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Coexpression cluster:C3707

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Full id: C3707_epithelioid_mesothelioma_melanoma_Melanocyte_serous_nasal_Mast



Phase1 CAGE Peaks

Hg19::chr18:13726426..13726439,-p4@FAM210A
Hg19::chr18:13726440..13726453,-p2@FAM210A
Hg19::chr18:13726457..13726468,-p3@FAM210A


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><br><br>


Cell Type
Ontology termp-valuen
endo-epithelial cell5.10e-0742


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
ATF3#467322.46317452600878.81932387510763e-050.00129565531888081
BRCA1#672320.18423064322380.0001215704860271640.00164146089078099
CCNT2#90536.336201576962630.003930750035764890.0189890190566284
CEBPB#105137.971147625824820.001974187055288560.0115179108355556
CHD2#1106310.34402283411690.0009033701102746880.00660092849275717
CTCF#1066435.360256373075030.0064925092527670.0279248486059523
E2F1#186934.907389214879320.008460985347239390.0325065056165514
E2F4#1874312.66806031528440.0004917987006298980.00436722765879483
E2F6#187635.017155731697390.00791769806886330.0321907687875278
EGR1#195834.988179094810140.008056488137383440.0320415675773111
ELF1#199734.258097958807540.01295179875054610.0461899576475425
ELK4#2005316.2356816584680.0002336043955745990.0025563086200142
ETS1#211339.728760922202340.001085840092584840.00761765657482822
FOSL2#2355316.93020060456170.0002060162053171620.00242927926692097
GABPB1#255337.067683836182170.002832212825417420.0154002954794486
GTF2F1#2962312.73966087675770.0004835525047438590.00433640220186707
HDAC2#3066313.41562023662630.0004140761399857210.00391080647350052
HMGN3#932438.178547723350590.001827766942164210.0108639321423191
JUN#3725312.51282919233630.0005103313992726250.00443969187910318
JUND#372736.994663941871030.002921845042734990.0156658234210278
MAX#414936.452555509007120.003721913834265510.0186379439459558
MXI1#460139.96157162875930.001011470541259020.00719941197154985
MYC#460935.22228187160940.007020843755740150.0294276959909197
NFE2#4778377.2042606516292.17039522930409e-067.82713768485118e-05
NFKB1#479035.488063424193840.006049381815655430.0269432123947818
NRF1#4899312.21027944771090.0005492172401020010.00470856175825094
PAX5#507936.669565531177830.003370290999677260.0172806628560702
POU2F2#545239.106124057742520.001324165192682130.00881699002604584
REST#597839.650028716128020.001112636247114590.00767013973679212
RFX5#5993312.04791082719510.0005717246050312580.00484347388261353
RXRA#6256320.07461713913330.0001235730348432220.00165184233789726
SIN3A#2594235.408884726815140.006318961977991520.0276475102647447
SIX5#147912317.0867153554590.0002004060546325010.0023955829163058
SP1#666735.69838137814090.005403962701712170.0246294767883097
SPI1#668838.204323508522730.001810593189410520.0109020779538106
SREBF1#6720347.00584944048839.62099323994382e-060.00025463935960124
SRF#6722313.79717826216780.0003806615025800190.00374843547689559
TCF12#6938310.63446490218640.0008313523990202070.00628988794561514
THAP1#55145331.36914460285133.23800758564397e-050.000646357557792566
USF1#739136.361499277207960.00388404057290560.0190140298768955
USF2#7392312.99219738506960.0004558979393427810.00421395918993015
YY1#752834.911170749853860.008441455341808260.0329096701796675
ZBTB33#10009331.66472502998123.14815888737575e-050.000633752054816184
ZBTB7A#5134137.35190930787590.002516255860282270.0140082753620479
ZNF143#7702313.50087655222790.0004062804962997170.00388816354375938



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.