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Coexpression cluster:C4860

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Full id: C4860_Mast_Macrophage_Monocytederived_CD14_Melanocyte_testicular_Dendritic



Phase1 CAGE Peaks

Hg19::chrX:153210060..153210071,-p3@RENBP
Hg19::chrX:153210073..153210106,-p1@RENBP
Hg19::chrX:153210107..153210140,-p2@RENBP


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
myeloid leukocyte2.63e-3472
myeloid lineage restricted progenitor cell1.41e-3166
granulocyte monocyte progenitor cell1.81e-3167
myeloid cell3.96e-31108
common myeloid progenitor3.96e-31108
monopoietic cell2.65e-2859
monocyte2.65e-2859
monoblast2.65e-2859
promonocyte2.65e-2859
macrophage dendritic cell progenitor1.31e-2761
defensive cell3.37e-2648
phagocyte3.37e-2648
hematopoietic stem cell1.06e-25168
angioblastic mesenchymal cell1.06e-25168
hematopoietic oligopotent progenitor cell9.56e-25161
hematopoietic multipotent progenitor cell9.56e-25161
leukocyte1.01e-24136
hematopoietic cell3.46e-24177
classical monocyte3.91e-2242
CD14-positive, CD16-negative classical monocyte3.91e-2242
stuff accumulating cell2.05e-2187
hematopoietic lineage restricted progenitor cell5.14e-21120
nongranular leukocyte2.33e-19115
melanocyte9.69e-0710
melanoblast9.69e-0710
Uber Anatomy
Ontology termp-valuen
hemolymphoid system4.16e-32108
hematopoietic system5.73e-3098
blood island5.73e-3098
immune system1.29e-2993
bone marrow1.44e-2676
bone element7.91e-2282
adult organism1.52e-20114
skeletal element1.90e-1790
skeletal system6.97e-15100
lateral plate mesoderm2.00e-09203
neural tube1.52e-0756
neural rod1.52e-0756
future spinal cord1.52e-0756
neural keel1.52e-0756
regional part of nervous system7.52e-0753
regional part of brain7.52e-0753


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


(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
CCNT2#90536.336201576962630.003930750035764890.0191475561093866
E2F6#187635.017155731697390.00791769806886330.0324879766084161
EGR1#195834.988179094810140.008056488137383440.0322973884761319
HMGN3#932438.178547723350590.001827766942164210.0109373833537322
IRF1#365937.63716375356390.002244692747297240.0128880410024726
USF1#739136.361499277207960.00388404057290560.0191423393607516
USF2#7392312.99219738506960.0004558979393427810.00423532511003565
ZNF263#1012738.221841637010680.001799043925565870.0110316080637726



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.