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Coexpression cluster:C4796

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Full id: C4796_salivary_CD14_submaxillary_left_Monocytederived_Whole_Macrophage



Phase1 CAGE Peaks

Hg19::chr9:124262091..124262114,-p1@GGTA1P
Hg19::chr9:124262117..124262140,-p2@GGTA1P
Hg19::chr9:124262141..124262167,-p4@GGTA1P


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 organism1.33e-57115
hemolymphoid system2.54e-26112
hematopoietic system4.57e-26102
blood island4.57e-26102
bone marrow3.10e-2080
neural tube6.12e-1857
neural rod6.12e-1857
future spinal cord6.12e-1857
neural keel6.12e-1857
immune system1.24e-17115
bone element1.30e-1786
anterior neural tube2.08e-1642
regional part of forebrain8.54e-1641
forebrain8.54e-1641
future forebrain8.54e-1641
lateral plate mesoderm1.61e-15216
regional part of brain5.10e-1459
telencephalon2.37e-1334
gray matter5.98e-1334
brain grey matter5.98e-1334
regional part of telencephalon6.50e-1333
skeletal element1.42e-12101
skeletal system1.42e-12101
brain1.48e-1269
future brain1.48e-1269
central nervous system2.31e-1282
cerebral hemisphere2.41e-1232
neural plate2.24e-1186
presumptive neural plate2.24e-1186
regional part of cerebral cortex1.86e-1022
neurectoderm5.52e-1090
regional part of nervous system9.07e-1094
nervous system9.07e-1094
neocortex3.20e-0920
cerebral cortex7.93e-0925
pallium7.93e-0925
anatomical system5.83e-08625
tissue7.00e-08787
anatomical group7.85e-08626
organ1.28e-07511
pre-chordal neural plate1.66e-0761
multi-cellular organism2.47e-07659
blood4.72e-0715
haemolymphatic fluid4.72e-0715
organism substance4.72e-0715


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
E2F1#186934.907389214879320.008460985347239390.0328131024389281
E2F6#187635.017155731697390.00791769806886330.032472667135834
EGR1#195834.988179094810140.008056488137383440.0322825185919348
MYC#460935.22228187160940.007020843755740150.0296394317072536
SUZ12#23512350.11578091106297.93834897779404e-060.000223771451792667
USF1#739136.361499277207960.00388404057290560.0191342128959287
ZNF263#1012738.221841637010680.001799043925565870.0110225477262803



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.