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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000475!6.19e-19!365;UBERON:0000481!1.17e-16!347;UBERON:0000468!6.85e-15!659;UBERON:0007023!6.25e-14!115;UBERON:0004111!6.15e-13!241;UBERON:0000483!6.26e-11!309;UBERON:0000477!1.02e-10!286;UBERON:0000480!2.39e-10!626;UBERON:0000467!2.50e-10!625;UBERON:0002385!2.89e-10!63;UBERON:0001015!2.89e-10!63;UBERON:0000383!2.89e-10!63;UBERON:0000025!3.23e-10!194;UBERON:0004290!4.30e-10!70;UBERON:0000119!5.51e-10!312;UBERON:0001134!1.15e-09!61;UBERON:0002036!1.15e-09!61;UBERON:0003082!1.15e-09!61;UBERON:0000486!3.16e-09!82;UBERON:0004872!7.38e-09!84;UBERON:0000922!9.67e-09!612;UBERON:0002100!1.29e-08!216;UBERON:0002050!1.66e-08!605;UBERON:0005423!1.66e-08!605;UBERON:0000914!3.43e-08!83;UBERON:0002329!3.43e-08!83;UBERON:0003077!3.43e-08!83;UBERON:0003059!3.43e-08!83;UBERON:0007282!3.43e-08!83;UBERON:0009618!3.43e-08!83;UBERON:0007285!3.43e-08!83;UBERON:0000923!3.47e-08!604;UBERON:0005291!3.47e-08!604;UBERON:0006598!3.47e-08!604;UBERON:0002532!3.47e-08!604;UBERON:0000064!4.26e-08!219;UBERON:0003104!6.71e-08!238;UBERON:0009142!6.71e-08!238;UBERON:0002346!1.06e-07!90;UBERON:0000924!1.26e-07!173;UBERON:0006601!1.26e-07!173;UBERON:0001049!1.59e-07!57;UBERON:0005068!1.59e-07!57;UBERON:0006241!1.59e-07!57;UBERON:0007135!1.59e-07!57;UBERON:0000073!8.02e-07!94;UBERON:0001016!8.02e-07!94;UBERON:0004121!9.40e-07!169;UBERON:0004573!9.80e-07!33;UBERON:0004571!9.80e-07!33
|ontology_enrichment_uberon=UBERON:0000475!6.19e-19!365;UBERON:0000481!1.17e-16!347;UBERON:0000468!6.85e-15!659;UBERON:0007023!6.25e-14!115;UBERON:0004111!6.15e-13!241;UBERON:0000483!6.26e-11!309;UBERON:0000477!1.02e-10!286;UBERON:0000480!2.39e-10!626;UBERON:0000467!2.50e-10!625;UBERON:0002385!2.89e-10!63;UBERON:0001015!2.89e-10!63;UBERON:0000383!2.89e-10!63;UBERON:0000025!3.23e-10!194;UBERON:0004290!4.30e-10!70;UBERON:0000119!5.51e-10!312;UBERON:0001134!1.15e-09!61;UBERON:0002036!1.15e-09!61;UBERON:0003082!1.15e-09!61;UBERON:0000486!3.16e-09!82;UBERON:0004872!7.38e-09!84;UBERON:0000922!9.67e-09!612;UBERON:0002100!1.29e-08!216;UBERON:0002050!1.66e-08!605;UBERON:0005423!1.66e-08!605;UBERON:0000914!3.43e-08!83;UBERON:0002329!3.43e-08!83;UBERON:0003077!3.43e-08!83;UBERON:0003059!3.43e-08!83;UBERON:0007282!3.43e-08!83;UBERON:0009618!3.43e-08!83;UBERON:0007285!3.43e-08!83;UBERON:0000923!3.47e-08!604;UBERON:0005291!3.47e-08!604;UBERON:0006598!3.47e-08!604;UBERON:0002532!3.47e-08!604;UBERON:0000064!4.26e-08!219;UBERON:0003104!6.71e-08!238;UBERON:0009142!6.71e-08!238;UBERON:0002346!1.06e-07!90;UBERON:0000924!1.26e-07!173;UBERON:0006601!1.26e-07!173;UBERON:0001049!1.59e-07!57;UBERON:0005068!1.59e-07!57;UBERON:0006241!1.59e-07!57;UBERON:0007135!1.59e-07!57;UBERON:0000073!8.02e-07!94;UBERON:0001016!8.02e-07!94;UBERON:0004121!9.40e-07!169;UBERON:0004573!9.80e-07!33;UBERON:0004571!9.80e-07!33
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}}
}}

