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Coexpression cluster:C710: Difference between revisions

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|gostat_on_coexpression_clusters=GO:0043197!dendritic spine!0.0349674017569853!3751
|gostat_on_coexpression_clusters=GO:0043197!dendritic spine!0.0349674017569853!3751
|id=C710
|id=C710
|ontology_enrichment_celltype=
|ontology_enrichment_celltype=CL:0000242!6.68e-08!2
|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001017!1.17e-29!82;UBERON:0001049!2.28e-29!57;UBERON:0005068!2.28e-29!57;UBERON:0006241!2.28e-29!57;UBERON:0007135!2.28e-29!57;UBERON:0007023!7.60e-28!115;UBERON:0005743!8.09e-28!86;UBERON:0002616!1.45e-25!59;UBERON:0000073!1.65e-25!94;UBERON:0001016!1.65e-25!94;UBERON:0000955!6.13e-23!69;UBERON:0006238!6.13e-23!69;UBERON:0003080!1.25e-22!42;UBERON:0002780!3.77e-22!41;UBERON:0001890!3.77e-22!41;UBERON:0006240!3.77e-22!41;UBERON:0002020!3.29e-19!34;UBERON:0003528!3.29e-19!34;UBERON:0002346!5.00e-19!90;UBERON:0001893!6.73e-19!34;UBERON:0003075!2.13e-18!86;UBERON:0007284!2.13e-18!86;UBERON:0002791!3.15e-18!33;UBERON:0001869!7.73e-18!32;UBERON:0002619!4.02e-16!22;UBERON:0001950!8.98e-15!20;UBERON:0003056!4.70e-13!61;UBERON:0000956!6.09e-13!25;UBERON:0000203!6.09e-13!25;UBERON:0000924!5.72e-12!173;UBERON:0006601!5.72e-12!173;UBERON:0004121!2.21e-11!169;UBERON:0000025!2.95e-10!194;UBERON:0000153!3.39e-10!129;UBERON:0007811!3.39e-10!129;UBERON:0000033!5.82e-10!123;UBERON:0002420!5.28e-08!9;UBERON:0007245!5.28e-08!9;UBERON:0010009!5.28e-08!9;UBERON:0010011!5.28e-08!9;UBERON:0000454!5.28e-08!9;UBERON:0002308!5.85e-08!9;UBERON:0000125!5.85e-08!9;UBERON:0003076!6.98e-08!15;UBERON:0003057!6.98e-08!15;UBERON:0004111!5.67e-07!241;UBERON:0002298!6.31e-07!8;UBERON:0000475!9.96e-07!365
|ontology_enrichment_uberon=UBERON:0000073!4.12e-84!53;UBERON:0002616!4.12e-84!53;UBERON:0001049!1.54e-83!56;UBERON:0005068!1.54e-83!56;UBERON:0006241!1.54e-83!56;UBERON:0007135!1.54e-83!56;UBERON:0002780!2.28e-68!41;UBERON:0001890!2.28e-68!41;UBERON:0003080!2.28e-68!41;UBERON:0006240!2.28e-68!41;UBERON:0001017!6.19e-66!81;UBERON:0000955!9.00e-66!68;UBERON:0006238!9.00e-66!68;UBERON:0003528!1.00e-62!34;UBERON:0002020!1.00e-62!34;UBERON:0001016!2.30e-58!89;UBERON:0001893!3.49e-58!34;UBERON:0001869!1.36e-57!32;UBERON:0002791!2.32e-57!32;UBERON:0003075!5.43e-54!82;UBERON:0007284!5.43e-54!82;UBERON:0002346!1.10e-53!86;UBERON:0002619!1.21e-49!22;UBERON:0001950!1.91e-49!20;UBERON:0010371!2.08e-45!104;UBERON:0003056!1.75e-43!61;UBERON:0000956!2.79e-43!25;UBERON:0000203!2.79e-43!25;UBERON:0007023!6.57e-34!114;UBERON:0010314!2.16e-31!132;UBERON:0004121!3.62e-30!171;UBERON:0000924!3.62e-30!171;UBERON:0006601!3.62e-30!171;UBERON:0000025!6.17e-22!192;UBERON:0011216!1.77e-21!223;UBERON:0002420!5.25e-21!9;UBERON:0007245!5.25e-21!9;UBERON:0010009!5.25e-21!9;UBERON:0010011!5.25e-21!9;UBERON:0000454!5.25e-21!9;UBERON:0000125!1.03e-20!9;UBERON:0002308!1.03e-20!9;UBERON:0000200!3.61e-18!6;UBERON:0002021!2.54e-16!5;UBERON:0004733!2.87e-16!12;UBERON:0002028