Coexpression cluster:C1354

Full id: C1354_CD4_CD19_CD8_cord_Natural_Mast_thymus

Phase1 CAGE Peaks

Hg19::chr11:94227129..94227182,+	p1@ANKRD49
Hg19::chr19:21203451..21203475,+	p1@ZNF430
Hg19::chr19:21324829..21324855,+	p1@ZNF431
Hg19::chr4:56814968..56815018,+	p1@CEP135
Hg19::chr4:84376953..84377040,-	p1@HELQ
Hg19::chr7:86781734..86781777,+	p1@DMTF1

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:0006355	regulation of transcription, DNA-dependent	0.0283845759598042
GO:0006351	transcription, DNA-dependent	0.0283845759598042
GO:0032774	RNA biosynthetic process	0.0283845759598042
GO:0003677	DNA binding	0.0283845759598042
GO:0045449	regulation of transcription	0.0283845759598042
GO:0019219	regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.0283845759598042
GO:0006350	transcription	0.0283845759598042
GO:0010468	regulation of gene expression	0.0283845759598042
GO:0031323	regulation of cellular metabolic process	0.0283845759598042
GO:0019222	regulation of metabolic process	0.0283845759598042
GO:0016070	RNA metabolic process	0.0283845759598042
GO:0043229	intracellular organelle	0.0364791675777369
GO:0043226	organelle	0.0364791675777369
GO:0010467	gene expression	0.0463822808005125
GO:0005813	centrosome	0.0463822808005125
GO:0050794	regulation of cellular process	0.0463822808005125
GO:0005815	microtubule organizing center	0.0463822808005125
GO:0006139	nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.0463822808005125
GO:0005634	nucleus	0.0473610801434053
GO:0050789	regulation of biological process	0.0473610801434053
GO:0044424	intracellular part	0.0473610801434053
GO:0003676	nucleic acid binding	0.0485494265355204

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
hematopoietic stem cell	8.05e-55	172
angioblastic mesenchymal cell	8.05e-55	172
hematopoietic oligopotent progenitor cell	1.39e-50	165
hematopoietic multipotent progenitor cell	1.39e-50	165
hematopoietic cell	4.13e-50	182
leukocyte	6.49e-49	140
hematopoietic lineage restricted progenitor cell	1.55e-40	124
nongranular leukocyte	3.54e-38	119
myeloid cell	1.25e-27	112
common myeloid progenitor	1.25e-27	112
myeloid leukocyte	4.36e-21	76
lymphocyte	6.61e-21	53
common lymphoid progenitor	6.61e-21	53
lymphoid lineage restricted progenitor cell	9.54e-21	52
granulocyte monocyte progenitor cell	8.62e-19	71
myeloid lineage restricted progenitor cell	2.56e-18	70
CD14-positive, CD16-negative classical monocyte	3.49e-17	42
macrophage dendritic cell progenitor	1.72e-16	65
classical monocyte	6.83e-16	45
monopoietic cell	1.36e-15	63
monocyte	1.36e-15	63
monoblast	1.36e-15	63
promonocyte	1.36e-15	63
mature alpha-beta T cell	1.09e-11	18
alpha-beta T cell	1.09e-11	18
immature T cell	1.09e-11	18
mature T cell	1.09e-11	18
immature alpha-beta T cell	1.09e-11	18
T cell	1.77e-10	25
pro-T cell	1.77e-10	25
lymphocyte of B lineage	8.40e-10	24
pro-B cell	8.40e-10	24
B cell	1.43e-08	14
CD8-positive, alpha-beta T cell	3.53e-08	11
mesenchymal cell	1.68e-07	358
motile cell	8.64e-07	390

Uber Anatomy

Ontology term	p-value	n
hematopoietic system	2.98e-24	102
blood island	2.98e-24	102
hemolymphoid system	6.27e-21	112
bone marrow	1.95e-15	80
bone element	3.82e-13	86
skeletal element	2.75e-10	101
skeletal system	2.75e-10	101
adult organism	7.19e-10	115
immune system	2.20e-08	115
blood	4.84e-08	15
haemolymphatic fluid	4.84e-08	15
organism substance	4.84e-08	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)
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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.