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|full_id=C4847_neuroblastoma_gastrointestinal_cervical_Chondrocyte_uterus_Renal_kidney
|full_id=C4847_neuroblastoma_gastrointestinal_cervical_Chondrocyte_uterus_Renal_kidney
|id=C4847
|id=C4847
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0000477!3.32e-15!286;UBERON:0000481!4.50e-15!347;UBERON:0000468!1.47e-11!659;UBERON:0000922!1.84e-11!612;UBERON:0007023!5.31e-11!115;UBERON:0004111!1.77e-10!241;UBERON:0002050!4.66e-10!605;UBERON:0005423!4.66e-10!605;UBERON:0000923!1.03e-09!604;UBERON:0005291!1.03e-09!604;UBERON:0006598!1.03e-09!604;UBERON:0002532!1.03e-09!604;UBERON:0000153!1.20e-09!129;UBERON:0007811!1.20e-09!129;UBERON:0000033!1.59e-09!123;UBERON:0000467!3.87e-09!625;UBERON:0003103!4.05e-09!69;UBERON:0000064!4.07e-09!219;UBERON:0000480!5.00e-09!626;UBERON:0000924!5.42e-09!173;UBERON:0006601!5.42e-09!173;UBERON:0004121!1.15e-08!169;UBERON:0000483!1.35e-08!309;UBERON:0000119!1.46e-08!312;UBERON:0000062!4.20e-08!511;UBERON:0002346!9.26e-08!90;UBERON:0000161!1.05e-07!35;UBERON:0003075!1.89e-07!86;UBERON:0007284!1.89e-07!86;UBERON:0000475!2.21e-07!365;UBERON:0001444!2.80e-07!48;UBERON:0001737!3.09e-07!9;UBERON:0000165!3.50e-07!28;UBERON:0000930!3.50e-07!28;UBERON:0001007!8.85e-07!155;UBERON:0001555!8.85e-07!155;UBERON:0007026!8.85e-07!155
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Revision as of 14:53, 21 May 2012


Full id: C4847_neuroblastoma_gastrointestinal_cervical_Chondrocyte_uterus_Renal_kidney



Phase1 CAGE Peaks

Hg19::chrX:117250709..117250720,-p3@KLHL13
Hg19::chrX:117250723..117250739,-p2@KLHL13
Hg19::chrX:117250740..117250792,-p1@KLHL13


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><br>uberon_data<br><br>


Uber Anatomy
Ontology termp-valuen
anatomical cluster3.32e-15286
multi-tissue structure4.50e-15347
multi-cellular organism1.47e-11659
embryo1.84e-11612
adult organism5.31e-11115
anatomical conduit1.77e-10241
embryonic structure4.66e-10605
developing anatomical structure4.66e-10605
germ layer1.03e-09604
embryonic tissue1.03e-09604
presumptive structure1.03e-09604
epiblast (generic)1.03e-09604
anterior region of body1.20e-09129
craniocervical region1.20e-09129
head1.59e-09123
anatomical system3.87e-09625
compound organ4.05e-0969
organ part4.07e-09219
anatomical group5.00e-09626
ectoderm5.42e-09173
presumptive ectoderm5.42e-09173
ectoderm-derived structure1.15e-08169
epithelium1.35e-08309
cell layer1.46e-08312
organ4.20e-08511
neurectoderm9.26e-0890
orifice1.05e-0735
neural plate1.89e-0786
presumptive neural plate1.89e-0786
organism subdivision2.21e-07365
subdivision of head2.80e-0748
larynx3.09e-079
mouth3.50e-0728
stomodeum3.50e-0728
digestive system8.85e-07155
digestive tract8.85e-07155
primitive gut8.85e-07155


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.