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Coexpression cluster:C2234

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Full id: C2234_Monocytederived_Dendritic_CD14_Macrophage_CD4_CD14CD16_acute



Phase1 CAGE Peaks

Hg19::chr12:6898674..6898739,+p1@CD4
Hg19::chr12:6898749..6898763,+p2@CD4
Hg19::chr12:6927635..6927648,+p@chr12:6927635..6927648
+
Hg19::chr15:40599895..40599916,-p4@PLCB2


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:0043085positive regulation of catalytic activity0.00280566097991554
GO:0000746conjugation0.00280566097991554
GO:0000747conjugation with cellular fusion0.00280566097991554
GO:0019932second-messenger-mediated signaling0.00280566097991554
GO:0042289MHC class II protein binding0.00745842523517691
GO:0050850positive regulation of calcium-mediated signaling0.00745842523517691
GO:0050790regulation of catalytic activity0.00745842523517691
GO:0001948glycoprotein binding0.00745842523517691
GO:0065009regulation of a molecular function0.00745842523517691
GO:0050848regulation of calcium-mediated signaling0.00745842523517691
GO:0045058T cell selection0.00871738324255253
GO:0045086positive regulation of interleukin-2 biosynthetic process0.00953192220820685
GO:0042101T cell receptor complex0.00953192220820685
GO:0045076regulation of interleukin-2 biosynthetic process0.00953192220820685
GO:0007202phospholipase C activation0.00953192220820685
GO:0015026coreceptor activity0.00953192220820685
GO:0042094interleukin-2 biosynthetic process0.00953192220820685
GO:0001772immunological synapse0.00953192220820685
GO:0050731positive regulation of peptidyl-tyrosine phosphorylation0.00953192220820685
GO:0032623interleukin-2 production0.0110461033008635
GO:0042327positive regulation of phosphorylation0.0110461033008635
GO:0042287MHC protein binding0.0110461033008635
GO:0045937positive regulation of phosphate metabolic process0.0110461033008635
GO:0001934positive regulation of protein amino acid phosphorylation0.0110461033008635
GO:0033240positive regulation of amine metabolic process0.0110461033008635
GO:0045764positive regulation of amino acid metabolic process0.0110461033008635
GO:0050730regulation of peptidyl-tyrosine phosphorylation0.0110461033008635
GO:0019722calcium-mediated signaling0.0128906242346119
GO:0042108positive regulation of cytokine biosynthetic process0.0128906242346119
GO:0050870positive regulation of T cell activation0.0128906242346119
GO:0030217T cell differentiation0.0128906242346119
GO:0018108peptidyl-tyrosine phosphorylation0.0128906242346119
GO:0018212peptidyl-tyrosine modification0.0128906242346119
GO:0001932regulation of protein amino acid phosphorylation0.0128906242346119
GO:0004435phosphoinositide phospholipase C activity0.0128906242346119
GO:0004434inositol or phosphatidylinositol phosphodiesterase activity0.0128906242346119
GO:0033238regulation of amine metabolic process0.0128906242346119
GO:0006521regulation of amino acid metabolic process0.0128906242346119
GO:0009897external side of plasma membrane0.0135761902533257
GO:0051251positive regulation of lymphocyte activation0.0135761902533257
GO:0045727positive regulation of translation0.0137640724414414
GO:0007242intracellular signaling cascade0.0138868445486009
GO:0004629phospholipase C activity0.0138868445486009
GO:0050863regulation of T cell activation0.0138868445486009
GO:0042035regulation of cytokine biosynthetic process0.0138868445486009
GO:0031328positive regulation of cellular biosynthetic process0.0138868445486009
GO:0042325regulation of phosphorylation0.0140594504035753
GO:0030098lymphocyte differentiation0.0140594504035753
GO:0042089cytokine biosynthetic process0.0140594504035753
