Coexpression cluster:C1172

Full id: C1172_Neutrophils_Whole_CD14_CD14CD16_Eosinophils_CD19_Dendritic

Phase1 CAGE Peaks

Hg19::chr12:54891496..54891526,+	p2@NCKAP1L
Hg19::chr12:7060473..7060507,+	p2@PTPN6
Hg19::chr15:73076030..73076121,-	p1@ADPGK
Hg19::chr17:43487741..43487772,-	p1@ARHGAP27
Hg19::chr19:48758926..48758982,+	p1@LOC100505812
Hg19::chr1:153917700..153917766,-	p1@DENND4B
Hg19::chr7:6066194..6066222,-	p3@EIF2AK1

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:0043843	ADP-specific glucokinase activity	0.00540886612504415
GO:0046984	regulation of hemoglobin biosynthetic process	0.00540886612504415
GO:0046986	negative regulation of hemoglobin biosynthetic process	0.00540886612504415
GO:0045993	negative regulation of translational initiation by iron	0.00540886612504415
GO:0006447	regulation of translational initiation by iron	0.00865367629574051
GO:0004694	eukaryotic translation initiation factor 2alpha kinase activity	0.0120168721704563
GO:0042541	hemoglobin biosynthetic process	0.0120168721704563
GO:0020027	hemoglobin metabolic process	0.0120168721704563
GO:0001784	phosphotyrosine binding	0.0120168721704563
GO:0045309	protein phosphorylated amino acid binding	0.0129774578675695
GO:0045947	negative regulation of translational initiation	0.0176934080562542
GO:0051219	phosphoprotein binding	0.018020002793523
GO:0009605	response to external stimulus	0.037762056295026

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	6.30e-75	172
angioblastic mesenchymal cell	6.30e-75	172
hematopoietic cell	1.58e-71	182
hematopoietic oligopotent progenitor cell	9.30e-71	165
hematopoietic multipotent progenitor cell	9.30e-71	165
leukocyte	2.92e-64	140
hematopoietic lineage restricted progenitor cell	4.73e-54	124
nongranular leukocyte	2.94e-53	119
myeloid cell	4.08e-46	112
common myeloid progenitor	4.08e-46	112
myeloid leukocyte	2.14e-36	76
granulocyte monocyte progenitor cell	2.32e-32	71
myeloid lineage restricted progenitor cell	2.21e-31	70
macrophage dendritic cell progenitor	4.51e-30	65
monopoietic cell	1.99e-29	63
monocyte	1.99e-29	63
monoblast	1.99e-29	63
promonocyte	1.99e-29	63
CD14-positive, CD16-negative classical monocyte	2.46e-25	42
classical monocyte	2.28e-24	45
lymphocyte	1.51e-20	53
common lymphoid progenitor	1.51e-20	53
lymphoid lineage restricted progenitor cell	2.88e-20	52
mesenchymal cell	2.55e-13	358
connective tissue cell	1.55e-11	365
lymphocyte of B lineage	1.40e-10	24
pro-B cell	1.40e-10	24
T cell	1.02e-09	25
pro-T cell	1.02e-09	25
mature alpha-beta T cell	3.59e-08	18
alpha-beta T cell	3.59e-08	18
immature T cell	3.59e-08	18
mature T cell	3.59e-08	18
immature alpha-beta T cell	3.59e-08	18
B cell	4.88e-08	14
motile cell	1.53e-07	390
intermediate monocyte	4.60e-07	9
CD14-positive, CD16-positive monocyte	4.60e-07	9
multi fate stem cell	5.14e-07	430

Uber Anatomy

Ontology term	p-value	n
hemolymphoid system	2.61e-40	112
hematopoietic system	4.90e-40	102
blood island	4.90e-40	102
bone marrow	3.93e-29	80
immune system	1.76e-27	115
bone element	1.80e-24	86
lateral plate mesoderm	6.16e-20	216
adult organism	8.05e-19	115
skeletal element	7.47e-18	101
skeletal system	7.47e-18	101
connective tissue	1.25e-10	375
blood	5.19e-09	15
haemolymphatic fluid	5.19e-09	15
organism substance	5.19e-09	15
musculoskeletal system	7.97e-07	167

Disease

Ontology term	p-value	n
hematologic cancer	2.34e-12	51
immune system cancer	2.34e-12	51
leukemia	3.31e-11	39
myeloid leukemia	3.21e-09	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)
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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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This analysis result is provided for C0 - C305 clusters.