APOE | OmnibusX

I. Expression across cell types

Name	Number of supported studies	Average coverage
macrophage	44 studies	49% ± 22%	Explore
fibroblast	37 studies	43% ± 18%	Explore
pericyte	26 studies	40% ± 20%	Explore
astrocyte	21 studies	64% ± 20%	Explore
microglial cell	19 studies	58% ± 27%	Explore
smooth muscle cell	17 studies	37% ± 17%	Explore
endothelial cell	17 studies	41% ± 24%	Explore
connective tissue cell	15 studies	49% ± 22%	Explore
myeloid cell	10 studies	47% ± 20%	Explore
alveolar macrophage	8 studies	70% ± 24%	Explore
epithelial cell	7 studies	36% ± 18%	Explore
hepatocyte	6 studies	72% ± 28%	Explore
oligodendrocyte precursor cell	6 studies	25% ± 10%	Explore
epithelial cell of proximal tubule	6 studies	72% ± 21%	Explore
myofibroblast cell	6 studies	28% ± 8%	Explore
renal alpha-intercalated cell	6 studies	71% ± 24%	Explore
monocyte	6 studies	40% ± 20%	Explore
melanocyte	6 studies	60% ± 28%	Explore
T cell	5 studies	42% ± 26%	Explore
Mueller cell	5 studies	73% ± 32%	Explore
conventional dendritic cell	5 studies	32% ± 8%	Explore
cholangiocyte	4 studies	47% ± 30%	Explore
abnormal cell	4 studies	50% ± 31%	Explore
mesothelial cell	4 studies	32% ± 6%	Explore
retinal pigment epithelial cell	4 studies	49% ± 30%	Explore
leukocyte	4 studies	33% ± 16%	Explore
endothelial cell of sinusoid	3 studies	31% ± 10%	Explore
hepatic stellate cell	3 studies	58% ± 29%	Explore
GABAergic neuron	3 studies	38% ± 13%	Explore
kidney loop of Henle epithelial cell	3 studies	23% ± 10%	Explore
dendritic cell	3 studies	59% ± 10%	Explore
mature NK T cell	3 studies	65% ± 22%	Explore
natural killer cell	3 studies	36% ± 13%	Explore
non-classical monocyte	3 studies	29% ± 17%	Explore
progenitor cell	3 studies	60% ± 32%	Explore
retinal ganglion cell	3 studies	39% ± 12%	Explore
retinal rod cell	3 studies	23% ± 8%	Explore
myoepithelial cell	3 studies	72% ± 6%	Explore
inflammatory macrophage	3 studies	61% ± 21%	Explore
mast cell	3 studies	23% ± 2%	Explore
keratinocyte	3 studies	58% ± 26%	Explore

II. Expression across tissues

Name	Number of supported studies	Average coverage
brain	8 studies	41% ± 29%	Explore
eye	8 studies	31% ± 12%	Explore
lung	8 studies	23% ± 5%	Explore
liver	7 studies	48% ± 25%	Explore
kidney	7 studies	35% ± 19%	Explore
intestine	4 studies	30% ± 11%	Explore
breast	4 studies	23% ± 4%	Explore
ovary	3 studies	37% ± 4%	Explore
uterus	3 studies	37% ± 11%	Explore

Tissue	GTEx Coverage	GTEx Average TPM	GTEx Number of samples	TCGA Coverage	TCGA Average TPM	TCGA Number of samples
brain	99%	55797.61	2627 / 2642	99%	3991.39	700 / 705
liver	100%	173051.54	226 / 226	94%	8060.97	383 / 406
skin	74%	11459.07	1345 / 1809	93%	2897.23	438 / 472
kidney	90%	43107.82	80 / 89	71%	1015.88	638 / 901
ovary	87%	22735.38	156 / 180	53%	383.48	228 / 430
adrenal gland	100%	170530.78	258 / 258	37%	1168.68	85 / 230
breast	88%	15400.27	404 / 459	46%	341.17	513 / 1118
thymus	65%	6519.76	424 / 653	57%	912.21	342 / 605
lung	73%	12404.83	423 / 578	45%	334.60	518 / 1155
lymph node	0%	0	0 / 0	100%	2442.01	29 / 29
eye	0%	0	0 / 0	98%	2052.36	78 / 80
adipose	92%	17431.09	1106 / 1204	0%	0	0 / 0
spleen	90%	27263.19	218 / 241	0%	0	0 / 0
intestine	40%	3913.53	386 / 966	20%	137.85	105 / 527
uterus	16%	1840.82	28 / 170	39%	413.81	180 / 459
pancreas	3%	389.76	10 / 328	42%	369.88	75 / 178
bladder	19%	1353.81	4 / 21	23%	184.46	114 / 504
stomach	4%	345.64	14 / 359	29%	222.86	82 / 286
tonsil	0%	0	0 / 0	31%	272.61	14 / 45
heart	27%	2477.28	233 / 861	0%	0	0 / 0
blood vessel	25%	4577.94	330 / 1335	0%	0	0 / 0
prostate	10%	1003.56	25 / 245	12%	63.01	59 / 502
esophagus	2%	155.34	23 / 1445	15%	108.33	28 / 183
peripheral blood	1%	95.45	10 / 929	0%	0	0 / 0
muscle	0%	31.58	3 / 803	0%	0	0 / 0
abdomen	0%	0	0 / 0	0%	0	0 / 0
bone marrow	0%	0	0 / 0	0%	0	0 / 0
diaphragm	0%	0	0 / 0	0%	0	0 / 0
gingiva	0%	0	0 / 0	0%	0	0 / 0
nasal cavity	0%	0	0 / 0	0%	0	0 / 0
nasopharynx	0%	0	0 / 0	0%	0	0 / 0
nose	0%	0	0 / 0	0%	0	0 / 0
placenta	0%	0	0 / 0	0%	0	0 / 0
spinal column	0%	0	0 / 0	0%	0	0 / 0
ureter	0%	0	0 / 0	0%	0	0 / 1

