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Coexpression cluster:C449: Difference between revisions

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|gostat_on_coexpression_clusters=GO:0005200!structural constituent of cytoskeleton!0.0333451077357824!3866$GO:0008544!epidermis development!0.0333451077357824!3866$GO:0007398!ectoderm development!0.0333451077357824!3866$GO:0045111!intermediate filament cytoskeleton!0.0333451077357824!3866$GO:0005882!intermediate filament!0.0333451077357824!3866$GO:0009888!tissue development!0.0359119274696809!3866
|gostat_on_coexpression_clusters=GO:0005200!structural constituent of cytoskeleton!0.0333451077357824!3866$GO:0008544!epidermis development!0.0333451077357824!3866$GO:0007398!ectoderm development!0.0333451077357824!3866$GO:0045111!intermediate filament cytoskeleton!0.0333451077357824!3866$GO:0005882!intermediate filament!0.0333451077357824!3866$GO:0009888!tissue development!0.0359119274696809!3866
|id=C449
|id=C449
|ontology_enrichment_celltype=CL:0002076!9.68e-11!43;CL:0000223!1.05e-10!59;CL:0002368!3.45e-07!13
|ontology_enrichment_celltype=
|ontology_enrichment_disease=DOID:305!3.31e-09!106;DOID:1749!3.13e-07!14;DOID:0050687!9.33e-07!143
|ontology_enrichment_disease=DOID:1749!3.58e-09!14
|ontology_enrichment_uberon=UBERON:0001049!4.86e-26!57;UBERON:0005068!4.86e-26!57;UBERON:0006241!4.86e-26!57;UBERON:0007135!4.86e-26!57;UBERON:0001017!5.86e-26!82;UBERON:0007023!2.05e-24!115;UBERON:0005743!2.92e-24!86;UBERON:0000073!4.96e-23!94;UBERON:0001016!4.96e-23!94;UBERON:0003080!9.23e-23!42;UBERON:0002780!1.66e-22!41;UBERON:0001890!1.66e-22!41;UBERON:0006240!1.66e-22!41;UBERON:0000955!2.02e-21!69;UBERON:0006238!2.02e-21!69;UBERON:0002616!2.37e-20!59;UBERON:0004121!4.35e-20!169;UBERON:0000924!2.28e-19!173;UBERON:0006601!2.28e-19!173;UBERON:0002020!2.59e-19!34;UBERON:0003528!2.59e-19!34;UBERON:0001893!8.37e-19!34;UBERON:0003075!1.67e-18!86;UBERON:0007284!1.67e-18!86;UBERON:0001869!3.41e-18!32;UBERON:0002791!4.73e-18!33;UBERON:0002346!2.38e-17!90;UBERON:0000153!1.05e-16!129;UBERON:0007811!1.05e-16!129;UBERON:0002619!1.12e-16!22;UBERON:0000033!1.42e-16!123;UBERON:0001950!3.67e-15!20;UBERON:0003056!2.16e-14!61;UBERON:0000956!2.22e-13!25;UBERON:0000203!2.22e-13!25;UBERON:0000064!1.01e-12!219;UBERON:0000062!2.78e-12!511;UBERON:0004119!1.45e-11!169;UBERON:0000925!1.45e-11!169;UBERON:0006595!1.45e-11!169;UBERON:0000481!5.95e-10!347;UBERON:0000922!7.91e-10!612;UBERON:0004111!8.00e-10!241;UBERON:0001007!8.47e-10!155;UBERON:0001555!8.47e-10!155;UBERON:0007026!8.47e-10!155;UBERON:0000467!1.54e-09!625;UBERON:0000923!1.57e-09!604;UBERON:0005291!1.57e-09!604;UBERON:0006598!1.57e-09!604;UBERON:0002532!1