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Coexpression cluster:C1912

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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>


Cell Type
Ontology termp-valuen
smooth muscle cell1.82e-1043
smooth muscle myoblast1.82e-1043
muscle precursor cell8.08e-0958
myoblast8.08e-0958
multi-potent skeletal muscle stem cell8.08e-0958
muscle cell8.36e-0955
contractile cell5.77e-0859
electrically responsive cell4.03e-0761
electrically active cell4.03e-0761
Uber Anatomy
Ontology termp-valuen
multi-tissue structure1.40e-15342
multi-cellular organism1.96e-13656
anatomical cluster4.28e-13373
adult organism3.37e-12114
anatomical conduit8.48e-11240
organ system subdivision5.37e-10223
organism subdivision1.56e-09264
epithelium1.71e-09306
muscle tissue1.73e-0964
musculature1.73e-0964
musculature of body1.73e-0964
dense mesenchyme tissue2.08e-0973
paraxial mesoderm3.35e-0972
presumptive paraxial mesoderm3.35e-0972
somite3.37e-0971
presomitic mesoderm3.37e-0971
presumptive segmental plate3.37e-0971
dermomyotome3.37e-0971
trunk paraxial mesoderm3.37e-0971
anatomical system5.30e-09624
anatomical group5.64e-09625
germ layer6.62e-09560
germ layer / neural crest6.62e-09560
embryonic tissue6.62e-09560
presumptive structure6.62e-09560
germ layer / neural crest derived structure6.62e-09560
epiblast (generic)6.62e-09560
neurectoderm6.79e-0986
skeletal muscle tissue6.90e-0962
striated muscle tissue6.90e-0962
myotome6.90e-0962
embryonic structure8.42e-09564
cell layer9.18e-09309
tube2.43e-08192
trunk3.45e-08199
multilaminar epithelium3.91e-0883
trunk mesenchyme4.77e-08122
ectoderm-derived structure7.44e-08171
ectoderm7.44e-08171
presumptive ectoderm7.44e-08171
epithelial vesicle9.56e-0878
neural plate9.61e-0882
presumptive neural plate9.61e-0882
developing anatomical structure1.53e-07581
mesenchyme1.72e-07160
entire embryonic mesenchyme1.72e-07160
organ part2.04e-07218
splanchnic layer of lateral plate mesoderm2.09e-0783
embryo2.34e-07592
anatomical space4.74e-0795
organ5.07e-07503
smooth muscle tissue5.59e-0715
structure with developmental contribution from neural crest5.79e-07132


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.