Coexpression cluster:C416

Full id: C416_CD4_Neutrophils_CD8_Natural_CD19_CD14_Peripheral

Phase1 CAGE Peaks

Hg19::chr12:432372..432377,-	p3@KDM5A
Hg19::chr14:58759862..58759865,-	p@chr14:58759862..58759865 -
Hg19::chr15:63867377..63867381,+	p@chr15:63867377..63867381 +
Hg19::chr15:93440362..93440368,+	p@chr15:93440362..93440368 +
Hg19::chr16:89942255..89942258,+	p@chr16:89942255..89942258 +
Hg19::chr17:47907569..47907575,+	p@chr17:47907569..47907575 +
Hg19::chr17:76693404..76693408,-	p@chr17:76693404..76693408 -
Hg19::chr19:16720749..16720753,-	p@chr19:16720749..16720753 -
Hg19::chr1:14085673..14085677,+	p@chr1:14085673..14085677 +
Hg19::chr1:171455261..171455278,+	p@chr1:171455261..171455278 +
Hg19::chr1:65394459..65394461,-	p@chr1:65394459..65394461 -
Hg19::chr1:67405973..67405977,+	p@chr1:67405973..67405977 +
Hg19::chr2:197017976..197017980,-	p@chr2:197017976..197017980 -
Hg19::chr2:225422591..225422605,-	p8@CUL3
Hg19::chr2:225434670..225434674,-	p6@CUL3
Hg19::chr2:54194783..54194785,-	p@chr2:54194783..54194785 -
Hg19::chr5:93340701..93340703,-	p@chr5:93340701..93340703 -
Hg19::chr6:131948461..131948465,-	p@chr6:131948461..131948465 -
Hg19::chr6:155101505..155101509,+	p@chr6:155101505..155101509 +
Hg19::chr6:4022409..4022413,+	p@chr6:4022409..4022413 +
Hg19::chr7:151950594..151950600,-	p@chr7:151950594..151950600 -
Hg19::chr7:155448253..155448257,+	p@chr7:155448253..155448257 +
Hg19::chr7:32912993..32912997,-	p@chr7:32912993..32912997 -
Hg19::chr9:86593238..86593252,-	p3@HNRNPK
Hg19::chrX:70754993..70754996,+	p@chrX:70754993..70754996 +

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 ID	GO name	FDR corrected p-value
GO:0031461	cullin-RING ubiquitin ligase complex	0.0203991522430237
GO:0031625	ubiquitin protein ligase binding	0.0203991522430237
GO:0000082	G1/S transition of mitotic cell cycle	0.0203991522430237
GO:0008629	induction of apoptosis by intracellular signals	0.0203991522430237
GO:0000151	ubiquitin ligase complex	0.0286154774520193
GO:0051329	interphase of mitotic cell cycle	0.0286154774520193
GO:0051325	interphase	0.0286154774520193
GO:0007050	cell cycle arrest	0.0286154774520193
GO:0006917	induction of apoptosis	0.0334546096785588
GO:0012502	induction of programmed cell death	0.0334546096785588
GO:0045786	negative regulation of progression through cell cycle	0.0334546096785588
GO:0008284	positive regulation of cell proliferation	0.0334546096785588
GO:0043065	positive regulation of apoptosis	0.0334546096785588
GO:0043068	positive regulation of programmed cell death	0.0334546096785588
GO:0006511	ubiquitin-dependent protein catabolic process	0.0334546096785588
GO:0043632	modification-dependent macromolecule catabolic process	0.0334546096785588
GO:0019941	modification-dependent protein catabolic process	0.0334546096785588
GO:0051603	proteolysis involved in cellular protein catabolic process	0.0334546096785588
GO:0044257	cellular protein catabolic process	0.0334546096785588
GO:0019899	enzyme binding	0.0334546096785588
GO:0000278	mitotic cell cycle	0.0334546096785588
GO:0000074	regulation of progression through cell cycle	0.0334546096785588
GO:0030163	protein catabolic process	0.0334546096785588
GO:0051726	regulation of cell cycle	0.0334546096785588
GO:0022403	cell cycle phase	0.0334546096785588
GO:0043285	biopolymer catabolic process	0.0393712033003214
GO:0042127	regulation of cell proliferation	0.0393712033003214
GO:0044265	cellular macromolecule catabolic process	0.0421143788243069
GO:0006512	ubiquitin cycle	0.0421143788243069
GO:0042981	regulation of apoptosis	0.0421143788243069
GO:0043067	regulation of programmed cell death	0.0421143788243069
GO:0022402	cell cycle process	0.0429275089289218
GO:0009057	macromolecule catabolic process	0.0429275089289218
GO:0005794	Golgi apparatus	0.0463314078722269
GO:0008283	cell proliferation	0.0482456140350877

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 term	p-value	n
leukocyte	2.82e-44	136
hematopoietic stem cell	4.41e-41	168
angioblastic mesenchymal cell	4.41e-41	168
nongranular leukocyte	1.99e-37	115
hematopoietic cell	2.92e-37	177
hematopoietic lineage restricted progenitor cell	3.02e-37	120
hematopoietic oligopotent progenitor cell	3.71e-37	161
hematopoietic multipotent progenitor cell	3.71e-37	161
myeloid leukocyte	2.14e-21	72
classical monocyte	8.00e-20	42
CD14-positive, CD16-negative classical monocyte	8.00e-20	42
myeloid cell	2.66e-19	108
common myeloid progenitor	2.66e-19	108
macrophage dendritic cell progenitor	6.51e-19	61
myeloid lineage restricted progenitor cell	1.17e-18	66
granulocyte monocyte progenitor cell	1.81e-18	67
defensive cell	2.31e-18	48
phagocyte	2.31e-18	48
monopoietic cell	5.66e-18	59
monocyte	5.66e-18	59
monoblast	5.66e-18	59
promonocyte	5.66e-18	59
nucleate cell	3.19e-17	55
lymphocyte	3.70e-17	53
common lymphoid progenitor	3.70e-17	53
lymphoid lineage restricted progenitor cell	4.55e-17	52
mature alpha-beta T cell	2.93e-09	18
alpha-beta T cell	2.93e-09	18
immature T cell	2.93e-09	18
mature T cell	2.93e-09	18
immature alpha-beta T cell	2.93e-09	18
T cell	4.97e-09	25
pro-T cell	4.97e-09	25
lymphocyte of B lineage	1.39e-07	24
pro-B cell	1.39e-07	24
intermediate monocyte	1.00e-06	9
CD14-positive, CD16-positive monocyte	1.00e-06	9

Uber Anatomy

Ontology term	p-value	n
hematopoietic system	1.18e-21	98
blood island	1.18e-21	98
hemolymphoid system	5.75e-20	108
bone marrow	1.45e-14	76
immune system	2.74e-14	93
bone element	6.33e-14	82
skeletal element	2.12e-09	90
adult organism	3.56e-08	114
skeletal system	5.86e-08	100
blood	1.29e-07	15
haemolymphatic fluid	1.29e-07	15
organism substance	1.29e-07	15

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

---

No analysis results for this cluster

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.