Coexpression cluster:C3044

Full id: C3044_Eosinophils_CD4_Neutrophils_CD34_CD8_CD19_Natural

Phase1 CAGE Peaks

Hg19::chr10:74927810..74927834,-	p2@ECD
Hg19::chr15:64126110..64126154,-	p1@HERC1
Hg19::chr17:47866034..47866060,+	p1@KAT7

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:0006110	regulation of glycolysis	0.0153060473107074
GO:0009894	regulation of catabolic process	0.0407993044316206
GO:0005086	ARF guanyl-nucleotide exchange factor activity	0.0407993044316206

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
hematopoietic stem cell	1.84e-30	172
angioblastic mesenchymal cell	1.84e-30	172
hematopoietic oligopotent progenitor cell	3.39e-27	165
hematopoietic multipotent progenitor cell	3.39e-27	165
leukocyte	1.25e-26	140
hematopoietic cell	1.07e-25	182
hematopoietic lineage restricted progenitor cell	5.10e-20	124
nongranular leukocyte	4.48e-18	119
lymphoid lineage restricted progenitor cell	2.10e-14	52
lymphocyte	3.32e-14	53
common lymphoid progenitor	3.32e-14	53
myeloid cell	2.34e-13	112
common myeloid progenitor	2.34e-13	112
mature alpha-beta T cell	4.08e-11	18
alpha-beta T cell	4.08e-11	18
immature T cell	4.08e-11	18
mature T cell	4.08e-11	18
immature alpha-beta T cell	4.08e-11	18
myeloid leukocyte	2.46e-09	76
T cell	4.66e-09	25
pro-T cell	4.66e-09	25
CD8-positive, alpha-beta T cell	1.49e-07	11
granulocyte monocyte progenitor cell	5.21e-07	71
myeloid lineage restricted progenitor cell	6.35e-07	70

Uber Anatomy

Ontology term	p-value	n
adult organism	4.13e-37	115
neural tube	3.30e-17	57
neural rod	3.30e-17	57
future spinal cord	3.30e-17	57
neural keel	3.30e-17	57
regional part of forebrain	2.83e-16	41
forebrain	2.83e-16	41
future forebrain	2.83e-16	41
anterior neural tube	5.36e-16	42
regional part of brain	6.00e-14	59
telencephalon	1.59e-13	34
brain	1.76e-13	69
future brain	1.76e-13	69
gray matter	2.76e-13	34
brain grey matter	2.76e-13	34
central nervous system	3.73e-13	82
regional part of telencephalon	4.87e-13	33
cerebral hemisphere	1.19e-12	32
regional part of nervous system	6.68e-12	94
nervous system	6.68e-12	94
regional part of cerebral cortex	3.17e-11	22
neocortex	2.51e-10	20
cerebral cortex	1.44e-09	25
pallium	1.44e-09	25
hematopoietic system	1.61e-09	102
blood island	1.61e-09	102
neurectoderm	3.40e-08	90
hemolymphoid system	4.51e-08	112
neural plate	9.47e-08	86
presumptive neural plate	9.47e-08	86

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
ATF3#467	2	14.9754496840058	0.00576829454079388	0.02594242156343
BRCA1#672	3	20.1842306432238	0.000121570486027164	0.00163891828968516
CHD2#1106	3	10.3440228341169	0.000903370110274688	0.00658204764524753
EGR1#1958	3	4.98817909481014	0.00805648813738344	0.0318982320335199
ELF1#1997	3	4.25809795880754	0.0129517987505461	0.0459920747240245
ELK4#2005	2	10.823787772312	0.0109128471951648	0.0401708320955807
GATA1#2623	3	13.5603081438004	0.000400961596378263	0.00386809792759555
MEF2A#4205	2	12.495487273096	0.00823502947802974	0.0324697313370563
NFKB1#4790	3	5.48806342419384	0.00604938181565543	0.0268516038694903
NR3C1#2908	2	9.98201555411536	0.0127847436554717	0.0460089536071745
SIX5#147912	2	11.391143570306	0.00987382008142903	0.037055298267432
SP1#6667	3	5.6983813781409	0.00540396270171217	0.0245373879659196
USF1#7391	3	6.36149927720796	0.0038840405729056	0.0189465349553334
YY1#7528	3	4.91117074985386	0.00844145534180826	0.0327836216883502
ZBTB33#10009	2	21.1098166866541	0.00292859706060324	0.0156274140819713

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.