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Coexpression cluster:C848

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Full id: C848_Monocytederived_Mesenchymal_Hepatocyte_Adipocyte_CD14_Cardiac_liver



Phase1 CAGE Peaks

Hg19::chr19:45409042..45409061,+p1@APOE
Hg19::chr19:45411107..45411153,+p3@APOE
Hg19::chr19:45411165..45411180,+p5@APOE
Hg19::chr19:45411811..45411830,+p@chr19:45411811..45411830
+
Hg19::chr19:45411839..45411852,+p@chr19:45411839..45411852
+
Hg19::chr19:45412009..45412026,+p@chr19:45412009..45412026
+
Hg19::chr19:45412466..45412491,+p2@AJ249921
Hg19::chr19:45417848..45417869,+p2@APOC1
Hg19::chr2:219646861..219646879,+p1@CYP27A1
Hg19::chr2:219646891..219646911,+p3@CYP27A1


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

p.valueFDRnGenesnPathwayName
2.98763831444955e-060.00101310581536839229Statin Pathway (Wikipathways):WP430
3.20096624129033e-060.00101310581536839230{SDC1,30} (Static Module):NA



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:0042157lipoprotein metabolic process0.00233088563653156
GO:0005319lipid transporter activity0.00233088563653156
GO:0006869lipid transport0.00307992607221813
GO:0050749apolipoprotein E receptor binding0.00347933592370187
GO:0047749cholestanetriol 26-monooxygenase activity0.00347933592370187
GO:0048156tau protein binding0.00579872250488911
GO:0031232extrinsic to external side of plasma membrane0.00745528089466088
GO:0033344cholesterol efflux0.0104327851320064
GO:0042627chylomicron0.0104327851320064
GO:0050750low-density lipoprotein receptor binding0.0104327851320064
GO:0045471response to ethanol0.0104327851320064
GO:0006707cholesterol catabolic process0.0104327851320064
GO:0016127sterol catabolic process0.0104327851320064
GO:0048168regulation of neuronal synaptic plasticity0.0104327851320064
GO:0001540beta-amyloid binding0.0104327851320064
GO:0017127cholesterol transporter activity0.0104327851320064
GO:0030516regulation of axon extension0.0104327851320064
GO:0007271synaptic transmission, cholinergic0.0104327851320064
GO:0015248sterol transporter activity0.0104327851320064
GO:0042632cholesterol homeostasis0.0104327851320064
GO:0008395steroid hydroxylase activity0.0104327851320064
GO:0055092sterol homeostasis0.0104327851320064
GO:0048167regulation of synaptic plasticity0.0104327851320064
GO:0006706steroid catabolic process0.0104327851320064
GO:0051262protein tetramerization0.0104327851320064
GO:0048675axon extension0.0104327851320064
GO:0055088lipid homeostasis0.0104327851320064
GO:0015918sterol transport0.0104327851320064
GO:0050803regulation of synapse structure and activity0.0104327851320064
GO:0030301cholesterol transport0.0104327851320064
GO:0042311vasodilation0.0106568323372062
GO:0006629lipid metabolic process0.0136963903325708
GO:0050770regulation of axonogenesis0.0136963903325708
GO:0000302response to reactive oxygen species0.0138044394409538
GO:0044444cytoplasmic part0.013892968335835
GO:0008034lipoprotein binding0.014002444188512
GO:0016709oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen0.0159706137010346
GO:0050767regulation of neurogenesis0.017377738469733
GO:0035150regulation of tube size0.0182020333822998
GO:0050880regulation of blood vessel size0.0182020333822998
GO:0003018vascular process in circulatory system0.0182020333822998
GO:0007611learning and/or memory0.0182020333822998
GO:0044242cellular lipid catabolic process0.0193017759435435
GO:0019897extrinsic to plasma membrane0.0193017759435435
GO:0009897external side of plasma membrane0.0193017759435435
GO:0042158lipoprotein biosynthetic process0.0207673309043863
GO:0051259protein oligomerization0.022430385414656
GO:0010033response to organic substance0.022430385414656
GO:0008201heparin binding0.0269230771158613
GO:0008203cholesterol metabolic process0.0270773521657405
GO:0035239tube morphogenesis0.0285834033885244
GO:0022892substrate-specific transporter activity0.0296339091377412
GO:0016125sterol metabolic process0.0307700964873075
GO:0019898extrinsic to membrane0.0323047891962794
GO:0005539glycosaminoglycan binding0.0323047891962794
