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Coexpression cluster:C2525

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Full id: C2525_neuroblastoma_nonsmall_Neurons_Neural_temporal_duodenum_brain



Phase1 CAGE Peaks

Hg19::chr1:151032739..151032748,+p6@MLLT11
Hg19::chr1:151032782..151032801,+p4@MLLT11
Hg19::chr1:151032833..151032850,+p3@MLLT11
Hg19::chr1:151032860..151032918,+p1@MLLT11


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
cell layer1.70e-30309
epithelium9.98e-30306
central nervous system1.02e-2981
nervous system4.49e-2989
brain1.11e-2768
future brain1.11e-2768
tube2.35e-27192
neural tube3.22e-2456
neural rod3.22e-2456
future spinal cord3.22e-2456
neural keel3.22e-2456
ectoderm-derived structure6.43e-24171
ectoderm6.43e-24171
presumptive ectoderm6.43e-24171
anatomical cluster1.56e-23373
neural plate1.61e-2382
presumptive neural plate1.61e-2382
regional part of nervous system2.13e-2353
regional part of brain2.13e-2353
neurectoderm8.24e-2386
structure with developmental contribution from neural crest1.60e-22132
anatomical conduit2.20e-22240
ecto-epithelium1.18e-21104
pre-chordal neural plate1.00e-1861
regional part of forebrain1.47e-1841
forebrain1.47e-1841
anterior neural tube1.47e-1841
future forebrain1.47e-1841
brain grey matter5.92e-1734
gray matter5.92e-1734
cerebral hemisphere6.68e-1732
telencephalon2.04e-1634
regional part of telencephalon6.16e-1632
multi-tissue structure7.34e-16342
vasculature1.31e-1478
vascular system1.31e-1478
cerebral cortex7.40e-1425
pallium7.40e-1425
regional part of cerebral cortex1.19e-1322
artery1.19e-1242
arterial blood vessel1.19e-1242
arterial system1.19e-1242
neocortex1.25e-1220
splanchnic layer of lateral plate mesoderm1.81e-1283
epithelial tube open at both ends3.50e-1259
blood vessel3.50e-1259
blood vasculature3.50e-1259
vascular cord3.50e-1259
vessel1.37e-1168
skeletal muscle tissue1.08e-1062
striated muscle tissue1.08e-1062
myotome1.08e-1062
systemic artery1.72e-1033
systemic arterial system1.72e-1033
circulatory system2.33e-10112
multilaminar epithelium4.84e-1083
muscle tissue6.26e-1064
musculature6.26e-1064
musculature of body6.26e-1064
cardiovascular system7.29e-10109
epithelial vesicle8.63e-1078
paraxial mesoderm1.50e-0972
presumptive paraxial mesoderm1.50e-0972
dense mesenchyme tissue1.50e-0973
epithelial tube2.76e-09117
multi-cellular organism2.95e-09656
somite4.02e-0971
presomitic mesoderm4.02e-0971
presumptive segmental plate4.02e-0971
dermomyotome4.02e-0971
trunk paraxial mesoderm4.02e-0971
anatomical system4.42e-09624
organ part4.51e-09218
anatomical group6.09e-09625
embryo1.56e-08592
developing anatomical structure2.05e-08581
organ system subdivision4.13e-08223
embryonic structure1.68e-07564
posterior neural tube6.97e-0715
chordal neural plate6.97e-0715
germ layer8.47e-07560
germ layer / neural crest8.47e-07560
embryonic tissue8.47e-07560
presumptive structure8.47e-07560
germ layer / neural crest derived structure8.47e-07560
epiblast (generic)8.47e-07560


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
CTBP2#1488462.71700033932816.45042639894877e-083.95814384653238e-06
EGR1#195844.988179094810140.001615011500076050.0101467957682995
ELF1#199744.258097958807540.003041525565781240.0160935195341284
EP300#203346.77394172622320.0004748459821442640.00434449754964212
HEY1#2346244.040111043105710.00375304636917980.0186135630045954
MAFK#7975427.10073313782991.85228494563408e-066.85266693011258e-05
REST#597849.650028716128020.0001152825614219170.00157077565979695
SIN3A#2594245.408884726815140.001168172384885160.00796622629481037
SP1#666745.69838137814090.0009482606065333980.00684466027270313
TAF1#687243.343046285745290.008005664898701650.0322346995279321
TBP#690843.706770687096390.005296377814784350.02443127081835
USF1#739146.361499277207960.0006105011399140830.00508089318284221
YY1#752844.911170749853860.00171871838055440.0106890507322528
ZBTB7A#5134147.35190930787590.000342223540015990.00346668130899418



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.