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Coexpression cluster:C2311

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Full id: C2311_neuroectodermal_eye_retina_neuroepithelioma_merkel_carcinoid_neuroblastoma



Phase1 CAGE Peaks

Hg19::chr14:76842457..76842494,+p1@ESRRB
Hg19::chr14:76842508..76842518,+p4@ESRRB
Hg19::chr14:76842616..76842623,+p8@ESRRB
Hg19::chr14:76842634..76842646,+p5@ESRRB


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
embryonic stem cell6.02e-105
Uber Anatomy
Ontology termp-valuen
neural tube1.64e-3557
neural rod1.64e-3557
future spinal cord1.64e-3557
neural keel1.64e-3557
central nervous system3.59e-3382
regional part of nervous system1.18e-3294
nervous system1.18e-3294
neurectoderm2.32e-3090
brain8.24e-2969
future brain8.24e-2969
regional part of brain3.09e-2759
neural plate1.62e-2686
presumptive neural plate1.62e-2686
adult organism3.70e-25115
regional part of forebrain1.76e-2441
forebrain1.76e-2441
future forebrain1.76e-2441
anterior neural tube9.65e-2442
gray matter1.39e-2334
brain grey matter1.39e-2334
telencephalon1.76e-2334
regional part of telencephalon5.37e-2233
cerebral hemisphere2.99e-2032
pre-chordal neural plate5.81e-1961
ectoderm4.02e-18173
presumptive ectoderm4.02e-18173
head6.51e-16123
anterior region of body1.30e-15129
craniocervical region1.30e-15129
ectoderm-derived structure1.39e-15169
regional part of cerebral cortex1.15e-1422
nucleus of brain2.04e-149
neural nucleus2.04e-149
neocortex6.00e-1420
posterior neural tube5.37e-1315
chordal neural plate5.37e-1315
cerebral cortex1.46e-1225
pallium1.46e-1225
basal ganglion6.16e-119
nuclear complex of neuraxis6.16e-119
aggregate regional part of brain6.16e-119
collection of basal ganglia6.16e-119
cerebral subcortex6.16e-119
telencephalic nucleus1.35e-107
brainstem1.60e-098
segmental subdivision of hindbrain5.12e-0812
hindbrain5.12e-0812
presumptive hindbrain5.12e-0812
spinal cord8.86e-083
brainstem nucleus1.48e-073
pons1.84e-073
tube2.46e-07194
segmental subdivision of nervous system2.61e-0713
spleen3.66e-073
gastrointestinal system mesentery3.66e-073
stomach region3.66e-073
mesentery3.66e-073
gastrointestinal system serosa3.66e-073
mesentery of stomach3.66e-073
gut mesentery3.66e-073
dorsal mesentery3.66e-073
dorsal mesogastrium3.66e-073
peritoneal cavity3.66e-073
spleen primordium3.66e-073
occipital lobe4.40e-075
organ part6.45e-07219


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
E2F1#186944.907389214879320.001724022357361790.0106359011743463
ZNF263#1012748.221841637010680.0002187871180958320.00248287599987076



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.