GO:0007409axonogenesis0.0323047891962794
GO:0006874cellular calcium ion homeostasis0.0323047891962794
GO:0055074calcium ion homeostasis0.0323047891962794
GO:0030247polysaccharide binding0.0323047891962794
GO:0035295tube development0.0323047891962794
GO:0048667neuron morphogenesis during differentiation0.0323047891962794
GO:0006979response to oxidative stress0.0323047891962794
GO:0048812neurite morphogenesis0.0323047891962794
GO:0005737cytoplasm0.0323047891962794
GO:0006875cellular metal ion homeostasis0.0323047891962794
GO:0055065metal ion homeostasis0.0323047891962794
GO:0000904cellular morphogenesis during differentiation0.0323704952536164
GO:0001871pattern binding0.0323704952536164
GO:0031175neurite development0.0339028968136092
GO:0016042lipid catabolic process0.0361068058286039
GO:0009986cell surface0.0361068058286039
GO:0048666neuron development0.0370422287137999
GO:0008015blood circulation0.0374386623722683
GO:0003013circulatory system process0.0374386623722683
GO:0016705oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen0.0408438217093907
GO:0030005cellular di-, tri-valent inorganic cation homeostasis0.0409859363824008
GO:0055066di-, tri-valent inorganic cation homeostasis0.0411242406834246
GO:0043231intracellular membrane-bound organelle0.041997112304992
GO:0043227membrane-bound organelle0.041997112304992
GO:0030003cellular cation homeostasis0.041997112304992
GO:0055080cation homeostasis0.041997112304992
GO:0032990cell part morphogenesis0.041997112304992
GO:0048858cell projection morphogenesis0.041997112304992
GO:0030030cell projection organization and biogenesis0.041997112304992
GO:0030182neuron differentiation0.0423266215631961
GO:0006917induction of apoptosis0.0423266215631961
GO:0012502induction of programmed cell death0.0423266215631961
GO:0008202steroid metabolic process0.043797299095766
GO:0004497monooxygenase activity0.0445047405106417
GO:0050793regulation of developmental process0.0445047405106417
GO:0055082cellular chemical homeostasis0.0445047405106417
GO:0006873cellular ion homeostasis0.0445047405106417
GO:0048699generation of neurons0.0449483858556084
GO:0043065positive regulation of apoptosis0.0468891903292327
GO:0043068positive regulation of programmed cell death0.0468891903292327
GO:0022008neurogenesis0.0471145908048725
GO:0050801ion homeostasis0.0475117257202813



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
macrophage6.50e-086
fat cell1.88e-0715
melanocyte3.36e-0710
melanoblast3.36e-0710
Uber Anatomy
Ontology termp-valuen
adult organism4.37e-29114
central nervous system1.10e-2081
neural tube4.30e-1956
neural rod4.30e-1956
future spinal cord4.30e-1956
neural keel4.30e-1956
nervous system7.78e-1889
organ system subdivision2.10e-17223
brain6.14e-1768
future brain6.14e-1768
regional part of nervous system7.54e-1753
regional part of brain7.54e-1753
neural plate4.68e-1482
presumptive neural plate4.68e-1482
neurectoderm1.31e-1386
regional part of forebrain1.76e-1341
forebrain1.76e-1341
anterior neural tube1.76e-1341
future forebrain1.76e-1341
brain grey matter3.51e-1334
gray matter3.51e-1334
telencephalon9.56e-1334
regional part of telencephalon8.68e-1232
cerebral hemisphere2.04e-1132
structure with developmental contribution from neural crest1.11e-10132
ecto-epithelium1.60e-10104
pre-chordal neural plate7.98e-1061
multi-tissue structure1.51e-09342
regional part of cerebral cortex3.79e-0922
ectoderm-derived structure2.52e-08171
ectoderm2.52e-08171
presumptive ectoderm2.52e-08171
neural nucleus3.50e-089
nucleus of brain3.50e-089
basal ganglion3.94e-089
nuclear complex of neuraxis3.94e-089
aggregate regional part of brain3.94e-089
collection of basal ganglia3.94e-089
cerebral subcortex3.94e-089
anatomical cluster6.27e-08373
neocortex8.00e-0820
organ9.52e-08503
liver1.21e-0719
digestive gland1.21e-0719
liver bud1.21e-0719
cerebral cortex1.86e-0725
pallium1.86e-0725
digestive tract diverticulum2.89e-0723
embryo3.18e-07592
epithelium5.66e-07306
posterior neural tube6.03e-0715
chordal neural plate6.03e-0715
cell layer6.06e-07309
hepatic diverticulum9.60e-0722
liver primordium9.60e-0722


