LRRK2 | OmnibusX

Name	Number of supported studies	Average coverage
classical monocyte	19 studies	32% ± 13%	Explore
non-classical monocyte	16 studies	27% ± 11%	Explore
oligodendrocyte precursor cell	16 studies	45% ± 22%	Explore
monocyte	15 studies	33% ± 11%	Explore
macrophage	12 studies	26% ± 13%	Explore
type II pneumocyte	11 studies	79% ± 18%	Explore
neutrophil	8 studies	35% ± 12%	Explore
dendritic cell	7 studies	27% ± 5%	Explore
glutamatergic neuron	7 studies	42% ± 24%	Explore
microglial cell	7 studies	35% ± 12%	Explore
type I pneumocyte	6 studies	23% ± 6%	Explore
fibroblast	6 studies	25% ± 9%	Explore
endothelial cell	5 studies	29% ± 9%	Explore
GABAergic neuron	4 studies	38% ± 8%	Explore
conventional dendritic cell	4 studies	23% ± 7%	Explore
myeloid cell	4 studies	25% ± 5%	Explore
retina horizontal cell	4 studies	30% ± 11%	Explore
B cell	4 studies	19% ± 3%	Explore
club cell	3 studies	37% ± 8%	Explore
astrocyte	3 studies	36% ± 18%	Explore

Name	Number of supported studies	Average coverage
brain	7 studies	32% ± 19%	Explore
lung	4 studies	35% ± 10%	Explore

Tissue	GTEx Coverage	GTEx Average TPM	GTEx Number of samples	TCGA Coverage	TCGA Average TPM	TCGA Number of samples
kidney	100%	2999.66	89 / 89	90%	54.36	810 / 901
thymus	99%	1661.97	646 / 653	81%	69.46	490 / 605
brain	97%	1187.67	2554 / 2642	64%	7.06	451 / 705
lung	100%	11271.85	576 / 578	55%	15.67	634 / 1155
skin	95%	1041.40	1719 / 1809	45%	4.01	211 / 472
breast	98%	1347.22	450 / 459	30%	2.55	330 / 1118
pancreas	94%	833.02	309 / 328	28%	1.77	49 / 178
esophagus	100%	2475.05	1444 / 1445	21%	1.43	39 / 183
adrenal gland	98%	1234.58	252 / 258	19%	1.43	44 / 230
uterus	100%	2237.55	170 / 170	9%	0.69	40 / 459
bladder	100%	1734.57	21 / 21	8%	1.54	38 / 504
ovary	100%	2243.06	180 / 180	2%	0.14	9 / 430
spleen	100%	3049.75	241 / 241	0%	0	0 / 0
blood vessel	100%	2704.04	1334 / 1335	0%	0	0 / 0
adipose	99%	1641.61	1193 / 1204	0%	0	0 / 0
prostate	94%	1031.88	231 / 245	5%	0.25	24 / 502
intestine	92%	1706.20	888 / 966	7%	0.53	37 / 527
peripheral blood	98%	8882.50	910 / 929	0%	0	0 / 0
muscle	96%	1328.24	767 / 803	0%	0	0 / 0
heart	86%	920.58	739 / 861	0%	0	0 / 0
liver	66%	452.46	149 / 226	7%	0.60	27 / 406
stomach	62%	759.30	222 / 359	9%	0.71	26 / 286
lymph node	0%	0	0 / 0	59%	13.98	17 / 29
tonsil	0%	0	0 / 0	13%	0.91	6 / 45
eye	0%	0	0 / 0	9%	0.74	7 / 80
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_0007040	Biological process	lysosome organization
GO_0007254	Biological process	JNK cascade
GO_0070585	Biological process	protein localization to mitochondrion
GO_0042391	Biological process	regulation of membrane potential
GO_0016242	Biological process	negative regulation of macroautophagy
GO_0048312	Biological process	intracellular distribution of mitochondria
GO_0022028	Biological process	tangential migration from the subventricular zone to the olfactory bulb
GO_0009267	Biological process	cellular response to starvation
GO_0007528	Biological process	neuromuscular junction development
GO_0001933	Biological process	negative regulation of protein phosphorylation
GO_0061001	Biological process	regulation of dendritic spine morphogenesis
GO_1902499	Biological process	positive regulation of protein autoubiquitination
GO_0090394	Biological process	negative regulation of excitatory postsynaptic potential
GO_1905289	Biological process	regulation of CAMKK-AMPK signaling cascade
GO_0051646	Biological process	mitochondrion localization
GO_0006914	Biological process	autophagy
GO_0006468	Biological process	protein phosphorylation
GO_0032091	Biological process	negative regulation of protein binding
