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Coexpression cluster:C2911

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Full id: C2911_Monocytederived_Macrophage_corpus_spinal_CD14_diencephalon_insula



Phase1 CAGE Peaks

Hg19::chr7:99764744..99764756,-p7@GAL3ST4
Hg19::chr7:99764761..99764795,-p4@GAL3ST4
Hg19::chr7:99764796..99764842,-p2@GAL3ST4
Hg19::chr7:99764857..99764886,-p3@GAL3ST4


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 organism1.12e-52115
neural tube7.41e-3757
neural rod7.41e-3757
future spinal cord7.41e-3757
neural keel7.41e-3757
central nervous system3.58e-3282
anterior neural tube1.81e-3042
regional part of forebrain8.87e-3041
forebrain8.87e-3041
future forebrain8.87e-3041
regional part of brain2.35e-2959
brain8.85e-2869
future brain8.85e-2869
regional part of nervous system1.87e-2794
nervous system1.87e-2794
neural plate8.95e-2586
presumptive neural plate8.95e-2586
neurectoderm2.97e-2490
telencephalon4.55e-2434
gray matter9.15e-2434
brain grey matter9.15e-2434
regional part of telencephalon3.80e-2333
cerebral hemisphere4.42e-2232
anterior region of body4.01e-21129
craniocervical region4.01e-21129
head1.79e-19123
pre-chordal neural plate5.08e-1961
regional part of cerebral cortex3.18e-1822
ectoderm-derived structure4.20e-18169
ectoderm4.57e-18173
presumptive ectoderm4.57e-18173
neocortex1.82e-1620
cerebral cortex2.29e-1625
pallium2.29e-1625
embryo1.11e-09612
anatomical conduit1.19e-09241
organ2.83e-09511
multi-cellular organism4.18e-09659
basal ganglion4.95e-099
nuclear complex of neuraxis4.95e-099
aggregate regional part of brain4.95e-099
collection of basal ganglia4.95e-099
cerebral subcortex4.95e-099
nucleus of brain5.34e-099
neural nucleus5.34e-099
embryonic structure5.89e-09605
developing anatomical structure5.89e-09605
organ part1.02e-08219
germ layer1.18e-08604
embryonic tissue1.18e-08604
presumptive structure1.18e-08604
epiblast (generic)1.18e-08604
brainstem2.39e-088
tube2.40e-08194
anatomical system2.78e-08625
anatomical group3.49e-08626
anatomical cluster5.21e-08286
temporal lobe7.95e-087
posterior neural tube9.87e-0815
chordal neural plate9.87e-0815
telencephalic nucleus2.09e-077
diencephalon3.81e-077
future diencephalon3.81e-077
organism subdivision5.22e-07365
multi-tissue structure8.29e-07347


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.