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Difference between revisions of "Coexpression cluster:C522"

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|ontology_enrichment_disease=DOID:0050687!8.55e-09!143;DOID:305!8.27e-07!106
 
|ontology_enrichment_disease=DOID:0050687!8.55e-09!143;DOID:305!8.27e-07!106
 
|ontology_enrichment_uberon=UBERON:0000073!5.77e-33!94;UBERON:0001016!5.77e-33!94;UBERON:0007023!3.39e-32!115;UBERON:0005743!5.16e-32!86;UBERON:0001017!5.59e-32!82;UBERON:0001049!2.20e-30!57;UBERON:0005068!2.20e-30!57;UBERON:0006241!2.20e-30!57;UBERON:0007135!2.20e-30!57;UBERON:0000955!5.32e-28!69;UBERON:0006238!5.32e-28!69;UBERON:0002346!2.39e-27!90;UBERON:0002616!8.38e-27!59;UBERON:0003075!2.21e-26!86;UBERON:0007284!2.21e-26!86;UBERON:0000924!6.60e-26!173;UBERON:0006601!6.60e-26!173;UBERON:0003080!6.79e-25!42;UBERON:0004121!7.09e-25!169;UBERON:0002780!1.30e-24!41;UBERON:0001890!1.30e-24!41;UBERON:0006240!1.30e-24!41;UBERON:0000153!1.14e-21!129;UBERON:0007811!1.14e-21!129;UBERON:0000033!1.80e-21!123;UBERON:0002020!2.67e-20!34;UBERON:0003528!2.67e-20!34;UBERON:0001893!3.76e-20!34;UBERON:0002791!1.22e-19!33;UBERON:0003056!1.74e-19!61;UBERON:0001869!4.25e-19!32;UBERON:0000956!6.31e-15!25;UBERON:0000203!6.31e-15!25;UBERON:0000475!1.10e-14!365;UBERON:0002619!2.41e-14!22;UBERON:0001950!3.90e-13!20;UBERON:0000481!1.04e-12!347;UBERON:0000062!6.77e-11!511;UBERON:0000064!6.20e-09!219;UBERON:0000468!1.50e-07!659;UBERON:0002308!7.50e-07!9;UBERON:0000125!7.50e-07!9;UBERON:0003076!8.04e-07!15;UBERON:0003057!8.04e-07!15;UBERON:0002420!8.94e-07!9;UBERON:0007245!8.94e-07!9;UBERON:0010009!8.94e-07!9;UBERON:0010011!8.94e-07!9;UBERON:0000454!8.94e-07!9
 
