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Coexpression cluster:C2312

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Full id: C2312_testis_Eosinophils_CD14_Neutrophils_Basophils_immature_cord



Phase1 CAGE Peaks

Hg19::chr14:77292773..77292782,+p1@C14orf166B
Hg19::chr1:155960989..155961011,-p@chr1:155960989..155961011
-
Hg19::chr20:44600983..44600997,-p8@ZNF335
Hg19::chr2:69064331..69064344,-p1@ENST00000415448


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
classical monocyte4.52e-11842
CD14-positive, CD16-negative classical monocyte4.52e-11842
defensive cell3.72e-10248
phagocyte3.72e-10248
myeloid leukocyte2.23e-8872
macrophage dendritic cell progenitor2.48e-8161
monopoietic cell7.17e-8059
monocyte7.17e-8059
monoblast7.17e-8059
promonocyte7.17e-8059
granulocyte monocyte progenitor cell2.53e-7367
myeloid lineage restricted progenitor cell1.48e-7066
myeloid cell1.06e-58108
common myeloid progenitor1.06e-58108
stuff accumulating cell3.34e-5287
leukocyte1.57e-51136
nongranular leukocyte1.35e-43115
hematopoietic stem cell9.01e-40168
angioblastic mesenchymal cell9.01e-40168
hematopoietic lineage restricted progenitor cell3.34e-39120
hematopoietic oligopotent progenitor cell5.34e-38161
hematopoietic multipotent progenitor cell5.34e-38161
hematopoietic cell3.17e-37177
intermediate monocyte3.13e-189
CD14-positive, CD16-positive monocyte3.13e-189
granulocyte2.31e-168
mesenchymal cell2.35e-13354
connective tissue cell6.85e-13361
blood cell1.03e-1111
basophil1.40e-113
motile cell2.95e-11386
stem cell4.84e-10441
multi fate stem cell2.92e-09427
somatic stem cell5.49e-09433
eosinophil7.29e-092
Uber Anatomy
Ontology termp-valuen
bone marrow1.19e-6376
bone element2.29e-5882
hematopoietic system1.25e-5598
blood island1.25e-5598
immune system3.35e-5393
skeletal element2.09e-5290
hemolymphoid system1.27e-49108
skeletal system2.78e-46100
musculoskeletal system4.49e-24167
lateral plate mesoderm2.99e-23203
mesoderm2.21e-13315
mesoderm-derived structure2.21e-13315
presumptive mesoderm2.21e-13315
connective tissue2.95e-12371


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
ESRRA#21011120.9600785340310.008241662461779040.0324823950279536
JUNB#3726215.30531632991060.006126947148475620.0270957077083183



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.