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Coexpression cluster:C1611

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Full id: C1611_Renal_Hepatic_Eosinophils_Endothelial_CD14_heart_Neutrophils



Phase1 CAGE Peaks

  Short description
Hg19::chr11:118481103..118481145,+ p5@PHLDB1
Hg19::chr17:1549011..1549032,- p1@SCARF1
Hg19::chr20:23066953..23066974,- p1@CD93
Hg19::chr20:23066988..23066999,- p3@CD93
Hg19::chr3:119813131..119813152,- p3@GSK3B


Enriched pathways on this co-expression clusterSummary:
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.
Analyst: Emmanuel Dimont

link to source dataset
data


No results for this coexpression

Enriched Gene Ontology terms on this co-expression clusterSummary: 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.
Analyst: Erik Arner

link to source dataset
data


GO IDGO nameFDR corrected p-value
GO:0004696glycogen synthase kinase 3 activity0.00409951773641881
GO:0046827positive regulation of protein export from nucleus0.00409951773641881
GO:0010324membrane invagination0.00409951773641881
GO:0006897endocytosis0.00409951773641881
GO:0001849complement component C1q binding0.00445576494695808
GO:0016044membrane organization and biogenesis0.00445576494695808
GO:0001846opsonin binding0.00445576494695808
GO:0046825regulation of protein export from nucleus0.00445576494695808
GO:0002039p53 binding0.00445576494695808
GO:0030877beta-catenin destruction complex0.00445576494695808
GO:0050321tau-protein kinase activity0.00445576494695808
GO:0006983ER overload response0.00445576494695808
GO:0045192low-density lipoprotein catabolic process0.00445576494695808
GO:0060070Wnt receptor signaling pathway through beta-catenin0.00517171777955849
GO:0001848complement binding0.00543014381110518
GO:0042159lipoprotein catabolic process0.00543014381110518
GO:0042116macrophage activation0.0069243814818691
GO:0046824positive regulation of nucleocytoplasmic transport0.0069243814818691
GO:0018209peptidyl-serine modification0.0069243814818691
GO:0018105peptidyl-serine phosphorylation0.0069243814818691
GO:0016043cellular component organization and biogenesis0.0069243814818691
GO:0016192vesicle-mediated transport0.0069243814818691
GO:0051222positive regulation of protein transport0.0069243814818691
GO:0006611protein export from nucleus0.00844490121160652
GO:0033554cellular response to stress0.00926471749863026
GO:0030169low-density lipoprotein binding0.00946487743275784
GO:0051059NF-kappaB binding0.00965017914071661
GO:0006810transport0.00980772946980233
GO:0051234establishment of localization0.0101317931421153
GO:0006984ER-nuclear signaling pathway0.0101317931421153
GO:0051716cellular response to stimulus0.0110433382966838
GO:0051179localization0.0110433382966838
GO:0022610biological adhesion0.0110433382966838
GO:0007155cell adhesion0.0110433382966838
GO:0002274myeloid leukocyte activation0.0110433382966838
GO:0051223regulation of protein transport0.0110433382966838
GO:0046822regulation of nucleocytoplasmic transport0.0110433382966838
GO:0008034lipoprotein binding0.0110433382966838
GO:0051050positive regulation of transport0.0140958045221106
GO:0006909phagocytosis0.0144654687403195
GO:0006898receptor-mediated endocytosis0.0144654687403195
GO:0006950response to stress0.0147825226066546
GO:0051168nuclear export0.0148005673400166
GO:0005977glycogen metabolic process0.0154266528202848
GO:0006073glucan metabolic process0.0154266528202848
GO:0006112energy reserve metabolic process0.0172885394330931
GO:0042157lipoprotein metabolic process0.0252825281241136
GO:0044264cellular polysaccharide metabolic process0.0252825281241136
GO:0005976polysaccharide metabolic process0.0253547441008835
GO:0007596blood coagulation0.0288789978975099
GO:0050817coagulation0.0288789978975099
GO:0007599hemostasis0.0291541032241128
GO:0051049regulation of transport0.0299617073999914
GO:0015980energy derivation by oxidation of organic compounds0.0312717550240248
GO:0018193peptidyl-amino acid modification0.0317491159829751
GO:0050878regulation of body fluid levels0.0322091855854129
GO:0042060wound healing0.0331571654041858
GO:0016055Wnt receptor signaling pathway0.0360530277052107
GO:0006913nucleocytoplasmic transport0.0374829917162732
GO:0051169nuclear transport0.0374829917162732
GO:0045321leukocyte activation0.0425105027103473
GO:0001775cell activation0.0484713101515121
GO:0005515protein binding0.0484713101515121
GO:0006605protein targeting0.0490166176015429



