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Coexpression cluster:C4272

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Full id: C4272_Basophils_Mast_Natural_CD133_CD8_CD19_CD34



Phase1 CAGE Peaks

Hg19::chr3:120277765..120277810,-p@chr3:120277765..120277810
-
Hg19::chr3:42004048..42004069,+p@chr3:42004048..42004069
+
Hg19::chr3:42004071..42004088,+p@chr3:42004071..42004088
+


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>disease_data<br>


Cell Type
Ontology termp-valuen
leukocyte2.43e-23140
hematopoietic stem cell9.18e-23172
angioblastic mesenchymal cell9.18e-23172
hematopoietic oligopotent progenitor cell2.21e-21165
hematopoietic multipotent progenitor cell2.21e-21165
hematopoietic cell2.13e-20182
CD14-positive, CD16-negative classical monocyte2.22e-1842
hematopoietic lineage restricted progenitor cell3.43e-18124
nongranular leukocyte7.00e-18119
classical monocyte1.77e-1745
myeloid leukocyte1.23e-1576
myeloid cell1.53e-14112
common myeloid progenitor1.53e-14112
connective tissue cell4.00e-14365
granulocyte monocyte progenitor cell7.17e-1471
mesenchymal cell3.90e-13358
motile cell8.13e-12390
macrophage dendritic cell progenitor9.72e-1265
myeloid lineage restricted progenitor cell1.56e-1170
monopoietic cell5.54e-1163
monocyte5.54e-1163
monoblast5.54e-1163
promonocyte5.54e-1163
stem cell9.92e-09444
multi fate stem cell1.60e-08430
somatic stem cell6.02e-08436
intermediate monocyte6.05e-079
CD14-positive, CD16-positive monocyte6.05e-079
lymphocyte7.14e-0753
common lymphoid progenitor7.14e-0753
Uber Anatomy
Ontology termp-valuen
connective tissue2.24e-14375
bone element5.29e-1486
bone marrow1.23e-1380
skeletal element3.53e-11101
skeletal system3.53e-11101
hematopoietic system1.42e-09102
blood island1.42e-09102
hemolymphoid system6.58e-07112
Disease
Ontology termp-valuen
organ system cancer1.73e-08137
cancer3.98e-07235
disease of cellular proliferation8.39e-07239


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
CTBP2#1488241.81133355955210.0007543408259914850.00593600071773091
ELK4#2005210.8237877723120.01091284719516480.0402090967795313
GATA3#2625218.15767757147070.003944546819279620.0189548415044973
IRF4#3662214.60967512449610.006056122473217890.0268518520475654
JUN#3725312.51282919233630.0005103313992726250.00445155775566973
JUND#372736.994663941871030.002921845042734990.0157174645592686
MAX#414936.452555509007120.003721913834265510.0187043094474476
MXI1#460139.96157162875930.001011470541259020.00721662603214585
NFKB1#479035.488063424193840.006049381815655430.0270261961519972
NFYA#4800212.28372046655370.008516011403724430.0324848867743006
NFYB#4801211.17319550235760.01025467135054530.0381446600840402
RFX5#5993312.04791082719510.0005717246050312580.00485805435073302
SMC3#9126315.04493284493280.0002935825420371870.00309930932051165
SREBF1#6720231.33723296032550.00133816265136180.00887736575910407
STAT1#6772213.80439166479950.006770931708444080.0287587676073932
TFAP2A#7020211.01242291536330.01054990655215560.0390274047322394
THAP1#55145220.91276306856750.002983447413736940.0158730649232436
TRIM28#10155212.39368336350830.008368344129438470.0329307269229248
YY1#752834.911170749853860.008441455341808260.0330342159188816



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.