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{{Coexpression_clusters
{{Coexpression_clusters
|full_id=C250_Mast_Neutrophils_CD14_Eosinophils_CD8_Peripheral_CD4
|full_id=C250_Mast_Neutrophils_CD14_Eosinophils_CD8_Peripheral_CD4
|gostat_on_coexpression_clusters=GO:0017091!AU-rich element binding!0.00447427293064877!7538$GO:0000289!poly(A) tail shortening!0.00447427293064877!7538$GO:0050779!RNA destabilization!0.00447427293064877!7538$GO:0000288!mRNA catabolic process, deadenylation-dependent decay!0.0134180779336029!7538$GO:0043487!regulation of RNA stability!0.0134180779336029!7538$GO:0043488!regulation of mRNA stability!0.0134180779336029!7538$GO:0004726!non-membrane spanning protein tyrosine phosphatase activity!0.0134180779336029!1843$GO:0031348!negative regulation of defense response!0.0134180779336029!7538$GO:0050728!negative regulation of inflammatory response!0.0134180779336029!7538$GO:0031124!mRNA 3'-end processing!0.0167644521049474!7538$GO:0033549!MAP kinase phosphatase activity!0.0167644521049474!1843$GO:0017017!MAP kinase tyrosine/serine/threonine phosphatase activity!0.0167644521049474!1843$GO:0045638!negative regulation of myeloid cell differentiation!0.0167644521049474!7538$GO:0031123!RNA 3'-end processing!0.0167644521049474!7538$GO:0051252!regulation of RNA metabolic process!0.0167644521049474!7538$GO:0003727!single-stranded RNA binding!0.0167644521049474!7538$GO:0031347!regulation of defense response!0.0186230565034739!7538$GO:0050727!regulation of inflammatory response!0.0186230565034739!7538$GO:0006402!mRNA catabolic process!0.0201572588362358!7538$GO:0007049!cell cycle!0.0201572588362358!6867;1843$GO:0045637!regulation of myeloid cell differentiation!0.0203953832529684!7538$GO:0003729!mRNA binding!0.0203953832529684!7538$GO:0048583!regulation of response to stimulus!0.0203953832529684!7538$GO:0006401!RNA catabolic process!0.0256759940779331!7538$GO:0006950!response to stress!0.032222988276366!7538;1843$GO:0008138!protein tyrosine/serine/threonine phosphatase activity!0.032222988276366!1843$GO:0045596!negative regulation of cell differentiation!0.032222988276366!7538$GO:0030099!myeloid cell differentiation!0.035520473619963!7538$GO:0051093!negative regulation of developmental process!0.035520473619963!7538
|id=C250
|id=C250
}}
}}

