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Coexpression cluster:C1767

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Full id: C1767_occipital_temporal_cerebellum_postcentral_insula_amygdala_paracentral



Phase1 CAGE Peaks

Hg19::chr16:85061367..85061430,+p1@KIAA0513
Hg19::chr7:127671476..127671495,-p7@LRRC4
Hg19::chr7:127672114..127672133,-p4@LRRC4
Hg19::chr7:127672146..127672170,-p3@LRRC4
Hg19::chr7:127672173..127672191,-p1@LRRC4


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>cell_data<br>uberon_data<br><br>


Uber Anatomy
Ontology termp-valuen
adult organism1.16e-41115
neural tube7.40e-2857
neural rod7.40e-2857
future spinal cord7.40e-2857
neural keel7.40e-2857
central nervous system1.37e-2582
regional part of forebrain2.49e-2341
forebrain2.49e-2341
future forebrain2.49e-2341
anterior neural tube3.09e-2342
regional part of nervous system4.56e-2394
nervous system4.56e-2394
regional part of brain5.03e-2359
brain6.19e-2269
future brain6.19e-2269
neural plate5.82e-2186
presumptive neural plate5.82e-2186
telencephalon1.02e-1934
gray matter1.81e-1934
brain grey matter1.81e-1934
neurectoderm3.42e-1990
regional part of telencephalon4.86e-1933
cerebral hemisphere6.55e-1932
pre-chordal neural plate2.86e-1661
multi-cellular organism3.74e-16659
regional part of cerebral cortex1.84e-1522
cerebral cortex5.90e-1525
pallium5.90e-1525
anatomical group8.43e-15626
anatomical system1.16e-14625
neocortex2.53e-1420
hematopoietic system3.28e-13102
blood island3.28e-13102
hemolymphoid system4.52e-13112
embryo7.09e-13612
ectoderm-derived structure5.49e-12169
embryonic structure5.86e-12605
developing anatomical structure5.86e-12605
germ layer6.95e-12604
embryonic tissue6.95e-12604
presumptive structure6.95e-12604
epiblast (generic)6.95e-12604
bone marrow1.02e-1180
anterior region of body1.75e-11129
craniocervical region1.75e-11129
head2.31e-11123
ectoderm3.12e-11173
presumptive ectoderm3.12e-11173
organ4.10e-11511
bone element9.87e-1186
skeletal element5.43e-09101
skeletal system5.43e-09101
lateral plate mesoderm2.90e-08216
immune system1.15e-07115
tube8.03e-07194


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


(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
CTCF#1066455.360256373075030.0002259278299937090.00249716124846152
E2F1#186943.925911371903460.007214984547106360.0298757343238142
RAD21#588548.284027116365060.0004011622639122450.00386610553480954



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.