.57e-09!604;UBERON:0000480!2.14e-09!626;UBERON:0002050!2.18e-09!605;UBERON:0005423!2.18e-09!605;UBERON:0000475!2.70e-09!365;UBERON:0005911!8.96e-09!82;UBERON:0004921!1.03e-08!129;UBERON:0004185!1.03e-08!129;UBERON:0001004!1.29e-08!72;UBERON:0000483!2.07e-08!309;UBERON:0000468!5.08e-08!659;UBERON:0000119!5.82e-08!312;UBERON:0000025!6.73e-08!194;UBERON:0000477!8.21e-08!286;UBERON:0002308!1.55e-07!9;UBERON:0000125!1.55e-07!9;UBERON:0002420!1.67e-07!9;UBERON:0007245!1.67e-07!9;UBERON:0010009!1.67e-07!9;UBERON:0010011!1.67e-07!9;UBERON:0000454!1.67e-07!9;UBERON:0000065!4.09e-07!53;UBERON:0001871!9.07e-07!7
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398,0.218574,0.385231,0.83763,0.255701,0.363008,0.981414,0.616383,0.57057,0.57461,0.89165,0.19169,0.997106,0.681803,0.25216,0.488856,0.339703,0.680436,0.883034,0.833796,0.786842,0.643148,0.974623,0.862566,0.708689,0.440456,0.404176,0.465516,0.772249,0.949833,0.690246,0.673238,0.738759,0.670883,0.495016,0.933911,0.708948,0.299082,0.166667,0.929514,0.648527,0.446264,0.571705,0.635476,0.644243,0.990907,0.987321,0.323182,0.179667,0.313695,0.373769,0.437733,0.00637336,0.315901,0.224172,0.110589,0.687061,0.999438,0.951861,0.83411,0.918278,0.605805,0.791482,0.762395,0.997035,0.352624,0.300632,0.880151,0.369059,0.756726,0.736811,0.418772,0.0119831,0.91979,0.233331,0.626303,0.756237,0.999979,0.999997,0.505446,0.835538,0.568463,0.400288,0.570129,0.31035,0.522361,0.815318,0.438039,0.290134,0.575294,0.0171276,0.847456,0.7053,0.245537,0.647734,0.286576,0.333976,0.589189,0.511034,0.750395,0.556505,0.84079,0.350591,0.85882,0.439833,0.916195,0.702487,0.796107,0.835659,0.544221,0.945241,0.751623,0.589573,0.121729,0.377895,0.789313,0.692573,0.994205,0.71125,0.421379,0.506852,0.365935,0.681083,0.697975,0.528269,0.709262,0.745646,0.793703,0.661204,0.850285,0.880449,0.917252,0.605196,0.474033,0.566136,0.0596913,0.583744,0.780173,0.755547,0.518458,0.894457,0.87759,0.670632,0.537364,0.887448,0.55183,0.58518,0.172914,0.740234,0.501889,0.466919,0.738067,0.784132,0.463428,0.442071,0.712353,0.29492,0.9948,0.360259,0.875513,0.763289,0.835595,0.854401,0.895607,0.99328,0.236251,0.746342,0.643161,0.042849,0.650691,0.757655,0.656341,0.932135,0.978435,0.574848,0.927003,0.137874,0.8519,0.982986,0.811036,0.0244261,0.884659,0.840108,0.978072,0.467306,0.87884,0.766053,0.78285,0.995455,0.877157,0.992631,0.962547,0.801871,0.302524,0.968046,0.999995,0.848799,0.902632,0.999136,0.872605,0.914248,0.964428,0.997226,0.999268,0.456698,0.731612,0.832546,0.710591,0.986227,0.854569,0.801724,0.679851,0.643103,0.986942,0.870653,0.995142,0.703673,0.99656,0.990188,0.370538,0.997651,0.944247,0.96041,0.99727,0.856518,0.996008,0.341699,0.