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|full_id=C3684_salivary_parotid_seminal_submaxillary_Dendritic_medulla_Alveolar
|full_id=C3684_salivary_parotid_seminal_submaxillary_Dendritic_medulla_Alveolar
|id=C3684
|id=C3684
|ontology_enrichment_celltype=CL:0000557!4.09e-09!71;CL:0002009!4.86e-09!65;CL:0000839!1.09e-08!70;CL:0000766!2.45e-08!76;CL:0002194!2.86e-08!63;CL:0000576!2.86e-08!63;CL:0000040!2.86e-08!63;CL:0000559!2.86e-08!63;CL:0000763!7.45e-07!112;CL:0000049!7.45e-07!112
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0007023!1.08e-45!115;UBERON:0001049!7.32e-18!57;UBERON:0005068!7.32e-18!57;UBERON:0006241!7.32e-18!57;UBERON:0007135!7.32e-18!57;UBERON:0004111!2.40e-16!241;UBERON:0000025!7.74e-16!194;UBERON:0000477!2.97e-15!286;UBERON:0003080!2.62e-14!42;UBERON:0002616!4.12e-14!59;UBERON:0002780!6.40e-14!41;UBERON:0001890!6.40e-14!41;UBERON:0006240!6.40e-14!41;UBERON:0003075!3.15e-12!86;UBERON:0007284!3.15e-12!86;UBERON:0002020!5.80e-12!34;UBERON:0003528!5.80e-12!34;UBERON:0001893!9.56e-12!34;UBERON:0002791!2.34e-11!33;UBERON:0002346!3.74e-11!90;UBERON:0001869!4.63e-11!32;UBERON:0000062!6.06e-11!511;UBERON:0000955!9.63e-11!69;UBERON:0006238!9.63e-11!69;UBERON:0000467!1.20e-10!625;UBERON:0000480!2.11e-10!626;UBERON:0002050!5.29e-10!605;UBERON:0005423!5.29e-10!605;UBERON:0000923!8.46e-10!604;UBERON:0005291!8.46e-10!604;UBERON:0006598!8.46e-10!604;UBERON:0002532!8.46e-10!604;UBERON:0002619!1.59e-09!22;UBERON:0000922!2.08e-09!612;UBERON:0000468!8.24e-09!659;UBERON:0001017!1.12e-08!82;UBERON:0001950!1.28e-08!20;UBERON:0003056!2.79e-08!61;UBERON:0005743!4.19e-08!86;UBERON:0000956!1.01e-07!25;UBERON:0000203!1.01e-07!25;UBERON:0002193!2.37e-07!112;UBERON:0002405!5.30e-07!115;UBERON:0000483!6.84e-07!309;UBERON:0002371!8.54e-07!80
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Revision as of 14:39, 21 May 2012


Full id: C3684_salivary_parotid_seminal_submaxillary_Dendritic_medulla_Alveolar



Phase1 CAGE Peaks

Hg19::chr17:7462031..7462086,+p2@TNFSF13
Hg19::chr17:7462091..7462102,+p9@TNFSF13
Hg19::chr17:7462103..7462110,+p14@TNFSF13


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
adult organism1.08e-45115
neural tube7.32e-1857
neural rod7.32e-1857
future spinal cord7.32e-1857
neural keel7.32e-1857
anatomical conduit2.40e-16241
tube7.74e-16194
anatomical cluster2.97e-15286
anterior neural tube2.62e-1442
regional part of brain4.12e-1459
regional part of forebrain6.40e-1441
forebrain6.40e-1441
future forebrain6.40e-1441
neural plate3.15e-1286
presumptive neural plate3.15e-1286
gray matter5.80e-1234
brain grey matter5.80e-1234
telencephalon9.56e-1234
regional part of telencephalon2.34e-1133
neurectoderm3.74e-1190
cerebral hemisphere4.63e-1132
organ6.06e-11511
brain9.63e-1169
future brain9.63e-1169
anatomical system1.20e-10625
anatomical group2.11e-10626
embryonic structure5.29e-10605
developing anatomical structure5.29e-10605
germ layer8.46e-10604
embryonic tissue8.46e-10604
presumptive structure8.46e-10604
epiblast (generic)8.46e-10604
regional part of cerebral cortex1.59e-0922
embryo2.08e-09612
multi-cellular organism8.24e-09659
central nervous system1.12e-0882
neocortex1.28e-0820
pre-chordal neural plate2.79e-0861
cerebral cortex1.01e-0725
pallium1.01e-0725
hemolymphoid system2.37e-07112
immune system5.30e-07115
epithelium6.84e-07309
bone marrow8.54e-0780


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.