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Coexpression cluster:C1413

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Full id: C1413_Mast_immature_CD14_Dendritic_Basophils_CD8_Natural



Phase1 CAGE Peaks

Hg19::chr15:86124958..86125013,+p9@AKAP13
Hg19::chr15:86125966..86125977,+p53@AKAP13
Hg19::chr15:86125992..86126003,+p36@AKAP13
Hg19::chr6:132455044..132455047,-p@chr6:132455044..132455047
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Hg19::chr6:138115750..138115757,-p@chr6:138115750..138115757
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Hg19::chr7:28725501..28725529,+p14@CREB5


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:0004691cAMP-dependent protein kinase activity0.0271944660842256
GO:0004690cyclic nucleotide-dependent protein kinase activity0.0271944660842256



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
leukocyte1.46e-42136
hematopoietic stem cell8.54e-33168
angioblastic mesenchymal cell8.54e-33168
hematopoietic cell1.59e-31177
myeloid leukocyte7.78e-3172
hematopoietic oligopotent progenitor cell6.90e-28161
hematopoietic multipotent progenitor cell6.90e-28161
granulocyte monocyte progenitor cell2.19e-2567
hematopoietic lineage restricted progenitor cell2.38e-25120
myeloid cell5.10e-24108
common myeloid progenitor5.10e-24108
nongranular leukocyte1.11e-20115
myeloid lineage restricted progenitor cell3.34e-2066
classical monocyte7.03e-2042
CD14-positive, CD16-negative classical monocyte7.03e-2042
defensive cell2.79e-1848
phagocyte2.79e-1848
macrophage dendritic cell progenitor2.03e-1761
monopoietic cell7.49e-1559
monocyte7.49e-1559
monoblast7.49e-1559
promonocyte7.49e-1559
granulocyte1.34e-148
histamine secreting cell6.94e-125
biogenic amine secreting cell6.94e-125
granulocytopoietic cell6.94e-125
mast cell6.94e-125
mast cell progenitor6.94e-125
basophil mast progenitor cell6.94e-125
blood cell3.09e-1011
stuff accumulating cell5.18e-1087
dendritic cell1.27e-0910
mesenchymal cell5.59e-09354
connective tissue cell1.63e-08361
basophil5.18e-083
plasmacytoid dendritic cell7.45e-083
natural killer cell9.12e-083
pro-NK cell9.12e-083
Langerhans cell9.85e-085
motile cell6.60e-07386
single nucleate cell7.60e-073
mononuclear cell7.60e-073
Uber Anatomy
Ontology termp-valuen
hematopoietic system6.85e-2298
blood island6.85e-2298
bone marrow2.69e-2176
hemolymphoid system4.45e-20108
immune system2.02e-1993
bone element4.48e-1982
skeletal element1.38e-1690
skeletal system4.75e-14100
connective tissue6.92e-08371
lateral plate mesoderm3.80e-07203


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
FOS#235345.998636872596270.001899823711886350.0111833890567973
GATA1#262336.780154071900220.006765763983348560.0287508493574049
GATA2#262448.496621155702660.0004993024497617180.00440986457088068
JUN#372536.256414596168170.008486346850954870.0324119794758411



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.