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Coexpression cluster:C739

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Full id: C739_granulocyte_CD34_CD19_CD14CD16_CD4_Mesothelial_Dendritic



Phase1 CAGE Peaks

Hg19::chr11:5248320..5248322,+p@chr11:5248320..5248322
+
Hg19::chr15:39872100..39872101,-p@chr15:39872100..39872101
-
Hg19::chr17:37864788..37864790,-p@chr17:37864788..37864790
-
Hg19::chr17:7145967..7145970,+p@chr17:7145967..7145970
+
Hg19::chr19:39786962..39786965,+p2@IL29
Hg19::chr19:39786984..39786986,-p@chr19:39786984..39786986
-
Hg19::chr1:36786251..36786257,+p12@SH3D21
Hg19::chr20:62243927..62243929,+p@chr20:62243927..62243929
+
Hg19::chr21:34143971..34143983,-p8@GCFC1
Hg19::chr6:111580680..111580691,+p3@KIAA1919
Hg19::chr8:104151242..104151262,+p@chr8:104151242..104151262
+


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:0032003interleukin-28 receptor binding0.00426815806625265
GO:0045345positive regulation of MHC class I biosynthetic process0.00426815806625265
GO:0045341MHC class I biosynthetic process0.00426815806625265
GO:0045343regulation of MHC class I biosynthetic process0.00426815806625265
GO:0032002interleukin-28 receptor complex0.00512171429365841
GO:0046427positive regulation of JAK-STAT cascade0.00853568791713221
GO:0042531positive regulation of tyrosine phosphorylation of STAT protein0.00853568791713221
GO:0042509regulation of tyrosine phosphorylation of STAT protein0.0128014587649671
GO:0046425regulation of JAK-STAT cascade0.0128014587649671
GO:0051607defense response to virus0.0128014587649671
GO:0050731positive regulation of peptidyl-tyrosine phosphorylation0.0128014587649671
GO:0007260tyrosine phosphorylation of STAT protein0.0128014587649671
GO:0042327positive regulation of phosphorylation0.013273632419546
GO:0045937positive regulation of phosphate metabolic process0.013273632419546
GO:0001934positive regulation of protein amino acid phosphorylation0.013273632419546
GO:0033240positive regulation of amine metabolic process0.013273632419546
GO:0045764positive regulation of amino acid metabolic process0.013273632419546
GO:0050730regulation of peptidyl-tyrosine phosphorylation0.013273632419546
GO:0007259JAK-STAT cascade0.0163506766880092
GO:0018108peptidyl-tyrosine phosphorylation0.0163506766880092
GO:0018212peptidyl-tyrosine modification0.0163506766880092
GO:0001932regulation of protein amino acid phosphorylation0.0163506766880092
GO:0033238regulation of amine metabolic process0.0163506766880092
GO:0006521regulation of amino acid metabolic process0.0163506766880092
GO:0045727positive regulation of translation0.0180834056716837
GO:0031328positive regulation of cellular biosynthetic process0.0192562602658128
GO:0042325regulation of phosphorylation0.0192562602658128
GO:0016324apical plasma membrane0.0192562602658128
GO:0051174regulation of phosphorus metabolic process0.0192562602658128
GO:0019220regulation of phosphate metabolic process0.0192562602658128
GO:0009891positive regulation of biosynthetic process0.0192562602658128
GO:0044459plasma membrane part0.0198232630492858
GO:0050778positive regulation of immune response0.0198232630492858
GO:0051247positive regulation of protein metabolic process0.0198232630492858
GO:0045177apical part of cell0.0198232630492858
GO:0002684positive regulation of immune system process0.0198232630492858
GO:0005351sugar:hydrogen ion symporter activity0.0198232630492858
GO:0051119sugar transmembrane transporter activity0.0198232630492858
GO:0031402sodium ion binding0.0198232630492858
GO:0015144carbohydrate transmembrane transporter activity0.0198232630492858
GO:0050776regulation of immune response0.0198232630492858
GO:0009615response to virus0.0198232630492858
GO:0002682regulation of immune system process0.0198232630492858
GO:0051240positive regulation of multicellular organismal process0.020127892237198
GO:0043235receptor complex0.020127892237198
GO:0002252immune effector process0.020127892237198
GO:0008643carbohydrate transport0.020127892237198
GO:0018193peptidyl-amino acid modification0.0214809399458696
GO:0009967positive regulation of signal transduction0.0265949721698051
GO:0006814sodium ion transport0.0294613158369408
GO:0006417regulation of translation0.0307151888842789
GO:0031326regulation of cellular biosynthetic process0.0325731024021994
GO:0051707response to other organism0.0330792660137437
GO:0005886plasma membrane0.0335730676928623
GO:0009889regulation of biosynthetic process0.0335730676928623
GO:0031420alkali metal ion binding0.0335853857639441
GO:0008285negative regulation of cell proliferation0.0335853857639441
GO:0015293symporter activity0.0354912267981477
GO:0051239regulation of multicellular organismal process0.0395320354538901
GO:0045941positive regulation of transcription0.0395320354538901
GO:0045935positive regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.039622163689615
GO:0009607response to biotic stimulus0.039622163689615
GO:0005125cytokine activity0.041813676195433
GO:0051704multi-organism process0.0441991330548567
GO:0015291secondary active transmembrane transporter activity0.0469561865029264
GO:0031325positive regulation of cellular metabolic process0.0469561865029264
GO:0007243protein kinase cascade0.0476415885686142
GO:0009893positive regulation of metabolic process0.0488027856147575