!2.87e-16!12;UBERON:0007277!2.87e-16!12;UBERON:0003076!4.41e-16!15;UBERON:0003057!4.41e-16!15;UBERON:0009663!2.08e-15!7;UBERON:0001871!2.13e-15!6;UBERON:0004111!2.29e-15!240;UBERON:0004732!6.67e-15!13;UBERON:0002680!5.97e-13!9;UBERON:0001895!5.97e-13!9;UBERON:0010092!5.97e-13!9;UBERON:0002298!6.47e-13!6;UBERON:0000064!6.52e-12!218;UBERON:0000483!2.40e-11!306;UBERON:0001894!2.70e-11!7;UBERON:0006222!2.70e-11!7;UBERON:0000119!3.95e-11!309;UBERON:0001872!1.53e-10!5;UBERON:0000349!1.95e-10!5;UBERON:0000988!3.27e-10!3;UBERON:0001870!5.92e-10!3;UBERON:0000477!1.39e-09!373;UBERON:0000369!5.77e-08!4;UBERON:0002435!5.77e-08!4;UBERON:0000204!5.77e-08!4;UBERON:0010082!5.77e-08!4;UBERON:0001897!1.09e-07!2;UBERON:0010225!1.09e-07!2;UBERON:0001876!2.01e-07!2;UBERON:0000007!2.29e-07!2;UBERON:0002771!2.60e-07!2;UBERON:0002702!4.02e-07!2;UBERON:0002148!4.42e-07!2;UBERON:0006331!4.42e-07!2;UBERON:0009662!4.42e-07!2;UBERON:0000481!4.67e-07!342;UBERON:0001875!8.65e-07!2;UBERON:0006514!8.65e-07!2
|tf_chipseq_enrich=ZEB1#6935;4:5.62947733918129:0.004137649033231:0.0197203453375445
|tf_chipseq_enrich=ZEB1#6935;4:5.62947733918129:0.004137649033231:0.0197203453375445
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14666,0.328586,0.526119,0.592511,0.181697,0.536572,0.283022,0.125872,0.820124,0.629007,0.148776,0.218077,0.370262,0.407026,0.369392,0.372635,0.341782,0.109594,0.217305,0.464519,0.146569,0.306536,0.2026,0.463266,0.0312645,0.624253,0.569634,0.429963,0.865199,0.661258,0.741544,0.271458,0.531088,0.28944,0.553806,0.0255017,0.472317,0.456705,0.519136,0.454574,0.054378,0.436087,0.74172,0.176206,0.328845,0.0907883,0.434667,0.275592,0.370302,0.423311,0.430918,0.496231,0.68772,0.191779,0.342148,0.185619,0.22531,0.269526,0.325191,0.463285,0.129293,0.265309,0.726892,0.0960534,0.0121746,0.62464,0.00284204,0.398163,0.57477,0.185432,0.102584,0.21115,0.177201,0.142288,0.222137,0.537466,0.418518,0.00346668,0.637148,0.0510822,0.134915,0.41544,0.53696,0.114009,0.769164,0.60346,0.258571,0.367706,0.24338,0.369039,0.183457,0.331712,0.602014,0.269743,0.170487,0.373185,0.252836,0.273665,0.486464,0.142454,0.433971,0.0150169,0.198836,0.384455,0.323114,0.53094,0.358209,0.632962,0.2098,0.289182,0.271015,0.391599,0.0295979,0.579941,0.00343489,0.0693777,0.00577031,0.5322,0.0884236,0.141208,0.228099,0.572363,0.474483,0.532806,0.0314686,0.258012,0.319962,0.220039,0.46386,0.47954,0.336233,0.490242,0.172205,0.577247,0.445882,0.27742,0.68606,0.743146,0.397656,0.295639,0.219379,0.3814,0.380019,0.562342,0.536245,0.328739,0.706691,0.681987,0.454346,0.343245,0.0330327,0.354528,0.381187,0.0983715,0.520619,0.316238,0.00346703,0.518441,0.566658,0.0461251,0.558692,0.148762,0.775746,0.780348,0.216238,0.314304,0.544315,0.258641,0.283009,0.348247,0.194797,0.136714,0.357219,0.429975,0.162833,0.113322,0.368194,0.841739,0.907851,0.0614076,0.651105,0.0415218,0.672848,0.116629,0.00785317,0.425741,0.0596063,0.867785,0.0102284,0.875523,0.853255,0.269694,0.983896,0.89594,0.0160625,0.861874,0.0550139,0.303001,0.678737,0.178085,0.45579,0.435