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{{Coexpression_clusters
{{Coexpression_clusters
|full_id=C2293_large_lung_nonsmall_throat_trachea_bronchioalveolar_thyroid
|full_id=C2293_large_lung_nonsmall_throat_trachea_bronchioalveolar_thyroid
|gostat_on_coexpression_clusters=GO:0007603!phototransduction, visible light!0.00508440105755542!6101$GO:0007602!phototransduction!0.00508440105755542!6101$GO:0050962!detection of light stimulus during sensory perception!0.00508440105755542!6101$GO:0050908!detection of light stimulus during visual perception!0.00508440105755542!6101$GO:0009584!detection of visible light!0.00508440105755542!6101$GO:0009583!detection of light stimulus!0.00508440105755542!6101$GO:0006228!UTP biosynthetic process!0.00508440105755542!6101$GO:0046051!UTP metabolic process!0.00508440105755542!6101$GO:0004550!nucleoside diphosphate kinase activity!0.00508440105755542!6101$GO:0046036!CTP metabolic process!0.00508440105755542!6101$GO:0009209!pyrimidine ribonucleoside triphosphate biosynthetic process!0.00508440105755542!6101$GO:0009208!pyrimidine ribonucleoside triphosphate metabolic process!0.00508440105755542!6101$GO:0006241!CTP biosynthetic process!0.00508440105755542!6101$GO:0006183!GTP biosynthetic process!0.00508440105755542!6101$GO:0046039!GTP metabolic process!0.00508440105755542!6101$GO:0009220!pyrimidine ribonucleotide biosynthetic process!0.00508440105755542!6101$GO:0009218!pyrimidine ribonucleotide metabolic process!0.00508440105755542!6101$GO:0005929!cilium!0.00508440105755542!6101$GO:0009582!detection of abiotic stimulus!0.00508440105755542!6101$GO:0050906!detection of stimulus during sensory perception!0.00508440105755542!6101$GO:0009581!detection of external stimulus!0.00508440105755542!6101$GO:0009147!pyrimidine nucleoside triphosphate metabolic process!0.00508440105755542!6101$GO:0006221!pyrimidine nucleotide biosynthetic process!0.0051551405505301!6101$GO:0006220!pyrimidine nucleotide metabolic process!0.00626398210290828!6101$GO:0016776!phosphotransferase activity, phosphate group as acceptor!0.00626398210290828!6101$GO:0051606!detection of stimulus!0.00671140939597316!6101$GO:0009416!response to light stimulus!0.00671140939597316!6101$GO:0019205!nucleobase, nucleoside, nucleotide kinase activity!0.00727069351230425!6101$GO:0009314!response to radiation!0.00779140631026768!6101$GO:0009206!purine ribonucleoside triphosphate biosynthetic process!0.00820283370618941!6101$GO:0009145!purine nucleoside triphosphate biosynthetic process!0.00820283370618941!6101$GO:0009201!ribonucleoside triphosphate biosynthetic process!0.00820283370618941!6101$GO:0009142!nucleoside triphosphate biosynthetic process!0.00820283370618941!6101$GO:0009205!purine ribonucleoside triphosphate metabolic process!0.00820283370618941!6101$GO:0009144!purine nucleoside triphosphate metabolic process!0.00820283370618941!6101$GO:0009199!ribonucleoside triphosphate metabolic process!0.00820283370618941!6101$GO:0009152!purine ribonucleotide biosynthetic process!0.00859263778726866!6101$GO:0009141!nucleoside triphosphate metabolic process!0.00859263778726866!6101$GO:0009150!purine ribonucleotide metabolic process!0.00859263778726866!6101$GO:0009260!ribonucleotide biosynthetic process!0.00859263778726866!6101$GO:0006164!purine nucleotide biosynthetic process!0.00859263778726866!6101$GO:0009628!response to abiotic stimulus!0.00859263778726866!6101$GO:0006163!purine nucleotide metabolic process!0.00859263778726866!6101$GO:0009259!ribonucleotide metabolic process!0.00859263778726866!6101$GO:0007601!visual perception!0.0108452485166813!6101$GO:0050953!sensory perception of light stimulus!0.0108452485166813!6101$GO:0005625!soluble fraction!0.0111380836784235!6101$GO:0009165!nucleotide biosynthetic process!0.0118847874720358!6101$GO:0042995!cell projection!0.0142902798703374!6101$GO:0009117!nucleotide metabolic process!0.0152125279642058!6101$GO:0055086!nucleobase, nucleoside and nucleotide metabolic process!0.0160986094661578!6101$GO:0009605!response to external stimulus!0.0272328342798141!6101$GO:0000267!cell fraction!0.0380735300325018!6101$GO:0007600!sensory perception!0.0393570304084845!6101
|id=C2293
|id=C2293
}}
}}

