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Coexpression cluster:C1023

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Full id: C1023_seminal_ductus_thyroid_pituitary_throat_small_epididymis



Phase1 CAGE Peaks

Hg19::chr12:97856575..97856589,+p@chr12:97856575..97856589
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Hg19::chr12:97856596..97856615,+p@chr12:97856596..97856615
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Hg19::chr12:97856637..97856647,+p@chr12:97856637..97856647
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Hg19::chr12:97869376..97869380,+p@chr12:97869376..97869380
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Hg19::chr12:97874189..97874200,+p@chr12:97874189..97874200
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Hg19::chr12:97904646..97904653,+p@chr12:97904646..97904653
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Hg19::chr12:97926446..97926450,+p@chr12:97926446..97926450
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Hg19::chr12:97955435..97955440,+p@chr12:97955435..97955440
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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
central nervous system2.26e-4382
adult organism4.55e-43115
neural tube9.14e-4357
neural rod9.14e-4357
future spinal cord9.14e-4357
neural keel9.14e-4357
regional part of nervous system3.23e-3994
nervous system3.23e-3994
neural plate5.76e-3886
presumptive neural plate5.76e-3886
regional part of brain2.48e-3659
neurectoderm3.51e-3590
brain3.84e-3469
future brain3.84e-3469
regional part of forebrain7.32e-3441
forebrain7.32e-3441
future forebrain7.32e-3441
anterior neural tube1.08e-3242
gray matter1.12e-2934
brain grey matter1.12e-2934
telencephalon3.07e-2934
regional part of telencephalon2.27e-2833
pre-chordal neural plate3.88e-2861
cerebral hemisphere7.75e-2832
ectoderm-derived structure7.72e-26169
anterior region of body2.84e-25129
craniocervical region2.84e-25129
ectoderm1.46e-24173
presumptive ectoderm1.46e-24173
head2.38e-24123
cerebral cortex1.25e-2225
pallium1.25e-2225
regional part of cerebral cortex5.21e-2122
neocortex1.29e-1920
posterior neural tube5.70e-1115
chordal neural plate5.70e-1115
tube2.73e-09194
anatomical cluster3.46e-09286
anatomical conduit7.40e-09241
male reproductive organ9.58e-0911
segmental subdivision of nervous system1.24e-0813
temporal lobe1.62e-087
nucleus of brain1.89e-089
neural nucleus1.89e-089
basal ganglion3.75e-089
nuclear complex of neuraxis3.75e-089
aggregate regional part of brain3.75e-089
collection of basal ganglia3.75e-089
cerebral subcortex3.75e-089
segmental subdivision of hindbrain4.57e-0812
hindbrain4.57e-0812
presumptive hindbrain4.57e-0812
embryo7.71e-08612
organism subdivision3.75e-07365
organ part4.05e-07219
brainstem4.20e-078
organ5.82e-07511
gyrus5.84e-076


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.