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Coexpression cluster:C3741

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Full id: C3741_granulocyte_Eosinophils_Neutrophils_immature_CD8_Natural_CD14CD16



Phase1 CAGE Peaks

Hg19::chr18:77439775..77439861,+p1@CTDP1
Hg19::chr18:77439863..77439883,+p2@CTDP1
Hg19::chr22:24059459..24059470,-p2@GUSBP11


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
hematopoietic cell2.00e-36182
hematopoietic stem cell5.33e-36172
angioblastic mesenchymal cell5.33e-36172
leukocyte3.24e-33140
hematopoietic oligopotent progenitor cell4.42e-32165
hematopoietic multipotent progenitor cell4.42e-32165
hematopoietic lineage restricted progenitor cell1.83e-25124
nongranular leukocyte9.37e-24119
myeloid cell6.69e-23112
common myeloid progenitor6.69e-23112
myeloid leukocyte2.60e-2076
CD14-positive, CD16-negative classical monocyte1.61e-1942
granulocyte monocyte progenitor cell2.32e-1771
classical monocyte3.83e-1745
myeloid lineage restricted progenitor cell2.77e-1670
macrophage dendritic cell progenitor3.26e-1565
monopoietic cell3.46e-1463
monocyte3.46e-1463
monoblast3.46e-1463
promonocyte3.46e-1463
mature alpha-beta T cell5.10e-1018
alpha-beta T cell5.10e-1018
immature T cell5.10e-1018
mature T cell5.10e-1018
immature alpha-beta T cell5.10e-1018
T cell6.60e-0925
pro-T cell6.60e-0925
lymphocyte1.47e-0853
common lymphoid progenitor1.47e-0853
lymphoid lineage restricted progenitor cell1.54e-0852
mesenchymal cell9.73e-08358
motile cell1.67e-07390
connective tissue cell1.84e-07365
intermediate monocyte8.16e-079
CD14-positive, CD16-positive monocyte8.16e-079
granulocyte8.85e-078
Uber Anatomy
Ontology termp-valuen
hematopoietic system1.43e-21102
blood island1.43e-21102
hemolymphoid system1.86e-21112
bone marrow4.62e-1480
bone element8.70e-1486
immune system3.36e-13115
lateral plate mesoderm3.65e-09216
skeletal element1.07e-08101
skeletal system1.07e-08101
blood7.12e-0715
haemolymphatic fluid7.12e-0715
organism substance7.12e-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
ATF3#467322.46317452600878.81932387510763e-050.00129620231662309
BCLAF1#9774214.43509840674790.006201147435546130.027384424398351
BRCA1#672213.45615376214920.007119807716084560.0296249242255042
CEBPB#105137.971147625824820.001974187055288560.0115198414273819
E2F1#186934.907389214879320.008460985347239390.0325208615000859
EGR1#195834.988179094810140.008056488137383440.0320488902483503
ELF1#199734.258097958807540.01295179875054610.046208892484825
ETS1#211339.728760922202340.001085840092584840.00761868010947046
FOXA2#3170216.42030916844350.004810682352105480.0225879087430447
JUND#372736.994663941871030.002921845042734990.0156698456618157
MAX#414936.452555509007120.003721913834265510.018641519227741
NFKB1#479035.488063424193840.006049381815655430.0269524076381229
REST#597839.650028716128020.001112636247114590.00767165887716384
SIN3A#2594235.408884726815140.006318961977991520.0276579384778281
SIX5#147912317.0867153554590.0002004060546325010.00239613141840455
SMARCC2#6601262.77024961793170.0003358375417085070.00341690570077884
SRF#6722313.79717826216780.0003806615025800190.00374949605469722
THAP1#55145331.36914460285133.23800758564397e-050.00064660473085482
USF1#739136.361499277207960.00388404057290560.0190175955646361
USF2#7392312.99219738506960.0004558979393427810.00421470522147656
YY1#752834.911170749853860.008441455341808260.0329231889776351
ZBTB33#10009221.10981668665410.002928597060603240.0156362020557406
ZNF143#7702313.50087655222790.0004062804962997170.00388887624901898



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.