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Coexpression cluster:C3210

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Full id: C3210_CD14_parotid_nonsmall_gastrointestinal_chronic_salivary_thyroid



Phase1 CAGE Peaks

Hg19::chr11:93276475..93276505,-p1@C11orf75
Hg19::chr11:93276548..93276565,-p2@C11orf75
Hg19::chr11:93276582..93276597,-p4@C11orf75


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
hematopoietic system6.88e-2498
blood island6.88e-2498
bone marrow6.12e-2376
bone element6.33e-2382
hemolymphoid system8.06e-22108
immune system3.36e-2193
skeletal element4.91e-1790
skeletal system4.29e-16100
lateral plate mesoderm1.69e-09203


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
CCNT2#90536.336201576962630.003930750035764890.0189303515164276
CTCF#1066435.360256373075030.0064925092527670.0278491528605936
CTCFL#140690319.74647435897440.0001298372005551160.00171256218600351
E2F1#186934.907389214879320.008460985347239390.032387364341018
E2F4#1874312.66806031528440.0004917987006298980.00435870370800118
E2F6#187635.017155731697390.00791769806886330.0320709148547166
EGR1#195834.988179094810140.008056488137383440.0319284925655595
ELF1#199734.258097958807540.01295179875054610.0460343353426451
ETS1#211339.728760922202340.001085840092584840.00760335591213327
GATA3#2625327.2365163572064.94721007899563e-050.000849386278875924
GTF2B#2959331.94382993432423.06634405746243e-050.000626091704823693
GTF2F1#2962312.73966087675770.0004835525047438590.00432859690091231
HMGN3#932438.178547723350590.001827766942164210.0108386413622921
MEF2A#4205318.74323090964410.0001518243905622470.00194891685421958
MYC#460935.22228187160940.007020843755740150.0293370369290928
PAX5#507936.669565531177830.003370290999677260.0172408807658353
RAD21#5885310.35503389545630.0009004912073565420.00662158707351333
REST#597839.650028716128020.001112636247114590.00765599005220718
RFX5#5993312.04791082719510.0005717246050312580.00483288919667014
SIN3A#2594235.408884726815140.006318961977991520.0275609133438904
SMC3#9126315.04493284493280.0002935825420371870.00308186421829548
YY1#752834.911170749853860.008441455341808260.0328141271613173
ZNF143#7702313.50087655222790.0004062804962997170.00387927671905706



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.