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Coexpression cluster:C1443: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0007023!7.92e-52!115;UBERON:0004111!2.58e-24!241;UBERON:0001049!3.29e-24!57;UBERON:0005068!3.29e-24!57;UBERON:0006241!3.29e-24!57;UBERON:0007135!3.29e-24!57;UBERON:0000025!7.12e-23!194;UBERON:0003080!1.31e-20!42;UBERON:0002780!7.84e-20!41;UBERON:0001890!7.84e-20!41;UBERON:0006240!7.84e-20!41;UBERON:0000477!3.57e-19!286;UBERON:0002616!7.43e-19!59;UBERON:0002020!4.82e-17!34;UBERON:0003528!4.82e-17!34;UBERON:0001893!6.89e-17!34;UBERON:0001017!2.09e-16!82;UBERON:0002791!2.53e-16!33;UBERON:0000955!4.93e-16!69;UBERON:0006238!4.93e-16!69;UBERON:0001869!6.24e-16!32;UBERON:0003075!1.23e-15!86;UBERON:0007284!1.23e-15!86;UBERON:0005743!1.96e-15!86;UBERON:0002346!2.05e-14!90;UBERON:0000073!2.32e-14!94;UBERON:0001016!2.32e-14!94;UBERON:0002619!5.41e-13!22;UBERON:0000956!4.81e-12!25;UBERON:0000203!4.81e-12!25;UBERON:0001950!5.65e-12!20;UBERON:0000055!1.25e-11!69;UBERON:0004872!8.30e-11!84;UBERON:0003056!9.55e-11!61;UBERON:0001986!1.66e-10!18;UBERON:0004638!1.66e-10!18;UBERON:0004852!1.66e-10!18;UBERON:0000487!3.07e-10!22;UBERON:0000483!3.39e-09!309;UBERON:0000119!5.95e-09!312;UBERON:0000468!6.59e-09!659;UBERON:0000467!1.54e-08!625;UBERON:0001009!1.67e-08!113;UBERON:0000480!2.07e-08!626;UBERON:0001981!3.39e-08!60;UBERON:0007500!3.39e-08!60;UBERON:0004537!3.39e-08!60;UBERON:0006965!3.39e-08!60;UBERON:0002049!4.33e-08!79;UBERON:0007798!4.33e-08!79;UBERON:0006914!4.71e-08!25;UBERON:0002465!9.76e-08!10;UBERON:0004535!2.59e-07!110;UBERON:0001473!6.24e-07!8;UBERON:0004536!6.24e-07!8;UBERON:0006558!6.24e-07!8
|ontology_enrichment_uberon=UBERON:0007023!7.92e-52!115;UBERON:0004111!2.58e-24!241;UBERON:0001049!3.29e-24!57;UBERON:0005068!3.29e-24!57;UBERON:0006241!3.29e-24!57;UBERON:0007135!3.29e-24!57;UBERON:0000025!7.12e-23!194;UBERON:0003080!1.31e-20!42;UBERON:0002780!7.84e-20!41;UBERON:0001890!7.84e-20!41;UBERON:0006240!7.84e-20!41;UBERON:0000477!3.57e-19!286;UBERON:0002616!7.43e-19!59;UBERON:0002020!4.82e-17!34;UBERON:0003528!4.82e-17!34;UBERON:0001893!6.89e-17!34;UBERON:0001017!2.09e-16!82;UBERON:0002791!2.53e-16!33;UBERON:0000955!4.93e-16!69;UBERON:0006238!4.93e-16!69;UBERON:0001869!6.24e-16!32;UBERON:0003075!1.23e-15!86;UBERON:0007284!1.23e-15!86;UBERON:0005743!1.96e-15!86;UBERON:0002346!2.05e-14!90;UBERON:0000073!2.32e-14!94;UBERON:0001016!2.32e-14!94;UBERON:0002619!5.41e-13!22;UBERON:0000956!4.81e-12!25;UBERON:0000203!4.81e-12!25;UBERON:0001950!5.65e-12!20;UBERON:0000055!1.25e-11!69;UBERON:0004872!8.30e-11!84;UBERON:0003056!9.55e-11!61;UBERON:0001986!1.66e-10!18;UBERON:0004638!1.66e-10!18;UBERON:0004852!1.66e-10!18;UBERON:0000487!3.07e-10!22;UBERON:0000483!3.39e-09!309;UBERON:0000119!5.95e-09!312;UBERON:0000468!6.59e-09!659;UBERON:0000467!1.54e-08!625;UBERON:0001009!1.67e-08!113;UBERON:0000480!2.07e-08!626;UBERON:0001981!3.39e-08!60;UBERON:0007500!3.39e-08!60;UBERON:0004537!3.39e-08!60;UBERON:0006965!3.39e-08!60;UBERON:0002049!4.33e-08!79;UBERON:0007798!4.33e-08!79;UBERON:0006914!4.71e-08!25;UBERON:0002465!9.76e-08!10;UBERON:0004535!2.59e-07!110;UBERON:0001473!6.24e-07!8;UBERON:0004536!6.24e-07!8;UBERON:0006558!6.24e-07!8
|tf_chipseq_enrich=POLR2A#5430;6:2.14745317655807:0.0101957067681878:0.0380296221129559
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213,0.185351,0.29465,0.231794,0.173078,0.108497,0.485366,0.767403,0.255803,0.0289867,0.127078,0.378656,0.392439,0.153874,0.145835,0.297422,0.349099,0.106792,0.149864,0.109211,0.081783,0.0678906,0.076236,0.444489,4.43773e-05,0.00118445,0.0953991,0.319245,0.603631,0.0650516,0.575882,0.390908,0.0773818,0.115736,0.662745,0.229952,0.205891,0.207936,0.454529,0.0563868,0.796918,0.268235,0.0761868,0.167255,0.107028,0.267379,0.117065,0.0870127,0.343977,0.244992,0.632847,0.000247317,0.491614,0.146453,0.315229,0.157053,0.332022,0.557852,0.0413973,0.262915,0.306556,0.26147,0.170005,0.523331,0.491788,0.092369,0.18076,0.692556,0.248113,0.148878,0.206465,0.240599,0.0329926,0.902248,0.696152,0.100989,0.188919,0.0975693,0.119835,0.145322,0.178533,0.267392,0.0668831,0.142859,0.138266,0.932252,0.358495,0.387334,0.494914,0.224219,0.347904,0.324262,0.795569,0.111827,0.0929