GO_0006979	Biological process	response to oxidative stress
GO_0060828	Biological process	regulation of canonical Wnt signaling pathway
GO_1903980	Biological process	positive regulation of microglial cell activation
GO_1903351	Biological process	cellular response to dopamine
GO_0010955	Biological process	negative regulation of protein processing
GO_0006897	Biological process	endocytosis
GO_1902236	Biological process	negative regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway
GO_0000165	Biological process	MAPK cascade
GO_1904887	Biological process	Wnt signalosome assembly
GO_1903125	Biological process	negative regulation of thioredoxin peroxidase activity by peptidyl-threonine phosphorylation
GO_0007165	Biological process	signal transduction
GO_0007029	Biological process	endoplasmic reticulum organization
GO_0032436	Biological process	positive regulation of proteasomal ubiquitin-dependent protein catabolic process
GO_0051966	Biological process	regulation of synaptic transmission, glutamatergic
GO_0021756	Biological process	striatum development
GO_0021772	Biological process	olfactory bulb development
GO_0071287	Biological process	cellular response to manganese ion
GO_2000172	Biological process	regulation of branching morphogenesis of a nerve
GO_1903217	Biological process	negative regulation of protein processing involved in protein targeting to mitochondrion
GO_0060628	Biological process	regulation of ER to Golgi vesicle-mediated transport
GO_0010506	Biological process	regulation of autophagy
GO_0043068	Biological process	positive regulation of programmed cell death
GO_0010508	Biological process	positive regulation of autophagy
GO_1902902	Biological process	negative regulation of autophagosome assembly
GO_0006606	Biological process	protein import into nucleus
GO_0090140	Biological process	regulation of mitochondrial fission
GO_0031398	Biological process	positive regulation of protein ubiquitination
GO_0046777	Biological process	protein autophosphorylation
GO_1903215	Biological process	negative regulation of protein targeting to mitochondrion
GO_0032760	Biological process	positive regulation of tumor necrosis factor production
GO_2000377	Biological process	regulation of reactive oxygen species metabolic process
GO_0060159	Biological process	regulation of dopamine receptor signaling pathway
GO_0035640	Biological process	exploration behavior
GO_0034260	Biological process	negative regulation of GTPase activity
GO_0051770	Biological process	positive regulation of nitric-oxide synthase biosynthetic process
GO_0019722	Biological process	calcium-mediated signaling
GO_0090263	Biological process	positive regulation of canonical Wnt signaling pathway
GO_0035564	Biological process	regulation of kidney size
GO_0060079	Biological process	excitatory postsynaptic potential
GO_0046039	Biological process	GTP metabolic process
GO_0032092	Biological process	positive regulation of protein binding
GO_0018107	Biological process	peptidyl-threonine phosphorylation
GO_1902823	Biological process	negative regulation of late endosome to lysosome transport
GO_0001934	Biological process	positive regulation of protein phosphorylation
GO_0048812	Biological process	neuron projection morphogenesis
GO_0043406	Biological process	positive regulation of MAP kinase activity
GO_0070973	Biological process	protein localization to endoplasmic reticulum exit site
GO_0007030	Biological process	Golgi organization
GO_0007005	Biological process	mitochondrion organization
GO_0010977	Biological process	negative regulation of neuron projection development
