Coexpression cluster:C3687

Full id: C3687_Pericytes_Burkitt_NK_hereditary_hepatocellular_B_hairy

Phase1 CAGE Peaks

Hg19::chr17:75446607..75446628,+	p27@SEPT9
Hg19::chr17:75446629..75446671,+	p10@SEPT9
Hg19::chr17:75446672..75446686,+	p18@SEPT9

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
nongranular leukocyte	2.21e-30	115
leukocyte	3.06e-28	136
hematopoietic lineage restricted progenitor cell	7.56e-26	120
hematopoietic cell	3.87e-23	177
hematopoietic stem cell	3.65e-20	168
angioblastic mesenchymal cell	3.65e-20	168
lymphocyte	4.42e-20	53
common lymphoid progenitor	4.42e-20	53
lymphoid lineage restricted progenitor cell	1.63e-19	52
nucleate cell	1.62e-18	55
hematopoietic oligopotent progenitor cell	2.21e-18	161
hematopoietic multipotent progenitor cell	2.21e-18	161
classical monocyte	1.19e-11	42
CD14-positive, CD16-negative classical monocyte	1.19e-11	42
defensive cell	2.12e-11	48
phagocyte	2.12e-11	48
lymphocyte of B lineage	2.23e-11	24
pro-B cell	2.23e-11	24
monopoietic cell	4.33e-10	59
monocyte	4.33e-10	59
monoblast	4.33e-10	59
promonocyte	4.33e-10	59
T cell	1.69e-09	25
pro-T cell	1.69e-09	25
myeloid lineage restricted progenitor cell	2.83e-09	66
macrophage dendritic cell progenitor	3.12e-09	61
myeloid leukocyte	4.01e-09	72
granulocyte monocyte progenitor cell	6.85e-09	67
mature alpha-beta T cell	1.82e-08	18
alpha-beta T cell	1.82e-08	18
immature T cell	1.82e-08	18
mature T cell	1.82e-08	18
immature alpha-beta T cell	1.82e-08	18
melanocyte	1.92e-07	10
melanoblast	1.92e-07	10
intermediate monocyte	3.74e-07	9
CD14-positive, CD16-positive monocyte	3.74e-07	9
stuff accumulating cell	5.72e-07	87

Uber Anatomy

Ontology term	p-value	n
hematopoietic system	2.72e-14	98
blood island	2.72e-14	98
hemolymphoid system	1.63e-13	108
immune system	1.85e-09	93
bone marrow	2.46e-07	76

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	3	8.906466846569	0.0014152328356098	0.00914581412773048
EGR1#1958	3	4.98817909481014	0.00805648813738344	0.0320366876553529
FOS#2353	3	8.9979553088944	0.00137249927241713	0.00897067723336708
FOSL1#8061	3	39.713579716373	1.59554825631833e-05	0.000370964969594012
FOSL2#2355	3	16.9302006045617	0.000206016205317162	0.00242900501999538
HDAC2#3066	3	13.4156202366263	0.000414076139985721	0.00391045284238798
HNF4A#3172	3	23.1322903629537	8.07584663437677e-05	0.0012277050169544
HNF4G#3174	3	28.7534225264468	4.20470658818262e-05	0.000756477780126106
IRF1#3659	3	7.6371637535639	0.00224469274729724	0.0127958880975371
JUN#3725	3	12.5128291923363	0.000510331399272625	0.00443932208967464
JUNB#3726	3	30.6106326598211	3.4847716247536e-05	0.000680145886222466
JUND#3727	3	6.99466394187103	0.00292184504273499	0.0156618032446212
NR2C2#7182	3	32.6146109052409	2.88098172333076e-05	0.000604797688850134
SIN3A#25942	3	5.40888472681514	0.00631896197799152	0.027641720210239
ZBTB7A#51341	3	7.3519093078759	0.00251625586028227	0.014006035590898

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.