307,0.643151,0.946287,0.191556,0.581466,0.738101,0.154014,0.106701,0.157882,0.395928,0.512004,0.709549,0.742836,0.855325,0.925852,0.487751,0.463296,0.00146805,0.421484,0.672279,0.00367361,0.862424,0.438237,0.0948905,0.505907,0.0119306,0.125741,0.935492,0.0625517,0.84601,0.0106499,0.121926,0.166145,0.0536083,0.0182123,0.597358,0.225703,0.60171,0.76059,0.69452,0.184643,0.82061,0.855349,0.492827,0.456337,0.626445,0.332595,0.779104,0.256752,0.511141,0.649529,0.40092,0.151642,0.842113,0.0669055,0.550992,0.0115545,0.0449988,0.00613766,0.877518,0.555633,0.788956,0.798817,0.0870875,0.520279,0.859052,0.0797084,0.628237,0.812927,0.6337,0.172002,0.883913,0.239197,0.0201283,0.137742,0.600176,0.0118133,0.450113,0.293182,0.518298,0.585938,0.294093,0.781691,0.927249,0.537197,0.481306,0.2884,0.795747,0.877888,0.111877,0.953143,0.862339,0.83555,0.0240636,0.0645205,0.13774,0.292246,0.90621,0.0976824,0.724248,0.116838,0.0167763,0.000151893,0.000686097,0.00398084,0.764949,0.00210839,0.134769,0.0259751,0.0300676,0.855335,0.102128,0.310389,0.630288,0.00890168,0.584171,0.572748,0.711187,0.502498,0.431688,0.103898,0.0464909,0.240451,0.046272,0.0563743,0.721089,0.279055,0.723854,0.307599,0.263991,0.531289,0.494363,0.585886,0.515795,0.58251,0.221435,0.354072,0.759745,0.0526045,0.234745,0.00819814,0.277046,0.371993,0.601143,0.128187,0.20609,0.0336156,0.565829,0.258106,0.348515,0.508189,0.208563,0.159986,0.260898,0.606566,0.31447,0.330278,0.51649,0.32374,0.850668,0.330225,0.238659,0.0339498,0.00134305,0.577137,0.631563,0.267603,0.0890848,0.0641655,0.626057,0.587554,0.562698,0.409315,0.223829,0.124134,0.0593737,0.411267,0.188789,0.274992,0.0437881,0.300771,0.0195453,0.240215,0.679503,0.634269,0.24333,0.607473,0.12929,0.381251,0.467353,0.0217049,0.158466,0.646558,0.0390951,0.145314,0.239319,0.193007,0.0153709,0.356063,0.593672,0.82199,0.030985,0.400838,0.340023,0.36823,0.217794,0.622063,0.152397,0.630454,0.2161,0.000225739,0.699538,0.184225,0.00895624,0.501854,0.695724,0.479792,0.624336,0.410912,0.557325,0.0503285,0.259414,0.119711,0.123532,0.0647675,0.617979,0.0679803,0.457727,0.575939,0.682074,0.389251,0.638444,0.311943,0.532301,0.591284,0.452445,0.584452,0.301068,0.493696,0.109559,0.333045,0.0194965,0.530279,0.00826787,0.334915,0.228715,0.43768,0.732667,0.00342665,0.29055,0.594614,0.36333,0.197788,0.198359,0.480763,0.277407,0.15321,0.198229,0.0710489,0.70292,0.0712748,0.202643,0.287896,0.0534531,0.287612,0.0650907,0.232931,0.405501,0.0292821,0.35722,0.240057,0.271862,0.423765,0.370237,0.165105,0.242093,0.313071,0.139077,0.0211825,0.599323,0.409062,0.154875,0.818215,0.12565,0.705222,0.331082,0.590616,0.643865,0.757656,0.0311826,0.542703,0.150868,0.347593,0.431728,0.503688,0.014672,0.223413,0.0485118,0.0954271,0.466319,0.38882,0.626139,0.637069,0.00162761,0.0020033,0.0545385,0.73383,0.150303,0.319408,0.513034,0.27003,0.0596849,0.213478,0.640649,0.606125,0.33179,0.301892,0.782217,0.0409636,0.49939,0.135094,0.0358457,0.359711,0.0686516,0.0815808,0.538845,0.495634,0.253897,0.113154,0.0145973,0.535413
}}
}}