171,0.63152,0.118035,0.319902,0.510835,0.137556,0.397628,0.49748,0.0699003,0.0301888,0.00714451,0.992133,0.99594,5.99936e-07,0.388777,4.35686e-06,0.130161,0.205669,0.0963721,0.182511,0.00130183,0.145449,0.0892237,0.208284,0.135613,0.401189,0.283386,0.0739625,0.247651,0.0879809,0.104922,0.215434,0.177269,0.31512,0.198881,0.394164,0.111068,0.4137,0.000584744,0.491435,0.281527,0.35188,0.3889,0.192889,0.547162,0.316041,0.203431,0.280212,0.121421,0.346061,0.275075,0.754571,0.287361,0.138613,0.175356,0.116846,0.267784,0.278571,0.185281,0.286026,0.31159,0.349805,0.255609,0.404239,0.439697,0.493192,0.223892,0.160738,0.553042,0.213489,0.212611,0.338443,0.0573663,0.180695,0.45842,0.436073,0.261316,0.189596,0.448839,0.196587,0.213353,0.0504588,0.307626,0.173101,0.00940712,0.306056,0.341713,0.156156,0.33569,0.288104,0.172469,0.761719,0.114697,0.433479,0.000727171,0.388835,0.408751,0.648685,0.855529,0.070868,0.654476,0.245,0.0850317,0.249379,0.0961982,0.60218,0.00145194,0.648789,0.409327,0.0752617,0.685907,5.12e-05,0.305003,0.334228,0.0725894,0.636386,0.0623821,0.27962,0.249357,0.252602,0.340734,0.000176401,0.117176,0.0784335,0.737948,0.750579,0.689958,0.772379,0.984603,0.983425,0.015568,0.768239,0.853963,0.623606,0.000646285,0.754734,0.799242,0.926642,0.494578,0.301433,0.711296,0.492887,0.819065,0.0431797,0.559471,0.00953547,0.449761,0.0073169,2.59983e-05,0.950427,0.26122,0.743042,0.899649,0.297082,0.526245,0.8738,0.746016,0.959673,0.607585,0.953814,0.72684,0.953275,0.935968,0.948012,0.36546,0.360788,0.368898,0.00010079,0.447298,0.670481,0.576455,0.00317464,0.287839,0.262665,0.000808633,0.183051,0.530004,0.583703,0.300816,0.407994,0.225997,0.487688,0.808511,0.000135298,0.329919,1.495e-10,0.00403731,0.852842,0.282589,0.766238,0.0012488,0.167995,0.563634,0.0127561,0.00335778,0.0175968,0.960862,0.785953,0.394773,0.0951608,1.73073e-05,0.000308819,0.929537,0.823122,0.0778516,0.700165,0.258457,0.893393,0.305952,0.356524,0.159817,0.532764,0.730276,0.000675605,0.555004,0.240491,0.773067,0.283145,0.597394,0.452272,0.628973,0.594475,0.416321,0.365565,0.47205,0.610358,0.00139893,0.578885,4.15437e-07,0.0553218,0.518205,0.106317,4.7452e-09,0.167166,0.515179,0.745866,0.623664,0.414645,0.00294112,0.251982,0.00165966,0.167767,0.0894513,0.758981,0.00108975,0.0684311,0.712437,0.0395208,0.520214,0.708106,0.0302102,0.809543,8.13209e-06,0.271677,0.471879,0.600697,0.474504,0.0172581,0.0430938,0.589415,0.564042,0.356483,0.0124319,0.0764807,0.00943922,0.777518,0.160346,0.597297,5.77834e-07,0.321667,0.149733,0.0281584,0.368449,0.066291,0.00907694,0.450702,0.341084,0.138667,0.459605,1.03089e-07,0.0681033,0.000504249,0.390707,0.0013619,0.172033,0.181635,0.304651,0.440771,0.246146,0.445744,0.371991,0.694395,0.326635,0.349721,0.39301,0.091593,0.566617,0.524829,0.388491,9.83065e-05,7.15521e-05,0.231439,0.359148,0.0641227,0.177916,0.232711,0.0606512,0.402268,0.479755,0.0142145,0.245045,0.00137147,0.433875,0.0017889,0.130132,0.0805354,4.64993e-05,0.213394,0.270174,0.406219,0.298,0.000206019,0.30902,0.0755079,0.12783,0.101672,0.0890286,4.90163e-05,0.362561,0.578088,0.285875,0.225945,0.18761,0.20516,0.115576,0.00158689,0.291842,0.392097,0.352327,0.232997,0.000398104,0.00684119,0.328594,0.294205,3.70792e-05,0.278746,1.39678e-10,0.232479,6.67592e-05,0.336321,0.139427,0.450171,0.0238053,0.366035,0.000144235,0.372037,0.263608,0.3488,2.4414e-06,0.218495,0.398705,0.110518,0.0562621,0.360691,0.26003,0.0723267,2.40834e-05,1.61293e-06,0.244977,0.447896,0.000178703,0.314638,0.322324,0.184473,0.0759091,9.79946e-08,0.482957,0.0138042,0.157712,0.3633,0.0219529,0.104337,0.104656,0.279419,0.149946,0.0797883,0.104584,0.537494,0.454949,0.378002,0.340219,0.412672,0.343186,0.155969,0.186603,0.124175,0.228962,0.12366,0.198264,0.128253,0.14669,0.240899,0.206424,0.0862744,0.129421,0.171188,0.0721407,0.251724,0.36701,0.000791997,0.0312499,0.573638,0.263371,0.457065,0.446399,0.360168,0.403229,0.507716,0.442751,0.323763,0.486842,0.458912,0.246162,0.295506,0.369944,0.358783,0.491474,0.417013,0.0455047,0.21822,0.388558,0.0922643,0.21727,0.351946,0.345508,0.484083,0.486223,0.437432,0.302171,0.398223,0.178399,0.00884676,0.400541,0.37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}}
}}

