Coexpression cluster:C802

Full id: C802_acute_Whole_chronic_blood_leukemia_Neutrophils_CD34

Phase1 CAGE Peaks

Hg19::chr11:58777262..58777273,-	p@chr11:58777262..58777273 -
Hg19::chr12:54691726..54691738,-	p9@NFE2
Hg19::chr12:54694738..54694749,-	p5@NFE2
Hg19::chr12:54694758..54694805,-	p1@NFE2
Hg19::chr17:42466864..42466880,-	p1@ITGA2B
Hg19::chr17:4835555..4835578,+	p1@GP1BA
Hg19::chr17:4835580..4835593,+	p2@GP1BA
Hg19::chr19:41856835..41856871,+	p5@TMEM91
Hg19::chr1:207669613..207669634,+	p3@CR1
Hg19::chr1:43803475..43803507,+	p1@MPL

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
0.000130420068097775	0.0275186343686305	2	85	ECM-receptor interaction (KEGG):04512
5.62376772811216e-07	0.00032433580309358	3	88	Hematopoietic cell lineage (KEGG):04640
1.02475767170167e-06	0.00032433580309358	4	466	Hemostasis (Reactome):REACT_604

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:0005887	integral to plasma membrane	0.000837617965512083
GO:0031226	intrinsic to plasma membrane	0.000837617965512083
GO:0007599	hemostasis	0.00259404803956199
GO:0044459	plasma membrane part	0.00259404803956199
GO:0050878	regulation of body fluid levels	0.00259404803956199
GO:0001850	complement component C3a binding	0.00259404803956199
GO:0001847	opsonin receptor activity	0.00259404803956199
GO:0004877	complement component C3b receptor activity	0.00259404803956199
GO:0004872	receptor activity	0.00495057300884679
GO:0001846	opsonin binding	0.00565907477652354
GO:0004875	complement receptor activity	0.00565907477652354
GO:0004871	signal transducer activity	0.00691583255524218
GO:0060089	molecular transducer activity	0.00691583255524218
GO:0005886	plasma membrane	0.00691583255524218
GO:0015057	thrombin receptor activity	0.00691583255524218
GO:0001848	complement binding	0.00777985356856844
GO:0042730	fibrinolysis	0.0109813829112646
GO:0009611	response to wounding	0.0118187531185448
GO:0030195	negative regulation of blood coagulation	0.0129256302981561
GO:0030193	regulation of blood coagulation	0.0129256302981561
GO:0004888	transmembrane receptor activity	0.0129256302981561
GO:0050819	negative regulation of coagulation	0.0141376950497417
GO:0050818	regulation of coagulation	0.0144236976063516
GO:0007166	cell surface receptor linked signal transduction	0.0188347888949068
GO:0009605	response to external stimulus	0.0188347888949068
GO:0030168	platelet activation	0.0199260400666217
GO:0006958	complement activation, classical pathway	0.0214868077403124
GO:0002455	humoral immune response mediated by circulating immunoglobulin	0.0221967666025441
GO:0047485	protein N-terminus binding	0.0260494934018146
GO:0006956	complement activation	0.0260494934018146
GO:0002541	activation of plasma proteins during acute inflammatory response	0.0260494934018146
GO:0016021	integral to membrane	0.0277034621720535
GO:0031224	intrinsic to membrane	0.0277034621720535
GO:0065008	regulation of biological quality	0.0283128582772092
GO:0016064	immunoglobulin mediated immune response	0.0283128582772092
GO:0022610	biological adhesion	0.0283128582772092
GO:0007155	cell adhesion	0.0283128582772092
GO:0019724	B cell mediated immunity	0.0283128582772092
GO:0008305	integrin complex	0.0291732855349702
GO:0004896	hematopoietin/interferon-class (D200-domain) cytokine receptor activity	0.0335055842626108
GO:0002253	activation of immune response	0.0335055842626108
GO:0002449	lymphocyte mediated immunity	0.0335055842626108
GO:0044425	membrane part	0.0335055842626108
GO:0006959	humoral immune response	0.0335055842626108
GO:0002250	adaptive immune response	0.0335055842626108
GO:0002460	adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains	0.0335055842626108
GO:0002443	leukocyte mediated immunity	0.0335055842626108
GO:0002526	acute inflammatory response	0.0335055842626108
GO:0032501	multicellular organismal process	0.0335055842626108
GO:0006950	response to stress	0.0335055842626108
GO:0050778	positive regulation of immune response	0.0335055842626108
GO:0007229	integrin-mediated signaling pathway	0.0335055842626108
GO:0002684	positive regulation of immune system process	0.0335055842626108
GO:0050776	regulation of immune response	0.036842459775197
GO:0002682	regulation of immune system process	0.036842459775197
GO:0007596	blood coagulation	0.036842459775197
GO:0050817	coagulation	0.0369156757555923
GO:0051240	positive regulation of multicellular organismal process	0.0373396381210043
GO:0043235	receptor complex	0.0378026624244675
GO:0002252	immune effector process	0.0378026624244675
GO:0045087	innate immune response	0.0385259798368652
GO:0042060	wound healing	0.0435130214904965
GO:0005515	protein binding	0.0435130214904965
GO:0001653	peptide receptor activity	0.0468444005596366
GO:0008528	peptide receptor activity, G-protein coupled	0.0468444005596366
GO:0008015	blood circulation	0.0490961773108645
GO:0003013	circulatory system process	0.0490961773108645

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
myeloid cell	5.86e-48	108
common myeloid progenitor	5.86e-48	108
hematopoietic stem cell	9.20e-33	168
angioblastic mesenchymal cell	9.20e-33	168
myeloid leukocyte	1.29e-31	72
hematopoietic cell	4.59e-30	177
hematopoietic oligopotent progenitor cell	1.50e-29	161
hematopoietic multipotent progenitor cell	1.50e-29	161
myeloid lineage restricted progenitor cell	8.47e-26	66
classical monocyte	1.12e-24	42
CD14-positive, CD16-negative classical monocyte	1.12e-24	42
granulocyte monocyte progenitor cell	8.44e-22	67
monopoietic cell	1.55e-21	59
monocyte	1.55e-21	59
monoblast	1.55e-21	59
promonocyte	1.55e-21	59
macrophage dendritic cell progenitor	1.61e-20	61
defensive cell	1.65e-20	48
phagocyte	1.65e-20	48
leukocyte	2.18e-16	136
hematopoietic lineage restricted progenitor cell	6.77e-12	120
granulocyte	1.88e-11	8
nongranular leukocyte	2.23e-11	115
blood cell	6.24e-08	11
stuff accumulating cell	7.70e-08	87
neutrophil	7.60e-07	3

Uber Anatomy

Ontology term	p-value	n
hematopoietic system	1.86e-35	98
blood island	1.86e-35	98
hemolymphoid system	1.25e-33	108
immune system	7.19e-21	93
bone marrow	1.83e-19	76
blood	1.67e-17	15
haemolymphatic fluid	1.67e-17	15
organism substance	1.67e-17	15
bone element	2.81e-17	82
skeletal element	7.75e-15	90
lateral plate mesoderm	9.65e-13	203
skeletal system	2.30e-12	100
adult organism	6.57e-10	114

Disease

Ontology term	p-value	n
myeloid leukemia	5.62e-15	31
leukemia	7.96e-11	39
chronic leukemia	1.57e-07	8
hematologic cancer	3.85e-07	51
immune system cancer	3.85e-07	51

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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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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This analysis result is provided for C0 - C305 clusters.