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Coexpression cluster:C2584

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Full id: C2584_Dendritic_CD14_Basophils_CD14CD16_Peripheral_CD34_granulocyte



Phase1 CAGE Peaks

Hg19::chr1:42194773..42194782,+p@chr1:42194773..42194782
+
Hg19::chr22:44422556..44422575,-p@chr22:44422556..44422575
-
Hg19::chr2:128321442..128321453,+p@chr2:128321442..128321453
+
Hg19::chr8:11724934..11724951,+p@chr8:11724934..11724951
+


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 monocyte1.56e-8542
CD14-positive, CD16-negative classical monocyte1.56e-8542
defensive cell5.11e-7748
phagocyte5.11e-7748
macrophage dendritic cell progenitor1.04e-6661
granulocyte monocyte progenitor cell1.13e-6567
leukocyte5.84e-63136
monopoietic cell1.23e-6259
monocyte1.23e-6259
monoblast1.23e-6259
promonocyte1.23e-6259
myeloid leukocyte1.50e-6072
myeloid lineage restricted progenitor cell1.56e-5766
hematopoietic stem cell5.69e-57168
angioblastic mesenchymal cell5.69e-57168
nongranular leukocyte9.53e-57115
hematopoietic lineage restricted progenitor cell2.69e-53120
hematopoietic cell3.45e-53177
myeloid cell4.51e-48108
common myeloid progenitor4.51e-48108
hematopoietic oligopotent progenitor cell7.39e-48161
hematopoietic multipotent progenitor cell7.39e-48161
stuff accumulating cell5.32e-3787
intermediate monocyte1.63e-229
CD14-positive, CD16-positive monocyte1.63e-229
mesenchymal cell7.73e-18354
connective tissue cell3.72e-17361
motile cell9.32e-15386
stem cell5.83e-13441
multi fate stem cell1.78e-12427
somatic stem cell4.61e-12433
plasmacytoid dendritic cell3.42e-093
single nucleate cell1.36e-083
mononuclear cell1.36e-083
basophil1.92e-083
non-classical monocyte3.64e-083
CD14-low, CD16-positive monocyte3.64e-083
natural killer cell5.89e-083
pro-NK cell5.89e-083
Uber Anatomy
Ontology termp-valuen
bone marrow4.51e-5976
bone element8.24e-5482
immune system2.25e-5293
hematopoietic system4.28e-5298
blood island4.28e-5298
hemolymphoid system5.80e-50108
skeletal element7.03e-4890
skeletal system8.54e-42100
lateral plate mesoderm3.40e-22203
musculoskeletal system7.04e-20167
connective tissue3.17e-16371
mesoderm5.94e-10315
mesoderm-derived structure5.94e-10315
presumptive mesoderm5.94e-10315


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
BATF#10538212.17890089615180.009566758805047810.0360220183451847
BCL11A#53335214.18472755180350.007108328585298740.0296267351392775
CHD2#110637.758017125587640.003351522464536340.0172999384507345
EBF1#187936.679850134926750.005184294118278910.0240512834674365
IRF4#3662210.95725634337210.01174530180688030.042848525059689
MEF2A#4205314.0574231822330.0005830038854186610.00488827414814061
MEF2C#4208220.6556772463120.003402570579445040.0173583953080627
PAX5#507935.002174148383370.01196533174786410.0435023074014891
SPI1#668836.153242631392040.006580387113059030.0281025986383469
TCF12#693837.975848676639820.003090920396013070.0162798242593781



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.