GO_0014041	Biological process	regulation of neuron maturation
GO_0034599	Biological process	cellular response to oxidative stress
GO_0140058	Biological process	neuron projection arborization
GO_0016310	Biological process	phosphorylation
GO_2000300	Biological process	regulation of synaptic vesicle exocytosis
GO_0018105	Biological process	peptidyl-serine phosphorylation
GO_1900244	Biological process	positive regulation of synaptic vesicle endocytosis
GO_0060161	Biological process	positive regulation of dopamine receptor signaling pathway
GO_0007283	Biological process	spermatogenesis
GO_0034614	Biological process	cellular response to reactive oxygen species
GO_0008340	Biological process	determination of adult lifespan
GO_1902803	Biological process	regulation of synaptic vesicle transport
GO_0060070	Biological process	canonical Wnt signaling pathway
GO_0045860	Biological process	positive regulation of protein kinase activity
GO_1902692	Biological process	regulation of neuroblast proliferation
GO_0010738	Biological process	regulation of protein kinase A signaling
GO_0035556	Biological process	intracellular signal transduction
GO_0035751	Biological process	regulation of lysosomal lumen pH
GO_0051900	Biological process	regulation of mitochondrial depolarization
GO_0040012	Biological process	regulation of locomotion
GO_0007266	Biological process	Rho protein signal transduction
GO_0008104	Biological process	protein localization
GO_0035641	Biological process	locomotory exploration behavior
GO_0031647	Biological process	regulation of protein stability
GO_1905279	Biological process	regulation of retrograde transport, endosome to Golgi
GO_0098978	Cellular component	glutamatergic synapse
GO_0005856	Cellular component	cytoskeleton
GO_0005789	Cellular component	endoplasmic reticulum membrane
GO_0031966	Cellular component	mitochondrial membrane
GO_0043195	Cellular component	terminal bouton
GO_0098794	Cellular component	postsynapse
GO_0043025	Cellular component	neuronal cell body
GO_0043005	Cellular component	neuron projection
GO_0005802	Cellular component	trans-Golgi network
GO_0097487	Cellular component	multivesicular body, internal vesicle
GO_0005768	Cellular component	endosome
GO_0032839	Cellular component	dendrite cytoplasm
GO_0032473	Cellular component	cytoplasmic side of mitochondrial outer membrane
GO_0044754	Cellular component	autolysosome
GO_0070062	Cellular component	extracellular exosome
GO_0030425	Cellular component	dendrite
GO_0043231	Cellular component	intracellular membrane-bounded organelle
GO_1990909	Cellular component	Wnt signalosome
GO_0044753	Cellular component	amphisome
GO_0005798	Cellular component	Golgi-associated vesicle
GO_1990904	Cellular component	ribonucleoprotein complex
GO_0005902	Cellular component	microvillus
GO_0005615	Cellular component	extracellular space
GO_0005886	Cellular component	plasma membrane
GO_0031410	Cellular component	cytoplasmic vesicle
GO_0005739	Cellular component	mitochondrion
GO_0043204	Cellular component	perikaryon
GO_0005764	Cellular component	lysosome
GO_0005794	Cellular component	Golgi apparatus
GO_0005743	Cellular component	mitochondrial inner membrane
GO_0000139	Cellular component	Golgi membrane
GO_0005783	Cellular component	endoplasmic reticulum
GO_0005737	Cellular component	cytoplasm
GO_0005741	Cellular component	mitochondrial outer membrane
GO_0099400	Cellular component	caveola neck
GO_0030424	Cellular component	axon
GO_0030672	Cellular component	synaptic vesicle membrane
GO_0070971	Cellular component	endoplasmic reticulum exit site
GO_0005829	Cellular component	cytosol
GO_0005759	Cellular component	mitochondrial matrix
