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|full_id=C1910_anaplastic_pineal_temporal_occipital_duodenum_brain_parietal
|full_id=C1910_anaplastic_pineal_temporal_occipital_duodenum_brain_parietal
|id=C1910
|id=C1910
|ontology_enrichment_celltype=CL:0000047!4.95e-12!8;CL:0000540!1.56e-09!6;CL:0000031!1.56e-09!6;CL:0000404!1.56e-09!6
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0001017!4.61e-62!82;UBERON:0005743!1.77e-60!86;UBERON:0000073!6.47e-59!94;UBERON:0001016!6.47e-59!94;UBERON:0001049!6.99e-58!57;UBERON:0005068!6.99e-58!57;UBERON:0006241!6.99e-58!57;UBERON:0007135!6.99e-58!57;UBERON:0002616!9.83e-48!59;UBERON:0002780!1.15e-46!41;UBERON:0001890!1.15e-46!41;UBERON:0006240!1.15e-46!41;UBERON:0002346!1.01e-45!90;UBERON:0003080!2.80e-45!42;UBERON:0000955!9.45e-45!69;UBERON:0006238!9.45e-45!69;UBERON:0003075!2.46e-43!86;UBERON:0007284!2.46e-43!86;UBERON:0007023!5.56e-41!115;UBERON:0001893!1.81e-39!34;UBERON:0002020!3.59e-39!34;UBERON:0003528!3.59e-39!34;UBERON:0002791!7.70e-38!33;UBERON:0001869!4.91e-37!32;UBERON:0000924!2.32e-36!173;UBERON:0006601!2.32e-36!173;UBERON:0002619!1.06e-35!22;UBERON:0004121!3.33e-34!169;UBERON:0000956!4.04e-33!25;UBERON:0000203!4.04e-33!25;UBERON:0001950!1.35e-32!20;UBERON:0003056!6.32e-31!61;UBERON:0000033!7.17e-22!123;UBERON:0000153!4.19e-21!129;UBERON:0007811!4.19e-21!129;UBERON:0003076!2.51e-13!15;UBERON:0003057!2.51e-13!15;UBERON:0000025!2.81e-12!194;UBERON:0000200!2.38e-11!6;UBERON:0001871!2.69e-11!7;UBERON:0004732!1.21e-10!13;UBERON:0002021!4.35e-10!5;UBERON:0001872!1.06e-09!5;UBERON:0000349!1.82e-09!5;UBERON:0004733!1.93e-09!12;UBERON:0002028!1.93e-09!12;UBERON:0007277!1.93e-09!12;UBERON:0002298!9.27e-09!8;UBERON:0004111!1.59e-08!241;UBERON:0001894!1.81e-08!7;UBERON:0006222!1.81e-08!7;UBERON:0000064!2.55e-08!219;UBERON:0002420!2.77e-08!9;UBERON:0007245!2.77e-08!9;UBERON:0010009!2.77e-08!9;UBERON:0010011!2.77e-08!9;UBERON:0000454!2.77e-08!9;UBERON:0000483!6.72e-08!309;UBERON:0002308!7.63e-08!9;UBERON:0000125!7.63e-08!9;UBERON:0000119!1.15e-07!312;UBERON:0000922!4.20e-07!612
|ontology_enrichment_uberon=UBERON:0002619!5.76e-96!22;UBERON:0001950!2.19e-87!20;UBERON:0000956!2.70e-84!25;UBERON:0000203!2.70e-84!25;UBERON:0002780!1.50e-82!41;UBERON:0001890!1.50e-82!41;UBERON:0003080!1.50e-82!41;UBERON:0006240!1.50e-82!41;UBERON:0001893!2.38e-79!34;UBERON:0001869!5.76e-78!32;UBERON:0001049!7.55e-73!56;UBERON:0005068!7.55e-73!56;UBERON:0006241!7.55e-73!56;UBERON:0007135!7.55e-73!56;UBERON:0000073!3.25e-72!53;UBERON:0002616!3.25e-72!53;UBERON:0002791!2.26e-71!32;UBERON:0003528!5.51e-67!34;UBERON:0002020!5.51e-67!34;UBERON:0001017!1.41e-66!81;UBERON:0000955!1.38e-62!68;UBERON:0006238!1.38e-62!68;UBERON:0001016!2.42e-59!89;UBERON:0003056!7.16e-54!61;UBERON:0003075!6.79e-48!82;UBERON:0007284!6.79e-48!82;UBERON:0002346!2.23e-45!86;UBERON:0010371!2.00e-36!104;UBERON:0007023!1.04e-30!114;UBERON:0010314!2.31e-29!132;UBERON:0000200!2.30e-28!6;UBERON:0004121!7.37e-28!171;UBERON:0000924!7.37e-28!171;UBERON:0006601!7.37e-28!171;UBERON:0001871!1.82e-24!6;UBERON:0002021!3.23e-24!5;UBERON:0011216!4.28e-24!223;UBERON:0001872!9.21e-24!5;UBERON:0000349!4.55e-23!5;UBERON:0000025!4.49e-18!192;UBERON:0001870!2.43e-15!3;UBERON:0004111!4.42e-13!240;UBERON:0000477!2.34e-11!373;UBERON:0001905!8.78e-11!2;UBERON:0002757!8.78e-11!2;UBERON:0010134!8.78e-11!2;UBERON:0005408!8.78e-11!2;UBERON:0001899!8.78e-11!2;UBERON:0002702!1.01e-10!2;UBERON:0001876!1.12e-10!2;UBERON:0002771!1.49e-10!2;UBERON:0001954!4.42e-10!2;UBERON:0003022!4.42e-10!2;UBERON:0002421!4.42e-10!2;UBERON:0002600!4.42e-10!2;UBERON:0000064!1.15e-09!218;UBERON:0000483!8.82e-09!306;UBERON:0000119!1.25e-08!309;UBERON:0000481!7.14e-08!342
|tf_chipseq_enrich=EP300#2033;5:6.7739417262232:7.00901578206049e-05:0.00110928110208004
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}}
}}