Revision as of 17:37, 18 May 2012


Full id: C2293_large_lung_nonsmall_throat_trachea_bronchioalveolar_thyroid



Phase1 CAGE Peaks

Hg19::chr14:36982935..36982943,-p9@SFTA3
Hg19::chr14:36982948..36982964,-p7@SFTA3
Hg19::chr8:55471706..55471714,+p3@RP1
Hg19::chr8:55471724..55471729,+p8@RP1


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

GO IDGO nameFDR corrected p-value
GO:0007603phototransduction, visible light0.00508440105755542
GO:0007602phototransduction0.00508440105755542
GO:0050962detection of light stimulus during sensory perception0.00508440105755542
GO:0050908detection of light stimulus during visual perception0.00508440105755542
GO:0009584detection of visible light0.00508440105755542
GO:0009583detection of light stimulus0.00508440105755542
GO:0006228UTP biosynthetic process0.00508440105755542
GO:0046051UTP metabolic process0.00508440105755542
GO:0004550nucleoside diphosphate kinase activity0.00508440105755542
GO:0046036CTP metabolic process0.00508440105755542
GO:0009209pyrimidine ribonucleoside triphosphate biosynthetic process0.00508440105755542
GO:0009208pyrimidine ribonucleoside triphosphate metabolic process0.00508440105755542
GO:0006241CTP biosynthetic process0.00508440105755542
GO:0006183GTP biosynthetic process0.00508440105755542
GO:0046039GTP metabolic process0.00508440105755542
GO:0009220pyrimidine ribonucleotide biosynthetic process0.00508440105755542
GO:0009218pyrimidine ribonucleotide metabolic process0.00508440105755542
GO:0005929cilium0.00508440105755542
GO:0009582detection of abiotic stimulus0.00508440105755542
GO:0050906detection of stimulus during sensory perception0.00508440105755542
GO:0009581detection of external stimulus0.00508440105755542
GO:0009147pyrimidine nucleoside triphosphate metabolic process0.00508440105755542
GO:0006221pyrimidine nucleotide biosynthetic process0.0051551405505301
GO:0006220pyrimidine nucleotide metabolic process0.00626398210290828
GO:0016776phosphotransferase activity, phosphate group as acceptor0.00626398210290828
GO:0051606detection of stimulus0.00671140939597316
GO:0009416response to light stimulus0.00671140939597316
GO:0019205nucleobase, nucleoside, nucleotide kinase activity0.00727069351230425
GO:0009314response to radiation0.00779140631026768
GO:0009206purine ribonucleoside triphosphate biosynthetic process0.00820283370618941
GO:0009145purine nucleoside triphosphate biosynthetic process0.00820283370618941
GO:0009201ribonucleoside triphosphate biosynthetic process0.00820283370618941
GO:0009142nucleoside triphosphate biosynthetic process0.00820283370618941
GO:0009205purine ribonucleoside triphosphate metabolic process0.00820283370618941
GO:0009144purine nucleoside triphosphate metabolic process0.00820283370618941
GO:0009199ribonucleoside triphosphate metabolic process0.00820283370618941
GO:0009152purine ribonucleotide biosynthetic process0.00859263778726866
GO:0009141nucleoside triphosphate metabolic process0.00859263778726866
GO:0009150purine ribonucleotide metabolic process0.00859263778726866
GO:0009260ribonucleotide biosynthetic process0.00859263778726866
GO:0006164purine nucleotide biosynthetic process0.00859263778726866
GO:0009628response to abiotic stimulus0.00859263778726866
GO:0006163purine nucleotide metabolic process0.00859263778726866
GO:0009259ribonucleotide metabolic process0.00859263778726866
GO:0007601visual perception0.0108452485166813
GO:0050953sensory perception of light stimulus0.0108452485166813
GO:0005625soluble fraction0.0111380836784235
GO:0009165nucleotide biosynthetic process0.0118847874720358
GO:0042995cell projection0.0142902798703374
GO:0009117nucleotide metabolic process0.0152125279642058
GO:0055086nucleobase, nucleoside and nucleotide metabolic process0.0160986094661578
GO:0009605response to external stimulus0.0272328342798141
GO:0000267cell fraction0.0380735300325018
GO:0007600sensory perception0.0393570304084845



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>

Cell Type
Ontology termp-valuen

Uber Anatomy
Ontology termp-valuen

Disease
Ontology termp-valuen


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

No analysis results for this cluster

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.

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