III. Associated gene sets

GO_0010544	Biological process	negative regulation of platelet activation
GO_1902952	Biological process	positive regulation of dendritic spine maintenance
GO_1905908	Biological process	positive regulation of amyloid fibril formation
GO_0034382	Biological process	chylomicron remnant clearance
GO_0030516	Biological process	regulation of axon extension
GO_0010976	Biological process	positive regulation of neuron projection development
GO_0071830	Biological process	triglyceride-rich lipoprotein particle clearance
GO_0032489	Biological process	regulation of Cdc42 protein signal transduction
GO_0046889	Biological process	positive regulation of lipid biosynthetic process
GO_0006874	Biological process	intracellular calcium ion homeostasis
GO_0002021	Biological process	response to dietary excess
GO_0090090	Biological process	negative regulation of canonical Wnt signaling pathway
GO_0097114	Biological process	NMDA glutamate receptor clustering
GO_0051651	Biological process	maintenance of location in cell
GO_0043537	Biological process	negative regulation of blood vessel endothelial cell migration
GO_0050728	Biological process	negative regulation of inflammatory response
GO_1900223	Biological process	positive regulation of amyloid-beta clearance
GO_0032805	Biological process	positive regulation of low-density lipoprotein particle receptor catabolic process
GO_0043407	Biological process	negative regulation of MAP kinase activity
GO_1900272	Biological process	negative regulation of long-term synaptic potentiation
GO_0033344	Biological process	cholesterol efflux
GO_0042982	Biological process	amyloid precursor protein metabolic process
GO_0070374	Biological process	positive regulation of ERK1 and ERK2 cascade
GO_0061136	Biological process	regulation of proteasomal protein catabolic process
GO_1902991	Biological process	regulation of amyloid precursor protein catabolic process
GO_0006707	Biological process	cholesterol catabolic process
GO_0090181	Biological process	regulation of cholesterol metabolic process
GO_0070328	Biological process	triglyceride homeostasis
GO_0098869	Biological process	cellular oxidant detoxification
GO_0051044	Biological process	positive regulation of membrane protein ectodomain proteolysis
GO_0010629	Biological process	negative regulation of gene expression
GO_0034447	Biological process	very-low-density lipoprotein particle clearance
GO_0038060	Biological process	nitric oxide-cGMP-mediated signaling
GO_0031175	Biological process	neuron projection development
GO_0034372	Biological process	very-low-density lipoprotein particle remodeling
GO_1900221	Biological process	regulation of amyloid-beta clearance
GO_0033700	Biological process	phospholipid efflux
GO_0050709	Biological process	negative regulation of protein secretion
GO_0055090	Biological process	acylglycerol homeostasis
GO_0090209	Biological process	negative regulation of triglyceride metabolic process
GO_0045088	Biological process	regulation of innate immune response
GO_0001937	Biological process	negative regulation of endothelial cell proliferation
GO_0007186	Biological process	G protein-coupled receptor signaling pathway
GO_0042159	Biological process	lipoprotein catabolic process
GO_0042981	Biological process	regulation of apoptotic process
GO_0048168	Biological process	regulation of neuronal synaptic plasticity
GO_0045429	Biological process	positive regulation of nitric oxide biosynthetic process
GO_0000302	Biological process	response to reactive oxygen species
GO_1905860	Biological process	positive regulation of heparan sulfate proteoglycan binding
GO_0010467	Biological process	gene expression
GO_1903002	Biological process	positive regulation of lipid transport across blood-brain barrier
GO_0007271	Biological process	synaptic transmission, cholinergic
GO_0017038	Biological process	protein import
GO_0046907	Biological process	intracellular transport
GO_0055089	Biological process	fatty acid homeostasis
GO_0015909	Biological process	long-chain fatty acid transport
GO_0045541	Biological process	negative regulation of cholesterol biosynthetic process
GO_1902430	Biological process	negative regulation of amyloid-beta formation
GO_0045807	Biological process	positive regulation of endocytosis
GO_0007010	Biological process	cytoskeleton organization
GO_0090205	Biological process	positive regulation of cholesterol metabolic process
GO_0034375	Biological process	high-density lipoprotein particle remodeling
GO_0051248	Biological process	negative regulation of protein metabolic process
GO_0010977	Biological process	negative regulation of neuron projection development
GO_0045893	Biological process	positive regulation of DNA-templated transcription
GO_1902995	Biological process	positive regulation of phospholipid efflux
GO_0006641	Biological process	triglyceride metabolic process
GO_0060999	Biological process	positive regulation of dendritic spine development