Revision as of 12:44, 5 September 2012


Full id: C1912_uterus_cervix_rectum_cerebellum_neuroepithelioma_sacrococcigeal_neuroectodermal



Phase1 CAGE Peaks

Hg19::chr2:66662249..66662267,+p2@MEIS1
Hg19::chr2:66662281..66662308,+p1@MEIS1
Hg19::chr2:66662396..66662407,+p4@MEIS1
Hg19::chr2:66662510..66662521,+p6@MEIS1
Hg19::chr2:66789201..66789212,+p@chr2:66789201..66789212
+


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
organism subdivision6.19e-19365
multi-tissue structure1.17e-16347
multi-cellular organism6.85e-15659
adult organism6.25e-14115
anatomical conduit6.15e-13241
epithelium6.26e-11309
anatomical cluster1.02e-10286
anatomical group2.39e-10626
anatomical system2.50e-10625
muscle tissue2.89e-1063
musculature2.89e-1063
musculature of body2.89e-1063
tube3.23e-10194
dermomyotome4.30e-1070
cell layer5.51e-10312
skeletal muscle tissue1.15e-0961
striated muscle tissue1.15e-0961
myotome1.15e-0961
multilaminar epithelium3.16e-0982
splanchnic layer of lateral plate mesoderm7.38e-0984
embryo9.67e-09612
trunk1.29e-08216
embryonic structure1.66e-08605
developing anatomical structure1.66e-08605
somite3.43e-0883
paraxial mesoderm3.43e-0883
presomitic mesoderm3.43e-0883
presumptive segmental plate3.43e-0883
trunk paraxial mesoderm3.43e-0883
presumptive paraxial mesoderm3.43e-0883
germ layer3.47e-08604
embryonic tissue3.47e-08604
presumptive structure3.47e-08604
epiblast (generic)3.47e-08604
organ part4.26e-08219
mesenchyme6.71e-08238
entire embryonic mesenchyme6.71e-08238
neurectoderm1.06e-0790
ectoderm1.26e-07173
presumptive ectoderm1.26e-07173
neural tube1.59e-0757
neural rod1.59e-0757
future spinal cord1.59e-0757
neural keel1.59e-0757
regional part of nervous system8.02e-0794
nervous system8.02e-0794
ectoderm-derived structure9.40e-07169
systemic artery9.80e-0733
systemic arterial system9.80e-0733


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
CEBPB#105146.376918100659850.001113944176677320.00765742222523545
ELF1#199743.406478367046030.01235066105299550.0447397138397487
ELK4#2005412.98854532677446.83810524411663e-050.00109116099861008
EP300#203345.419153380978560.00209386927943890.0121227126600876
FOSL2#2355413.54416048364945.7953819349229e-050.000965025341041793
FOXA1#316948.865135799508360.0003075468591372710.00316857910835922
GABPB1#255345.654147068945740.001776696502096670.0109112316819049
GTF2F1#2962410.19172870140610.000177833889427640.00215937606998411
HDAC2#3066410.7324961893010.0001450965797478750.00188667102742633
HSF1#32974131.4325333333336.79362350565572e-095.3227250210591e-07
JUND#372745.595731153496820.001849593301755460.0109370215627923
MAX#414945.16204440720570.002526309009485180.0140022919196318
MYC#460944.177825497287520.005691969036823440.0256887582315718
NR3C1#2908411.97841866493849.4122920812787e-050.00136624096271948
REST#597847.720022972902420.0005286363773650570.00457417188199082
RFX5#599349.638328661756080.000221480125815720.00249796575162721
SIN3A#2594244.327107781452110.004977052855762880.0232488783971294
SMARCB1#6598414.60217262492594.30486693344344e-050.000768671563791929
SP1#666744.558705102512720.00407573565781680.0194901903098319
SRF#6722411.03774260973420.0001299255814846750.00171048755889046
SUZ12#23512440.09262472885037.78750287036555e-073.41443749906846e-05
TCF12#693848.507571921749140.0003614215578492260.00361279728945399
USF1#739145.089199421766370.00266867775360040.0147234039042933
YY1#752843.928936599883080.007193866269917620.0298510151123972
ZNF263#1012746.577473309608540.0009875103237900160.00709413885722283



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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