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|gostat_on_coexpression_clusters=GO:0005786!signal recognition particle, endoplasmic reticulum targeting!0.00671140939597315!6729$GO:0048500!signal recognition particle!0.00671140939597315!6729$GO:0045047!protein targeting to ER!0.00671140939597315!6729$GO:0006614!SRP-dependent cotranslational protein targeting to membrane!0.00671140939597315!6729$GO:0008312!7S RNA binding!0.00671140939597315!6729$GO:0006613!cotranslational protein targeting to membrane!0.00735900153067232!6729$GO:0006612!protein targeting to membrane!0.00908311046071554!6729$GO:0016607!nuclear speck!0.0183239138113741!6729$GO:0016604!nuclear body!0.0211939244083363!6729$GO:0006605!protein targeting!0.0385022960084776!6729$GO:0045045!secretory pathway!0.0385344080151568!6729$GO:0032940!secretion by cell!0.0437124690921936!6729
|gostat_on_coexpression_clusters=GO:0005786!signal recognition particle, endoplasmic reticulum targeting!0.00671140939597315!6729$GO:0048500!signal recognition particle!0.00671140939597315!6729$GO:0045047!protein targeting to ER!0.00671140939597315!6729$GO:0006614!SRP-dependent cotranslational protein targeting to membrane!0.00671140939597315!6729$GO:0008312!7S RNA binding!0.00671140939597315!6729$GO:0006613!cotranslational protein targeting to membrane!0.00735900153067232!6729$GO:0006612!protein targeting to membrane!0.00908311046071554!6729$GO:0016607!nuclear speck!0.0183239138113741!6729$GO:0016604!nuclear body!0.0211939244083363!6729$GO:0006605!protein targeting!0.0385022960084776!6729$GO:0045045!secretory pathway!0.0385344080151568!6729$GO:0032940!secretion by cell!0.0437124690921936!6729
|id=C1561
|id=C1561
|ontology_enrichment_celltype=CL:0000037!1.75e-34!172;CL:0000566!1.75e-34!172;CL:0000988!1.52e-33!182;CL:0002032!1.70e-32!165;CL:0000837!1.70e-32!165;CL:0000763!3.33e-31!112;CL:0000049!3.33e-31!112;CL:0000738!1.05e-29!140;CL:0000766!7.06e-27!76;CL:0000034!1.87e-25!444;CL:0000048!2.75e-24!430;CL:0002057!2.99e-24!42;CL:0002031!3.29e-24!124;CL:0000723!1.52e-23!436;CL:0000860!3.63e-23!45;CL:0000839!4.77e-23!70;CL:0000557!6.79e-23!71;CL:0002087!5.45e-21!119;CL:0002009!1.42e-20!65;CL:0000012!5.77e-20!682;CL:0002194!2.00e-19!63;CL:0000576!2.00e-19!63;CL:0000040!2.00e-19!63;CL:0000559!2.00e-19!63;CL:0000134!4.20e-19!358;CL:0000003!6.04e-19!722;CL:0000548!1.41e-18!679;CL:0000004!1.41e-18!679;CL:0000255!1.41e-18!679;CL:0002320!3.01e-17!365;CL:0000144!2.31e-14!625;CL:0000063!3.10e-14!578;CL:0000219!4.45e-14!390;CL:0002371!7.61e-11!591
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002390!1.33e-24!102;UBERON:0003061!1.33e-24!102;UBERON:0002193!1.41e-21!112;UBERON:0002371!2.39e-20!80;UBERON:0001474!7.97e-19!86;UBERON:0002384!1.89e-16!375;UBERON:0003081!4.49e-16!216;UBERON:0004765!6.79e-16!101;UBERON:0001434!6.79e-16!101;UBERON:0002405!2.49e-15!115;UBERON:0002204!9.76e-15!167
}}
}}

Revision as of 14:13, 21 May 2012


Full id: C1561_Mast_Eosinophils_Neutrophils_CD14_immature_Whole_Hep2



Phase1 CAGE Peaks

Hg19::chr10:106113292..106113306,-p3@ENST00000435434
Hg19::chr14:35452304..35452319,+p4@SRP54
Hg19::chr1:203273760..203273784,-p1@ENST00000425698
Hg19::chr6:31702698..31702709,+p@chr6:31702698..31702709
+
Hg19::chr8:22553096..22553123,+p@chr8:22553096..22553123
+


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:0005786signal recognition particle, endoplasmic reticulum targeting0.00671140939597315
GO:0048500signal recognition particle0.00671140939597315
GO:0045047protein targeting to ER0.00671140939597315
GO:0006614SRP-dependent cotranslational protein targeting to membrane0.00671140939597315
GO:00083127S RNA binding0.00671140939597315
GO:0006613cotranslational protein targeting to membrane0.00735900153067232
GO:0006612protein targeting to membrane0.00908311046071554
GO:0016607nuclear speck0.0183239138113741
GO:0016604nuclear body0.0211939244083363
GO:0006605protein targeting0.0385022960084776
GO:0045045secretory pathway0.0385344080151568
GO:0032940secretion by cell0.0437124690921936



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>


Cell Type
Ontology termp-valuen
hematopoietic stem cell1.75e-34172
angioblastic mesenchymal cell1.75e-34172
hematopoietic cell1.52e-33182
hematopoietic oligopotent progenitor cell1.70e-32165
hematopoietic multipotent progenitor cell1.70e-32165
myeloid cell3.33e-31112
common myeloid progenitor3.33e-31112
leukocyte1.05e-29140
myeloid leukocyte7.06e-2776
stem cell1.87e-25444
multi fate stem cell2.75e-24430
CD14-positive, CD16-negative classical monocyte2.99e-2442
hematopoietic lineage restricted progenitor cell3.29e-24124
somatic stem cell1.52e-23436
classical monocyte3.63e-2345
myeloid lineage restricted progenitor cell4.77e-2370
granulocyte monocyte progenitor cell6.79e-2371
nongranular leukocyte5.45e-21119
macrophage dendritic cell progenitor1.42e-2065
monopoietic cell2.00e-1963
monocyte2.00e-1963
monoblast2.00e-1963
promonocyte2.00e-1963
mesenchymal cell4.20e-19358
native cell6.04e-19722
animal cell1.41e-18679
eukaryotic cell1.41e-18679
connective tissue cell3.01e-17365
motile cell4.45e-14390
somatic cell7.61e-11591
Uber Anatomy
Ontology termp-valuen
hematopoietic system1.33e-24102
blood island1.33e-24102
hemolymphoid system1.41e-21112
bone marrow2.39e-2080
bone element7.97e-1986
connective tissue1.89e-16375
lateral plate mesoderm4.49e-16216
skeletal element6.79e-16101
skeletal system6.79e-16101
immune system2.49e-15115
musculoskeletal system9.76e-15167


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.