GO:0042107cytokine metabolic process0.0140594504035753
GO:0051174regulation of phosphorus metabolic process0.0140594504035753
GO:0019220regulation of phosphate metabolic process0.0140594504035753
GO:0009891positive regulation of biosynthetic process0.0140594504035753
GO:0051345positive regulation of hydrolase activity0.0147081714237988
GO:0051249regulation of lymphocyte activation0.0147081714237988
GO:0050865regulation of cell activation0.0152049201089264
GO:0019901protein kinase binding0.0154976632607284
GO:0051247positive regulation of protein metabolic process0.0155970015631685
GO:0007166cell surface receptor linked signal transduction0.015608544421815
GO:0007200G-protein signaling, coupled to IP3 second messenger (phospholipase C activating)0.015608544421815
GO:0002521leukocyte differentiation0.0157011280879805
GO:0042110T cell activation0.0167207294086174
GO:0019900kinase binding0.0167207294086174
GO:0043235receptor complex0.0182853325870361
GO:0001816cytokine production0.0184942205328129
GO:0004620phospholipase activity0.0191794236901238
GO:0018193peptidyl-amino acid modification0.0192101293103155
GO:0005201extracellular matrix structural constituent0.0192399133725936
GO:0048015phosphoinositide-mediated signaling0.0198842451852989
GO:0008081phosphoric diester hydrolase activity0.0207059383359219
GO:0045860positive regulation of protein kinase activity0.0207059383359219
GO:0016298lipase activity0.0207059383359219
GO:0033674positive regulation of kinase activity0.0207059383359219
GO:0016042lipid catabolic process0.0207059383359219
GO:0051347positive regulation of transferase activity0.0207059383359219
GO:0009986cell surface0.0207059383359219
GO:0009967positive regulation of signal transduction0.0211259120621586
GO:0046649lymphocyte activation0.0211270589636876
GO:0042803protein homodimerization activity0.0212624215466013
GO:0030097hemopoiesis0.0213943647765682
GO:0048534hemopoietic or lymphoid organ development0.0227011416197799
GO:0045321leukocyte activation0.023278481821903
GO:0002520immune system development0.023278481821903
GO:0006417regulation of translation0.023278481821903
GO:0004091carboxylesterase activity0.0233786574867989
GO:0031326regulation of cellular biosynthetic process0.0245375569140324
GO:0004871signal transducer activity0.0245375569140324
GO:0060089molecular transducer activity0.0245375569140324
GO:0001775cell activation0.0247871288886715
GO:0007169transmembrane receptor protein tyrosine kinase signaling pathway0.0247871288886715
GO:0006644phospholipid metabolic process0.0250539646838414
GO:0009889regulation of biosynthetic process0.0250539646838414
GO:0045859regulation of protein kinase activity0.0270608654844422
GO:0043549regulation of kinase activity0.0273357959594244
GO:0051338regulation of transferase activity0.0276048558785031
GO:0006643membrane lipid metabolic process0.0300711054365039
GO:0051239regulation of multicellular organismal process0.0303059335980524
GO:0007167enzyme linked receptor protein signaling pathway0.0324763465972865
GO:0019899enzyme binding0.0325660750257327
GO:0051336regulation of hydrolase activity0.0325660750257327
GO:0019953sexual reproduction0.0330799505842489
GO:0051704multi-organism process0.0346181715556092
GO:0042802identical protein binding0.0369436518033426
GO:0031325positive regulation of cellular metabolic process0.0369436518033426
GO:0046983protein dimerization activity0.0369436518033426
GO:0009893positive regulation of metabolic process0.0387476195252912
GO:0007165signal transduction0.0387476195252912
GO:0051246regulation of protein metabolic process0.0413786854225017
GO:0007154cell communication0.0444727613318158
GO:0006520amino acid metabolic process0.0455972927344681



