Coexpression cluster:C804

Full id: C804_Smooth_mesenchymal_CD14_Mesenchymal_Cardiac_Adipocyte_Fibroblast

Phase1 CAGE Peaks

Hg19::chr11:61735103..61735112,-	p1@FTH1
Hg19::chr11:77446275..77446280,-	p1@FTH1P16
Hg19::chr13:23270919..23270923,-	p1@FTH1P7
Hg19::chr2:181738286..181738296,-	p1@FTH1P20
Hg19::chr2:27616442..27616446,-	p1@FTH1P3
Hg19::chr3:128484059..128484060,-	p1@FTH1P4
Hg19::chr3:72977990..72978004,+	p1@FTH1P23
Hg19::chr5:17354736..17354743,-	p1@FTH1P10
Hg19::chr8:82434656..82434664,-	p1@FTH1P11
Hg19::chr9:15527882..15527887,-	p1@FTH1P12

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:0008043	ferritin complex	0.00114800423878488
GO:0006880	intracellular sequestering of iron ion	0.00114800423878488
GO:0016724	oxidoreductase activity, oxidizing metal ions, oxygen as acceptor	0.00114800423878488
GO:0004322	ferroxidase activity	0.00114800423878488
GO:0016722	oxidoreductase activity, oxidizing metal ions	0.00214294124573178
GO:0051238	sequestering of metal ion	0.00331645668982299
GO:0008199	ferric iron binding	0.00784469563169669
GO:0051235	maintenance of localization	0.00784469563169669
GO:0006879	cellular iron ion homeostasis	0.00793166564978645
GO:0055072	iron ion homeostasis	0.00793166564978645
GO:0006826	iron ion transport	0.00793166564978645
GO:0000041	transition metal ion transport	0.0130107147062286
GO:0030005	cellular di-, tri-valent inorganic cation homeostasis	0.0189038031319911
GO:0055066	di-, tri-valent inorganic cation homeostasis	0.0189038031319911
GO:0030003	cellular cation homeostasis	0.0189038031319911
GO:0055080	cation homeostasis	0.0189038031319911
GO:0008285	negative regulation of cell proliferation	0.0189038031319911
GO:0055082	cellular chemical homeostasis	0.0189038031319911
GO:0006873	cellular ion homeostasis	0.0189038031319911
GO:0015674	di-, tri-valent inorganic cation transport	0.0189038031319911
GO:0050801	ion homeostasis	0.0194614051908294
GO:0048878	chemical homeostasis	0.0210119563704869
GO:0019725	cellular homeostasis	0.0249566138866278
GO:0042127	regulation of cell proliferation	0.029388908512893
GO:0042592	homeostatic process	0.029388908512893
GO:0005506	iron ion binding	0.0296126221594254
GO:0030001	metal ion transport	0.0386636489309279
GO:0008283	cell proliferation	0.0407268170426065
GO:0006812	cation transport	0.0448117516656719
GO:0065008	regulation of biological quality	0.0486243573138663

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
myeloid leukocyte	6.55e-23	76
monopoietic cell	1.82e-22	63
monocyte	1.82e-22	63
monoblast	1.82e-22	63
promonocyte	1.82e-22	63
CD14-positive, CD16-negative classical monocyte	2.41e-21	42
classical monocyte	3.89e-21	45
macrophage dendritic cell progenitor	6.76e-21	65
myeloid lineage restricted progenitor cell	9.51e-21	70
granulocyte monocyte progenitor cell	3.44e-18	71
animal cell	9.36e-15	679
eukaryotic cell	9.36e-15	679
somatic cell	3.56e-14	591
native cell	5.71e-12	722
multi fate stem cell	3.37e-10	430
mesodermal cell	5.06e-10	119
somatic stem cell	1.43e-09	436
stem cell	1.36e-08	444
myeloid cell	1.25e-07	112
common myeloid progenitor	1.25e-07	112
embryonic cell	1.68e-07	248
muscle precursor cell	1.79e-07	57
myoblast	1.79e-07	57
multi-potent skeletal muscle stem cell	1.79e-07	57
contractile cell	2.96e-07	59
smooth muscle cell	9.63e-07	42
smooth muscle myoblast	9.63e-07	42

Uber Anatomy

Ontology term	p-value	n
musculoskeletal system	2.37e-21	167
mesoderm	4.23e-19	448
mesoderm-derived structure	4.23e-19	448
presumptive mesoderm	4.23e-19	448
lateral plate mesoderm	3.85e-18	216
bone marrow	4.15e-18	80
bone element	2.67e-15	86
skeletal element	2.82e-15	101
skeletal system	2.82e-15	101
hemolymphoid system	3.79e-15	112
immune system	7.53e-15	115
multi-cellular organism	2.74e-14	659
hematopoietic system	4.54e-14	102
blood island	4.54e-14	102
germ layer	7.16e-13	604
embryonic tissue	7.16e-13	604
presumptive structure	7.16e-13	604
epiblast (generic)	7.16e-13	604
embryonic structure	1.17e-12	605
developing anatomical structure	1.17e-12	605
anatomical system	2.68e-12	625
embryo	4.09e-12	612
anatomical group	5.64e-12	626
cardiovascular system	2.94e-08	110
circulatory system	3.09e-08	113

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)
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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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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

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This analysis result is provided for C0 - C305 clusters.