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Coexpression cluster:C1380

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Full id: C1380_Mast_CD14_Basophils_embryonic_pineal_CD133_CD4



Phase1 CAGE Peaks

Hg19::chr13:31735232..31735251,-p@chr13:31735232..31735251
-
Hg19::chr16:29302794..29302807,+p@chr16:29302794..29302807
+
Hg19::chr17:40517403..40517408,+p@chr17:40517403..40517408
+
Hg19::chr4:77928601..77928612,-p@chr4:77928601..77928612
-
Hg19::chr8:581156..581176,+p@chr8:581156..581176
+
Hg19::chr9:130624985..130624989,+p@chr9:130624985..130624989
+


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
CD14-positive, CD16-negative classical monocyte3.43e-2842
classical monocyte2.66e-2545
granulocyte monocyte progenitor cell1.52e-2471
myeloid leukocyte1.39e-2376
myeloid lineage restricted progenitor cell1.29e-2270
macrophage dendritic cell progenitor3.59e-2165
leukocyte2.26e-20140
monopoietic cell7.29e-2063
monocyte7.29e-2063
monoblast7.29e-2063
promonocyte7.29e-2063
myeloid cell4.95e-16112
common myeloid progenitor4.95e-16112
hematopoietic lineage restricted progenitor cell5.61e-16124
hematopoietic stem cell7.53e-15172
angioblastic mesenchymal cell7.53e-15172
nongranular leukocyte7.82e-14119
hematopoietic cell2.83e-13182
hematopoietic oligopotent progenitor cell2.64e-12165
hematopoietic multipotent progenitor cell2.64e-12165
dendritic cell7.71e-0910
conventional dendritic cell4.48e-078
Uber Anatomy
Ontology termp-valuen
hematopoietic system1.52e-22102
blood island1.52e-22102
bone marrow5.25e-2280
bone element5.19e-2186
hemolymphoid system1.79e-20112
immune system2.14e-17115
skeletal element5.62e-16101
skeletal system5.62e-16101
lateral plate mesoderm7.74e-14216
musculoskeletal system4.45e-08167


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
FOSL1#8061319.85678985818650.0003014027572522190.00311018699384097
JUN#3725510.42735766028031.82465747415735e-050.000415265639449813
JUND#372744.663109294580680.004917643408260230.0229878148740171
USF1#739144.240999518138640.007005367750829420.0296016184871692



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.