Coexpression cluster:C1411

Full id: C1411_immature_Dendritic_CD19_Mast_CD14_Neutrophils_CD34

Phase1 CAGE Peaks

Hg19::chr15:74677677..74677688,+	p@chr15:74677677..74677688 +
Hg19::chr15:74677699..74677722,+	p@chr15:74677699..74677722 +
Hg19::chr15:74689107..74689118,+	p@chr15:74689107..74689118 +
Hg19::chr16:22218470..22218480,-	p@chr16:22218470..22218480 -
Hg19::chr17:7154288..7154306,+	p@chr17:7154288..7154306 +
Hg19::chr2:224701010..224701027,+	p@chr2:224701010..224701027 +

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><br>

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Cell Type

Ontology term	p-value	n
leukocyte	1.70e-39	136
hematopoietic stem cell	4.11e-33	168
angioblastic mesenchymal cell	4.11e-33	168
hematopoietic cell	1.30e-30	177
hematopoietic oligopotent progenitor cell	2.65e-26	161
hematopoietic multipotent progenitor cell	2.65e-26	161
hematopoietic lineage restricted progenitor cell	3.34e-21	120
lymphoid lineage restricted progenitor cell	2.03e-19	52
lymphocyte	6.39e-19	53
common lymphoid progenitor	6.39e-19	53
nucleate cell	5.57e-18	55
nongranular leukocyte	5.38e-17	115
granulocyte	1.18e-14	8
lymphocyte of B lineage	4.85e-14	24
pro-B cell	4.85e-14	24
dendritic cell	9.15e-13	10
histamine secreting cell	1.79e-12	5
biogenic amine secreting cell	1.79e-12	5
granulocytopoietic cell	1.79e-12	5
mast cell	1.79e-12	5
mast cell progenitor	1.79e-12	5
basophil mast progenitor cell	1.79e-12	5
mesenchymal cell	3.03e-12	354
connective tissue cell	1.09e-11	361
Langerhans cell	2.98e-11	5
blood cell	2.70e-10	11
myeloid cell	7.08e-10	108
common myeloid progenitor	7.08e-10	108
motile cell	9.46e-10	386
myeloid leukocyte	1.01e-09	72
conventional dendritic cell	9.14e-09	8
plasmacytoid dendritic cell	1.19e-08	3
intermediate monocyte	1.59e-08	9
CD14-positive, CD16-positive monocyte	1.59e-08	9
stem cell	2.74e-08	441
basophil	3.18e-08	3
neutrophil	3.58e-08	3
single nucleate cell	8.47e-08	3
mononuclear cell	8.47e-08	3
natural killer cell	1.09e-07	3
pro-NK cell	1.09e-07	3
multi fate stem cell	1.97e-07	427
somatic stem cell	4.07e-07	433

Uber Anatomy

Ontology term	p-value	n
connective tissue	1.51e-11	371
hematopoietic system	4.49e-07	98
blood island	4.49e-07	98

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	5	7.42205570547417	9.7002838805275e-05	0.00137985283056172
IRF4#3662	5	18.2620939056201	1.14070523243612e-06	4.66095906769937e-05
MEF2A#4205	4	12.495487273096	0.000111333627719979	0.00154601419298589
MEF2C#4208	2	13.7704514975413	0.00823559694227006	0.0324670658709702
NFKB1#4790	6	5.48806342419384	3.65870229532191e-05	0.000707351368050953
PAX5#5079	5	5.55797127598152	0.000397717619661286	0.00388670632355245
POLR2A#5430	6	2.14745317655807	0.0101957067681878	0.038020117083685
SPI1#6688	5	6.83693625710227	0.000144964177397403	0.00188565372066352
SRF#6722	3	6.8985891310839	0.0064424516893037	0.0280012989295929
TCF12#6938	5	8.86205408515535	4.06365504449859e-05	0.000743524998585123
ZEB1#6935	4	11.2589546783626	0.000167270037980545	0.00204824897369564

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.