Enriched sample ontology terms on this co-expression clusterSummary: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. Analyst: Hideya Kawaji

links to source dataset

cell_data
uberon_data


Cell Type
Ontology termp-valuen
myeloid leukocyte1.94e-2872
classical monocyte8.66e-2842
CD14-positive, CD16-negative classical monocyte8.66e-2842
defensive cell2.95e-2548
phagocyte2.95e-2548
monopoietic cell2.69e-2459
monocyte2.69e-2459
monoblast2.69e-2459
promonocyte2.69e-2459
macrophage dendritic cell progenitor9.51e-2461
endothelial cell1.26e-2336
granulocyte monocyte progenitor cell2.21e-2367
endothelial cell of vascular tree5.35e-2224
myeloid lineage restricted progenitor cell7.48e-2266
myeloid cell8.78e-21108
common myeloid progenitor8.78e-21108
blood vessel endothelial cell5.63e-1718
embryonic blood vessel endothelial progenitor cell5.63e-1718
meso-epithelial cell7.27e-1745
leukocyte5.13e-12136
hematopoietic stem cell2.75e-11168
angioblastic mesenchymal cell2.75e-11168
hematopoietic oligopotent progenitor cell4.51e-10161
hematopoietic multipotent progenitor cell4.51e-10161
stuff accumulating cell8.49e-1087
nongranular leukocyte1.55e-09115
hematopoietic cell1.77e-09177
endothelial cell of artery2.18e-099
lining cell2.24e-0958
barrier cell2.24e-0958
hematopoietic lineage restricted progenitor cell2.48e-08120
vein endothelial cell6.62e-076
granulocyte6.96e-078
aortic endothelial cell8.63e-076
Uber Anatomy
Ontology termp-valuen
adult organism1.13e-41114
hemolymphoid system3.21e-28108
lateral plate mesoderm2.17e-27203
hematopoietic system3.40e-2498
blood island3.40e-2498
immune system8.89e-2493
bone marrow7.15e-1976
blood vessel endothelium5.63e-1718
endothelium5.63e-1718
cardiovascular system endothelium5.63e-1718
bone element5.21e-1682
skeletal element7.00e-1390
simple squamous epithelium2.32e-1222
mesoderm2.72e-11315
mesoderm-derived structure2.72e-11315
presumptive mesoderm2.72e-11315
circulatory system1.84e-10112
neural tube2.06e-1056
neural rod2.06e-1056
future spinal cord2.06e-1056
neural keel2.06e-1056
skeletal system2.42e-10100
squamous epithelium6.16e-1025
tube1.97e-09192
endothelial tube2.18e-099
arterial system endothelium2.18e-099
endothelium of artery2.18e-099
regional part of nervous system2.50e-0953
regional part of brain2.50e-0953
cardiovascular system2.58e-09109
anatomical conduit4.23e-09240
regional part of forebrain1.34e-0841
forebrain1.34e-0841
anterior neural tube1.34e-0841
future forebrain1.34e-0841
germ layer5.84e-08560
germ layer / neural crest5.84e-08560
embryonic tissue5.84e-08560
presumptive structure5.84e-08560
germ layer / neural crest derived structure5.84e-08560
epiblast (generic)5.84e-08560
embryonic structure6.01e-08564
brain grey matter2.63e-0734
gray matter2.63e-0734
vessel2.71e-0768
telencephalon3.07e-0734
anatomical system3.08e-07624
developing anatomical structure3.77e-07581
anatomical group3.89e-07625
embryo5.17e-07592
regional part of cerebral cortex6.00e-0722
cerebral hemisphere9.26e-0732