GO_1905907	Biological process	negative regulation of amyloid fibril formation
GO_1905890	Biological process	regulation of cellular response to very-low-density lipoprotein particle stimulus
GO_0043254	Biological process	regulation of protein-containing complex assembly
GO_0030195	Biological process	negative regulation of blood coagulation
GO_0051246	Biological process	regulation of protein metabolic process
GO_0042311	Biological process	vasodilation
GO_0048844	Biological process	artery morphogenesis
GO_0042158	Biological process	lipoprotein biosynthetic process
GO_0006898	Biological process	receptor-mediated endocytosis
GO_0007616	Biological process	long-term memory
GO_0097113	Biological process	AMPA glutamate receptor clustering
GO_1905906	Biological process	regulation of amyloid fibril formation
GO_0008203	Biological process	cholesterol metabolic process
GO_0043691	Biological process	reverse cholesterol transport
GO_0032438	Biological process	melanosome organization
GO_0044794	Biological process	positive regulation by host of viral process
GO_0071831	Biological process	intermediate-density lipoprotein particle clearance
GO_1905920	Biological process	positive regulation of CoA-transferase activity
GO_2000822	Biological process	regulation of behavioral fear response
GO_0034384	Biological process	high-density lipoprotein particle clearance
GO_0034374	Biological process	low-density lipoprotein particle remodeling
GO_0034380	Biological process	high-density lipoprotein particle assembly
GO_0061771	Biological process	response to caloric restriction
GO_0048662	Biological process	negative regulation of smooth muscle cell proliferation
GO_0010875	Biological process	positive regulation of cholesterol efflux
GO_0019068	Biological process	virion assembly
GO_0010596	Biological process	negative regulation of endothelial cell migration
GO_0035641	Biological process	locomotory exploration behavior
GO_0010877	Biological process	lipid transport involved in lipid storage
GO_0042632	Biological process	cholesterol homeostasis
GO_0098978	Cellular component	glutamatergic synapse
GO_1903561	Cellular component	extracellular vesicle
GO_0030669	Cellular component	clathrin-coated endocytic vesicle membrane
GO_0043025	Cellular component	neuronal cell body
GO_0097487	Cellular component	multivesicular body, internal vesicle
GO_0005788	Cellular component	endoplasmic reticulum lumen
GO_0034360	Cellular component	chylomicron remnant
GO_0034361	Cellular component	very-low-density lipoprotein particle
GO_1990777	Cellular component	lipoprotein particle
GO_0005634	Cellular component	nucleus
GO_0042627	Cellular component	chylomicron
GO_0005576	Cellular component	extracellular region
GO_0034362	Cellular component	low-density lipoprotein particle
GO_0070062	Cellular component	extracellular exosome
GO_0030425	Cellular component	dendrite
GO_0034363	Cellular component	intermediate-density lipoprotein particle
GO_0005615	Cellular component	extracellular space
GO_0005886	Cellular component	plasma membrane
GO_0016020	Cellular component	membrane
GO_0005769	Cellular component	early endosome
GO_0034365	Cellular component	discoidal high-density lipoprotein particle
GO_0005794	Cellular component	Golgi apparatus
GO_0031012	Cellular component	extracellular matrix
GO_0072562	Cellular component	blood microparticle
GO_0005783	Cellular component	endoplasmic reticulum
GO_0005737	Cellular component	cytoplasm
GO_0071682	Cellular component	endocytic vesicle lumen
GO_0062023	Cellular component	collagen-containing extracellular matrix
GO_0034364	Cellular component	high-density lipoprotein particle
GO_0043083	Cellular component	synaptic cleft
GO_0042470	Cellular component	melanosome
GO_0120020	Molecular function	cholesterol transfer activity
GO_0071813	Molecular function	lipoprotein particle binding
GO_0042802	Molecular function	identical protein binding
GO_0048156	Molecular function	tau protein binding
GO_0001540	Molecular function	amyloid-beta binding
GO_0005102	Molecular function	signaling receptor binding
GO_0050750	Molecular function	low-density lipoprotein particle receptor binding
GO_0016209	Molecular function	antioxidant activity
GO_0043395	Molecular function	heparan sulfate proteoglycan binding
GO_0019899	Molecular function	enzyme binding
GO_0008201	Molecular function	heparin binding
GO_0008289	Molecular function	lipid binding
GO_0005198	Molecular function	structural molecule activity
GO_0070326	Molecular function	very-low-density lipoprotein particle receptor binding
GO_0005319	Molecular function	lipid transporter activity
GO_0046983	Molecular function	protein dimerization activity
GO_0005515	Molecular function	protein binding
GO_0042803	Molecular function	protein homodimerization activity
GO_0046911	Molecular function	metal chelating activity
GO_0005543	Molecular function	phospholipid binding
GO_0060228	Molecular function	phosphatidylcholine-sterol O-acyltransferase activator activity
GO_0044877	Molecular function	protein-containing complex binding

