Coexpression cluster:C1105

Full id: C1105_CD14_CD19_acute_CD14CD16_CD4_Mast_granulocyte

Phase1 CAGE Peaks

Hg19::chr10:114134954..114135003,+	p5@ACSL5
Hg19::chr10:114135952..114136022,+	p1@ACSL5
Hg19::chr15:81293457..81293493,+	p3@MESDC1
Hg19::chr19:14247942..14248026,+	p1@LOC100507373
Hg19::chr19:54876447..54876469,-	p3@LAIR1
Hg19::chr19:54876483..54876501,-	p2@LAIR1
Hg19::chr1:209941862..209941887,+	p6@TRAF3IP3

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:0004467	long-chain-fatty-acid-CoA ligase activity	0.0269268105022804
GO:0015645	fatty-acid ligase activity	0.0269268105022804
GO:0016877	ligase activity, forming carbon-sulfur bonds	0.0361194873165629
GO:0031903	microbody membrane	0.0361194873165629
GO:0005778	peroxisomal membrane	0.0361194873165629
GO:0044439	peroxisomal part	0.0361194873165629
GO:0044438	microbody part	0.0361194873165629
GO:0005741	mitochondrial outer membrane	0.0383650411735975
GO:0016021	integral to membrane	0.0383650411735975
GO:0031224	intrinsic to membrane	0.0383650411735975
GO:0031968	organelle outer membrane	0.0383650411735975
GO:0019867	outer membrane	0.0383650411735975
GO:0042579	microbody	0.0383650411735975
GO:0005777	peroxisome	0.0383650411735975
GO:0044425	membrane part	0.0478199413750389

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>

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Cell Type

Ontology term	p-value	n
hematopoietic stem cell	2.31e-86	168
angioblastic mesenchymal cell	2.31e-86	168
hematopoietic cell	4.92e-82	177
hematopoietic oligopotent progenitor cell	1.30e-81	161
hematopoietic multipotent progenitor cell	1.30e-81	161
leukocyte	8.41e-78	136
hematopoietic lineage restricted progenitor cell	2.19e-71	120
nongranular leukocyte	2.00e-70	115
myeloid cell	3.37e-50	108
common myeloid progenitor	3.37e-50	108
myeloid leukocyte	6.00e-45	72
granulocyte monocyte progenitor cell	3.26e-43	67
myeloid lineage restricted progenitor cell	1.47e-42	66
macrophage dendritic cell progenitor	6.67e-40	61
monopoietic cell	9.50e-40	59
monocyte	9.50e-40	59
monoblast	9.50e-40	59
promonocyte	9.50e-40	59
defensive cell	3.62e-37	48
phagocyte	3.62e-37	48
classical monocyte	1.40e-34	42
CD14-positive, CD16-negative classical monocyte	1.40e-34	42
nucleate cell	8.54e-27	55
lymphocyte	2.19e-26	53
common lymphoid progenitor	2.19e-26	53
lymphoid lineage restricted progenitor cell	5.34e-26	52
mesenchymal cell	2.56e-14	354
T cell	3.72e-14	25
pro-T cell	3.72e-14	25
stuff accumulating cell	2.67e-13	87
connective tissue cell	4.31e-13	361
mature alpha-beta T cell	7.93e-13	18
alpha-beta T cell	7.93e-13	18
immature T cell	7.93e-13	18
mature T cell	7.93e-13	18
immature alpha-beta T cell	7.93e-13	18
lymphocyte of B lineage	2.34e-11	24
pro-B cell	2.34e-11	24
CD8-positive, alpha-beta T cell	4.60e-09	11
motile cell	5.05e-09	386
B cell	7.78e-09	14
intermediate monocyte	9.27e-08	9
CD14-positive, CD16-positive monocyte	9.27e-08	9

Uber Anatomy

Ontology term	p-value	n
hematopoietic system	3.81e-49	98
blood island	3.81e-49	98
hemolymphoid system	3.61e-45	108
bone marrow	2.45e-37	76
immune system	1.71e-36	93
bone element	2.50e-32	82
skeletal element	8.76e-27	90
skeletal system	7.61e-22	100
adult organism	1.14e-19	114
connective tissue	2.11e-12	371
lateral plate mesoderm	3.21e-12	203
blood	3.34e-09	15
haemolymphatic fluid	3.34e-09	15
organism substance	3.34e-09	15

Disease

Ontology term	p-value	n
hematologic cancer	8.26e-11	51
immune system cancer	8.26e-11	51
leukemia	1.85e-10	39
myeloid leukemia	5.49e-08	31

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
POLR2A#5430	7	2.14745317655807	0.00474763644761028	0.0223209868979909
TFAP2A#7020	3	7.07941473130498	0.00645255447218097	0.0280265475782952

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.