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Coexpression cluster:C670

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Full id: C670_putamen_parietal_pineal_caudate_middle_occipital_cerebellum



Phase1 CAGE Peaks

Hg19::chr4:21115074..21115079,-p@chr4:21115074..21115079
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Hg19::chr4:21326759..21326765,-p@chr4:21326759..21326765
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Hg19::chr4:21385117..21385122,-p@chr4:21385117..21385122
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Hg19::chr4:21490941..21490944,-p@chr4:21490941..21490944
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Hg19::chr4:21617919..21617938,-p@chr4:21617919..21617938
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Hg19::chr4:21635843..21635847,-p@chr4:21635843..21635847
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Hg19::chr4:21698935..21698940,-p@chr4:21698935..21698940
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Hg19::chr4:21767439..21767443,-p@chr4:21767439..21767443
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Hg19::chr4:21792588..21792593,-p@chr4:21792588..21792593
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Hg19::chr4:21833284..21833287,-p@chr4:21833284..21833287
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Hg19::chr4:21923515..21923532,-p@chr4:21923515..21923532
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Hg19::chr4:21931695..21931698,-p@chr4:21931695..21931698
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Hg19::chr4:21937276..21937287,-p@chr4:21937276..21937287
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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 nervous system4.04e-11753
regional part of brain4.04e-11753
neural tube2.10e-11056
neural rod2.10e-11056
future spinal cord2.10e-11056
neural keel2.10e-11056
regional part of forebrain2.17e-10741
forebrain2.17e-10741
anterior neural tube2.17e-10741
future forebrain2.17e-10741
brain1.99e-10168
future brain1.99e-10168
central nervous system1.07e-8781
telencephalon2.19e-8434
brain grey matter3.56e-8434
gray matter3.56e-8434
nervous system1.81e-8189
neural plate7.24e-8082
presumptive neural plate7.24e-8082
cerebral hemisphere1.28e-7832
regional part of telencephalon3.05e-7832
pre-chordal neural plate6.00e-7861
neurectoderm1.06e-7586
regional part of cerebral cortex2.53e-7022
neocortex9.16e-6420
cerebral cortex1.62e-6125
pallium1.62e-6125
ecto-epithelium7.13e-61104
adult organism5.73e-55114
structure with developmental contribution from neural crest3.10e-48132
ectoderm-derived structure1.19e-39171
ectoderm1.19e-39171
presumptive ectoderm1.19e-39171
organ system subdivision2.40e-29223
tube3.49e-25192
basal ganglion2.30e-249
nuclear complex of neuraxis2.30e-249
aggregate regional part of brain2.30e-249
collection of basal ganglia2.30e-249
cerebral subcortex2.30e-249
diencephalon6.70e-247
future diencephalon6.70e-247
neural nucleus1.90e-239
nucleus of brain1.90e-239
gyrus1.50e-216
limbic system3.86e-185
temporal lobe3.87e-186
anatomical conduit4.38e-18240
parietal lobe5.89e-185
telencephalic nucleus9.16e-187
occipital lobe1.07e-175
regional part of diencephalon3.70e-154
organ part4.99e-15218
gland of diencephalon1.19e-144
neuroendocrine gland1.19e-144
anatomical cluster5.99e-14373
epithelium9.90e-14306
cell layer1.70e-13309
brainstem1.72e-136
segmental subdivision of hindbrain4.56e-1312
hindbrain4.56e-1312
presumptive hindbrain4.56e-1312
multi-tissue structure8.74e-13342
segmental subdivision of nervous system5.51e-1213
frontal cortex7.30e-123
pons1.56e-103
posterior neural tube2.97e-1015
chordal neural plate2.97e-1015
regional part of metencephalon1.53e-099
metencephalon1.53e-099
future metencephalon1.53e-099
corpus striatum3.53e-094
striatum3.53e-094
ventral part of telencephalon3.53e-094
future corpus striatum3.53e-094
pineal body9.58e-092
regional part of epithalamus9.58e-092
secretory circumventricular organ9.58e-092
circumventricular organ9.58e-092
epithalamus9.58e-092
organ1.37e-08503
amygdala1.79e-082
middle frontal gyrus1.79e-082
middle temporal gyrus1.99e-082
dorsal plus ventral thalamus4.07e-082
Ammon's horn4.07e-082
lobe parts of cerebral cortex4.07e-082
hippocampal formation4.07e-082
thalamic complex4.07e-082
limbic lobe4.07e-082
globus pallidus1.16e-072
pallidum1.16e-072
pituitary gland1.28e-072
embryonic structure1.32e-07564
locus ceruleus1.99e-072
brainstem nucleus1.99e-072
hindbrain nucleus1.99e-072
embryo2.85e-07592
germ layer4.19e-07560
germ layer / neural crest4.19e-07560


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.