.000286025,0.239407,0.0778663,0.360203,0.333725,0.119902,0.000434367,0.500627,0.0365674,0.00341265,0.000229454,0.845507,0.265037,0.629795,0.754776,0.53531,0.341771,0.424526,0.657528,0.356381,0.184395,0.0489035,0.624689,0.206945,0.304719,0.0252286,0.296994,0.244339,0.117049,0.0786167,0.629381,0.376317,0.00278013,0.0865866,0.020637,0.00192277,0.00550983,8.97903e-05,0.382579,0.0149042,0.0919254,0.0735469,0.248103,0.102621,0.0760107,0.0188226,0.286156,0.261868,0.541583,0.183047,0.247151,0.146385,0.365815,0.0576261,0.382413,0.0144257,0.175633,0.139918,0.0685737,0.0828344,0.4729,0.0238089,0.0851202,0.354433,0.142001,0.0614918,0.219485,0.149782,0.136923,0.00726614,0.113892,0.207214,0.140201,0.0580534,0.00518407,0.161297,0.168389,0.270152,0.249506,0.111145,0.0660736,0.108971,0.0879235,0.235214,0.145546,0.28124,0.0175667,0.0347823,0.172263,0.243319,0.0637178,0.257309,0.500692,0.166608,0.227224,0.238082,0.219023,0.115115,0.124916,0.0149794,0.28498,0.140114,0.0695559,0.00641248,0.224626,0.0179896,0.0407862,0.03989,0.171436,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}}
}}

Revision as of 14:20, 19 October 2012


Full id: C2700_chorionic_lung_Fibroblast_Olfactory_Renal_Endothelial_Hepatic



Phase1 CAGE Peaks

Hg19::chr2:46602879..46602899,+p8@EPAS1
Hg19::chr2:46602901..46602926,+p7@EPAS1
Hg19::chr2:46605165..46605191,+p@chr2:46605165..46605191
+
Hg19::chr2:46607364..46607410,+p@chr2:46607364..46607410
+


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
mesodermal cell5.16e-11121
lining cell5.82e-1058
barrier cell5.82e-1058
endothelial cell8.31e-0936
epithelial cell1.78e-08253
meso-epithelial cell3.68e-0845
embryonic cell2.72e-07250
endothelial cell of vascular tree5.87e-0724
extraembryonic cell9.03e-0719
Uber Anatomy
Ontology termp-valuen
multi-cellular organism3.83e-18656
epithelium2.03e-17306
cell layer3.13e-17309
anatomical conduit9.72e-17240
anatomical cluster1.00e-15373
anatomical system1.30e-15624
anatomical group2.52e-15625
multi-tissue structure2.55e-13342
epithelial tube4.42e-12117
organ2.43e-11503
germ layer5.68e-11560
germ layer / neural crest5.68e-11560
embryonic tissue5.68e-11560
presumptive structure5.68e-11560
germ layer / neural crest derived structure5.68e-11560
epiblast (generic)5.68e-11560
tube6.71e-11192
organism subdivision9.01e-11264
embryonic structure1.10e-10564
developing anatomical structure3.25e-10581
organ part1.31e-09218
embryo1.81e-09592
splanchnic layer of lateral plate mesoderm1.89e-0983
endoderm-derived structure5.79e-09160
endoderm5.79e-09160
presumptive endoderm5.79e-09160
vasculature9.30e-0978
vascular system9.30e-0978
unilaminar epithelium1.04e-08148
trunk2.91e-08199
mesenchyme3.78e-08160
entire embryonic mesenchyme3.78e-08160
trunk mesenchyme4.21e-08122
vessel1.11e-0768
primordium1.63e-07160
adult organism2.08e-07114
organ component layer2.52e-0766
compound organ2.64e-0768
extraembryonic membrane8.11e-0714
membranous layer8.11e-0714


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.

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