Coexpression cluster:C299

Full id: C299_CD14CD16_Eosinophils_Neutrophils_CD14_Whole_Basophils_blood

Phase1 CAGE Peaks

Hg19::chr11:67051096..67051110,+	p@chr11:67051096..67051110 +
Hg19::chr11:67051146..67051171,+	p@chr11:67051146..67051171 +
Hg19::chr11:67056068..67056080,+	p4@ANKRD13D
Hg19::chr11:73097322..73097366,+	p@chr11:73097322..73097366 +
Hg19::chr12:110888103..110888172,-	p1@ARPC3
Hg19::chr15:40600028..40600061,-	p2@PLCB2
Hg19::chr15:85259803..85259821,+	p@chr15:85259803..85259821 +
Hg19::chr16:50059183..50059199,+	p2@TMEM188
Hg19::chr17:38480637..38480649,+	p@chr17:38480637..38480649 +
Hg19::chr17:43487729..43487738,-	p1@uc002iiy.1
Hg19::chr17:72462766..72462831,+	p1@CD300A
Hg19::chr19:18508396..18508460,-	p1@LRRC25
Hg19::chr19:51920837..51920848,-	p3@SIGLEC10
Hg19::chr19:51920861..51920864,-	p6@SIGLEC10
Hg19::chr19:51920873..51920906,-	p1@SIGLEC10
Hg19::chr19:51920954..51920971,-	p2@SIGLEC10
Hg19::chr19:55084417..55084428,+	p4@LILRA2
Hg19::chr1:236028436..236028467,-	p@chr1:236028436..236028467 -
Hg19::chr1:244979057..244979081,+	p@chr1:244979057..244979081 +
Hg19::chr20:1472009..1472020,-	p4@SIRPB2
Hg19::chr20:1472029..1472032,-	p5@SIRPB2
Hg19::chr20:48892848..48892884,+	p1@ENST00000422459
Hg19::chr20:55950074..55950095,+	p@chr20:55950074..55950095 +
Hg19::chr20:62708506..62708524,-	p9@RGS19
Hg19::chr20:62710772..62710783,-	p4@RGS19
Hg19::chr22:44577612..44577668,+	p1@PARVG
Hg19::chr22:50968798..50968830,+	p@chr22:50968798..50968830 +
Hg19::chr22:50968897..50968915,+	p@chr22:50968897..50968915 +
Hg19::chr2:20624862..20624875,+	p@chr2:20624862..20624875 +
Hg19::chr2:45795104..45795144,-	p2@SRBD1
Hg19::chr3:72149553..72149577,-	p1@ENST00000468646 p1@uc003dpb.1
Hg19::chr4:154387777..154387789,+	p@chr4:154387777..154387789 +
Hg19::chr5:176735063..176735088,-	p2@MXD3
Hg19::chr5:180229951..180229996,+	p@chr5:180229951..180229996 +
Hg19::chr6:167370025..167370046,-	p1@RNASET2
Hg19::chr6:42897260..42897305,+	p2@CNPY3
Hg19::chr7:106505807..106505839,+	p3@PIK3CG
Hg19::chr7:139529081..139529084,+	p6@TBXAS1
Hg19::chr7:139529085..139529115,+	p2@TBXAS1
Hg19::chr7:26331470..26331517,+	p2@SNX10
Hg19::chr7:99750250..99750284,+	p6@C7orf59
Hg19::chr9:130540938..130540952,-	p2@SH2D3C

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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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

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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>

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Cell Type

Ontology term	p-value	n
hematopoietic stem cell	5.16e-73	168
angioblastic mesenchymal cell	5.16e-73	168
myeloid leukocyte	5.33e-69	72
leukocyte	6.23e-68	136
hematopoietic oligopotent progenitor cell	9.37e-68	161
hematopoietic multipotent progenitor cell	9.37e-68	161
hematopoietic cell	3.34e-67	177
myeloid cell	3.87e-66	108
common myeloid progenitor	3.87e-66	108
granulocyte monocyte progenitor cell	1.34e-61	67
macrophage dendritic cell progenitor	1.22e-58	61
monopoietic cell	6.91e-57	59
monocyte	6.91e-57	59
monoblast	6.91e-57	59
promonocyte	6.91e-57	59
myeloid lineage restricted progenitor cell	2.56e-56	66
nongranular leukocyte	2.13e-55	115
hematopoietic lineage restricted progenitor cell	1.47e-54	120
defensive cell	6.10e-51	48
phagocyte	6.10e-51	48
classical monocyte	1.08e-47	42
CD14-positive, CD16-negative classical monocyte	1.08e-47	42
stuff accumulating cell	9.05e-20	87
mesenchymal cell	1.25e-14	354
connective tissue cell	1.05e-13	361
intermediate monocyte	4.51e-12	9
CD14-positive, CD16-positive monocyte	4.51e-12	9
granulocyte	5.10e-11	8
motile cell	1.56e-10	386
blood cell	2.40e-07	11
multi fate stem cell	6.35e-07	427

Uber Anatomy

Ontology term	p-value	n
hematopoietic system	8.88e-65	98
blood island	8.88e-65	98
hemolymphoid system	2.60e-59	108
bone marrow	2.89e-53	76
immune system	2.00e-48	93
bone element	1.49e-47	82
skeletal element	3.78e-41	90
skeletal system	1.25e-34	100
lateral plate mesoderm	1.03e-19	203
adult organism	1.32e-14	114
connective tissue	6.58e-13	371
musculoskeletal system	1.26e-12	167
blood	5.63e-11	15
haemolymphatic fluid	5.63e-11	15
organism substance	5.63e-11	15
mesoderm	6.42e-07	315
mesoderm-derived structure	6.42e-07	315
presumptive mesoderm	6.42e-07	315

Disease

Ontology term	p-value	n
myeloid leukemia	6.95e-07	31

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)
{{{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

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(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF	#promoters	Enrichment	p-value	q-value
EBF1#1879	12	2.54470481330543	0.00173110009762714	0.010656275085234
ELF1#1997	25	2.53458211833782	6.20505328922612e-07	2.8448180881189e-05
MAX#4149	13	1.99721956231173	0.00898973416834884	0.0340840356787986
POLR2A#5430	36	1.84067415133549	1.58595236861894e-07	8.8010244115937e-06
POU2F2#5452	11	2.38493725321828	0.00468170286984411	0.0220905559782981
SPI1#6688	27	5.27420796976461	3.13703166424514e-15	5.62935481068898e-13

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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