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Coexpression cluster:C355: Difference between revisions

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|ontology_enrichment_celltype=
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_disease=
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|ontology_enrichment_uberon=UBERON:0007023!8.25e-53!114;UBERON:0001049!9.93e-39!56;UBERON:0005068!9.93e-39!56;UBERON:0006241!9.93e-39!56;UBERON:0007135!9.93e-39!56;UBERON:0001017!5.71e-37!81;UBERON:0000073!4.11e-36!53;UBERON:0002616!4.11e-36!53;UBERON:0001016!3.19e-32!89;UBERON:0003075!3.70e-32!82;UBERON:0007284!3.70e-32!82;UBERON:0000955!9.32e-31!68;UBERON:0006238!9.32e-31!68;UBERON:0002346!3.19e-29!86;UBERON:0002780!1.72e-28!41;UBERON:0001890!1.72e-28!41;UBERON:0003080!1.72e-28!41;UBERON:0006240!1.72e-28!41;UBERON:0003528!1.09e-24!34;UBERON:0002020!1.09e-24!34;UBERON:0001893!2.57e-24!34;UBERON:0011216!2.99e-24!223;UBERON:0002791!4.10e-23!32;UBERON:0001869!6.26e-23!32;UBERON:0003056!1.25e-21!61;UBERON:0010371!3.12e-20!104;UBERON:0010314!1.05e-18!132;UBERON:0000956!2.87e-18!25;UBERON:0000203!2.87e-18!25;UBERON:0000477!6.50e-17!373;UBERON:0002619!1.50e-16!22;UBERON:0004121!3.19e-16!171;UBERON:0000924!3.19e-16!171;UBERON:0006601!3.19e-16!171;UBERON:0001950!6.15e-15!20;UBERON:0004111!3.17e-11!240;UBERON:0003076!3.55e-11!15;UBERON:0003057!3.55e-11!15;UBERON:0000064!2.24e-10!218;UBERON:0000025!3.52e-10!192;UBERON:0004732!2.80e-09!13;UBERON:0000062!8.30e-09!503;UBERON:0004733!9.77e-09!12;UBERON:0002028!9.77e-09!12;UBERON:0007277!9.77e-09!12;UBERON:0000481!1.59e-08!342;UBERON:0000468!2.25e-08!656;UBERON:0002420!6.34e-08!9;UBERON:0007245!6.34e-08!9;UBERON:0010009!6.34e-08!9;UBERON:0010011!6.34e-08!9;UBERON:0000454!6.34e-08!9;UBERON:0000125!7.28e-08!9;UBERON:0002308!7.28e-08!9;UBERON:0000467!4.03e-07!624;UBERON:0000480!5.21e-07!625
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3,0.344873,0.956513,0.863504,0.908734,0.414171,0.607608,0.992813,0.301445,0.942525,0.928937,0.349195,0.481076,0.82973,0.164961,0.707567,0.711561,0.832999,0.266217,0.990732,0.0881082,0.344687,0.623242,0.453233,0.494023,0.955899,0.734587,0.00225685,0.776604,0.779974,0.944241,0.972896,0.570253,0.867288,0.597961,0.633576,0.987127,0.818172,0.483728,0.858075,0.801407,0.629828,0.980777,0.875281,0.403629,0.654702,0.949805,0.781486,0.576725,0.127829,0.769585,0.443273,0.994269,0.998259,0.433221,0.672653,0.421628,0.493778,0.567207,0.649667,0.494052,0.308712,0.560513,0.968603,0.999644,0.798471,0.926685,0.878457,0.741808,0.664586,0.876362,0.998009,0.468725,0.405547,0.99513,0.48823,0.338503,0.893773,0.545816,0.137593,0.709451,0.32055,0.419069,0.871674,1,1,0.915128,0.927601,0.705478,0.171135,0.707131,0.102715,0.0239189,0.9143,0.56755,0.392524,0.712235,0.540333,0.757618,0.263271,0.336228,0.780769,0.38809,0.446321,0.725827,0.646783,0.328393,0.693533,0.93094,0.466297,0.942016,0.569556,0.972845,0.102891,0.407395,0.927679,0.681109,0.923593,0.868125,0.00613682,0.523214,0.498622,0.896199,0.511602,0.999442,0.835826,0.548776,0.64238,0.484541,0.810296,0.0323241,0.664746,0.83418,0.863484,0.668202,0.792856,0.299668,0.954474,0.973342,0.391416,0.607245,0.802002,0.366356,0.720525,0.378228,0.871145,0.654556,0.837805,0.00427029,0.801187,0.674107,0.825804,0.688823,0.366029,0.241294,0.312685,0.637133,0.595023,0.857528,0.65267,0.595674,0.887113,0.836737,0.0079565