Coexpression cluster:C451

Full id: C451_CD14_CD4_Eosinophils_Neutrophils_adult_Natural_CD8

Phase1 CAGE Peaks

Hg19::chr12:48592134..48592150,+	p1@DKFZP779L1853
Hg19::chr12:66696322..66696383,+	p2@HELB
Hg19::chr16:50715196..50715235,-	p1@SNX20
Hg19::chr16:57023445..57023514,+	p1@NLRC5
Hg19::chr16:57025612..57025617,+	p@chr16:57025612..57025617 +
Hg19::chr16:89787973..89788001,+	p3@ZNF276
Hg19::chr16:89788512..89788554,-	p@chr16:89788512..89788554 -
Hg19::chr17:33701610..33701646,-	p@chr17:33701610..33701646 -
Hg19::chr17:78237438..78237452,+	p1@CU691854
Hg19::chr19:1133589..1133603,-	p@chr19:1133589..1133603 -
Hg19::chr1:89664595..89664636,-	p1@GBP4
Hg19::chr1:89738560..89738575,-	p2@GBP5
Hg19::chr22:36556793..36556811,-	p1@APOL3
Hg19::chr2:240189135..240189153,-	p@chr2:240189135..240189153 -
Hg19::chr2:240189159..240189181,-	p@chr2:240189159..240189181 -
Hg19::chr2:240189199..240189221,-	p@chr2:240189199..240189221 -
Hg19::chr3:142166796..142166841,-	p3@XRN1
Hg19::chr3:156893074..156893141,+	p1@ENST00000488040
Hg19::chr5:42992974..42992986,-	p6@uc003jnb.1
Hg19::chr6:106545946..106545979,+	p@chr6:106545946..106545979 +
Hg19::chr6:18265050..18265072,-	p5@DEK
Hg19::chr6:32811888..32811906,+	p1@ENST00000413039 p1@ENST00000429600 p1@ENST00000458296

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><br>

---

Cell Type

Ontology term	p-value	n
leukocyte	9.28e-71	136
hematopoietic stem cell	8.93e-69	168
angioblastic mesenchymal cell	8.93e-69	168
hematopoietic cell	5.05e-66	177
hematopoietic oligopotent progenitor cell	4.18e-64	161
hematopoietic multipotent progenitor cell	4.18e-64	161
nongranular leukocyte	2.36e-63	115
hematopoietic lineage restricted progenitor cell	1.27e-59	120
myeloid leukocyte	6.95e-37	72
myeloid cell	2.30e-32	108
common myeloid progenitor	2.30e-32	108
myeloid lineage restricted progenitor cell	3.91e-30	66
monopoietic cell	9.80e-30	59
monocyte	9.80e-30	59
monoblast	9.80e-30	59
promonocyte	9.80e-30	59
classical monocyte	1.04e-29	42
CD14-positive, CD16-negative classical monocyte	1.04e-29	42
granulocyte monocyte progenitor cell	1.16e-29	67
defensive cell	2.71e-29	48
phagocyte	2.71e-29	48
lymphocyte	2.96e-29	53
common lymphoid progenitor	2.96e-29	53
lymphoid lineage restricted progenitor cell	3.18e-29	52
nucleate cell	1.60e-28	55
macrophage dendritic cell progenitor	4.63e-28	61
T cell	5.98e-17	25
pro-T cell	5.98e-17	25
mature alpha-beta T cell	2.78e-15	18
alpha-beta T cell	2.78e-15	18
immature T cell	2.78e-15	18
mature T cell	2.78e-15	18
immature alpha-beta T cell	2.78e-15	18
mesenchymal cell	6.96e-12	354
lymphocyte of B lineage	3.50e-11	24
pro-B cell	3.50e-11	24
connective tissue cell	3.56e-10	361
CD8-positive, alpha-beta T cell	3.77e-10	11
B cell	2.82e-08	14
stuff accumulating cell	6.39e-08	87
motile cell	8.28e-08	386
granulocyte	1.56e-07	8
intermediate monocyte	1.73e-07	9
CD14-positive, CD16-positive monocyte	1.73e-07	9

Uber Anatomy

Ontology term	p-value	n
hematopoietic system	7.69e-39	98
blood island	7.69e-39	98
hemolymphoid system	1.79e-37	108
immune system	4.15e-28	93
bone marrow	1.83e-25	76
bone element	5.97e-22	82
skeletal element	1.53e-16	90
adult organism	3.48e-16	114
skeletal system	2.07e-14	100
blood	1.11e-10	15
haemolymphatic fluid	1.11e-10	15
organism substance	1.11e-10	15
lateral plate mesoderm	3.50e-10	203
connective tissue	2.99e-09	371

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
BCL11A#53335	5	6.44760343263797	0.000865458559595205	0.00645902719062195
EBF1#1879	10	4.04839402116773	5.69071288955694e-05	0.000949564408807217
ELF1#1997	15	2.90324860827787	1.09648915323577e-05	0.000284088887806476
GATA1#2623	7	4.31464350030014	0.000749238541996923	0.00589896148417766
IRF4#3662	5	4.98057106516912	0.00271038957555786	0.0148890372860134
MEF2A#4205	5	4.25982520673728	0.00529758034403197	0.0243400639457285
NFKB1#4790	11	2.74403171209692	0.00070578884319609	0.00567319949161521
PAX5#5079	10	3.03162069598992	0.000648693583830144	0.0053148904998538
POLR2A#5430	21	2.0498416685327	1.30673372631837e-06	5.18518098947434e-05
PRDM1#639	3	17.9769485151083	0.000602182983348584	0.00503090861514621
SMC3#9126	5	3.41930291930292	0.0131467926667059	0.0466163468227777
SPI1#6688	7	2.61046657089359	0.0128804521969975	0.0463326288834546
STAT1#6772	8	7.5296681807997	5.11850336669685e-06	0.000157273131248736
STAT2#6773	5	14.8326752696456	1.78325817125753e-05	0.000406907800192191
STAT3#6774	9	4.30341749883583	9.9173625749362e-05	0.00139609034905481

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.