Coexpression cluster:C297

Full id: C297_Eosinophils_CD4_Basophils_Natural_Neutrophils_CD8_Peripheral

Phase1 CAGE Peaks

Hg19::chr10:35416142..35416169,+	p3@CREM
Hg19::chr10:35416172..35416184,+	p13@CREM
Hg19::chr11:3862855..3862867,+	p@chr11:3862855..3862867 +
Hg19::chr12:106697097..106697117,-	p@chr12:106697097..106697117 -
Hg19::chr14:52314051..52314062,-	p@chr14:52314051..52314062 -
Hg19::chr17:38497640..38497647,+	p27@RARA
Hg19::chr17:62097904..62097915,-	p4@ICAM2
Hg19::chr17:76837188..76837205,+	p@chr17:76837188..76837205 +
Hg19::chr19:41769066..41769091,+	p@chr19:41769066..41769091 +
Hg19::chr19:59085102..59085126,+	p@chr19:59085102..59085126 +
Hg19::chr1:185536411..185536432,+	p@chr1:185536411..185536432 +
Hg19::chr1:198650975..198650986,-	p@chr1:198650975..198650986 -
Hg19::chr1:198651031..198651051,-	p@chr1:198651031..198651051 -
Hg19::chr1:198651180..198651193,+	p@chr1:198651180..198651193 +
Hg19::chr1:198651195..198651213,+	p@chr1:198651195..198651213 +
Hg19::chr1:45273151..45273188,+	p@chr1:45273151..45273188 +
Hg19::chr20:34356239..34356262,+	p@chr20:34356239..34356262 +
Hg19::chr20:42839727..42839752,+	p1@LOC100505783
Hg19::chr20:43150543..43150551,-	p@chr20:43150543..43150551 -
Hg19::chr20:43150846..43150896,+	p@chr20:43150846..43150896 +
Hg19::chr20:43150918..43150934,+	p@chr20:43150918..43150934 +
Hg19::chr20:5590658..5590681,+	p@chr20:5590658..5590681 +
Hg19::chr22:39097139..39097148,+	p@chr22:39097139..39097148 +
Hg19::chr22:47158371..47158384,-	p@chr22:47158371..47158384 -
Hg19::chr2:170441202..170441230,-	p@chr2:170441202..170441230 -
Hg19::chr2:197034975..197035000,-	p@chr2:197034975..197035000 -
Hg19::chr2:197035024..197035040,-	p@chr2:197035024..197035040 -
Hg19::chr2:55845186..55845202,+	p@chr2:55845186..55845202 +
Hg19::chr2:97204412..97204438,-	p@chr2:97204412..97204438 -
Hg19::chr4:152020461..152020473,-	p@chr4:152020461..152020473 -
Hg19::chr6:108145154..108145165,-	p@chr6:108145154..108145165 -
Hg19::chr7:36816762..36816783,-	p@chr7:36816762..36816783 -
Hg19::chr7:66146955..66146980,-	p@chr7:66146955..66146980 -
Hg19::chr7:66309834..66309894,-	p1@LOC729156
Hg19::chr7:75796016..75796041,+	p@chr7:75796016..75796041 +
Hg19::chr8:118532766..118532792,-	p@chr8:118532766..118532792 -
Hg19::chr8:64080945..64080978,-	p@chr8:64080945..64080978 -
Hg19::chr9:100684655..100684671,+	p@chr9:100684655..100684671 +
Hg19::chr9:132650707..132650725,-	p8@FNBP1
Hg19::chr9:132650755..132650788,-	p4@FNBP1
Hg19::chr9:132650792..132650809,-	p12@FNBP1
Hg19::chr9:33159824..33159848,+	p@chr9:33159824..33159848 +

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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p.value	FDR	nGenes	nPathway	Name
6.41827216562196e-05	0.040627662808387	2	73	Notch up reg. targets (Netpath):NetPath_3

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:0003713	transcription coactivator activity	0.0112437650335631
GO:0008140	cAMP response element binding protein binding	0.0112437650335631
GO:0003712	transcription cofactor activity	0.0112437650335631
GO:0016563	transcription activator activity	0.0112437650335631
GO:0008134	transcription factor binding	0.0175123136485932
GO:0003708	retinoic acid receptor activity	0.0378801066558398

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
leukocyte	3.18e-45	140
hematopoietic stem cell	2.61e-39	172
angioblastic mesenchymal cell	2.61e-39	172
hematopoietic lineage restricted progenitor cell	1.97e-36	124
hematopoietic cell	2.55e-36	182
hematopoietic oligopotent progenitor cell	1.35e-35	165
hematopoietic multipotent progenitor cell	1.35e-35	165
nongranular leukocyte	7.36e-35	119
CD14-positive, CD16-negative classical monocyte	1.89e-22	42
lymphocyte	4.38e-22	53
common lymphoid progenitor	4.38e-22	53
lymphoid lineage restricted progenitor cell	4.69e-22	52
classical monocyte	4.21e-21	45
myeloid leukocyte	7.93e-18	76
myeloid cell	7.58e-15	112
common myeloid progenitor	7.58e-15	112
granulocyte monocyte progenitor cell	9.34e-15	71
myeloid lineage restricted progenitor cell	4.57e-14	70
macrophage dendritic cell progenitor	8.17e-13	65
monopoietic cell	5.18e-12	63
monocyte	5.18e-12	63
monoblast	5.18e-12	63
promonocyte	5.18e-12	63
T cell	1.18e-11	25
pro-T cell	1.18e-11	25
mature alpha-beta T cell	2.85e-11	18
alpha-beta T cell	2.85e-11	18
immature T cell	2.85e-11	18
mature T cell	2.85e-11	18
immature alpha-beta T cell	2.85e-11	18
lymphocyte of B lineage	8.74e-10	24
pro-B cell	8.74e-10	24
mesenchymal cell	1.45e-08	358
connective tissue cell	3.12e-08	365
B cell	1.69e-07	14
CD8-positive, alpha-beta T cell	3.78e-07	11
intermediate monocyte	9.17e-07	9
CD14-positive, CD16-positive monocyte	9.17e-07	9

Uber Anatomy

Ontology term	p-value	n
hematopoietic system	1.73e-20	102
blood island	1.73e-20	102
hemolymphoid system	4.66e-17	112
bone marrow	2.10e-13	80
bone element	4.82e-12	86
immune system	2.37e-09	115
skeletal element	1.70e-07	101
skeletal system	1.70e-07	101
adult organism	2.44e-07	115
connective tissue	3.08e-07	375
blood	9.12e-07	15
haemolymphatic fluid	9.12e-07	15
organism substance	9.12e-07	15

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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