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Coexpression cluster:C1520

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Full id: C1520_cerebellum_parietal_occipital_temporal_duodenum_middle_thymus



Phase1 CAGE Peaks

Hg19::chr4:21381485..21381488,-p@chr4:21381485..21381488
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Hg19::chr7:71362939..71362942,-p@chr7:71362939..71362942
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Hg19::chr7:71557606..71557611,-p@chr7:71557606..71557611
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Hg19::chr8:10306708..10306725,+p@chr8:10306708..10306725
+
Hg19::chr8:10307650..10307657,+p@chr8:10307650..10307657
+
Hg19::chr8:9761063..9761074,-p3@MIR124-1


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
neural tube1.06e-6456
neural rod1.06e-6456
future spinal cord1.06e-6456
neural keel1.06e-6456
regional part of nervous system2.82e-6453
regional part of brain2.82e-6453
nervous system5.60e-5789
brain grey matter3.56e-5534
gray matter3.56e-5534
brain1.14e-5468
future brain1.14e-5468
central nervous system4.49e-5481
telencephalon1.40e-5034
regional part of forebrain1.34e-4941
forebrain1.34e-4941
anterior neural tube1.34e-4941
future forebrain1.34e-4941
cerebral hemisphere5.21e-4932
regional part of telencephalon5.35e-4932
neurectoderm2.50e-4586
neural plate6.73e-4582
presumptive neural plate6.73e-4582
regional part of cerebral cortex1.68e-4122
cerebral cortex2.99e-3625
pallium2.99e-3625
neocortex1.10e-3420
pre-chordal neural plate1.59e-3461
ecto-epithelium8.50e-34104
adult organism7.31e-28114
ectoderm-derived structure1.56e-27171
ectoderm1.56e-27171
presumptive ectoderm1.56e-27171
structure with developmental contribution from neural crest6.97e-27132
organ system subdivision2.55e-24223
neural nucleus1.26e-209
nucleus of brain1.26e-209
gyrus1.13e-166
brainstem9.42e-166
basal ganglion9.98e-169
nuclear complex of neuraxis9.98e-169
aggregate regional part of brain9.98e-169
collection of basal ganglia9.98e-169
cerebral subcortex9.98e-169
posterior neural tube1.26e-1515
chordal neural plate1.26e-1515
segmental subdivision of hindbrain2.72e-1512
hindbrain2.72e-1512
presumptive hindbrain2.72e-1512
tube1.06e-14192
temporal lobe1.71e-146
telencephalic nucleus3.07e-147
segmental subdivision of nervous system4.87e-1413
limbic system2.50e-135
parietal lobe6.81e-135
organ part7.04e-13218
pons5.12e-123
regional part of metencephalon5.60e-119
metencephalon5.60e-119
future metencephalon5.60e-119
anatomical cluster8.61e-11373
anatomical conduit3.06e-10240
corpus striatum9.55e-104
striatum9.55e-104
ventral part of telencephalon9.55e-104
future corpus striatum9.55e-104
Ammon's horn2.51e-092
lobe parts of cerebral cortex2.51e-092
hippocampal formation2.51e-092
limbic lobe2.51e-092
middle temporal gyrus2.62e-092
locus ceruleus1.75e-082
brainstem nucleus1.75e-082
hindbrain nucleus1.75e-082
epithelium1.98e-08306
cell layer2.86e-08309
multi-tissue structure2.27e-07342
sympathetic nervous system2.92e-075
autonomic nervous system2.92e-075


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.