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
leukocyte2.07e-34140
hematopoietic stem cell8.88e-33172
angioblastic mesenchymal cell8.88e-33172
hematopoietic oligopotent progenitor cell2.20e-29165
hematopoietic multipotent progenitor cell2.20e-29165
hematopoietic cell3.93e-29182
hematopoietic lineage restricted progenitor cell1.18e-27124
nongranular leukocyte1.91e-26119
myeloid leukocyte2.13e-1976
CD14-positive, CD16-negative classical monocyte1.46e-1842
classical monocyte1.11e-1745
granulocyte monocyte progenitor cell3.52e-1771
myeloid cell3.64e-17112
common myeloid progenitor3.64e-17112
macrophage dendritic cell progenitor9.00e-1565
myeloid lineage restricted progenitor cell1.86e-1470
monopoietic cell7.09e-1463
monocyte7.09e-1463
monoblast7.09e-1463
promonocyte7.09e-1463
lymphoid lineage restricted progenitor cell2.86e-1252
lymphocyte1.15e-1153
common lymphoid progenitor1.15e-1153
mature alpha-beta T cell1.09e-0818
alpha-beta T cell1.09e-0818
immature T cell1.09e-0818
mature T cell1.09e-0818
immature alpha-beta T cell1.09e-0818
CD8-positive, alpha-beta T cell1.62e-0711
B cell5.72e-0714
T cell8.36e-0725
pro-T cell8.36e-0725
Uber Anatomy
Ontology termp-valuen
hematopoietic system8.23e-17102
blood island8.23e-17102
bone element5.66e-1686
bone marrow7.59e-1680
neural tube8.03e-1657
neural rod8.03e-1657
future spinal cord8.03e-1657
neural keel8.03e-1657
regional part of forebrain1.82e-1441
forebrain1.82e-1441
future forebrain1.82e-1441
hemolymphoid system5.04e-14112
anterior neural tube1.10e-1342
skeletal element1.17e-12101
skeletal system1.17e-12101
central nervous system4.97e-1282
regional part of brain5.01e-1259
adult organism7.13e-12115
gray matter1.04e-1134
brain grey matter1.04e-1134
telencephalon1.58e-1134
brain3.99e-1169
future brain3.99e-1169
regional part of telencephalon4.39e-1133
cerebral hemisphere1.54e-1032
regional part of nervous system7.86e-1094
nervous system7.86e-1094
immune system5.73e-09115
neural plate1.11e-0786
presumptive neural plate1.11e-0786
neurectoderm2.76e-0790
regional part of cerebral cortex3.34e-0722
cerebral cortex3.53e-0725
pallium3.53e-0725
pre-chordal neural plate8.79e-0761


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.

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