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Coexpression cluster:C2303: Difference between revisions

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|full_id=C2303_CD4_CD34_CD8_CD133_CD19_Dendritic_CD14CD16
|full_id=C2303_CD4_CD34_CD8_CD133_CD19_Dendritic_CD14CD16
|id=C2303
|id=C2303
|ontology_enrichment_celltype=CL:0002031!2.10e-24!124;CL:0000738!5.58e-24!140;CL:0000037!2.31e-23!172;CL:0000566!2.31e-23!172;CL:0002087!2.27e-22!119;CL:0002032!9.93e-22!165;CL:0000837!9.93e-22!165;CL:0000988!2.96e-19!182;CL:0002057!1.91e-17!42;CL:0000860!3.43e-17!45;CL:0000557!1.04e-12!71;CL:0000839!2.05e-12!70;CL:0002009!2.45e-12!65;CL:0002194!1.86e-11!63;CL:0000576!1.86e-11!63;CL:0000040!1.86e-11!63;CL:0000559!1.86e-11!63;CL:0000838!2.72e-11!52;CL:0000763!3.85e-11!112;CL:0000049!3.85e-11!112;CL:0000542!4.25e-11!53;CL:0000051!4.25e-11!53;CL:0000766!9.97e-11!76;CL:0000791!4.00e-09!18;CL:0000789!4.00e-09!18;CL:0002420!4.00e-09!18;CL:0002419!4.00e-09!18;CL:0000790!4.00e-09!18;CL:0000084!1.34e-07!25;CL:0000827!1.34e-07!25;CL:0000625!6.76e-07!11
|ontology_enrichment_celltype=CL:0002031!1.52e-22!120;CL:0000738!3.82e-21!136;CL:0002087!7.31e-21!115;CL:0000037!2.65e-20!168;CL:0000566!2.65e-20!168;CL:0002032!5.44e-19!161;CL:0000837!5.44e-19!161;CL:0000988!9.62e-18!177;CL:0000860!3.04e-16!42;CL:0002057!3.04e-16!42;CL:0000473!7.57e-15!48;CL:0000234!7.57e-15!48;CL:0002009!8.11e-12!61;CL:0000839!1.89e-11!66;CL:0000557!2.63e-11!67;CL:0002194!6.05e-11!59;CL:0000576!6.05e-11!59;CL:0000040!6.05e-11!59;CL:0000559!6.05e-11!59;CL:0002242!7.62e-11!55;CL:0000838!1.44e-10!52;CL:0000542!3.03e-10!53;CL:0000051!3.03e-10!53;CL:0000763!1.61e-09!108;CL:0000049!1.61e-09!108;CL:0000766!1.64e-09!72;CL:0000325!5.87e-09!87;CL:0000791!1.43e-08!18;CL:0000789!1.43e-08!18;CL:0002420!1.43e-08!18;CL:0002419!1.43e-08!18;CL:0000790!1.43e-08!18;CL:0000084!1.44e-07!25;CL:0000827!1.44e-07!25;CL:0002320!5.75e-07!361;CL:0000048!6.34e-07!427;CL:0000034!8.31e-07!441
|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002371!1.85e-11!80;UBERON:0001474!2.08e-11!86;UBERON:0004765!4.46e-10!101;UBERON:0001434!4.46e-10!101;UBERON:0002390!5.27e-09!102;UBERON:0003061!5.27e-09!102;UBERON:0002193!4.83e-08!112
|ontology_enrichment_uberon=UBERON:0002371!1.62e-10!76;UBERON:0001474!2.64e-10!82;UBERON:0004765!3.08e-10!90;UBERON:0002390!4.65e-09!98;UBERON:0003061!4.65e-09!98;UBERON:0001434!6.47e-09!100;UBERON:0002405!5.80e-08!93;UBERON:0002193!1.01e-07!108;UBERON:0002384!8.26e-07!371
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}}
}}

Revision as of 13:51, 19 October 2012


Full id: C2303_CD4_CD34_CD8_CD133_CD19_Dendritic_CD14CD16



Phase1 CAGE Peaks

Hg19::chr14:59261345..59261354,+p1@ENST00000480540
Hg19::chr15:43408715..43408719,-p1@ENST00000487100
Hg19::chr1:18186613..18186616,+p@chr1:18186613..18186616
+
Hg19::chr5:115898218..115898223,+p1@ENST00000478778


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>

Cell Type
Ontology termp-valuen
hematopoietic lineage restricted progenitor cell1.52e-22120
leukocyte3.82e-21136
nongranular leukocyte7.31e-21115
hematopoietic stem cell2.65e-20168
angioblastic mesenchymal cell2.65e-20168
hematopoietic oligopotent progenitor cell5.44e-19161
hematopoietic multipotent progenitor cell5.44e-19161
hematopoietic cell9.62e-18177
classical monocyte3.04e-1642
CD14-positive, CD16-negative classical monocyte3.04e-1642
defensive cell7.57e-1548
phagocyte7.57e-1548
macrophage dendritic cell progenitor8.11e-1261
myeloid lineage restricted progenitor cell1.89e-1166
granulocyte monocyte progenitor cell2.63e-1167
monopoietic cell6.05e-1159
monocyte6.05e-1159
monoblast6.05e-1159
promonocyte6.05e-1159
nucleate cell7.62e-1155
lymphoid lineage restricted progenitor cell1.44e-1052
lymphocyte3.03e-1053
common lymphoid progenitor3.03e-1053
myeloid cell1.61e-09108
common myeloid progenitor1.61e-09108
myeloid leukocyte1.64e-0972
stuff accumulating cell5.87e-0987
mature alpha-beta T cell1.43e-0818
alpha-beta T cell1.43e-0818
immature T cell1.43e-0818
mature T cell1.43e-0818
immature alpha-beta T cell1.43e-0818
T cell1.44e-0725
pro-T cell1.44e-0725
connective tissue cell5.75e-07361
multi fate stem cell6.34e-07427
stem cell8.31e-07441
Uber Anatomy
Ontology termp-valuen
bone marrow1.62e-1076
bone element2.64e-1082
skeletal element3.08e-1090
hematopoietic system4.65e-0998
blood island4.65e-0998
skeletal system6.47e-09100
immune system5.80e-0893
hemolymphoid system1.01e-07108
connective tissue8.26e-07371


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.

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