IV. Literature review

[source]

Gene name	APOE
Protein name	Apolipoprotein E (Apo-E) Apolipoprotein E isoform 5 Apolipoprotein E Apolipoprotein E isoform 4 Apolipoprotein E isoform 2
Synonyms
Description	FUNCTION: APOE is an apolipoprotein, a protein associating with lipid particles, that mainly functions in lipoprotein-mediated lipid transport between organs via the plasma and interstitial fluids . APOE is a core component of plasma lipoproteins and is involved in their production, conversion and clearance . Apolipoproteins are amphipathic molecules that interact both with lipids of the lipoprotein particle core and the aqueous environment of the plasma . As such, APOE associates with chylomicrons, chylomicron remnants, very low density lipoproteins (VLDL) and intermediate density lipoproteins (IDL) but shows a preferential binding to high-density lipoproteins (HDL) . It also binds a wide range of cellular receptors including the LDL receptor/LDLR, the LDL receptor-related proteins LRP1, LRP2 and LRP8 and the very low-density lipoprotein receptor/VLDLR that mediate the cellular uptake of the APOE-containing lipoprotein particles . Finally, APOE has also a heparin-binding activity and binds heparan-sulfate proteoglycans on the surface of cells, a property that supports the capture and the receptor-mediated uptake of APOE-containing lipoproteins by cells . A main function of APOE is to mediate lipoprotein clearance through the uptake of chylomicrons, VLDLs, and HDLs by hepatocytes . APOE is also involved in the biosynthesis by the liver of VLDLs as well as their uptake by peripheral tissues ensuring the delivery of triglycerides and energy storage in muscle, heart and adipose tissues . By participating in the lipoprotein-mediated distribution of lipids among tissues, APOE plays a critical role in plasma and tissues lipid homeostasis . APOE is also involved in two steps of reverse cholesterol transport, the HDLs-mediated transport of cholesterol from peripheral tissues to the liver, and thereby plays an important role in cholesterol homeostasis . First, it is functionally associated with ABCA1 in the biogenesis of HDLs in tissues . Second, it is enriched in circulating HDLs and mediates their uptake by hepatocytes . APOE also plays an important role in lipid transport in the central nervous system, regulating neuron survival and sprouting . APOE is also involved in innate and adaptive immune responses, controlling for instance the survival of myeloid-derived suppressor cells (By similarity). Binds to the immune cell receptor LILRB4 . APOE may also play a role in transcription regulation through a receptor-dependent and cholesterol-independent mechanism, that activates MAP3K12 and a non-canonical MAPK signal transduction pathway that results in enhanced AP-1-mediated transcription of APP . .; FUNCTION: (Microbial infection) Through its interaction with HCV envelope glycoprotein E2, participates in the attachment of HCV to HSPGs and other receptors (LDLr, VLDLr, and SR-B1) on the cell surface and to the assembly, maturation and infectivity of HCV viral particles . This interaction is probably promoted via the up-regulation of cellular autophagy by the virus . .
Accessions	ENST00000446996.5 H0Y7L5 A0A0S2Z3B1 A0A0S2Z3V0 Q8TCZ8 ENST00000434152.5 D9ZB55 E7ERP7 ENST00000252486.9 A0A0S2Z3D5 ENST00000425718.1 P02649 A0A0S2Z3J5 J9ZVQ3 E9PEV4 A0A346DBY2

APOE report

I. Expression across cell types

II. Expression across tissues

III. Associated gene sets

IV. Literature review