Coexpression cluster:C632

Full id: C632_Monocytederived_Macrophage_Dendritic_CD14_Keratinocyte_basal_tenocyte

Phase1 CAGE Peaks

Hg19::chr18:3466261..3466312,+	p@chr18:3466261..3466312 +
Hg19::chr20:57571799..57571828,+	p@chr20:57571799..57571828 +
Hg19::chr8:11702366..11702398,+	p@chr8:11702366..11702398 +
Hg19::chr8:11702610..11702625,+	p@chr8:11702610..11702625 +
Hg19::chr8:11704610..11704653,+	p@chr8:11704610..11704653 +
Hg19::chr8:11705180..11705213,+	p@chr8:11705180..11705213 +
Hg19::chr8:11705214..11705244,+	p@chr8:11705214..11705244 +
Hg19::chr8:11705265..11705300,+	p@chr8:11705265..11705300 +
Hg19::chr8:11706577..11706604,+	p@chr8:11706577..11706604 +
Hg19::chr8:11710161..11710184,+	p@chr8:11710161..11710184 +
Hg19::chr8:11710828..11710871,+	p@chr8:11710828..11710871 +
Hg19::chr8:11710864..11710931,-	p3@CTSB
Hg19::chr8:11710941..11710962,-	p8@CTSB
Hg19::chr8:11725589..11725605,-	p1@CTSB

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 term	p-value	n
somatic cell	2.66e-17	588
monopoietic cell	7.15e-13	59
monocyte	7.15e-13	59
monoblast	7.15e-13	59
promonocyte	7.15e-13	59
mesodermal cell	1.20e-12	121
macrophage dendritic cell progenitor	3.79e-12	61
defensive cell	4.67e-11	48
phagocyte	4.67e-11	48
embryonic cell	7.96e-11	250
myeloid lineage restricted progenitor cell	3.04e-10	66
stuff accumulating cell	7.52e-10	87
muscle precursor cell	2.37e-09	58
myoblast	2.37e-09	58
multi-potent skeletal muscle stem cell	2.37e-09	58
granulocyte monocyte progenitor cell	4.16e-09	67
contractile cell	8.92e-09	59
muscle cell	1.56e-08	55
fibroblast	2.04e-08	76
smooth muscle cell	2.74e-08	43
smooth muscle myoblast	2.74e-08	43
multi fate stem cell	4.60e-08	427
classical monocyte	6.91e-08	42
CD14-positive, CD16-negative classical monocyte	6.91e-08	42
somatic stem cell	1.17e-07	433
non-terminally differentiated cell	1.31e-07	106
animal cell	2.54e-07	679
eukaryotic cell	2.54e-07	679
electrically responsive cell	7.74e-07	61
electrically active cell	7.74e-07	61

Uber Anatomy

Ontology term	p-value	n
mesoderm	1.85e-24	315
mesoderm-derived structure	1.85e-24	315
presumptive mesoderm	1.85e-24	315
musculoskeletal system	9.51e-19	167
multi-cellular organism	9.57e-19	656
anatomical system	8.93e-18	624
anatomical group	1.80e-17	625
lateral plate mesoderm	2.10e-16	203
embryonic structure	2.94e-12	564
developing anatomical structure	9.47e-12	581
germ layer	1.25e-11	560
germ layer / neural crest	1.25e-11	560
embryonic tissue	1.25e-11	560
presumptive structure	1.25e-11	560
germ layer / neural crest derived structure	1.25e-11	560
epiblast (generic)	1.25e-11	560
multilaminar epithelium	1.64e-10	83
splanchnic layer of lateral plate mesoderm	3.11e-10	83
embryo	5.17e-10	592
skeletal system	6.97e-10	100
unilaminar epithelium	7.14e-10	148
bone marrow	2.69e-09	76
artery	3.07e-09	42
arterial blood vessel	3.07e-09	42
arterial system	3.07e-09	42
skeletal element	3.14e-09	90
epithelial tube	3.64e-09	117
vasculature	5.94e-09	78
vascular system	5.94e-09	78
circulatory system	7.28e-09	112
epithelial vesicle	9.57e-09	78
immune system	1.00e-08	93
cardiovascular system	1.21e-08	109
dense mesenchyme tissue	1.37e-08	73
vessel	1.59e-08	68
somite	1.74e-08	71
presomitic mesoderm	1.74e-08	71
presumptive segmental plate	1.74e-08	71
dermomyotome	1.74e-08	71
trunk paraxial mesoderm	1.74e-08	71
paraxial mesoderm	2.39e-08	72
presumptive paraxial mesoderm	2.39e-08	72
epithelial tube open at both ends	3.58e-08	59
blood vessel	3.58e-08	59
blood vasculature	3.58e-08	59
vascular cord	3.58e-08	59
bone element	6.29e-08	82
muscle tissue	1.07e-07	64
musculature	1.07e-07	64
musculature of body	1.07e-07	64
skeletal muscle tissue	1.10e-07	62
striated muscle tissue	1.10e-07	62
myotome	1.10e-07	62
trunk mesenchyme	1.12e-07	122
systemic artery	1.75e-07	33
systemic arterial system	1.75e-07	33
hemolymphoid system	8.70e-07	108

Disease

Ontology term	p-value	n
ovarian cancer	8.89e-07	14

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	#promoters	Enrichment	p-value	q-value
BCL3#602	3	7.40295060080107	0.00694426632847338	0.0293731412692654
FOSL2#2355	4	4.83720017273191	0.00754162287399241	0.0310914440191408
POLR2A#5430	12	1.84067415133549	0.00308514162916731	0.0162625097970325

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.