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Coexpression cluster:C498

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Full id: C498_Eosinophils_Neutrophils_CD19_Burkitt_diffuse_lymphoma_CD14



Phase1 CAGE Peaks

Hg19::chr12:40618919..40618928,+p9@LRRK2
Hg19::chr13:46960645..46960658,-p@chr13:46960645..46960658
-
Hg19::chr13:46961337..46961359,-p2@KIAA0226L
Hg19::chr13:46961366..46961394,-p1@KIAA0226L
Hg19::chr13:46961530..46961558,-p6@KIAA0226L
Hg19::chr13:46961580..46961620,-p4@KIAA0226L
Hg19::chr13:46961859..46961883,-p5@KIAA0226L
Hg19::chr14:69152139..69152172,-p1@ENST00000556919
Hg19::chr14:69152180..69152191,-p3@ENST00000556919
Hg19::chr16:27325202..27325307,+p1@IL4R
Hg19::chr16:81772633..81772676,+p1@uc002fgs.2
Hg19::chr16:81812884..81812907,+p1@PLCG2
Hg19::chr16:81812917..81812933,+p2@PLCG2
Hg19::chr1:226862756..226862831,-p1@ITPKB-IT1
Hg19::chr1:244212954..244212968,-p@chr1:244212954..244212968
-
Hg19::chr2:69001969..69001981,+p8@ARHGAP25
Hg19::chr3:151923200..151923235,-p@chr3:151923200..151923235
-
Hg19::chr5:56111170..56111185,+p9@MAP3K1
Hg19::chr5:56111207..56111219,+p3@MAP3K1


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

GO IDGO nameFDR corrected p-value
GO:0005057receptor signaling protein activity0.00883028193442909
GO:0004913interleukin-4 receptor activity0.00883028193442909
GO:0019979interleukin-4 binding0.00883028193442909
GO:0005096GTPase activator activity0.0230670501762326
GO:0008047enzyme activator activity0.0313681190628453
GO:0007165signal transduction0.0340275895393832
GO:0004709MAP kinase kinase kinase activity0.0340275895393832
GO:0007154cell communication0.0350460138096726
GO:0004674protein serine/threonine kinase activity0.0366141190724578
GO:0030695GTPase regulator activity0.0366141190724578
GO:0004907interleukin receptor activity0.0408633383501864
GO:0019965interleukin binding0.0424669262345909
GO:0004435phosphoinositide phospholipase C activity0.0424669262345909
GO:0004434inositol or phosphatidylinositol phosphodiesterase activity0.0424669262345909
GO:0004629phospholipase C activity0.0483525701900892
GO:0004896hematopoietin/interferon-class (D200-domain) cytokine receptor activity0.0483525701900892
GO:0004672protein kinase activity0.0483525701900892
GO:0060089molecular transducer activity0.0483525701900892
GO:0004871signal transducer activity0.0483525701900892
GO:0006468protein amino acid phosphorylation0.0483525701900892
GO:0004702receptor signaling protein serine/threonine kinase activity0.0483525701900892



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>

Cell Type
Ontology termp-valuen
hematopoietic stem cell2.41e-57172
angioblastic mesenchymal cell2.41e-57172
leukocyte2.62e-57140
hematopoietic oligopotent progenitor cell3.33e-53165
hematopoietic multipotent progenitor cell3.33e-53165
hematopoietic cell8.03e-53182
nongranular leukocyte6.82e-45119
hematopoietic lineage restricted progenitor cell1.20e-44124
myeloid cell1.54e-32112
common myeloid progenitor1.54e-32112
myeloid leukocyte1.66e-3176
granulocyte monocyte progenitor cell1.04e-2771
myeloid lineage restricted progenitor cell3.64e-2570
macrophage dendritic cell progenitor4.93e-2565
monopoietic cell3.67e-2463
monocyte3.67e-2463
monoblast3.67e-2463
promonocyte3.67e-2463
CD14-positive, CD16-negative classical monocyte1.87e-2342
classical monocyte3.90e-2045
lymphocyte5.30e-1853
common lymphoid progenitor5.30e-1853
lymphoid lineage restricted progenitor cell1.87e-1752
lymphocyte of B lineage2.50e-1324
pro-B cell2.50e-1324
B cell4.68e-1014
mature alpha-beta T cell7.01e-0718
alpha-beta T cell7.01e-0718
immature T cell7.01e-0718
mature T cell7.01e-0718
immature alpha-beta T cell7.01e-0718
Uber Anatomy
Ontology termp-valuen
hemolymphoid system3.25e-33112
hematopoietic system6.28e-33102
blood island6.28e-33102
bone marrow2.01e-2380
bone element1.42e-2086
immune system2.00e-20115
adult organism4.26e-18115
skeletal element2.49e-14101
skeletal system2.49e-14101
lateral plate mesoderm1.70e-08216
blood8.41e-0815
haemolymphatic fluid8.41e-0815
organism substance8.41e-0815


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

(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
BCL11A#5333545.972516863917280.003908395706998390.0190502141803894
E2F1#1869102.582836428883860.001833465379831270.0108527142827136
EGR1#1958123.150428901985355.09805837530452e-050.000868432749402102
PAX5#5079103.510297647988330.0001428322480886820.00185977523477545
POLR2A#5430182.034429325160281.12471092130166e-050.00028768964954647
TCF12#693863.358252074374660.006372198822808370.0277444479449403
ZEB1#693565.333189058171740.000596417434372540.00499152499626842



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.

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