|ontology_enrichment_uberon=UBERON:0000073!5.77e-33!94;UBERON:0001016!5.77e-33!94;UBERON:0007023!3.39e-32!115;UBERON:0005743!5.16e-32!86;UBERON:0001017!5.59e-32!82;UBERON:0001049!2.20e-30!57;UBERON:0005068!2.20e-30!57;UBERON:0006241!2.20e-30!57;UBERON:0007135!2.20e-30!57;UBERON:0000955!5.32e-28!69;UBERON:0006238!5.32e-28!69;UBERON:0002346!2.39e-27!90;UBERON:0002616!8.38e-27!59;UBERON:0003075!2.21e-26!86;UBERON:0007284!2.21e-26!86;UBERON:0000924!6.60e-26!173;UBERON:0006601!6.60e-26!173;UBERON:0003080!6.79e-25!42;UBERON:0004121!7.09e-25!169;UBERON:0002780!1.30e-24!41;UBERON:0001890!1.30e-24!41;UBERON:0006240!1.30e-24!41;UBERON:0000153!1.14e-21!129;UBERON:0007811!1.14e-21!129;UBERON:0000033!1.80e-21!123;UBERON:0002020!2.67e-20!34;UBERON:0003528!2.67e-20!34;UBERON:0001893!3.76e-20!34;UBERON:0002791!1.22e-19!33;UBERON:0003056!1.74e-19!61;UBERON:0001869!4.25e-19!32;UBERON:0000956!6.31e-15!25;UBERON:0000203!6.31e-15!25;UBERON:0000475!1.10e-14!365;UBERON:0002619!2.41e-14!22;UBERON:0001950!3.90e-13!20;UBERON:0000481!1.04e-12!347;UBERON:0000062!6.77e-11!511;UBERON:0000064!6.20e-09!219;UBERON:0000468!1.50e-07!659;UBERON:0002308!7.50e-07!9;UBERON:0000125!7.50e-07!9;UBERON:0003076!8.04e-07!15;UBERON:0003057!8.04e-07!15;UBERON:0002420!8.94e-07!9;UBERON:0007245!8.94e-07!9;UBERON:0010009!8.94e-07!9;UBERON:0010011!8.94e-07!9;UBERON:0000454!8.94e-07!9
 +
|tfbs_overrepresentation=0.594514,0.290083,0.423879,0.241984,0.71714,0.302583,0.220501,0.805861,0.171812,0.137198,0.572952,0.17799,0.694405,0.53374,0.598336,0.303784,0.577318,0.443301,0.264861,0.47691,0.331779,0.553343,0.0855959,0.431646,0.213853,0.747234,0.735894,0.102228,0.584971,0.426186,0.0430627,0.496503,0.0979725,0.733708,0.323011,0.393536,0.0727762,0.220321,0.16512,0.323747,0.437251,0.131693,0.21107,0.684122,0.166402,0.188753,0.197184,0.678579,0.487539,0.519116,0.245174,0.270683,0.337835,0.424841,0.715178,0.199071,0.136653,0.155789,0.370091,0.468598,0.155722,0.0656944,0.478718,0.360835,0.272384,0.254409,0.704604,0.048839,0.399517,0.645053,0.932728,0.327735,0.410469,0.51345,0.041632,0.0932062,0.4373,0.223668,0.193549,0.0404083,0.434241,0.767388,0.218157,0.499075,0.857922,0.228092,0.313986,0.735211,0.777027,0.307337,0.398342,0.250391,0.111495,0.240442,0.396968,0.499657,0.873841,0.611399,0.423945,0.837245,0.285013,0.839885,0.579799,0.19268,0.75373,0.210857,0.324914,0.414082,0.586259,0.831046,0.316515,0.177989,0.234094,0.0961704,0.123463,0.176809,0.109917,0.281434,0.571822,0.391156,0.276545,0.7458,0.000263031,0.398438,0.45772,0.668211,0.416499,0.0809874,0.393116,0.560171,0.293958,0.356459,0.283854,0.122444,0.53318,0.13804,0.316158,0.275722,0.173362,0.0222073,0.122393,0.538642,0.725372,0.617516,0.994165,0.334405,0.445471,0.392616,0.0218323,0.517973,0.718905,0.584778,0.676799,0.141586,0.0259825,0.507682,0.356162,0.769889,0.259776,5.09686e-05,0.430157,0.433014,0.504808,0.59595,0.272174,0.497267,0.206669,0.53793,0.208176,0.879956,0.674504,0.568158,0.867614,0.27049,0.0818583,0.414284,0.575509,0.00622668,0.306037,0.18585,0.624767,0.523049,0.145697,0.501404,0.352071,0.51177,0.681947,0.20734,0.0872464,0.660485,0.473872,0.691245,0.524468,0.77061,0.492058,0.239082,0.369815,0.296967,0.327619,0.482258,0.411443,0.00564051,0.162