Revision as of 13:31, 5 September 2012


Full id: C1443_Endothelial_lung_left_heart_adipose_spleen_mature



Phase1 CAGE Peaks

Hg19::chr18:53177984..53178004,-p17@TCF4
Hg19::chr6:46889579..46889591,-p6@GPR116
Hg19::chr6:46889608..46889626,-p4@GPR116
Hg19::chr6:46889646..46889657,-p5@GPR116
Hg19::chr6:46889663..46889686,-p2@GPR116
Hg19::chr6:46889694..46889719,-p3@GPR116


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>

Uber Anatomy
Ontology termp-valuen
adult organism7.92e-52115
anatomical conduit2.58e-24241
neural tube3.29e-2457
neural rod3.29e-2457
future spinal cord3.29e-2457
neural keel3.29e-2457
tube7.12e-23194
anterior neural tube1.31e-2042
regional part of forebrain7.84e-2041
forebrain7.84e-2041
future forebrain7.84e-2041
anatomical cluster3.57e-19286
regional part of brain7.43e-1959
gray matter4.82e-1734
brain grey matter4.82e-1734
telencephalon6.89e-1734
central nervous system2.09e-1682
regional part of telencephalon2.53e-1633
brain4.93e-1669
future brain4.93e-1669
cerebral hemisphere6.24e-1632
neural plate1.23e-1586
presumptive neural plate1.23e-1586
neurectoderm2.05e-1490
regional part of nervous system2.32e-1494
nervous system2.32e-1494
regional part of cerebral cortex5.41e-1322
cerebral cortex4.81e-1225
pallium4.81e-1225
neocortex5.65e-1220
vessel1.25e-1169
splanchnic layer of lateral plate mesoderm8.30e-1184
pre-chordal neural plate9.55e-1161
endothelium1.66e-1018
blood vessel endothelium1.66e-1018
cardiovascular system endothelium1.66e-1018
simple squamous epithelium3.07e-1022
epithelium3.39e-09309
cell layer5.95e-09312
multi-cellular organism6.59e-09659
anatomical system1.54e-08625
circulatory system1.67e-08113
anatomical group2.07e-08626
blood vessel3.39e-0860
epithelial tube open at both ends3.39e-0860
blood vasculature3.39e-0860
vascular cord3.39e-0860
vasculature4.33e-0879
vascular system4.33e-0879
squamous epithelium4.71e-0825
lymphoid system9.76e-0810
cardiovascular system2.59e-07110
lymphatic vessel6.24e-078
lymph vasculature6.24e-078
lymphatic part of lymphoid system6.24e-078


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
POLR2A#543062.147453176558070.01019570676818780.0380296221129559



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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