Revision as of 16:37, 19 October 2012


Full id: C710_anaplastic_cerebellum_xeroderma_B_carcinoid_merkel_occipital



Phase1 CAGE Peaks

Hg19::chr3:141103404..141103414,+p74@ZBTB38
Hg19::chr3:141103437..141103451,+p55@ZBTB38
Hg19::chr3:141103589..141103603,+p34@ZBTB38
Hg19::chr3:141103634..141103665,+p18@ZBTB38
Hg19::chr7:119913185..119913236,+p1@KCND2
Hg19::chr7:119913374..119913397,+p3@KCND2
Hg19::chr7:119913850..119913858,+p5@KCND2
Hg19::chr7:119913908..119913917,+p13@KCND2
Hg19::chr7:119935318..119935329,+p@chr7:119935318..119935329
+
Hg19::chr7:119993211..119993216,+p@chr7:119993211..119993216
+
Hg19::chr7:120099066..120099074,+p@chr7:120099066..120099074
+
Hg19::chr7:120170697..120170712,+p@chr7:120170697..120170712
+


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:0043197dendritic spine0.0349674017569853



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
Merkel cell6.68e-082
Uber Anatomy
Ontology termp-valuen
regional part of nervous system4.12e-8453
regional part of brain4.12e-8453
neural tube1.54e-8356
neural rod1.54e-8356
future spinal cord1.54e-8356
neural keel1.54e-8356
regional part of forebrain2.28e-6841
forebrain2.28e-6841
anterior neural tube2.28e-6841
future forebrain2.28e-6841
central nervous system6.19e-6681
brain9.00e-6668
future brain9.00e-6668
brain grey matter1.00e-6234
gray matter1.00e-6234
nervous system2.30e-5889
telencephalon3.49e-5834
cerebral hemisphere1.36e-5732
regional part of telencephalon2.32e-5732
neural plate5.43e-5482
presumptive neural plate5.43e-5482
neurectoderm1.10e-5386
regional part of cerebral cortex1.21e-4922
neocortex1.91e-4920
ecto-epithelium2.08e-45104
pre-chordal neural plate1.75e-4361
cerebral cortex2.79e-4325
pallium2.79e-4325
adult organism6.57e-34114
structure with developmental contribution from neural crest2.16e-31132
ectoderm-derived structure3.62e-30171
ectoderm3.62e-30171
presumptive ectoderm3.62e-30171
tube6.17e-22192
organ system subdivision1.77e-21223
basal ganglion5.25e-219
nuclear complex of neuraxis5.25e-219
aggregate regional part of brain5.25e-219
collection of basal ganglia5.25e-219
cerebral subcortex5.25e-219
neural nucleus1.03e-209
nucleus of brain1.03e-209
gyrus3.61e-186
occipital lobe2.54e-165
segmental subdivision of hindbrain2.87e-1612
hindbrain2.87e-1612
presumptive hindbrain2.87e-1612
posterior neural tube4.41e-1615
chordal neural plate4.41e-1615
telencephalic nucleus2.08e-157
temporal lobe2.13e-156
anatomical conduit2.29e-15240
segmental subdivision of nervous system6.67e-1513
regional part of metencephalon5.97e-139
metencephalon5.97e-139
future metencephalon5.97e-139
brainstem6.47e-136
organ part6.52e-12218
epithelium2.40e-11306
diencephalon2.70e-117
future diencephalon2.70e-117
cell layer3.95e-11309
parietal lobe1.53e-105
limbic system1.95e-105
pons3.27e-103
frontal cortex5.92e-103
anatomical cluster1.39e-09373
corpus striatum5.77e-084
striatum5.77e-084
ventral part of telencephalon5.77e-084
future corpus striatum5.77e-084
dorsal plus ventral thalamus1.09e-072
thalamic complex1.09e-072
amygdala2.01e-072
pituitary gland2.29e-072
middle temporal gyrus2.60e-072
middle frontal gyrus4.02e-072
locus ceruleus4.42e-072
brainstem nucleus4.42e-072
hindbrain nucleus4.42e-072
multi-tissue structure4.67e-07342
globus pallidus8.65e-072
pallidum8.65e-072


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
ZEB1#693545.629477339181290.0041376490332310.0197203453375445



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.