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Coexpression cluster:C3441

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Full id: C3441_Eosinophils_Mast_Neutrophils_Preadipocyte_CD14_Fibroblast_Smooth



Phase1 CAGE Peaks

Hg19::chr14:62162224..62162254,+p1@HIF1A
Hg19::chr14:62162258..62162269,+p2@HIF1A
Hg19::chr14:62162285..62162296,+p3@HIF1A


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
animal cell6.68e-27679
eukaryotic cell6.68e-27679
somatic cell1.69e-23591
multi fate stem cell3.53e-20430
somatic stem cell6.66e-19436
stem cell2.42e-18444
CD14-positive, CD16-negative classical monocyte6.17e-1842
classical monocyte1.17e-1745
native cell2.55e-17722
non-terminally differentiated cell8.65e-17180
myeloid leukocyte2.77e-1576
monopoietic cell1.66e-1263
monocyte1.66e-1263
monoblast1.66e-1263
promonocyte1.66e-1263
macrophage dendritic cell progenitor4.09e-1265
muscle precursor cell7.63e-1257
myoblast7.63e-1257
multi-potent skeletal muscle stem cell7.63e-1257
fibroblast8.51e-1275
granulocyte monocyte progenitor cell1.20e-1171
connective tissue cell1.38e-10365
myeloid lineage restricted progenitor cell1.69e-1070
muscle cell1.69e-1054
mesenchymal cell5.09e-10358
contractile cell1.38e-0859
electrically responsive cell3.65e-0860
electrically active cell3.65e-0860
smooth muscle cell4.10e-0742
smooth muscle myoblast4.10e-0742
motile cell5.94e-07390
Uber Anatomy
Ontology termp-valuen
musculoskeletal system1.55e-20167
mesoderm2.00e-16448
mesoderm-derived structure2.00e-16448
presumptive mesoderm2.00e-16448
lateral plate mesoderm3.51e-12216
bone marrow6.69e-1280
skeletal element1.71e-11101
skeletal system1.71e-11101
multi-cellular organism3.55e-11659
connective tissue7.53e-11375
anatomical system1.11e-10625
bone element1.13e-1086
somite1.15e-1083
paraxial mesoderm1.15e-1083
presomitic mesoderm1.15e-1083
presumptive segmental plate1.15e-1083
trunk paraxial mesoderm1.15e-1083
presumptive paraxial mesoderm1.15e-1083
anatomical group1.68e-10626
dermomyotome1.45e-0970
multilaminar epithelium1.48e-0982
immune system1.83e-09115
skeletal muscle tissue3.51e-0961
striated muscle tissue3.51e-0961
myotome3.51e-0961
trunk mesenchyme5.66e-09143
hematopoietic system2.67e-08102
blood island2.67e-08102
hemolymphoid system3.19e-08112
muscle tissue3.27e-0863
musculature3.27e-0863
musculature of body3.27e-0863
germ layer2.74e-07604
embryonic tissue2.74e-07604
presumptive structure2.74e-07604
epiblast (generic)2.74e-07604
embryonic structure3.52e-07605
developing anatomical structure3.52e-07605


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-050.00129474468118128
BHLHE40#8553344.87181354697741.10603738662898e-050.00028423582338126
CCNT2#90536.336201576962630.003930750035764890.0189635810691634
CTCF#1066435.360256373075030.0064925092527670.0278880963169258
E2F1#186934.907389214879320.008460985347239390.0324384878925272
E2F6#187635.017155731697390.00791769806886330.032128233297615
EGR1#195834.988179094810140.008056488137383440.0319782443212294
ELF1#199734.258097958807540.01295179875054610.0461080856838901
ETS1#211339.728760922202340.001085840092584840.0076089676214082
FOS#235338.99795530889440.001372499272417130.00896170375192076
FOSL2#2355316.93020060456170.0002060162053171620.00242599238551348
GATA3#2625327.2365163572064.94721007899563e-050.000850085017177072
GTF2B#2959331.94382993432423.06634405746243e-050.000626826985745389
GTF2F1#2962312.73966087675770.0004835525047438590.00433193858663098
HDAC2#3066313.41562023662630.0004140761399857210.00390621425200693
HMGN3#932438.178547723350590.001827766942164210.0108528143540104
IRF1#365937.63716375356390.002244692747297240.0127826317249169
MAX#414936.452555509007120.003721913834265510.0186138466186302
MXI1#460139.96157162875930.001011470541259020.00719157000875151
MYC#460935.22228187160940.007020843755740150.0293864179627183
NFKB1#479035.488063424193840.006049381815655430.0269099321682101
NFYA#4800318.42558069983050.0001598135507814160.00199221382550255
NFYB#4801316.75979325353650.0002123649923296180.00245290725878268
PAX5#507936.669565531177830.003370290999677260.0172611721123624
PBX3#5090321.91451268674419.49854535978121e-050.00136378688318695
POU2F2#545239.106124057742520.001324165192682130.00880968840352459
REST#597839.650028716128020.001112636247114590.00766305836272755
SIN3A#2594235.408884726815140.006318961977991520.0275954869337009
SMARCB1#6598318.25271578115740.000164397760679890.00202757885305232
SMARCC1#6599343.66335931963151.20046018043203e-050.000301237051379483
SP1#666735.69838137814090.005403962701712170.0245972743780395
SREBF1#6720347.00584944048839.62099323994382e-060.000254317112879396
TAF7#6879311.43306940492390.0006690181981945830.00541724233224097
TCF12#6938310.63446490218640.0008313523990202070.00628669996388903
TCF7L2#6934310.77017656313730.0008003181298398380.00612609389932152
USF1#739136.361499277207960.00388404057290560.0189899964137301
USF2#7392312.99219738506960.0004558979393427810.00421023299027507
ZEB1#6935316.88843201754390.0002075486917327580.00242354403129221



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.