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Coexpression cluster:C2224

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Full id: C2224_Natural_Neutrophils_Eosinophils_Basophils_CD8_acute_NK



Phase1 CAGE Peaks

Hg19::chr12:57873329..57873429,-p2@ARHGAP9
Hg19::chr2:103035024..103035052,+p4@IL18RAP
Hg19::chr2:103035056..103035093,+p3@IL18RAP
Hg19::chr2:103035102..103035117,+p2@IL18RAP


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


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


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>disease_data<br>


Cell Type
Ontology termp-valuen
hematopoietic stem cell5.68e-67172
angioblastic mesenchymal cell5.68e-67172
hematopoietic cell8.82e-63182
hematopoietic oligopotent progenitor cell2.76e-62165
hematopoietic multipotent progenitor cell2.76e-62165
leukocyte3.90e-59140
hematopoietic lineage restricted progenitor cell7.02e-48124
nongranular leukocyte2.30e-45119
myeloid cell2.32e-34112
common myeloid progenitor2.32e-34112
myeloid leukocyte1.66e-2676
lymphocyte7.57e-2553
common lymphoid progenitor7.57e-2553
lymphoid lineage restricted progenitor cell1.12e-2452
granulocyte monocyte progenitor cell3.87e-2271
myeloid lineage restricted progenitor cell4.16e-2170
CD14-positive, CD16-negative classical monocyte2.99e-2042
macrophage dendritic cell progenitor5.45e-1965
monopoietic cell7.54e-1863
monocyte7.54e-1863
monoblast7.54e-1863
promonocyte7.54e-1863
classical monocyte1.05e-1745
T cell1.89e-1425
pro-T cell1.89e-1425
mature alpha-beta T cell3.16e-1418
alpha-beta T cell3.16e-1418
immature T cell3.16e-1418
mature T cell3.16e-1418
immature alpha-beta T cell3.16e-1418
CD8-positive, alpha-beta T cell7.28e-1011
lymphocyte of B lineage2.76e-0924
pro-B cell2.76e-0924
mesenchymal cell4.04e-09358
granulocyte2.71e-088
connective tissue cell3.87e-08365
Uber Anatomy
Ontology termp-valuen
adult organism4.33e-31115
hematopoietic system1.59e-29102
blood island1.59e-29102
hemolymphoid system4.85e-26112
bone marrow1.91e-1880
bone element1.69e-1586
immune system8.21e-15115
skeletal element5.88e-11101
skeletal system5.88e-11101
blood2.40e-0915
haemolymphatic fluid2.40e-0915
organism substance2.40e-0915
neural tube9.05e-0857
neural rod9.05e-0857
future spinal cord9.05e-0857
neural keel9.05e-0857
connective tissue1.15e-07375
anterior neural tube9.67e-0742
Disease
Ontology termp-valuen
hematologic cancer4.06e-0951
immune system cancer4.06e-0951
leukemia4.25e-0739


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


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


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


This analysis result is provided for C0 - C305 clusters.