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)
MA0003.10.839169
MA0004.10.380329
MA0006.10.236135
MA0007.10.363007
MA0009.10.828613
MA0014.10.284587
MA0017.12.10084
MA0019.10.520264
MA0024.10.725404
MA0025.10.960689
MA0027.12.43535
MA0028.10.25013
MA0029.10.744375
MA0030.10.733118
MA0031.10.669876
MA0038.10.477043
MA0040.10.750125
MA0041.10.397617
MA0042.10.367902
MA0043.10.828925
MA0046.10.817858
MA0048.11.25863
MA0050.10.368721
MA0051.10.473017
MA0052.10.753928
MA0055.11.60561
MA0056.10
MA0057.10.46253
MA0058.10.293055
MA0059.10.291897
MA0060.10.138988
MA0061.10.757837
MA0063.10
MA0066.11.2012
MA0067.11.1435
MA0068.10.631708
MA0069.10.814052
MA0070.10.803003
MA0071.10.440254
MA0072.10.798564
MA0073.10.0447366
MA0074.10.4723
MA0076.10.307383
MA0077.10.790956
MA0078.10.568317
MA0081.10.292043
MA0083.10.836033
MA0084.11.32998
MA0087.10.79615
MA0088.10.300184
MA0089.10
MA0090.10.320494
MA0091.10.382762
MA0092.10.347826
MA0093.10.238771
MA0095.10
MA0098.10
MA0100.10.49029
MA0101.10.678051
MA0103.10.646502
MA0105.10.422512
MA0106.10.516528
MA0107.10.529721
MA0108.20.666881
MA0109.10
MA0111.10.33284
MA0113.10.532314
MA0114.14.68611
MA0115.11.06753
MA0116.11.62509
MA0117.10.865782
MA0119.10.277531
MA0122.10.891407
MA0124.11.0263
MA0125.10.942948
MA0130.10
MA0131.10.585907
MA0132.10
MA0133.10
MA0135.10.858623
MA0136.10.483775
MA0139.10.109245
MA0140.10.437738
MA0141.10.290336
MA0142.10.638837
MA0143.10.532484
MA0144.10.163394
MA0145.10.14293
MA0146.15.19153
MA0147.10.543675
MA0148.10.403564
MA0149.10.428597
MA0062.20.114378
MA0035.20.437071
MA0039.20.713007
MA0138.23.50115
MA0002.20.129981
MA0137.20.255808
MA0104.20.428616
MA0047.20.504873
MA0112.24.71063
MA0065.24.20965
MA0150.10.845871
MA0151.10
MA0152.10.443956
MA0153.10.926242
MA0154.10.185581
MA0155.11.25014
MA0156.10.257809
MA0157.10.612166
MA0158.10
MA0159.11.04074
MA0160.10.417847
MA0161.10
MA0162.10.108522
MA0163.10.990939
MA0164.10.544294
MA0080.20.238846
MA0018.20.517858
MA0099.20.444294
MA0079.22.25774
MA0102.21.36707
MA0258.12.82472
MA0259.10.191914
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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