Coexpression cluster:C1184

Full id: C1184_Natural_Basophils_blood_NK_Peripheral_Whole_CD8

Phase1 CAGE Peaks

Hg19::chr12:9795420..9795436,+	p@chr12:9795420..9795436 +
Hg19::chr12:9795452..9795469,+	p@chr12:9795452..9795469 +
Hg19::chr14:22918081..22918089,+	p1@TRDD3
Hg19::chr14:22918107..22918130,+	p1@uc001wdw.2
Hg19::chr19:10226741..10226769,-	p@chr19:10226741..10226769 -
Hg19::chr19:55417499..55417521,+	p1@NCR1
Hg19::chr2:8464726..8464731,-	p3@LINC00299

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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GO ID	GO name	FDR corrected p-value
GO:0042269	regulation of natural killer cell mediated cytotoxicity	0.00393951881941991
GO:0016514	SWI/SNF complex	0.00393951881941991
GO:0001910	regulation of leukocyte mediated cytotoxicity	0.00393951881941991
GO:0031341	regulation of cell killing	0.00393951881941991
GO:0042267	natural killer cell mediated cytotoxicity	0.00393951881941991
GO:0002228	natural killer cell mediated immunity	0.00393951881941991
GO:0001909	leukocyte mediated cytotoxicity	0.00429765689391263
GO:0001906	cell killing	0.00429765689391263
GO:0030101	natural killer cell activation	0.00429765689391263
GO:0016585	chromatin remodeling complex	0.0088101966325209
GO:0006968	cellular defense response	0.0128929706817379
GO:0002449	lymphocyte mediated immunity	0.0128929706817379
GO:0002443	leukocyte mediated immunity	0.0128929706817379
GO:0002252	immune effector process	0.016331096196868
GO:0045087	innate immune response	0.016331096196868
GO:0046649	lymphocyte activation	0.0208167755798893
GO:0005057	receptor signaling protein activity	0.0214882844695632
GO:0045321	leukocyte activation	0.0214882844695632
GO:0001775	cell activation	0.0217952599619855
GO:0006917	induction of apoptosis	0.0217952599619855
GO:0012502	induction of programmed cell death	0.0217952599619855
GO:0043065	positive regulation of apoptosis	0.024104249535423
GO:0043068	positive regulation of programmed cell death	0.024104249535423
GO:0044451	nucleoplasm part	0.0404696024176773
GO:0005654	nucleoplasm	0.0446096785588131
GO:0042981	regulation of apoptosis	0.0448184218936603
GO:0043067	regulation of programmed cell death	0.0448184218936603
GO:0006952	defense response	0.0448184218936603

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	1.58e-24	140
hematopoietic stem cell	3.80e-24	172
angioblastic mesenchymal cell	3.80e-24	172
hematopoietic cell	1.23e-23	182
nongranular leukocyte	1.84e-23	119
hematopoietic oligopotent progenitor cell	6.88e-22	165
hematopoietic multipotent progenitor cell	6.88e-22	165
hematopoietic lineage restricted progenitor cell	1.63e-20	124
lymphoid lineage restricted progenitor cell	8.95e-18	52
lymphocyte	5.34e-17	53
common lymphoid progenitor	5.34e-17	53
mature alpha-beta T cell	1.97e-11	18
alpha-beta T cell	1.97e-11	18
immature T cell	1.97e-11	18
mature T cell	1.97e-11	18
immature alpha-beta T cell	1.97e-11	18
CD14-positive, CD16-negative classical monocyte	5.48e-11	42
T cell	7.14e-11	25
pro-T cell	7.14e-11	25
classical monocyte	1.30e-09	45
CD8-positive, alpha-beta T cell	5.11e-09	11
myeloid cell	6.91e-08	112
common myeloid progenitor	6.91e-08	112
B cell	1.53e-07	14
myeloid leukocyte	1.60e-07	76
monopoietic cell	7.66e-07	63
monocyte	7.66e-07	63
monoblast	7.66e-07	63
promonocyte	7.66e-07	63

Uber Anatomy

Ontology term	p-value	n
hematopoietic system	4.13e-13	102
blood island	4.13e-13	102
hemolymphoid system	1.82e-12	112
blood	3.27e-12	15
haemolymphatic fluid	3.27e-12	15
organism substance	3.27e-12	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)
{{{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.