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 cell8.31e-56168
angioblastic mesenchymal cell8.31e-56168
hematopoietic cell3.41e-54177
hematopoietic oligopotent progenitor cell5.60e-51161
hematopoietic multipotent progenitor cell5.60e-51161
leukocyte1.65e-50136
myeloid cell1.68e-49108
common myeloid progenitor1.68e-49108
myeloid leukocyte3.01e-4672
granulocyte monocyte progenitor cell3.53e-4467
myeloid lineage restricted progenitor cell1.09e-4166
macrophage dendritic cell progenitor1.24e-4161
hematopoietic lineage restricted progenitor cell4.06e-41120
monopoietic cell2.02e-4059
monocyte2.02e-4059
monoblast2.02e-4059
promonocyte2.02e-4059
nongranular leukocyte2.92e-40115
defensive cell6.39e-3648
phagocyte6.39e-3648
classical monocyte2.64e-3142
CD14-positive, CD16-negative classical monocyte2.64e-3142
stuff accumulating cell3.07e-1487
T cell5.82e-0925
pro-T cell5.82e-0925
mesenchymal cell2.44e-08354
intermediate monocyte2.66e-089
CD14-positive, CD16-positive monocyte2.66e-089
mature alpha-beta T cell3.29e-0818
alpha-beta T cell3.29e-0818
immature T cell3.29e-0818
mature T cell3.29e-0818
immature alpha-beta T cell3.29e-0818
connective tissue cell1.92e-07361
Uber Anatomy
Ontology termp-valuen
hematopoietic system1.21e-5198
blood island1.21e-5198
hemolymphoid system1.17e-45108
bone marrow5.23e-3976
immune system4.67e-3593
bone element9.05e-3482
skeletal element5.70e-2890
skeletal system9.83e-25100
adult organism2.36e-21114
lateral plate mesoderm1.29e-14203
blood1.65e-1115
haemolymphatic fluid1.65e-1115
organism substance1.65e-1115
musculoskeletal system5.96e-08167
connective tissue9.68e-07371
Disease
Ontology termp-valuen
leukemia6.08e-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)
MA0003.10.233555
MA0004.10.71247
MA0006.10.532262
MA0007.10.6918
MA0009.11.20602
MA0014.10.524262
MA0017.10.577281
MA0019.10.873355
MA0024.11.09684
MA0025.11.34373
MA0027.12.83281
MA0028.10.550763
MA0029.11.11704
MA0030.11.10506
MA0031.11.03735
MA0038.10.824639
MA0040.11.12314
MA0041.10.732902
MA0042.10.697662
MA0043.11.20635
MA0046.11.19471
MA0048.10.25531
MA0050.10.69864
MA0051.10.820063
MA0052.11.12718
MA0055.10.396851
MA0056.10
MA0057.10.69331
MA0058.10.605914
MA0059.10.604454
MA0060.10.393285
MA0061.10.360128
MA0063.10
MA0066.10.825101
MA0067.11.53181
MA0068.10.313194
MA0069.11.19071
MA0070.11.17908
MA0071.10.782546
MA0072.11.1744
MA0073.10.599068
MA0074.10.819248
MA0076.10.623864
MA0077.11.16637
MA0078.10.926725
MA0081.10.604638
MA0083.11.21381
MA0084.11.72172
MA0087.11.17185
MA0088.10.536981
MA0089.10
MA0090.10.640115
MA0091.11.70187
MA0092.10.673508
MA0093.10.535768
MA0095.10
MA0098.10
MA0100.10.83965
MA0101.10.539569
MA0103.10.521546
MA0105.10.232357
MA0106.10.869173
MA0107.10.453492
MA0108.21.03412
MA0109.10
MA0111.10.655276
MA0113.10.886811
MA0114.10.447443
MA0115.11.45393
MA0116.12.9994
MA0117.11.24497
MA0119.10.586221
MA0122.11.27173
MA0124.11.41151
MA0125.11.32534
MA0130.10
MA0131.10.94608
MA0132.10
MA0133.10
MA0135.11.23748
MA0136.10.832277
MA0139.10.344952
MA0140.10.779643
MA0141.10.602484
MA0142.11.00381
MA0143.10.887001
MA0144.10.430413
MA0145.11.08195
MA0146.11.25938
MA0147.10.46175
MA0148.10.739888
MA0149.11.813
MA0062.20.353589
MA0035.20.778873
MA0039.21.13403
MA0138.20.928035
MA0002.20.98779
MA0137.20.558189
MA0104.20.392359
MA0047.20.856092
MA0112.20.187982
MA0065.20.577908
MA0150.10.633493
MA0151.10
MA0152.10.78681
MA0153.11.30799
MA0154.10.649108
MA0155.11.61785
MA0156.10.560797
MA0157.10.97481
MA0158.10
MA0159.10.462502
MA0160.10.756582
MA0161.10
MA0162.10.0928415
MA0163.11.37853
MA0164.10.90014
MA0080.20.535868
MA0018.20.870662
MA0099.20.7872
MA0079.21.38179
MA0102.21.75932
MA0258.10.418966
MA0259.10.471671
MA0442.10



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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