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Coexpression cluster:C4004

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Full id: C4004_Alveolar_Smooth_Renal_Tracheal_Keratinocyte_Bronchial_Esophageal



Phase1 CAGE Peaks

Hg19::chr1:8938709..8938720,-p3@ENO1
Hg19::chr1:8938736..8938756,-p1@ENO1
Hg19::chr1:8938766..8938774,-p2@ENO1


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>


Uber Anatomy
Ontology termp-valuen
artery6.69e-1242
arterial blood vessel6.69e-1242
arterial system6.69e-1242
epithelial vesicle3.13e-1178
epithelial tube3.78e-11117
vasculature5.19e-1178
vascular system5.19e-1178
unilaminar epithelium7.12e-11148
multilaminar epithelium1.68e-1083
vessel4.04e-1068
epithelial tube open at both ends4.19e-1059
blood vessel4.19e-1059
blood vasculature4.19e-1059
vascular cord4.19e-1059
trunk8.17e-10199
somite1.28e-0971
presomitic mesoderm1.28e-0971
presumptive segmental plate1.28e-0971
dermomyotome1.28e-0971
trunk paraxial mesoderm1.28e-0971
paraxial mesoderm3.34e-0972
presumptive paraxial mesoderm3.34e-0972
dense mesenchyme tissue5.38e-0973
splanchnic layer of lateral plate mesoderm1.02e-0883
organism subdivision1.09e-08264
systemic artery3.39e-0833
systemic arterial system3.39e-0833
skeletal muscle tissue9.58e-0862
striated muscle tissue9.58e-0862
myotome9.58e-0862
mesenchyme1.00e-07160
entire embryonic mesenchyme1.00e-07160
trunk mesenchyme3.57e-07122
muscle tissue7.51e-0764
musculature7.51e-0764
musculature of body7.51e-0764
Disease
Ontology termp-valuen
disease of cellular proliferation5.50e-07239


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
CHD2#1106310.34402283411690.0009033701102746880.00660971493253315
CTCF#1066435.360256373075030.0064925092527670.027979004491427
E2F4#1874312.66806031528440.0004917987006298980.00437653071703187
E2F6#187635.017155731697390.00791769806886330.032269910970303
EBF1#187938.9064668465690.00141523283560980.00915771388588924
EGR1#195834.988179094810140.008056488137383440.0321063671759526
ELF1#199734.258097958807540.01295179875054610.0462895390359415
ETS1#211339.728760922202340.001085840092584840.00763149753899514
FOS#235338.99795530889440.001372499272417130.0089841712010011
GABPB1#255337.067683836182170.002832212825417420.0154292147135658
GTF2B#2959331.94382993432423.06634405746243e-050.000628426034178413
GTF2F1#2962312.73966087675770.0004835525047438590.00434498322661481
IRF1#365937.63716375356390.002244692747297240.0128231848722775
IRF3#3661346.98195221148969.63568551583244e-060.000253678184922618
IRF4#3662321.91451268674419.49854535978121e-050.00136754697936337
MYC#460935.22228187160940.007020843755740150.029489237925025
NFKB1#479035.488063424193840.006049381815655430.0269846404751735
NFYA#4800318.42558069983050.0001598135507814160.00199865494312781
NFYB#4801316.75979325353650.0002123649923296180.00246134584773199
PBX3#5090321.91451268674419.49854535978121e-050.0013677355285126
POU2F2#545239.106124057742520.001324165192682130.00883050179161796
REST#597839.650028716128020.001112636247114590.00768535826801592
RXRA#6256320.07461713913330.0001235730348432220.00165353544983873
SETDB1#9869340.32002617801051.52461559299059e-050.00035919090439058
SIN3A#2594235.408884726815140.006318961977991520.0277160165477912
SP1#666735.69838137814090.005403962701712170.0246833352549362
SP2#6668326.15353049384465.58768218891694e-050.000941093275485076
SPI1#668838.204323508522730.001810593189410520.010916553637504
SRF#6722313.79717826216780.0003806615025800190.00375409883550091
STAT3#6774310.51946499715420.0008589184530415310.00643228053328585
TAF7#6879311.43306940492390.0006690181981945830.00543790112858931
TCF12#6938310.63446490218640.0008313523990202070.00629764366441368
TFAP2A#7020316.5186343730450.0002218033880766340.00248444058851733
TFAP2C#7022310.80922860986020.0007916746575753130.00616383700331803
USF1#739136.361499277207960.00388404057290560.0190533261340389
USF2#7392312.99219738506960.0004558979393427810.00422068299681063
YY1#752834.911170749853860.008441455341808260.0329786090017249
ZNF143#7702313.50087655222790.0004062804962997170.00389494480934882
ZNF263#1012738.221841637010680.001799043925565870.0109544279700428



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.