Coexpression cluster:C795

Full id: C795_occipital_postcentral_Whole_temporal_paracentral_insula_parietal

Phase1 CAGE Peaks

Hg19::chr11:124609823..124609869,+	p1@NRGN
Hg19::chr11:124615457..124615462,+	p@chr11:124615457..124615462 +
Hg19::chr11:124615557..124615575,+	p@chr11:124615557..124615575 +
Hg19::chr11:124616356..124616367,-	p6@ENST00000531241
Hg19::chr11:124616378..124616428,-	p2@ENST00000531241
Hg19::chr11:124616466..124616477,-	p8@ENST00000531241
Hg19::chr11:124616487..124616565,-	p1@ENST00000531241
Hg19::chr11:124616678..124616697,-	p10@ENST00000531241
Hg19::chr11:124616843..124616873,-	p@chr11:124616843..124616873 -
Hg19::chr16:2564254..2564305,+	p@chr16:2564254..2564305 +

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:0005516	calmodulin binding	0.0415047686329919

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
CD14-positive, CD16-negative classical monocyte	1.75e-19	42
myeloid cell	2.28e-19	112
common myeloid progenitor	2.28e-19	112
myeloid leukocyte	6.97e-18	76
classical monocyte	1.64e-17	45
macrophage dendritic cell progenitor	1.98e-16	65
monopoietic cell	3.25e-16	63
monocyte	3.25e-16	63
monoblast	3.25e-16	63
promonocyte	3.25e-16	63
myeloid lineage restricted progenitor cell	1.97e-15	70
granulocyte monocyte progenitor cell	2.85e-15	71
hematopoietic stem cell	1.86e-08	172
angioblastic mesenchymal cell	1.86e-08	172
hematopoietic cell	2.30e-08	182
endothelial cell	8.80e-08	35
hematopoietic oligopotent progenitor cell	9.40e-08	165
hematopoietic multipotent progenitor cell	9.40e-08	165
endothelial cell of vascular tree	1.65e-07	24
blood vessel endothelial cell	2.07e-07	18
embryonic blood vessel endothelial progenitor cell	2.07e-07	18

Uber Anatomy

Ontology term	p-value	n
lateral plate mesoderm	2.60e-19	216
hemolymphoid system	3.38e-18	112
hematopoietic system	2.30e-17	102
blood island	2.30e-17	102
telencephalon	4.71e-17	34
regional part of forebrain	9.48e-17	41
forebrain	9.48e-17	41
future forebrain	9.48e-17	41
neural tube	1.10e-16	57
neural rod	1.10e-16	57
future spinal cord	1.10e-16	57
neural keel	1.10e-16	57
gray matter	1.33e-16	34
brain grey matter	1.33e-16	34
cerebral hemisphere	1.77e-16	32
anterior neural tube	1.78e-16	42
regional part of telencephalon	2.15e-16	33
adult organism	2.32e-15	115
tube	3.64e-15	194
central nervous system	1.35e-14	82
neurectoderm	2.91e-14	90
regional part of brain	4.75e-14	59
neural plate	1.47e-13	86
presumptive neural plate	1.47e-13	86
brain	1.63e-13	69
future brain	1.63e-13	69
bone marrow	1.95e-13	80
regional part of cerebral cortex	3.27e-13	22
bone element	3.77e-13	86
cardiovascular system	7.12e-13	110
circulatory system	8.75e-13	113
pre-chordal neural plate	2.72e-12	61
cerebral cortex	2.75e-12	25
pallium	2.75e-12	25
regional part of nervous system	4.20e-12	94
nervous system	4.20e-12	94
neocortex	4.56e-12	20
anatomical conduit	2.21e-10	241
skeletal element	2.51e-10	101
skeletal system	2.51e-10	101
embryonic structure	2.99e-10	605
developing anatomical structure	2.99e-10	605
germ layer	3.29e-10	604
embryonic tissue	3.29e-10	604
presumptive structure	3.29e-10	604
epiblast (generic)	3.29e-10	604
embryo	1.32e-09	612
anatomical system	1.38e-09	625
vessel	1.92e-09	69
anatomical group	1.94e-09	626
tissue	5.74e-09	787
immune system	6.12e-09	115
vasculature	6.48e-09	79
vascular system	6.48e-09	79
blood vessel	1.03e-08	60
epithelial tube open at both ends	1.03e-08	60
blood vasculature	1.03e-08	60
vascular cord	1.03e-08	60
anatomical cluster	1.06e-08	286
musculoskeletal system	1.30e-08	167
blood	4.04e-08	15
haemolymphatic fluid	4.04e-08	15
organism substance	4.04e-08	15
cell layer	1.70e-07	312
endothelium	2.07e-07	18
blood vessel endothelium	2.07e-07	18
cardiovascular system endothelium	2.07e-07	18
epithelium	3.44e-07	309
multi-cellular organism	5.00e-07	659

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
CTBP2#1488	8	50.1736002714625	1.81009809364417e-13	2.75575560936011e-11
CTCF#10664	6	3.21615382384502	0.00442909532615486	0.0209696852426804
EGR1#1958	7	3.4917253663671	0.000877169233922824	0.00654221792627764
ELF1#1997	7	2.98066857116528	0.00237820287046913	0.0134723980033047
JUND#3727	6	4.19679836512262	0.00106520345654605	0.00752392694428604
RAD21#5885	5	5.17751694772816	0.00139396011538	0.00907177221399378
SMC3#9126	6	9.0269597069597	1.43128844366218e-05	0.00034229982543539
SP1#6667	6	3.41902882688454	0.00320733983912072	0.0168217428543127
YY1#7528	6	2.94670244991231	0.00698724787395188	0.029538197964285
ZNF143#7702	5	6.75043827611395	0.000408826990856502	0.00389788954702047

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.