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Coexpression cluster:C531

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Full id: C531_Neutrophils_Eosinophils_large_CD14_rectal_epitheloid_Hep2



Phase1 CAGE Peaks

Hg19::chr11:3818756..3818793,-p1@NUP98
Hg19::chr1:207495013..207495037,+p1@CD55
Hg19::chr1:207495772..207495786,+p7@CD55
Hg19::chr1:207495790..207495803,+p17@CD55
Hg19::chr1:207495844..207495859,+p14@CD55
Hg19::chr1:207497905..207497939,+p3@CD55
Hg19::chr1:207497946..207497958,+p11@CD55
Hg19::chr1:207497988..207498028,+p4@CD55
Hg19::chr1:207498974..207498994,+p9@CD55
Hg19::chr1:207498999..207499011,+p13@CD55
Hg19::chr1:207499012..207499044,+p5@CD55
Hg19::chr1:207500090..207500105,+p6@CD55
Hg19::chr1:207504446..207504457,+p@chr1:207504446..207504457
+
Hg19::chr1:207504490..207504510,+p@chr1:207504490..207504510
+
Hg19::chr1:207504564..207504579,+p@chr1:207504564..207504579
+
Hg19::chr1:207504605..207504622,+p@chr1:207504605..207504622
+
Hg19::chr1:207510129..207510165,-p@chr1:207510129..207510165
-


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:0006999nuclear pore organization and biogenesis0.0122744532210089
GO:0045730respiratory burst0.0122744532210089
GO:0017056structural constituent of nuclear pore0.0190924697548727
GO:0000059protein import into nucleus, docking0.0218419002159206
GO:0006958complement activation, classical pathway0.0218419002159206
GO:0002455humoral immune response mediated by circulating immunoglobulin0.0218419002159206
GO:0006997nuclear organization and biogenesis0.0218419002159206
GO:0006956complement activation0.0218419002159206
GO:0002541activation of plasma proteins during acute inflammatory response0.0218419002159206
GO:0045121lipid raft0.0218419002159206
GO:0016064immunoglobulin mediated immune response0.0218419002159206
GO:0019724B cell mediated immunity0.0218419002159206
GO:0043623cellular protein complex assembly0.0218419002159206
GO:0065002intracellular protein transport across a membrane0.0218419002159206
GO:0051480cytosolic calcium ion homeostasis0.0218419002159206
GO:0007204elevation of cytosolic calcium ion concentration0.0218419002159206
GO:0002253activation of immune response0.0218419002159206
GO:0002449lymphocyte mediated immunity0.0218419002159206
GO:0006959humoral immune response0.0218419002159206
GO:0002250adaptive immune response0.0218419002159206
GO:0002460adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains0.0218419002159206
GO:0002443leukocyte mediated immunity0.0218419002159206
GO:0002526acute inflammatory response0.0218419002159206
GO:0051028mRNA transport0.0218419002159206
GO:0050778positive regulation of immune response0.0218419002159206
GO:0002684positive regulation of immune system process0.0218419002159206
GO:0005643nuclear pore0.0218419002159206
GO:0050658RNA transport0.0218419002159206
GO:0051236establishment of RNA localization0.0218419002159206
GO:0050657nucleic acid transport0.0218419002159206
GO:0006403RNA localization0.0218419002159206
GO:0006606protein import into nucleus0.0218419002159206
GO:0046930pore complex0.0218419002159206
GO:0050776regulation of immune response0.0218419002159206
GO:0051170nuclear import0.0218419002159206
GO:0002682regulation of immune system process0.0218419002159206
GO:0015931nucleobase, nucleoside, nucleotide and nucleic acid transport0.0218419002159206
GO:0051240positive regulation of multicellular organismal process0.0218419002159206
GO:0002252immune effector process0.0218419002159206
GO:0044453nuclear membrane part0.0218419002159206
GO:0045087innate immune response0.0218419002159206
GO:0006874cellular calcium ion homeostasis0.0218419002159206
GO:0055074calcium ion homeostasis0.0218419002159206
GO:0017038protein import0.0218419002159206
GO:0006875cellular metal ion homeostasis0.0218419002159206
GO:0055065metal ion homeostasis0.0218419002159206
GO:0048503GPI anchor binding0.0218976048652095
GO:0031965nuclear membrane0.02547336752759
GO:0006913nucleocytoplasmic transport0.02547336752759
GO:0051169nuclear transport0.02547336752759
GO:0030005cellular di-, tri-valent inorganic cation homeostasis0.0287214589601625
GO:0055066di-, tri-valent inorganic cation homeostasis0.0287214589601625
GO:0005635nuclear envelope0.0298685474727805
GO:0030003cellular cation homeostasis0.0301136843778026
GO:0055080cation homeostasis0.0301136843778026
GO:0006605protein targeting0.0317543212284013
GO:0005625soluble fraction0.0327573563177623
GO:0055082cellular chemical homeostasis0.0327573563177623
GO:0006873cellular ion homeostasis0.0327573563177623
GO:0035091phosphoinositide binding0.0341071295173144
GO:0050801ion homeostasis0.0356780789030172
GO:0051239regulation of multicellular organismal process0.0364119499824043
GO:0006954inflammatory response0.0376372976168732
GO:0048878chemical homeostasis0.0384434488269865
GO:0005543phospholipid binding0.041843015573562
GO:0006461protein complex assembly0.0419455896578316
GO:0006260DNA replication0.0431328841847652
GO:0019725cellular homeostasis0.0448795788258851
GO:0009893positive regulation of metabolic process0.0461053402929223
GO:0009611response to wounding0.0491428245464635



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
classical monocyte5.30e-2442
CD14-positive, CD16-negative classical monocyte5.30e-2442
defensive cell5.79e-2048
phagocyte5.79e-2048
myeloid leukocyte3.74e-1872
granulocyte monocyte progenitor cell1.33e-1567
leukocyte1.69e-15136
myeloid lineage restricted progenitor cell1.78e-1566
myeloid cell2.84e-15108
common myeloid progenitor2.84e-15108
macrophage dendritic cell progenitor5.64e-1561
monopoietic cell6.60e-1459
monocyte6.60e-1459
monoblast6.60e-1459
promonocyte6.60e-1459
hematopoietic stem cell3.04e-13168
angioblastic mesenchymal cell3.04e-13168
hematopoietic oligopotent progenitor cell3.06e-13161
hematopoietic multipotent progenitor cell3.06e-13161
hematopoietic lineage restricted progenitor cell7.77e-13120
hematopoietic cell1.03e-11177
nongranular leukocyte3.16e-11115
stuff accumulating cell1.52e-0787
Uber Anatomy
Ontology termp-valuen
hematopoietic system7.30e-1498
blood island7.30e-1498
hemolymphoid system1.12e-12108
bone marrow2.67e-1176
bone element5.72e-1182
immune system1.13e-0993
skeletal element1.56e-0890
larynx5.35e-089
skeletal system1.12e-07100


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
POLR2A#5430172.147453176558072.27473247069268e-068.12763546037197e-05



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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