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Coexpression cluster:C3536

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Full id: C3536_hepatocellular_pancreas_Intestinal_skeletal_colon_Hepatocyte_gastric



Phase1 CAGE Peaks

Hg19::chr16:15489603..15489627,+p1@MPV17L
Hg19::chr16:15489629..15489644,+p3@MPV17L
Hg19::chr16:15502477..15502483,+p@chr16:15502477..15502483
+


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 organism6.44e-26115
neurectoderm5.53e-2390
neural plate5.57e-2286
presumptive neural plate5.57e-2286
neural tube3.62e-2157
neural rod3.62e-2157
future spinal cord3.62e-2157
neural keel3.62e-2157
pre-chordal neural plate1.60e-1961
regional part of nervous system1.67e-1994
nervous system1.67e-1994
central nervous system2.22e-1882
multi-tissue structure6.51e-18347
regional part of brain1.71e-1759
anterior neural tube3.45e-1742
regional part of forebrain4.42e-1741
forebrain4.42e-1741
future forebrain4.42e-1741
brain3.56e-1669
future brain3.56e-1669
organ7.32e-16511
head7.60e-15123
telencephalon9.78e-1534
gray matter2.05e-1434
brain grey matter2.05e-1434
embryo2.24e-14612
regional part of telencephalon2.49e-1433
anterior region of body6.16e-14129
craniocervical region6.16e-14129
cerebral hemisphere7.99e-1432
organ part1.44e-13219
multi-cellular organism3.54e-13659
ectoderm1.14e-12173
presumptive ectoderm1.14e-12173
embryonic structure2.07e-12605
developing anatomical structure2.07e-12605
cell layer3.39e-12312
germ layer3.42e-12604
embryonic tissue3.42e-12604
presumptive structure3.42e-12604
epiblast (generic)3.42e-12604
epithelium5.37e-12309
ectoderm-derived structure7.31e-12169
anatomical cluster4.47e-11286
cerebral cortex8.52e-1125
pallium8.52e-1125
anatomical system2.14e-10625
anatomical group3.46e-10626
organism subdivision3.76e-10365
regional part of cerebral cortex3.80e-1022
tube8.10e-10194
anatomical conduit3.81e-09241
neocortex3.94e-0920
organ segment1.04e-0897
subdivision of digestive tract2.13e-08129
endodermal part of digestive tract2.13e-08129
digestive system1.23e-07155
digestive tract1.23e-07155
primitive gut1.23e-07155
primordium4.04e-07168


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.