Overrepresented TFBS (DNA) motifs on this co-expression clusterSummary: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. Analyst: Michiel de Hoon

link to source data
Novel motifs
data

Jaspar motifs
data


Novel motifs



JASPAR motifs

Motifs-log10(p-value)
MA0003.10.737422
MA0004.10.626788
MA0006.10.452993
MA0007.10.606704
MA0009.11.11255
MA0014.11.02528
MA0017.10.496101
MA0019.10.784036
MA0024.11.00439
MA0025.11.24931
MA0027.12.73598
MA0028.10.470679
MA0029.11.02437
MA0030.11.01252
MA0031.10.945567
MA0038.10.736268
MA0040.11.03042
MA0041.10.64667
MA0042.10.612397
MA0043.11.11288
MA0046.11.10134
MA0048.11.7027
MA0050.10.613347
MA0051.10.731787
MA0052.11.03442
MA0055.13.37159
MA0056.10
MA0057.11.66737
MA0058.10.523638
MA0059.10.522232
MA0060.10.321781
MA0061.10.791444
MA0063.10
MA0066.10.736721
MA0067.11.43651
MA0068.10.247962
MA0069.11.09737
MA0070.11.08584
MA0071.10.695094
MA0072.11.0812
MA0073.10.215829
MA0074.10.730989
MA0076.11.33654
MA0077.11.07324
MA0078.10.836493
MA0081.10.522409
MA0083.11.12028
MA0084.11.62584
MA0087.11.07867
MA0088.10.818263
MA0089.10
MA0090.10.556637
MA0091.10.629594
MA0092.10.588959
MA0093.10.456342
MA0095.10
MA0098.10
MA0100.10.750974
MA0101.11.16366
MA0103.10.442769
MA0105.10.520776
MA0106.10.779931
MA0107.10.378225
MA0108.20.94238
MA0109.10
MA0111.10.5713
MA0113.11.8711
MA0114.10.372523
MA0115.11.35895
MA0116.11.76306
MA0117.11.1512
MA0119.10.504689
MA0122.11.17777
MA0124.11.31673
MA0125.11.23103
MA0130.10
MA0131.10.855546
MA0132.10
MA0133.10
MA0135.11.14377
MA0136.10.743749
MA0139.10.277033
MA0140.10.692258
MA0141.10.520334
MA0142.10.912455
MA0143.10.797437
MA0144.10.938075
MA0145.10.442008
MA0146.10.6031
MA0147.10.386018
MA0148.10.653474
MA0149.12.7505
MA0062.20.777733
MA0035.20.691506
MA0039.20.311551
MA0138.20.837782
MA0002.20.30855
MA0137.20.47779
MA0104.20.320919
MA0047.20.767096
MA0112.22.6393
MA0065.20.146576
MA0150.10.550239
MA0151.10
MA0152.10.69926
MA0153.11.21379
MA0154.10.98952
MA0155.10.813062
MA0156.10.480289
MA0157.10.883854
MA0158.10
MA0159.11.00463
MA0160.10.669748
MA0161.10
MA0162.10.81299
MA0163.15.18163
MA0164.10.810347
MA0080.21.15604
MA0018.20.781393
MA0099.20.699641
MA0079.23.15891
MA0102.21.66336
MA0258.10.914277
MA0259.10.395396
MA0442.10



ENCODE TF ChIP-seq peak enrichment analysisSummary: 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.
Analyst: Erik Arner

link to source dataset

data


No analysis results for this cluster

Relative expression of the co-expression clusterSummary:Co-expression clusters are compared against FANTOM5 samples to obtain relative expression.
Analyst:NA

link to data source
data


This analysis result is provided for C0 - C305 clusters.