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Coexpression cluster:C2261: Difference between revisions

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|full_id=C2261_lung_smooth_aorta_bladder_heart_adipose_penis
|full_id=C2261_lung_smooth_aorta_bladder_heart_adipose_penis
|id=C2261
|id=C2261
|ontology_enrichment_celltype=CL:0002139!9.88e-10!24
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0007023!8.31e-65!115;UBERON:0001049!1.21e-23!57;UBERON:0005068!1.21e-23!57;UBERON:0006241!1.21e-23!57;UBERON:0007135!1.21e-23!57;UBERON:0002616!9.91e-21!59;UBERON:0001017!1.82e-19!82;UBERON:0004111!4.02e-19!241;UBERON:0005743!8.50e-19!86;UBERON:0000955!9.84e-19!69;UBERON:0006238!9.84e-19!69;UBERON:0003080!9.95e-19!42;UBERON:0000477!4.20e-18!286;UBERON:0002780!6.60e-18!41;UBERON:0001890!6.60e-18!41;UBERON:0006240!6.60e-18!41;UBERON:0000025!1.73e-17!194;UBERON:0003075!2.93e-17!86;UBERON:0007284!2.93e-17!86;UBERON:0000073!9.47e-17!94;UBERON:0001016!9.47e-17!94;UBERON:0002346!2.63e-16!90;UBERON:0001893!1.57e-13!34;UBERON:0002020!1.80e-13!34;UBERON:0003528!1.80e-13!34;UBERON:0002619!2.83e-13!22;UBERON:0002791!6.69e-13!33;UBERON:0001869!2.03e-12!32;UBERON:0001950!3.20e-12!20;UBERON:0000483!6.86e-12!309;UBERON:0000119!1.89e-11!312;UBERON:0000468!4.03e-11!659;UBERON:0000153!4.49e-11!129;UBERON:0007811!4.49e-11!129;UBERON:0000956!7.06e-11!25;UBERON:0000203!7.06e-11!25;UBERON:0000467!1.01e-10!625;UBERON:0000480!1.31e-10!626;UBERON:0003056!4.03e-10!61;UBERON:0000033!1.59e-09!123;UBERON:0004121!1.90e-08!169;UBERON:0000922!2.67e-08!612;UBERON:0000481!3.05e-08!347;UBERON:0000924!3.75e-08!173;UBERON:0006601!3.75e-08!173;UBERON:0002050!7.73e-08!605;UBERON:0005423!7.73e-08!605;UBERON:0000923!1.68e-07!604;UBERON:0005291!1.68e-07!604;UBERON:0006598!1.68e-07!604;UBERON:0002532!1.68e-07!604;UBERON:0002298!7.93e-07!8
|ontology_enrichment_uberon=UBERON:0007023!1.32e-73!114;UBERON:0000477!1.03e-19!373;UBERON:0001049!5.09e-19!56;UBERON:0005068!5.09e-19!56;UBERON:0006241!5.09e-19!56;UBERON:0007135!5.09e-19!56;UBERON:0004111!6.85e-18!240;UBERON:0000073!7.50e-18!53;UBERON:0002616!7.50e-18!53;UBERON:0002780!1.78e-17!41;UBERON:0001890!1.78e-17!41;UBERON:0003080!1.78e-17!41;UBERON:0006240!1.78e-17!41;UBERON:0011216!7.70e-15!223;UBERON:0003075!3.06e-14!82;UBERON:0007284!3.06e-14!82;UBERON:0000025!4.54e-14!192;UBERON:0001893!6.86e-14!34;UBERON:0000955!1.16e-13!68;UBERON:0006238!1.16e-13!68;UBERON:0001017!1.28e-13!81;UBERON:0002346!4.31e-13!86;UBERON:0003528!1.50e-12!34;UBERON:0002020!1.50e-12!34;UBERON:0001869!2.20e-12!32;UBERON:0002791!2.70e-12!32;UBERON:0010314!3.41e-12!132;UBERON:0000481!3.66e-12!342;UBERON:0002619!1.24e-11!22;UBERON:0001950!1.87e-11!20;UBERON:0001016!2.82e-11!89;UBERON:0000468!7.80e-11!656;UBERON:0010371!1.68e-10!104;UBERON:0003056!2.02e-10!61;UBERON:0000956!8.39e-10!25;UBERON:0000203!8.39e-10!25;UBERON:0000467!1.87e-09!624;UBERON:0000480!2.19e-09!625;UBERON:0000483!1.46e-08!306;UBERON:0002050!1.74e-08!564;UBERON:0000922!1.76e-08!592;UBERON:0000062!1.92e-08!503;UBERON:0000119!2.65e-08!309;UBERON:0000923!2.90e-08!560;UBERON:0010316!2.90e-08!560;UBERON:0005291!2.90e-08!560;UBERON:0006598!2.90e-08!560;UBERON:0010317!2.90e-08!560;UBERON:0002532!2.90e-08!560;UBERON:0005423!2.98e-08!581;UBERON:0004121!7.11e-07!171;UBERON:0000924!7.11e-07!171;UBERON:0006601!7.11e-07!171
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}}
}}

Revision as of 13:48, 19 October 2012


Full id: C2261_lung_smooth_aorta_bladder_heart_adipose_penis



Phase1 CAGE Peaks

Hg19::chr13:32828284..32828380,+p5@FRY
Hg19::chr13:32828389..32828409,+p13@FRY
Hg19::chr13:32828411..32828428,+p19@FRY
Hg19::chr6:76203532..76203548,-p3@FILIP1


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 organism1.32e-73114
anatomical cluster1.03e-19373
neural tube5.09e-1956
neural rod5.09e-1956
future spinal cord5.09e-1956
neural keel5.09e-1956
anatomical conduit6.85e-18240
regional part of nervous system7.50e-1853
regional part of brain7.50e-1853
regional part of forebrain1.78e-1741
forebrain1.78e-1741
anterior neural tube1.78e-1741
future forebrain1.78e-1741
organ system subdivision7.70e-15223
neural plate3.06e-1482
presumptive neural plate3.06e-1482
tube4.54e-14192
telencephalon6.86e-1434
brain1.16e-1368
future brain1.16e-1368
central nervous system1.28e-1381
neurectoderm4.31e-1386
brain grey matter1.50e-1234
gray matter1.50e-1234
cerebral hemisphere2.20e-1232
regional part of telencephalon2.70e-1232
structure with developmental contribution from neural crest3.41e-12132
multi-tissue structure3.66e-12342
regional part of cerebral cortex1.24e-1122
neocortex1.87e-1120
nervous system2.82e-1189
multi-cellular organism7.80e-11656
ecto-epithelium1.68e-10104
pre-chordal neural plate2.02e-1061
cerebral cortex8.39e-1025
pallium8.39e-1025
anatomical system1.87e-09624
anatomical group2.19e-09625
epithelium1.46e-08306
embryonic structure1.74e-08564
embryo1.76e-08592
organ1.92e-08503
cell layer2.65e-08309
germ layer2.90e-08560
germ layer / neural crest2.90e-08560
embryonic tissue2.90e-08560
presumptive structure2.90e-08560
germ layer / neural crest derived structure2.90e-08560
epiblast (generic)2.90e-08560
developing anatomical structure2.98e-08581
ectoderm-derived structure7.11e-07171
ectoderm7.11e-07171
presumptive ectoderm7.11e-07171


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)

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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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