609,0.298313,0.564529,0.817636,0.272386,0.606741,0.729984,0.671502,0.233607,0.464493,0.518969,0.492801,0.626494,0.649864,0.270282,0.452821,0.308375,0.459846,0.579955,0.928659,0.617676,0.630251,0.352607,0.535653,0.208231,0.399148,0.297675,0.295312,0.519892,0.519213,0.2151,0.363007,0.435274,0.000275738,0.239779,0.822707,0.63639,0.745974,0.680712,0.099967,0.443992,0.388337,0.503665,0.565633,0.382333,0.48873,0.928886,0.50603,0.625292,0.323,0.687884,0.442696,0.442911,0.259019,0.474194,0.721312,0.335483,0.727646,0.303874,0.664051,0.636081,0.540107,0.180475,0.380645,0.381012,0.421492,0.50935,0.0739943,0.842537,0.309616,0.233928,0.431658,0.401444,0.197322,0.546285,0.993144,0.833993,0.972991,0.822492,0.990828,0.926451,0.333817,0.901276,0.812245,0.820605,0.964908,0.929448,0.877102,0.978324,0.663415,0.543707,0.39485,0.629223,0.62986,0.834467,0.858859,0.565394,0.943252,0.992838,0.994214,0.691146,0.922209,0.679034,0.604396,0.483293,0.663794,0.75237,0.957398,0.74784,0.683808,0.702699,0.6153,0.785517,0.927578,0.807388,0.72374,0.809337,0.840645,0.869404,0.886065,0.884617,0.761516,0.756647,0.60022,0.849069,0.882558,0.865269,0.581521,0.965547,0.361386,0.589187,0.584011,0.974529,0.962415,0.494817,0.865215,0.899846,0.680487,0.821721,0.756956,0.662512,0.83879,0.783225,0.687707,0.693536,0.631122,0.833208,0.65364,0.756364,0.774375,0.787611,0.802079,0.846483,0.298002,0.635756,0.325166,0.349565,0.685817,0.754745,0.908906,0.870262,0.803411,0.874094,0.824752,0.941091,0.965527,0.752898,0.880662,0.66377,0.230146,0.356137,0.433346,0.708452,0.878929,0.980789,0.317476,0.907734,0.500885,0.855493,0.894068,0.957391,0.842157,0.903258,0.82513,0.431095,0.902023,0.71284,0.618317,0.950212,0.955001,0.886939,0.597299,0.916664,0.431614,0.901008,0.587879,0.589868,0.76194,0.500025,0.432932,0.969529,0.807389,0.60892,0.236808,0.566373,0.506882,0.559756,0.444643,0.937766,0.860595,0.565622,0.908071,0.874378,0.873577,0.763566,0.980992,0.788882,0.565702,0.514701,0.919872,0.766269,0.947723,0.953029,0.725127,0.868595,0.538257,0.729836,0.923472,0.936849,0.836106,0.830916,0.680151,0.666759,0.8463,0.579478,0.668565,0.403363,0.626717,0.786606,0.272455,0.776347,0.695989,0.410843,0.293891,0.985279,0.97481,0.910864,0.933315,0.440721,0.974063,0.947028,0.830231,0.663598,0.883942,0.336232,0.277231,0.702373,0.368829,0.285365,0.586547,0.761322,0.724849,0.843206,0.841794,0.700767,0.489655,0.131431,0.22295,0.60689,0.535251,0.559938,0.47302,0.539907,0.307527,0.755224,0.0973421,0.337703,0.0408974,0.00820728,0.236407,0.651165,0.498231,0.465177,0.413826,0.401838,0.627254,0.473757,0.224447,0.0218474,0.526484,0.543267,0.011959,0.344535,0.910145,0.252125,0.387594,0.32371,0.680077,0.487521,0.754256,0.899055,0.708678,0.552242,0.117267,0.244075,0.717555,0.79353,0.539097,0.665629,0.685145,0.0898476,0.405341,0.432834,0.0621301,0.759646,0.47353,0.838656,0.0269704,0.660826,0.213661,0.740035,0.158868,0.550339,0.227474,0.262706,0.734895,0.610241,0.0815995,0.440565,0.260197,0.172347,0.416354,0.277761,0.561166,0.591934,0.567039,0.0799643,0.319602,0.740318,0.75631,0.377127,0.360214,0.63218,0.703772,0.273841,0.368726,0.279398,0.214743,0.180612,0.201228,0.810928,0.285553,0.719674,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}}
 