995877,0.990234,0.983195,0.811338,0.488181,0.502931,0.736624,0.370333,0.772038,0.386337,0.472964,0.353449,0.672831,0.745869,0.523516,0.763495,0.622866,0.145679,0.853717,0.241935,0.443906,0.940686,0.301031,0.183158,0.91217,0.985917,0.554191,0.536612,0.287382,0.542872,0.984274,0.806844,0.913473,0.873538,0.09917,0.951092,0.976656,0.280441,0.361799,0.556292,0.0912381,0.99936,0.952006,0.813751,0.934592,0.665933,0.988315,0.151989,0.801412,0.471915,0.938581,0.991808,0.756466,0.948638,0.856501,0.79118,0.97883,0.647736,0.810585,0.973627,0.842547,0.861121,0.0276492,0.678738,0.670924,0.807479,0.824994,0.683148,0.995044,0.931268,0.867804,0.966784,0.931828,0.495184,0.960338,0.694292,0.762234,0.625272,0.472928,0.466005,0.410777,0.275873,0.892492,0.477879,0.789661,0.834124,0.964357,0.932312,0.939646,0.701098,0.983807,0.847347,0.721405,0.90376,0.65368,0.0908195,0.971565,0.854264,0.836961,0.586618,0.801367,0.814923,0.873293,0.569436,0.973675,0.485187,0.935942,0.502448,0.759033,0.120176,0.907191,0.814577,0.222365,0.201821,0.888837,0.783374,0.421513,0.392439,0.727752,0.205005,0.375064,0.837434,0.245475,0.153098,0.520481,0.736118,0.628306,0.460396,0.885113,0.508534,0.631183,0.425319,0.210962,0.277575,0.842777,0.591393,0.756429,0.835256,0.802831,0.780501,0.619092,0.804366,0.215723,0.512442,0.621398,0.42677,0.848462,0.690687,0.481038,0.643239,0.819768,0.875832,0.841828,0.400215,0.819936,0.662929,0.58526,0.684883,0.299313,0.726744,0.568161,0.392661,0.250143,0.394374,0.325066,0.289576,0.899263,0.808159,0.824069,0.709037,0.609011,0.533195,0.569118,0.362585,0.832015,0.717852,0.83879,0.472703,0.621915,0.646516,0.50617,0.428946,0.721289,0.372277,0.698243,0.833863,0.620978,0.440171,0.0660416,0.423381,0.643772,0.651581,0.811964,0.828673,0.81841,0.674364,0.46623,0.620612,0.595037,0.845123,0.342719,0.751721,0.806087,0.668525,0.800104,0.866966,0.712864,0.643122,0.176352,0.551411,0.74975,0.759888,0.52655,0.492966,0.512586,0.435154,0.0367533,0.467046,0.808974,0.562972,0.0626369,0.333249,0.699274,0.0226895,0.262795,0.333052,0.773537,0.651534,0.51938,0.78233,0.310143,0.201589,0.462993,0.531068,0.385017,0.247104,0.38369,0.194895,0.39545,0.441026,0.636002,0.571625,0.281669,0.398417,0.497652,0.24008,0.654676,0.499505,0.923573,0.708054,0.818857,0.673979,0.188465,0.368731,0.48705,0.564206,0.925619,0.882822,0.419998,0.913386,0.65792,0.64517,0.139297,0.504827,0.803957,0.450929,0.139018,0.782831,0.594513,0.835322,0.844041,0.592703,0.796183,0.78866,0.697313,0.230074,0.878668,0.147331,0.555408,0.513491,0.332804,0.846849,0.509284,0.522463,0.482562,0.306832,0.748749,0.718756,0.673891,0.417806,0.203494,0.542039,0.842139,0.758053,0.714875,0.264504,0.629822,0.504008,0.638406
}}
}}

