Coexpression cluster:C2148

Full id: C2148_Eosinophils_CD4_CD19_Neutrophils_CD14_Basophils_CD14CD16

Phase1 CAGE Peaks

Hg19::chr11:62607111..62607161,+	p@chr11:62607111..62607161 +
Hg19::chr13:98086167..98086226,-	p1@AY726569
Hg19::chr18:19180794..19180824,+	p@chr18:19180794..19180824 +
Hg19::chr4:78741549..78741569,+	p@chr4:78741549..78741569 +

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	1.21e-39	136
hematopoietic cell	3.98e-34	177
hematopoietic stem cell	4.25e-34	168
angioblastic mesenchymal cell	4.25e-34	168
hematopoietic lineage restricted progenitor cell	1.80e-31	120
nongranular leukocyte	1.29e-30	115
hematopoietic oligopotent progenitor cell	1.36e-30	161
hematopoietic multipotent progenitor cell	1.36e-30	161
myeloid leukocyte	8.66e-18	72
nucleate cell	4.20e-17	55
classical monocyte	4.87e-17	42
CD14-positive, CD16-negative classical monocyte	4.87e-17	42
lymphoid lineage restricted progenitor cell	1.22e-16	52
lymphocyte	1.32e-16	53
common lymphoid progenitor	1.32e-16	53
myeloid cell	2.17e-14	108
common myeloid progenitor	2.17e-14	108
granulocyte monocyte progenitor cell	4.81e-14	67
myeloid lineage restricted progenitor cell	6.03e-14	66
macrophage dendritic cell progenitor	1.12e-13	61
defensive cell	1.19e-13	48
phagocyte	1.19e-13	48
monopoietic cell	9.12e-13	59
monocyte	9.12e-13	59
monoblast	9.12e-13	59
promonocyte	9.12e-13	59
mature alpha-beta T cell	1.08e-10	18
alpha-beta T cell	1.08e-10	18
immature T cell	1.08e-10	18
mature T cell	1.08e-10	18
immature alpha-beta T cell	1.08e-10	18
T cell	2.10e-08	25
pro-T cell	2.10e-08	25
B cell	4.64e-08	14
lymphocyte of B lineage	6.03e-08	24
pro-B cell	6.03e-08	24
CD8-positive, alpha-beta T cell	2.59e-07	11
intermediate monocyte	5.94e-07	9
CD14-positive, CD16-positive monocyte	5.94e-07	9

Uber Anatomy

Ontology term	p-value	n
hematopoietic system	1.96e-19	98
blood island	1.96e-19	98
hemolymphoid system	4.20e-18	108
immune system	2.02e-13	93
bone marrow	1.12e-12	76
bone element	9.06e-12	82
skeletal element	3.75e-09	90
adult organism	4.21e-09	114
neural tube	1.76e-07	56
neural rod	1.76e-07	56
future spinal cord	1.76e-07	56
neural keel	1.76e-07	56
regional part of nervous system	2.53e-07	53
regional part of brain	2.53e-07	53
skeletal system	6.40e-07	100

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
CCNT2#905	4	6.33620157696263	0.000620310058721564	0.00511322511624479
FOXA1#3169	3	8.31106481203909	0.00274013818210985	0.015032688532929
GTF2B#2959	2	15.9719149671621	0.00563658572353722	0.0254652150530131
HEY1#23462	4	4.04011104310571	0.0037530463691798	0.0185571636090697
IRF1#3659	3	5.72787281517293	0.00809711479033333	0.0319851193913394
REST#5978	3	7.23752153709602	0.00410469730419261	0.0195686530219825
SIN3A#25942	4	5.40888472681514	0.00116817238488516	0.00794443938953056
TAF1#6872	4	3.34304628574529	0.00800566489870165	0.032128175390236

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.