Revision as of 17:37, 18 May 2012


Full id: C250_Mast_Neutrophils_CD14_Eosinophils_CD8_Peripheral_CD4



Phase1 CAGE Peaks

Hg19::chr10:3826687..3826699,-p@chr10:3826687..3826699
-
Hg19::chr16:27325702..27325750,-p@chr16:27325702..27325750
-
Hg19::chr16:27325969..27325994,+p@chr16:27325969..27325994
+
Hg19::chr17:38506028..38506044,+p@chr17:38506028..38506044
+
Hg19::chr19:13264446..13264492,+p3@IER2
Hg19::chr19:13953130..13953158,-p@chr19:13953130..13953158
-
Hg19::chr19:39897051..39897070,+p3@ZFP36
Hg19::chr19:39898470..39898488,+p@chr19:39898470..39898488
+
Hg19::chr19:39898498..39898514,+p@chr19:39898498..39898514
+
Hg19::chr19:39898523..39898532,+p@chr19:39898523..39898532
+
Hg19::chr19:39898544..39898598,+p@chr19:39898544..39898598
+
Hg19::chr19:39898599..39898666,+p@chr19:39898599..39898666
+
Hg19::chr19:39898678..39898692,-p@chr19:39898678..39898692
-
Hg19::chr19:39898695..39898725,-p@chr19:39898695..39898725
-
Hg19::chr19:39898701..39898712,+p@chr19:39898701..39898712
+
Hg19::chr19:39898715..39898729,+p@chr19:39898715..39898729
+
Hg19::chr19:39898746..39898756,+p@chr19:39898746..39898756
+
Hg19::chr19:39898760..39898777,+p@chr19:39898760..39898777
+
Hg19::chr19:39898772..39898888,-p1@CU679444
Hg19::chr19:39898781..39898796,+p@chr19:39898781..39898796
+
Hg19::chr19:39898814..39898855,+p@chr19:39898814..39898855
+
Hg19::chr19:39898896..39898901,+p@chr19:39898896..39898901
+
Hg19::chr19:39898940..39898958,+p@chr19:39898940..39898958
+
Hg19::chr19:39898968..39898980,+p@chr19:39898968..39898980
+
Hg19::chr19:39898988..39899013,+p@chr19:39898988..39899013
+
Hg19::chr19:39899024..39899036,+p@chr19:39899024..39899036
+
Hg19::chr19:39899079..39899097,+p@chr19:39899079..39899097
+
Hg19::chr19:39899258..39899276,+p@chr19:39899258..39899276
+
Hg19::chr19:39899297..39899308,+p@chr19:39899297..39899308
+
Hg19::chr19:39899540..39899551,+p2@AJ227917
Hg19::chr19:39899566..39899574,-p8@CU679444
Hg19::chr19:39899597..39899634,+p1@AJ227917
Hg19::chr19:39899887..39899894,+p4@AJ227917
Hg19::chr1:204380074..204380108,-p8@PPP1R15B
Hg19::chr3:128445232..128445249,+p@chr3:128445232..128445249
+
Hg19::chr3:39186740..39186774,-p@chr3:39186740..39186774
-
Hg19::chr3:39188204..39188217,-p3@CU691620
Hg19::chr5:172195219..172195236,-p3@AJ227912
Hg19::chr5:172195778..172195809,+p@chr5:172195778..172195809
+
Hg19::chr5:172195833..172195881,-p2@AJ227912
Hg19::chr5:172195883..172195911,-p4@AJ227912
Hg19::chr5:172195926..172195937,-p13@AJ227912
Hg19::chr5:172195979..172196000,-p6@AJ227912
Hg19::chr5:172196072..172196092,-p5@AJ227912
Hg19::chr5:172196095..172196120,-p1@AJ227912
Hg19::chr5:172196608..172196676,-p@chr5:172196608..172196676
-
Hg19::chr5:172196683..172196802,-p@chr5:172196683..172196802
-
Hg19::chr5:172197180..172197212,-p2@AK127679
Hg19::chr5:172197219..172197279,-p1@AK127679
Hg19::chr5:172197282..172197310,-p3@AK127679
Hg19::chr6:35310813..35310823,+p@chr6:35310813..35310823
+
Hg19::chr8:38645035..38645076,+p11@TACC1


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:0017091AU-rich element binding0.00447427293064877
GO:0000289poly(A) tail shortening0.00447427293064877
GO:0050779RNA destabilization0.00447427293064877
GO:0000288mRNA catabolic process, deadenylation-dependent decay0.0134180779336029
GO:0043487regulation of RNA stability0.0134180779336029
GO:0043488regulation of mRNA stability0.0134180779336029
GO:0004726non-membrane spanning protein tyrosine phosphatase activity0.0134180779336029
GO:0031348negative regulation of defense response0.0134180779336029
GO:0050728negative regulation of inflammatory response0.0134180779336029
GO:0031124mRNA 3'-end processing0.0167644521049474
GO:0033549MAP kinase phosphatase activity0.0167644521049474
GO:0017017MAP kinase tyrosine/serine/threonine phosphatase activity0.0167644521049474
GO:0045638negative regulation of myeloid cell differentiation0.0167644521049474
GO:0031123RNA 3'-end processing0.0167644521049474
GO:0051252regulation of RNA metabolic process0.0167644521049474
GO:0003727single-stranded RNA binding0.0167644521049474
GO:0031347regulation of defense response0.0186230565034739
GO:0050727regulation of inflammatory response0.0186230565034739
GO:0006402mRNA catabolic process0.0201572588362358
GO:0007049cell cycle0.0201572588362358
GO:0045637regulation of myeloid cell differentiation0.0203953832529684
GO:0003729mRNA binding0.0203953832529684
GO:0048583regulation of response to stimulus0.0203953832529684
GO:0006401RNA catabolic process0.0256759940779331
GO:0006950response to stress0.032222988276366
GO:0008138protein tyrosine/serine/threonine phosphatase activity0.032222988276366
GO:0045596negative regulation of cell differentiation0.032222988276366
GO:0030099myeloid cell differentiation0.035520473619963
GO:0051093negative regulation of developmental process0.035520473619963



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>disease_data<br>

Cell Type
Ontology termp-valuen

Uber Anatomy
Ontology termp-valuen

Disease
Ontology termp-valuen


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

"{{{coexpression_dpi_cluster_scores_median}}}" is not a number.

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