,0.946418,0.477815,0.951714,0.349255,0.927638,0.531205,0.916388,0.999626,0.324312,0.340489,0.776617,0.377462,0.783441,0.827698,1.61041e-05,0.0136442,0.654906,0.770273,0.989908,0.010996,0.227567,0.842016,0.30597,0.679774,0.00380885,0.111862,0.974674,0.25519,0.899456,0.00471674,0.55978,0.926844,0.279628,0.839613,0.32516,0.433078,0.0311366,1,1,0.518022,0.888178,0.975312,0.96612,0.971923,0.758075,0.855118,0.967192,0.704144,0.299844,0.0382116,0.973256,0.024419,0.0941669,0.00190717,0.664968,0.958669,0.602799,0.571166,0.998639,0.89771,0.999583,0.993674,0.847422,1,0.663751,0.0685737,0.999994,0.0673771,0.99896,0.992184,0.981744,0.999947,1,4.73121e-05,0.688668,0.914125,0.52901,0.612177,0.841573,0.83542,0.586408,0.272168,0.803115,0.498833,0.0952501,0.219077,0.000110906,0.851695,0.938943,0.744949,0.00034162,0.872644,0.765783,0.881783,0.970928,0.999918,0.997688,0.917579,0.511885,0.918715,0.17548,0.987999,0.784455,0.271396,0.391692,0.999852,0.0412097,0.0549915,0.353366,0.678992,0.960806,0.999579,0.220766,0.91324,1.36539e-05,0.797047,0.99207,0.309201,0.904755,0.604943,0.982721,0.917637,0.338083,0.146403,0.557534,0.17527,0.658987,0.862339,0.569377,0.773087,0.211118,0.163625,0.0373078,0.00839204,0.0141879,0.00225392,0.316404,0.449352,0.75184,0.19862,0.175289,0.957936,0.979889,0.538955,0.853148,0.421206,0.76581,0.198755,0.260899,0.331776,1.25389e-06,0.929589,0.999494,0.903667,0.896448,0.000197504,0.858361,0.550124,0.0032456,0.475288,0.976316,0.0460911,0.791541,0.966792,0.365829,0.261694,0.080362,0.1628,0.0528545,0.0370049,0.211095,0.997218,0.0405846,0.804647,0.409619,0.977692,0.993988,0.70284,0.342251,0.578988,0.454225,0.232019,0.306369,0.65584,0.218547,0.00211755,0.548929,0.415776,0.124006,0.19285,0.56587,0.128645,0.916889,0.634626,0.656665,0.0472175,0.598775,0.248255,0.821806,0.106307,0.875336,0.622735,0.899261,0.131581,0.504178,0.290145,0.981097,0.737039,0.683134,0.889825,0.000108588,0.906809,0.297735,0.0218635,0.412562,0.879412,0.517238,0.0641448,0.614831,0.776688,0.917287,0.805924,0.931593,0.524573,0.107987,0.963357,0.722004,0.813575,0.000154045,0.848481,0.302156,0.315593,0.342114,0.166102,0.435515,0.391829,0.648255,0.430705,0.00780529,0.833992,0.744857,0.0263468,0.706129,0.480575,0.480249,0.280239,0.0189734,0.204043,0.170076,0.106149,0.35672,0.626695,0.118254,0.958116,0.0996863,0.926526,0.412008,0.638829,0.887684,0.551046,0.958833,0.960717,0.438298,0.923164,0.916379,0.804454,0.898498,0.365274,0.146321,0.000519867,0.802839,0.33049,0.426618,0.477042,0.903841,0.173778,0.837159,0.776581,0.957916,0.283395,0.598032,0.156681,0.662967,0.91007,0.756614,0.144778,0.92757,0.599634,0.909984,0.700012,0.444388,0.445442,0.825829,0.579548,0.358197,0.445203,0.588195,0.405634,0.920529,0.382069,0.941472,0.893742,0.595197,0.667636,0.506949,0.750117,0.505401,0.692272,0.519068,0.570889,0.770069,0.349301,0.381958,0.522497,0.632635,0.329234,0.787024,0.0380657,0.514215,0.294257,0.00716715,0.804118,0.631951,0.0418588,0.425477,0.000141849,0.890884,0.602856,0.158805,0.689793,0.962206,0.778444,0.845588,0.446845,0.906526,0.972856,0.943743,0.0277453,0.73098,0.487492,0.0206701,0.729232,0.901086,0.660002,0.027899,0.149311,0.0909245,0.00363394,0.933372,0.649361,0.00431424,0.934729,0.0137631,0.291835,0.616475,0.383798,0.144535,0.116069,0.655523,0.544718,0.00779797,0.678885,0.0200373,0.873062,0.544621,0.262189,0.816475,0.0393951,0.0549205
}}
}}