}}

Revision as of 11:28, 8 August 2012


Full id: C522_pituitary_medulla_lung_testis_caudate_epididymis_thyroid



Phase1 CAGE Peaks

Hg19::chr10:119806476..119806520,+p1@CASC2
Hg19::chr10:75118471..75118533,-p1@TTC18
Hg19::chr11:101785727..101785767,+p1@KIAA1377
Hg19::chr11:102980126..102980199,+p2@DYNC2H1
Hg19::chr16:71598823..71598868,-p@chr16:71598823..71598868
-
Hg19::chr17:78388884..78388946,-p1@uc002jyi.1
Hg19::chr1:151693984..151694016,+p1@RIIAD1
Hg19::chr1:169396646..169396660,-p2@C1orf114
Hg19::chr1:42928945..42929017,+p1@CCDC30
Hg19::chr22:44208137..44208219,-p1@EFCAB6
Hg19::chr2:196933548..196933601,-p1@DNAH7
Hg19::chr3:119421849..119421962,+p1@C3orf15
Hg19::chr3:130745688..130745761,+p1@NEK11
Hg19::chr5:110074603..110074661,-p1@TMEM232
Hg19::chr6:163149104..163149130,+p3@PACRG
Hg19::chr9:34458771..34458850,+p1@DNAI1
Hg19::chrX:35937879..35937902,+p1@CXorf22


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:0030286dynein complex1.51318584945636e-05
GO:0005875microtubule associated complex0.00050209970312256
GO:0015630microtubule cytoskeleton0.00772417870359773
GO:0003777microtubule motor activity0.0147235821100474
GO:0044430cytoskeletal part0.0245198976747638
GO:0031573intra-S DNA damage checkpoint0.0245198976747638
GO:0042995cell projection0.0339156691283648
GO:0001539ciliary or flagellar motility0.0339156691283648
GO:0043232intracellular non-membrane-bound organelle0.0339156691283648
GO:0043228non-membrane-bound organelle0.0339156691283648
GO:0005858axonemal dynein complex0.0339156691283648
GO:0005856cytoskeleton0.0339156691283648
GO:0044447axoneme part0.0339156691283648
GO:0005930axoneme0.041969206624181
GO:0000077DNA damage checkpoint0.0489388637877478



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
regional part of nervous system5.77e-3394
nervous system5.77e-3394
adult organism3.39e-32115
central nervous system5.59e-3282
neural tube2.20e-3057
neural rod2.20e-3057
future spinal cord2.20e-3057
neural keel2.20e-3057
brain5.32e-2869
future brain5.32e-2869
neurectoderm2.39e-2790
regional part of brain8.38e-2759
neural plate2.21e-2686
presumptive neural plate2.21e-2686
ectoderm6.60e-26173
presumptive ectoderm6.60e-26173
anterior neural tube6.79e-2542
ectoderm-derived structure7.09e-25169
regional part of forebrain1.30e-2441
forebrain1.30e-2441
future forebrain1.30e-2441
anterior region of body1.14e-21129
craniocervical region1.14e-21129
head1.80e-21123
gray matter2.67e-2034
brain grey matter2.67e-2034
telencephalon3.76e-2034
regional part of telencephalon1.22e-1933
pre-chordal neural plate1.74e-1961
cerebral hemisphere4.25e-1932
cerebral cortex6.31e-1525
pallium6.31e-1525
organism subdivision1.10e-14365
regional part of cerebral cortex2.41e-1422
neocortex3.90e-1320
multi-tissue structure1.04e-12347
organ6.77e-11511
organ part6.20e-09219
multi-cellular organism1.50e-07659
nucleus of brain7.50e-079
neural nucleus7.50e-079
posterior neural tube8.04e-0715
chordal neural plate8.04e-0715
basal ganglion8.94e-079
nuclear complex of neuraxis8.94e-079
aggregate regional part of brain8.94e-079
collection of basal ganglia8.94e-079
cerebral subcortex8.94e-079
Disease
Ontology termp-valuen
cell type cancer8.55e-09143
carcinoma8.27e-07106


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.