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|full_id=C3972_tongue_skeletal_throat_cerebellum_diaphragm_heart_medulla
|full_id=C3972_tongue_skeletal_throat_cerebellum_diaphragm_heart_medulla
|id=C3972
|id=C3972
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0007023!5.16e-45!115;UBERON:0001049!2.06e-33!57;UBERON:0005068!2.06e-33!57;UBERON:0006241!2.06e-33!57;UBERON:0007135!2.06e-33!57;UBERON:0001017!3.40e-32!82;UBERON:0000073!3.60e-31!94;UBERON:0001016!3.60e-31!94;UBERON:0005743!1.75e-30!86;UBERON:0002616!5.42e-30!59;UBERON:0000955!1.27e-29!69;UBERON:0006238!1.27e-29!69;UBERON:0003075!1.64e-27!86;UBERON:0007284!1.64e-27!86;UBERON:0002346!2.74e-26!90;UBERON:0002780!3.06e-25!41;UBERON:0001890!3.06e-25!41;UBERON:0006240!3.06e-25!41;UBERON:0003080!4.02e-24!42;UBERON:0002020!7.02e-21!34;UBERON:0003528!7.02e-21!34;UBERON:0001893!7.02e-21!34;UBERON:0002791!3.78e-20!33;UBERON:0001869!4.28e-20!32;UBERON:0000153!5.35e-19!129;UBERON:0007811!5.35e-19!129;UBERON:0000033!9.56e-19!123;UBERON:0003056!4.17e-18!61;UBERON:0004121!5.50e-17!169;UBERON:0000924!1.36e-16!173;UBERON:0006601!1.36e-16!173;UBERON:0000956!8.22e-16!25;UBERON:0000203!8.22e-16!25;UBERON:0002619!1.35e-15!22;UBERON:0001950!1.88e-14!20;UBERON:0000475!2.38e-13!365;UBERON:0004111!1.43e-12!241;UBERON:0000481!2.17e-11!347;UBERON:0000025!3.01e-11!194;UBERON:0000119!6.72e-11!312;UBERON:0000483!2.29e-10!309;UBERON:0003076!2.46e-10!15;UBERON:0003057!2.46e-10!15;UBERON:0000477!4.16e-10!286;UBERON:0004732!6.98e-09!13;UBERON:0000468!1.11e-08!659;UBERON:0004733!1.34e-08!12;UBERON:0002028!1.34e-08!12;UBERON:0007277!1.34e-08!12;UBERON:0000062!5.71e-07!511
}}
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Revision as of 14:43, 21 May 2012


Full id: C3972_tongue_skeletal_throat_cerebellum_diaphragm_heart_medulla



Phase1 CAGE Peaks

Hg19::chr1:33336497..33336528,-p1@FNDC5
Hg19::chr1:33336544..33336561,-p2@FNDC5
Hg19::chr1:40137876..40137888,+p@chr1:40137876..40137888
+


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
adult organism5.16e-45115
neural tube2.06e-3357
neural rod2.06e-3357
future spinal cord2.06e-3357
neural keel2.06e-3357
central nervous system3.40e-3282
regional part of nervous system3.60e-3194
nervous system3.60e-3194
regional part of brain5.42e-3059
brain1.27e-2969
future brain1.27e-2969
neural plate1.64e-2786
presumptive neural plate1.64e-2786
neurectoderm2.74e-2690
regional part of forebrain3.06e-2541
forebrain3.06e-2541
future forebrain3.06e-2541
anterior neural tube4.02e-2442
gray matter7.02e-2134
brain grey matter7.02e-2134
telencephalon7.02e-2134
regional part of telencephalon3.78e-2033
cerebral hemisphere4.28e-2032
anterior region of body5.35e-19129
craniocervical region5.35e-19129
head9.56e-19123
pre-chordal neural plate4.17e-1861
ectoderm-derived structure5.50e-17169
ectoderm1.36e-16173
presumptive ectoderm1.36e-16173
cerebral cortex8.22e-1625
pallium8.22e-1625
regional part of cerebral cortex1.35e-1522
neocortex1.88e-1420
organism subdivision2.38e-13365
anatomical conduit1.43e-12241
multi-tissue structure2.17e-11347
tube3.01e-11194
cell layer6.72e-11312
epithelium2.29e-10309
posterior neural tube2.46e-1015
chordal neural plate2.46e-1015
anatomical cluster4.16e-10286
segmental subdivision of nervous system6.98e-0913
multi-cellular organism1.11e-08659
segmental subdivision of hindbrain1.34e-0812
hindbrain1.34e-0812
presumptive hindbrain1.34e-0812
organ5.71e-07511


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.