Coexpression cluster:C2049

Full id: C2049_CD14_Mast_Basophils_Eosinophils_Neutrophils_Peripheral_CD14CD16

Phase1 CAGE Peaks

Hg19::chr10:135122318..135122339,-	p4@TUBGCP2
Hg19::chr11:62321037..62321046,-	p@chr11:62321037..62321046 -
Hg19::chr14:55738772..55738777,-	p2@ENST00000556183
Hg19::chr9:108007969..108007987,+	p@chr9:108007969..108007987 +

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

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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

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GO ID	GO name	FDR corrected p-value
GO:0007020	microtubule nucleation	0.00376780878370423
GO:0005881	cytoplasmic microtubule	0.00376780878370423
GO:0000922	spindle pole	0.00973350602456925
GO:0005819	spindle	0.0183680678205581
GO:0000226	microtubule cytoskeleton organization and biogenesis	0.0192158247968915
GO:0005813	centrosome	0.0197809961144472
GO:0005815	microtubule organizing center	0.0197809961144472
GO:0005874	microtubule	0.0320263746614859
GO:0007017	microtubule-based process	0.0320263746614859
GO:0006461	protein complex assembly	0.0320263746614859
GO:0015630	microtubule cytoskeleton	0.0442717532085247

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>

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Cell Type

Ontology term	p-value	n
classical monocyte	5.70e-50	42
CD14-positive, CD16-negative classical monocyte	5.70e-50	42
leukocyte	2.28e-44	136
myeloid leukocyte	1.75e-43	72
defensive cell	8.72e-42	48
phagocyte	8.72e-42	48
granulocyte monocyte progenitor cell	3.05e-41	67
macrophage dendritic cell progenitor	4.90e-38	61
myeloid lineage restricted progenitor cell	6.54e-38	66
monopoietic cell	1.47e-35	59
monocyte	1.47e-35	59
monoblast	1.47e-35	59
promonocyte	1.47e-35	59
hematopoietic lineage restricted progenitor cell	5.91e-34	120
hematopoietic stem cell	3.51e-32	168
angioblastic mesenchymal cell	3.51e-32	168
nongranular leukocyte	9.17e-32	115
myeloid cell	1.80e-29	108
common myeloid progenitor	1.80e-29	108
hematopoietic cell	2.91e-29	177
hematopoietic oligopotent progenitor cell	1.23e-28	161
hematopoietic multipotent progenitor cell	1.23e-28	161
stuff accumulating cell	6.26e-21	87
intermediate monocyte	4.81e-14	9
CD14-positive, CD16-positive monocyte	4.81e-14	9
mesenchymal cell	2.39e-10	354
connective tissue cell	1.10e-09	361
motile cell	6.94e-09	386
Langerhans cell	1.63e-07	5
dendritic cell	3.47e-07	10
conventional dendritic cell	4.36e-07	8

Uber Anatomy

Ontology term	p-value	n
bone marrow	5.70e-36	76
bone element	4.59e-32	82
hematopoietic system	3.25e-28	98
blood island	3.25e-28	98
skeletal element	1.09e-27	90
immune system	2.24e-27	93
hemolymphoid system	5.82e-25	108
skeletal system	3.08e-23	100
musculoskeletal system	7.04e-09	167
lateral plate mesoderm	8.09e-09	203
connective tissue	8.52e-09	371

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

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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

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(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF	#promoters	Enrichment	p-value	q-value
BRCA1#672	2	10.0921153216119	0.013771396990026	0.0484576304788021
CCNT2#905	3	4.75215118272197	0.0138620699668949	0.0486979287992375
GATA3#2625	2	13.618258178603	0.0076966520809334	0.0316842982530786
JUND#3727	3	5.24599795640327	0.0104343275174842	0.0386600940683459
RFX5#5993	3	9.03593312039632	0.00214456119132407	0.0123791425557229
TAF1#6872	4	3.34304628574529	0.00800566489870165	0.0321047358735745

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

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This analysis result is provided for C0 - C305 clusters.