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Coexpression cluster:C4443

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Full id: C4443_Hep2_oral_mucinous_epitheloid_cervical_epidermoid_acute



Phase1 CAGE Peaks

Hg19::chr5:10250349..10250362,+p2@CCT5
Hg19::chr5:10250363..10250374,+p3@CCT5
Hg19::chr5:10250384..10250450,+p1@CCT5


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>disease_data<br>


Cell Type
Ontology termp-valuen
animal cell3.81e-24679
eukaryotic cell3.81e-24679
epithelial cell1.15e-18253
native cell1.20e-12722
embryonic cell8.10e-11250
Uber Anatomy
Ontology termp-valuen
larynx1.27e-079
respiratory primordium4.09e-0738
endoderm of foregut4.09e-0738
Disease
Ontology termp-valuen
disease of cellular proliferation8.69e-48239
cancer1.31e-47235
cell type cancer6.24e-34143
carcinoma1.02e-30106
organ system cancer2.39e-18137
respiratory system cancer2.54e-0716
lung cancer9.26e-0715


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
BRCA1#672320.18423064322380.0001215704860271640.00164401139326569
CEBPB#105137.971147625824820.001974187055288560.0115611821165909
CHD2#1106310.34402283411690.0009033701102746880.00662317100364887
E2F4#1874312.66806031528440.0004917987006298980.00438362759196774
E2F6#187635.017155731697390.00791769806886330.0323773088729058
ELF1#199734.258097958807540.01295179875054610.046426170706627
ELK4#2005316.2356816584680.0002336043955745990.00256167676075342
EP300#203336.77394172622320.003216880500103790.0168109973755487
FOXA1#3169311.08141974938550.000734755275698670.00583241667847483
GABPB1#255337.067683836182170.002832212825417420.0154622830775625
GATA1#2623313.56030814380040.0004009615963782630.00389037794167126
GATA2#2624312.7449317335540.0004829527704283790.00438448403953143
GATA3#2625327.2365163572064.94721007899563e-050.00085345502715597
GTF2F1#2962312.73966087675770.0004835525047438590.00435322300171915
HDAC8#558693776.5840336134452.10837623426304e-091.80934022621362e-07
HSF1#32973164.2906666666672.24910326529255e-071.19175086719375e-05
IRF1#365937.63716375356390.002244692747297240.0128569411996806
IRF3#3661346.98195221148969.63568551583244e-060.000253934231538739
JUND#372736.994663941871030.002921845042734990.0157393529202703
MAX#414936.452555509007120.003721913834265510.0187196223904096
MXI1#460139.96157162875930.001011470541259020.0072225469614762
MYC#460935.22228187160940.007020843755740150.0295593768042307
NFKB1#479035.488063424193840.006049381815655430.0270493379905484
NR2C2#7182332.61461090524092.88098172333076e-050.000605893778096942
NRF1#4899312.21027944771090.0005492172401020010.00472835704715299
POU2F2#545239.106124057742520.001324165192682130.0088474498470046
REST#597839.650028716128020.001112636247114590.0077016580734624
RFX5#5993312.04791082719510.0005717246050312580.00485963587733861
SIN3A#2594235.408884726815140.006318961977991520.0277848631702365
SIX5#147912317.0867153554590.0002004060546325010.00240163028568718
SMARCC1#6599343.66335931963151.20046018043203e-050.000302326647658888
SMARCC2#6601394.15537442689761.19621075407887e-064.86681164570483e-05
SP1#666735.69838137814090.005403962701712170.0247547901488713
SPI1#668838.204323508522730.001810593189410520.0109329638129536
SRF#6722313.79717826216780.0003806615025800190.00375977933307685
TAF7#6879311.43306940492390.0006690181981945830.00544765254960581
TCF12#6938310.63446490218640.0008313523990202070.00631229467112115
USF1#739136.361499277207960.00388404057290560.0190945826300926
YY1#752834.911170749853860.008441455341808260.0330713914938522
ZBTB33#10009221.10981668665410.002928597060603240.0156409996631216
ZNF263#1012738.221841637010680.001799043925565870.0109851700504078



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.