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Coexpression cluster:C1893: Difference between revisions

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|gostat_on_coexpression_clusters=GO:0008092!cytoskeletal protein binding!0.0100654764014699!7145;23150$GO:0005856!cytoskeleton!0.0219678857479727!7145;23150$GO:0004289!subtilase activity!0.0219678857479727!7145$GO:0019898!extrinsic to membrane!0.0393900223864073!23150$GO:0043232!intracellular non-membrane-bound organelle!0.0393900223864073!7145;23150$GO:0043228!non-membrane-bound organelle!0.0393900223864073!7145;23150
|gostat_on_coexpression_clusters=GO:0008092!cytoskeletal protein binding!0.0100654764014699!7145;23150$GO:0005856!cytoskeleton!0.0219678857479727!7145;23150$GO:0004289!subtilase activity!0.0219678857479727!7145$GO:0019898!extrinsic to membrane!0.0393900223864073!23150$GO:0043232!intracellular non-membrane-bound organelle!0.0393900223864073!7145;23150$GO:0043228!non-membrane-bound organelle!0.0393900223864073!7145;23150
|id=C1893
|id=C1893
|ontology_enrichment_celltype=CL:0000839!7.53e-20!70;CL:0000557!4.47e-17!71;CL:0000766!7.50e-16!76;CL:0002194!1.68e-14!63;CL:0000576!1.68e-14!63;CL:0000040!1.68e-14!63;CL:0000559!1.68e-14!63;CL:0002009!1.19e-13!65;CL:0000763!1.78e-13!112;CL:0000049!1.78e-13!112;CL:0002057!7.03e-11!42;CL:0000860!1.45e-09!45;CL:0002031!1.30e-07!124;CL:0002274!4.14e-07!5;CL:0000457!4.14e-07!5;CL:0002191!4.14e-07!5;CL:0000097!4.14e-07!5;CL:0000831!4.14e-07!5;CL:0002028!4.14e-07!5;CL:0000037!7.39e-07!172;CL:0000566!7.39e-07!172
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0007023!2.09e-56!115;UBERON:0002390!6.28e-19!102;UBERON:0003061!6.28e-19!102;UBERON:0002193!4.15e-17!112;UBERON:0002371!2.87e-14!80;UBERON:0001049!4.42e-14!57;UBERON:0005068!4.42e-14!57;UBERON:0006241!4.42e-14!57;UBERON:0007135!4.42e-14!57;UBERON:0001474!6.41e-13!86;UBERON:0002616!2.04e-10!59;UBERON:0002405!5.01e-10!115;UBERON:0003080!5.84e-10!42;UBERON:0003075!1.70e-09!86;UBERON:0007284!1.70e-09!86;UBERON:0002780!2.51e-09!41;UBERON:0001890!2.51e-09!41;UBERON:0006240!2.51e-09!41;UBERON:0002346!5.13e-09!90;UBERON:0004765!6.65e-09!101;UBERON:0001434!6.65e-09!101;UBERON:0001017!8.03e-08!82;UBERON:0000955!8.04e-08!69;UBERON:0006238!8.04e-08!69;UBERON:0002298!1.03e-07!8;UBERON:0005743!1.18e-07!86;UBERON:0002020!1.79e-07!34;UBERON:0003528!1.79e-07!34;UBERON:0001893!3.52e-07!34;UBERON:0002791!7.62e-07!33
}}
}}

Revision as of 14:17, 21 May 2012


Full id: C1893_Mast_CD14_heart_Monocytederived_Melanocyte_Macrophage_left



Phase1 CAGE Peaks

Hg19::chr2:218770123..218770135,-p15@TNS1
Hg19::chr2:218770139..218770150,-p13@TNS1
Hg19::chr2:218770151..218770162,-p12@TNS1
Hg19::chr2:218770168..218770198,-p7@TNS1
Hg19::chr3:69435343..69435354,-p32@FRMD4B


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


GO IDGO nameFDR corrected p-value
GO:0008092cytoskeletal protein binding0.0100654764014699
GO:0005856cytoskeleton0.0219678857479727
GO:0004289subtilase activity0.0219678857479727
GO:0019898extrinsic to membrane0.0393900223864073
GO:0043232intracellular non-membrane-bound organelle0.0393900223864073
GO:0043228non-membrane-bound organelle0.0393900223864073



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 organism2.09e-56115
hematopoietic system6.28e-19102
blood island6.28e-19102
hemolymphoid system4.15e-17112
bone marrow2.87e-1480
neural tube4.42e-1457
neural rod4.42e-1457
future spinal cord4.42e-1457
neural keel4.42e-1457
bone element6.41e-1386
regional part of brain2.04e-1059
immune system5.01e-10115
anterior neural tube5.84e-1042
neural plate1.70e-0986
presumptive neural plate1.70e-0986
regional part of forebrain2.51e-0941
forebrain2.51e-0941
future forebrain2.51e-0941
neurectoderm5.13e-0990
skeletal element6.65e-09101
skeletal system6.65e-09101
central nervous system8.03e-0882
brain8.04e-0869
future brain8.04e-0869
brainstem1.03e-078
gray matter1.79e-0734
brain grey matter1.79e-0734
telencephalon3.52e-0734
regional part of telencephalon7.62e-0733


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.