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Coexpression cluster:C1134: Difference between revisions

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|gostat_on_coexpression_clusters=GO:0004337!geranyltranstransferase activity!0.0141267875544012!9453$GO:0004161!dimethylallyltranstransferase activity!0.0141267875544012!9453$GO:0046582!Rap GTPase activator activity!0.0141267875544012!6494$GO:0004311!farnesyltranstransferase activity!0.0141267875544012!9453$GO:0046839!phospholipid dephosphorylation!0.0493942937796945!9107$GO:0004659!prenyltransferase activity!0.0493942937796945!9453
|gostat_on_coexpression_clusters=GO:0004337!geranyltranstransferase activity!0.0141267875544012!9453$GO:0004161!dimethylallyltranstransferase activity!0.0141267875544012!9453$GO:0046582!Rap GTPase activator activity!0.0141267875544012!6494$GO:0004311!farnesyltranstransferase activity!0.0141267875544012!9453$GO:0046839!phospholipid dephosphorylation!0.0493942937796945!9107$GO:0004659!prenyltransferase activity!0.0493942937796945!9453
|id=C1134
|id=C1134
|ontology_enrichment_celltype=CL:0000738!2.33e-49!140;CL:0000037!8.22e-41!172;CL:0000566!8.22e-41!172;CL:0002087!3.27e-39!119;CL:0002031!3.54e-39!124;CL:0000988!1.12e-37!182;CL:0002032!7.11e-37!165;CL:0000837!7.11e-37!165;CL:0000542!1.64e-28!53;CL:0000051!1.64e-28!53;CL:0000838!4.11e-28!52;CL:0000766!7.66e-17!76;CL:0002057!1.08e-16!42;CL:0000860!5.78e-15!45;CL:0000084!8.82e-14!25;CL:0000827!8.82e-14!25;CL:0000557!1.26e-13!71;CL:0000945!2.11e-13!24;CL:0000826!2.11e-13!24;CL:0000763!1.85e-12!112;CL:0000049!1.85e-12!112;CL:0000839!2.32e-12!70;CL:0000791!3.56e-12!18;CL:0000789!3.56e-12!18;CL:0002420!3.56e-12!18;CL:0002419!3.56e-12!18;CL:0000790!3.56e-12!18;CL:0002009!5.56e-12!65;CL:0002194!3.36e-11!63;CL:0000576!3.36e-11!63;CL:0000040!3.36e-11!63;CL:0000559!3.36e-11!63;CL:0000134!7.00e-11!358;CL:0002320!7.16e-10!365;CL:0000236!2.51e-09!14;CL:0000625!4.54e-08!11;CL:0000219!2.12e-07!390;CL:0000048!2.94e-07!430
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002390!5.25e-20!102;UBERON:0003061!5.25e-20!102;UBERON:0002193!5.61e-18!112;UBERON:0002371!1.22e-11!80;UBERON:0001474!5.63e-11!86;UBERON:0002405!2.74e-09!115;UBERON:0004765!4.24e-09!101;UBERON:0001434!4.24e-09!101;UBERON:0002384!3.04e-08!375;UBERON:0000178!5.80e-08!15;UBERON:0000179!5.80e-08!15;UBERON:0000463!5.80e-08!15
}}
}}

Revision as of 14:07, 21 May 2012


Full id: C1134_Eosinophils_Neutrophils_CD19_CD8_Natural_CD4_Basophils



Phase1 CAGE Peaks

Hg19::chr11:121323670..121323687,-p1@ENST00000501964
p1@uc001pxw.1
Hg19::chr11:65407331..65407354,+p5@SIPA1
Hg19::chr13:25861394..25861408,-p7@MTMR6
Hg19::chr1:235490214..235490232,+p7@GGPS1
Hg19::chr22:40440895..40440904,+p12@TNRC6B
Hg19::chr6:30034656..30034686,-p@chr6:30034656..30034686
-
Hg19::chr7:43688351..43688370,-p3@C7orf44


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:0004337geranyltranstransferase activity0.0141267875544012
GO:0004161dimethylallyltranstransferase activity0.0141267875544012
GO:0046582Rap GTPase activator activity0.0141267875544012
GO:0004311farnesyltranstransferase activity0.0141267875544012
GO:0046839phospholipid dephosphorylation0.0493942937796945
GO:0004659prenyltransferase activity0.0493942937796945



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
leukocyte2.33e-49140
hematopoietic stem cell8.22e-41172
angioblastic mesenchymal cell8.22e-41172
nongranular leukocyte3.27e-39119
hematopoietic lineage restricted progenitor cell3.54e-39124
hematopoietic cell1.12e-37182
hematopoietic oligopotent progenitor cell7.11e-37165
hematopoietic multipotent progenitor cell7.11e-37165
lymphocyte1.64e-2853
common lymphoid progenitor1.64e-2853
lymphoid lineage restricted progenitor cell4.11e-2852
myeloid leukocyte7.66e-1776
CD14-positive, CD16-negative classical monocyte1.08e-1642
classical monocyte5.78e-1545
T cell8.82e-1425
pro-T cell8.82e-1425
granulocyte monocyte progenitor cell1.26e-1371
lymphocyte of B lineage2.11e-1324
pro-B cell2.11e-1324
myeloid cell1.85e-12112
common myeloid progenitor1.85e-12112
myeloid lineage restricted progenitor cell2.32e-1270
mature alpha-beta T cell3.56e-1218
alpha-beta T cell3.56e-1218
immature T cell3.56e-1218
mature T cell3.56e-1218
immature alpha-beta T cell3.56e-1218
macrophage dendritic cell progenitor5.56e-1265
monopoietic cell3.36e-1163
monocyte3.36e-1163
monoblast3.36e-1163
promonocyte3.36e-1163
mesenchymal cell7.00e-11358
connective tissue cell7.16e-10365
B cell2.51e-0914
CD8-positive, alpha-beta T cell4.54e-0811
motile cell2.12e-07390
multi fate stem cell2.94e-07430
Uber Anatomy
Ontology termp-valuen
hematopoietic system5.25e-20102
blood island5.25e-20102
hemolymphoid system5.61e-18112
bone marrow1.22e-1180
bone element5.63e-1186
immune system2.74e-09115
skeletal element4.24e-09101
skeletal system4.24e-09101
connective tissue3.04e-08375
blood5.80e-0815
haemolymphatic fluid5.80e-0815
organism substance5.80e-0815


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.