Revision as of 11:50, 19 October 2012


Full id: C1910_anaplastic_pineal_temporal_occipital_duodenum_brain_parietal



Phase1 CAGE Peaks

Hg19::chr2:50574926..50574990,-p2@NRXN1
Hg19::chr2:50575000..50575009,-p26@NRXN1
Hg19::chr2:50575014..50575025,-p25@NRXN1
Hg19::chr2:50575032..50575041,-p30@NRXN1
Hg19::chr2:50575145..50575190,-p23@NRXN1


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
regional part of cerebral cortex5.76e-9622
neocortex2.19e-8720
cerebral cortex2.70e-8425
pallium2.70e-8425
regional part of forebrain1.50e-8241
forebrain1.50e-8241
anterior neural tube1.50e-8241
future forebrain1.50e-8241
telencephalon2.38e-7934
cerebral hemisphere5.76e-7832
neural tube7.55e-7356
neural rod7.55e-7356
future spinal cord7.55e-7356
neural keel7.55e-7356
regional part of nervous system3.25e-7253
regional part of brain3.25e-7253
regional part of telencephalon2.26e-7132
brain grey matter5.51e-6734
gray matter5.51e-6734
central nervous system1.41e-6681
brain1.38e-6268
future brain1.38e-6268
nervous system2.42e-5989
pre-chordal neural plate7.16e-5461
neural plate6.79e-4882
presumptive neural plate6.79e-4882
neurectoderm2.23e-4586
ecto-epithelium2.00e-36104
adult organism1.04e-30114
structure with developmental contribution from neural crest2.31e-29132
gyrus2.30e-286
ectoderm-derived structure7.37e-28171
ectoderm7.37e-28171
presumptive ectoderm7.37e-28171
temporal lobe1.82e-246
occipital lobe3.23e-245
organ system subdivision4.28e-24223
parietal lobe9.21e-245
limbic system4.55e-235
tube4.49e-18192
frontal cortex2.43e-153
anatomical conduit4.42e-13240
anatomical cluster2.34e-11373
pineal body8.78e-112
regional part of epithalamus8.78e-112
secretory circumventricular organ8.78e-112
circumventricular organ8.78e-112
epithalamus8.78e-112
middle frontal gyrus1.01e-102
amygdala1.12e-102
middle temporal gyrus1.49e-102
Ammon's horn4.42e-102
lobe parts of cerebral cortex4.42e-102
hippocampal formation4.42e-102
limbic lobe4.42e-102
organ part1.15e-09218
epithelium8.82e-09306
cell layer1.25e-08309
multi-tissue structure7.14e-08342


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
EP300#203356.77394172622327.00901578206049e-050.00110928110208004



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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