Revision as of 15:59, 19 October 2012


Full id: C449_epidermoid_anaplastic_occipital_oral_middle_Wilms_parietal



Phase1 CAGE Peaks

Hg19::chr11:69988499..69988503,-p@chr11:69988499..69988503
-
Hg19::chr17:39678090..39678101,-p4@KRT15
Hg19::chr19:51512580..51512608,-p@chr19:51512580..51512608
-
Hg19::chr2:72258505..72258535,+p@chr2:72258505..72258535
+
Hg19::chr3:193809263..193809278,+p1@ENST00000457815
Hg19::chr4:23975557..23975561,-p@chr4:23975557..23975561
-
Hg19::chr4:23981805..23981809,-p@chr4:23981805..23981809
-
Hg19::chr4:24010751..24010757,-p@chr4:24010751..24010757
-
Hg19::chr4:24053554..24053559,-p@chr4:24053554..24053559
-
Hg19::chr4:24055928..24055932,-p@chr4:24055928..24055932
-
Hg19::chr4:24059076..24059080,-p@chr4:24059076..24059080
-
Hg19::chr4:24105215..24105219,-p@chr4:24105215..24105219
-
Hg19::chr4:24125531..24125534,-p@chr4:24125531..24125534
-
Hg19::chr4:24188430..24188435,-p@chr4:24188430..24188435
-
Hg19::chr4:24202276..24202277,-p@chr4:24202276..24202277
-
Hg19::chr4:24208460..24208464,-p@chr4:24208460..24208464
-
Hg19::chr4:24232569..24232574,-p@chr4:24232569..24232574
-
Hg19::chr5:84943573..84943591,-p@chr5:84943573..84943591
-
Hg19::chr6:43706592..43706595,-p@chr6:43706592..43706595
-
Hg19::chr6:43706642..43706655,-p@chr6:43706642..43706655
-
Hg19::chr7:55088621..55088630,+p@chr7:55088621..55088630
+
Hg19::chr9:135687993..135687996,+p@chr9:135687993..135687996
+


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:0005200structural constituent of cytoskeleton0.0333451077357824
GO:0008544epidermis development0.0333451077357824
GO:0007398ectoderm development0.0333451077357824
GO:0045111intermediate filament cytoskeleton0.0333451077357824
GO:0005882intermediate filament0.0333451077357824
GO:0009888tissue development0.0359119274696809



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>disease_data<br>

Uber Anatomy
Ontology termp-valuen
mammalian vulva7.48e-301
external female genitalia7.48e-301
regional part of telencephalon1.23e-2132
cerebral hemisphere1.23e-2132
brain grey matter1.98e-2034
gray matter1.98e-2034
telencephalon1.98e-2034
regional part of cerebral cortex4.35e-2022
cerebral cortex7.67e-1825
pallium7.67e-1825
regional part of forebrain4.24e-1741
forebrain4.24e-1741
anterior neural tube4.24e-1741
future forebrain4.24e-1741
middle temporal gyrus1.54e-152
Ammon's horn1.78e-152
lobe parts of cerebral cortex1.78e-152
hippocampal formation1.78e-152
limbic lobe1.78e-152
caudate nucleus2.37e-152
future caudate nucleus2.37e-152
regional part of nervous system2.18e-1353
regional part of brain2.18e-1353
neocortex8.39e-1320
neural tube1.06e-1256
neural rod1.06e-1256
future spinal cord1.06e-1256
neural keel1.06e-1256
pre-chordal neural plate1.05e-1161
caudate-putamen1.09e-103
dorsal striatum1.09e-103
frontal cortex1.20e-103
brain2.09e-1068
future brain2.09e-1068
central nervous system8.05e-0981
neural plate8.05e-0982
presumptive neural plate8.05e-0982
neurectoderm1.99e-0886
corpus striatum2.43e-084
striatum2.43e-084
ventral part of telencephalon2.43e-084
future corpus striatum2.43e-084
nervous system5.54e-0889
ecto-epithelium5.06e-07104
limbic system5.70e-075
occipital lobe6.04e-075
Disease
Ontology termp-valuen
squamous cell carcinoma3.58e-0914


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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