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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002390!2.88e-16!102;UBERON:0003061!2.88e-16!102;UBERON:0002193!1.56e-15!112;UBERON:0004177!2.34e-09!7;UBERON:0002405!4.42e-08!115;UBERON:0002371!5.01e-08!80;UBERON:0001474!6.53e-07!86
|ontology_enrichment_uberon=UBERON:0002390!2.88e-16!102;UBERON:0003061!2.88e-16!102;UBERON:0002193!1.56e-15!112;UBERON:0004177!2.34e-09!7;UBERON:0002405!4.42e-08!115;UBERON:0002371!5.01e-08!80;UBERON:0001474!6.53e-07!86
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}}
}}

Revision as of 19:14, 8 August 2012


Full id: C3518_lymphangiectasia_lymphoma_plasma_B_CD4_xeroderma_Dendritic



Phase1 CAGE Peaks

Hg19::chr15:79271225..79271235,+p2@ENST00000316148
Hg19::chr15:81592487..81592496,+p17@IL16
Hg19::chr15:81592512..81592540,+p6@IL16


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:0050930induction of positive chemotaxis0.00170728835511598
GO:0050927positive regulation of positive chemotaxis0.00170728835511598
GO:0050918positive chemotaxis0.00170728835511598
GO:0050926regulation of positive chemotaxis0.00170728835511598
GO:0050921positive regulation of chemotaxis0.00170728835511598
GO:0050920regulation of chemotaxis0.00170728835511598
GO:0030595leukocyte chemotaxis0.00280483086911911
GO:0050900leukocyte migration0.00330787118803721
GO:0042330taxis0.012292476156835
GO:0006935chemotaxis0.012292476156835
GO:0007626locomotory behavior0.014046326921636
GO:0016477cell migration0.0165749244475843
GO:0007610behavior0.0189021210744983
GO:0005125cytokine activity0.0189021210744983
GO:0051674localization of cell0.0204341075002943
GO:0006928cell motility0.0204341075002943
GO:0005615extracellular space0.0265131838676834
GO:0042221response to chemical stimulus0.0279331344767586
GO:0009605response to external stimulus0.0284398297049582
GO:0044421extracellular region part0.0388408100788885
GO:0005102receptor binding0.0421537624822683
GO:0006955immune response0.0461355875962022



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
leukocyte1.25e-44140
nongranular leukocyte4.39e-42119
hematopoietic stem cell3.24e-41172
angioblastic mesenchymal cell3.24e-41172
hematopoietic oligopotent progenitor cell1.11e-37165
hematopoietic multipotent progenitor cell1.11e-37165
hematopoietic cell2.17e-37182
hematopoietic lineage restricted progenitor cell3.29e-35124
lymphocyte1.40e-3053
common lymphoid progenitor1.40e-3053
lymphoid lineage restricted progenitor cell2.39e-2952
lymphocyte of B lineage9.79e-2724
pro-B cell9.79e-2724
B cell1.57e-1614
myeloid leukocyte1.65e-1476
CD14-positive, CD16-negative classical monocyte3.78e-1442
classical monocyte1.11e-1245
mature alpha-beta T cell1.34e-1218
alpha-beta T cell1.34e-1218
immature T cell1.34e-1218
mature T cell1.34e-1218
immature alpha-beta T cell1.34e-1218
myeloid cell4.61e-12112
common myeloid progenitor4.61e-12112
monopoietic cell1.07e-1163
monocyte1.07e-1163
monoblast1.07e-1163
promonocyte1.07e-1163
macrophage dendritic cell progenitor4.56e-1165
myeloid lineage restricted progenitor cell2.21e-1070
granulocyte monocyte progenitor cell4.11e-1071
CD8-positive, alpha-beta T cell5.46e-0811
T cell6.19e-0825
pro-T cell6.19e-0825
mesenchymal cell1.39e-07358
connective tissue cell4.88e-07365
Uber Anatomy
Ontology termp-valuen
hematopoietic system2.88e-16102
blood island2.88e-16102
hemolymphoid system1.56e-15112
hemopoietic organ2.34e-097
immune system4.42e-08115
bone marrow5.01e-0880
bone element6.53e-0786


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)

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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.