Revision as of 15:12, 19 October 2012


Full id: C355_Chondrocyte_Hepatocyte_spinal_medulla_cerebral_seminal_hippocampus



Phase1 CAGE Peaks

Hg19::chr8:27455536..27455576,-p@chr8:27455536..27455576
-
Hg19::chr8:27455583..27455667,-p@chr8:27455583..27455667
-
Hg19::chr8:27455692..27455710,-p@chr8:27455692..27455710
-
Hg19::chr8:27455711..27455732,-p@chr8:27455711..27455732
-
Hg19::chr8:27456058..27456137,-p@chr8:27456058..27456137
-
Hg19::chr8:27456141..27456161,-p@chr8:27456141..27456161
-
Hg19::chr8:27457336..27457372,-p@chr8:27457336..27457372
-
Hg19::chr8:27457396..27457456,-p@chr8:27457396..27457456
-
Hg19::chr8:27457470..27457493,-p@chr8:27457470..27457493
-
Hg19::chr8:27457494..27457531,-p@chr8:27457494..27457531
-
Hg19::chr8:27461872..27461920,-p@chr8:27461872..27461920
-
Hg19::chr8:27462566..27462587,-p24@CLU
Hg19::chr8:27462617..27462687,-p9@CLU
Hg19::chr8:27462692..27462746,-p14@CLU
Hg19::chr8:27462747..27462758,-p31@CLU
Hg19::chr8:27462773..27462781,-p28@CLU
Hg19::chr8:27462787..27462819,-p20@CLU
Hg19::chr8:27462822..27462853,-p10@CLU
Hg19::chr8:27463908..27463929,-p18@CLU
Hg19::chr8:27463932..27463992,-p4@CLU
Hg19::chr8:27463995..27464033,-p15@CLU
Hg19::chr8:27464034..27464046,-p25@CLU
Hg19::chr8:27466494..27466506,-p17@CLU
Hg19::chr8:27466535..27466550,-p5@CLU
Hg19::chr8:27466559..27466562,-p44@CLU
Hg19::chr8:27466559..27466566,+p@chr8:27466559..27466566
+
Hg19::chr8:27466577..27466595,-p8@CLU
Hg19::chr8:27466597..27466608,-p23@CLU
Hg19::chr8:27468013..27468046,-p6@CLU
Hg19::chr8:27468052..27468067,-p13@CLU
Hg19::chr8:27468075..27468130,-p7@CLU
Hg19::chr8:27472209..27472225,-p1@CLU


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><br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
adult organism8.25e-53114
neural tube9.93e-3956
neural rod9.93e-3956
future spinal cord9.93e-3956
neural keel9.93e-3956
central nervous system5.71e-3781
regional part of nervous system4.11e-3653
regional part of brain4.11e-3653
nervous system3.19e-3289
neural plate3.70e-3282
presumptive neural plate3.70e-3282
brain9.32e-3168
future brain9.32e-3168
neurectoderm3.19e-2986
regional part of forebrain1.72e-2841
forebrain1.72e-2841
anterior neural tube1.72e-2841
future forebrain1.72e-2841
brain grey matter1.09e-2434
gray matter1.09e-2434
telencephalon2.57e-2434
organ system subdivision2.99e-24223
regional part of telencephalon4.10e-2332
cerebral hemisphere6.26e-2332
pre-chordal neural plate1.25e-2161
ecto-epithelium3.12e-20104
structure with developmental contribution from neural crest1.05e-18132
cerebral cortex2.87e-1825
pallium2.87e-1825
anatomical cluster6.50e-17373
regional part of cerebral cortex1.50e-1622
ectoderm-derived structure3.19e-16171
ectoderm3.19e-16171
presumptive ectoderm3.19e-16171
neocortex6.15e-1520
anatomical conduit3.17e-11240
posterior neural tube3.55e-1115
chordal neural plate3.55e-1115
organ part2.24e-10218
tube3.52e-10192
segmental subdivision of nervous system2.80e-0913
organ8.30e-09503
segmental subdivision of hindbrain9.77e-0912
hindbrain9.77e-0912
presumptive hindbrain9.77e-0912
multi-tissue structure1.59e-08342
multi-cellular organism2.25e-08656
basal ganglion6.34e-089
nuclear complex of neuraxis6.34e-089
aggregate regional part of brain6.34e-089
collection of basal ganglia6.34e-089
cerebral subcortex6.34e-089
neural nucleus7.28e-089
nucleus of brain7.28e-089
anatomical system4.03e-07624
anatomical group5.21e-07625


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)

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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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