GO_0030426	Cellular component	growth cone
GO_0099523	Cellular component	presynaptic cytosol
GO_0036479	Molecular function	peroxidase inhibitor activity
GO_0042802	Molecular function	identical protein binding
GO_0004672	Molecular function	protein kinase activity
GO_0017075	Molecular function	syntaxin-1 binding
GO_0004709	Molecular function	MAP kinase kinase kinase activity
GO_0030159	Molecular function	signaling receptor complex adaptor activity
GO_0005524	Molecular function	ATP binding
GO_0051018	Molecular function	protein kinase A binding
GO_0106310	Molecular function	protein serine kinase activity
GO_0030276	Molecular function	clathrin binding
GO_1904713	Molecular function	beta-catenin destruction complex binding
GO_0003779	Molecular function	actin binding
GO_0003924	Molecular function	GTPase activity
GO_0039706	Molecular function	co-receptor binding
GO_0004674	Molecular function	protein serine/threonine kinase activity
GO_0000287	Molecular function	magnesium ion binding
GO_0005096	Molecular function	GTPase activator activity
GO_0005525	Molecular function	GTP binding
GO_0034211	Molecular function	GTP-dependent protein kinase activity
GO_0004706	Molecular function	JUN kinase kinase kinase activity
GO_0044325	Molecular function	transmembrane transporter binding
GO_0005515	Molecular function	protein binding
GO_0042803	Molecular function	protein homodimerization activity
GO_0015631	Molecular function	tubulin binding
GO_0031267	Molecular function	small GTPase binding
GO_0000149	Molecular function	SNARE binding
GO_0008017	Molecular function	microtubule binding
GO_0016301	Molecular function	kinase activity

IV. Literature review

[source]

Gene name	LRRK2
Protein name	Leucine rich repeat kinase 2 non-specific serine/threonine protein kinase (EC 2.7.11.1) Leucine-rich repeat serine/threonine-protein kinase 2 (EC 2.7.11.1) (EC 3.6.5.-) (Dardarin)
Synonyms	PARK8
Description	FUNCTION: Serine/threonine-protein kinase which phosphorylates a broad range of proteins involved in multiple processes such as neuronal plasticity, innate immunity, autophagy, and vesicle trafficking . Is a key regulator of RAB GTPases by regulating the GTP/GDP exchange and interaction partners of RABs through phosphorylation . Phosphorylates RAB3A, RAB3B, RAB3C, RAB3D, RAB5A, RAB5B, RAB5C, RAB8A, RAB8B, RAB10, RAB12, RAB35, and RAB43 . Regulates the RAB3IP-catalyzed GDP/GTP exchange for RAB8A through the phosphorylation of 'Thr-72' on RAB8A . Inhibits the interaction between RAB8A and GDI1 and/or GDI2 by phosphorylating 'Thr-72' on RAB8A . Regulates primary ciliogenesis through phosphorylation of RAB8A and RAB10, which promotes SHH signaling in the brain . Together with RAB29, plays a role in the retrograde trafficking pathway for recycling proteins, such as mannose-6-phosphate receptor (M6PR), between lysosomes and the Golgi apparatus in a retromer-dependent manner . Regulates neuronal process morphology in the intact central nervous system (CNS) . Plays a role in synaptic vesicle trafficking . Plays an important role in recruiting SEC16A to endoplasmic reticulum exit sites (ERES) and in regulating ER to Golgi vesicle-mediated transport and ERES organization . Positively regulates autophagy through a calcium-dependent activation of the CaMKK/AMPK signaling pathway . The process involves activation of nicotinic acid adenine dinucleotide phosphate (NAADP) receptors, increase in lysosomal pH, and calcium release from lysosomes . Phosphorylates PRDX3 . By phosphorylating APP on 'Thr-743', which promotes the production and the nuclear translocation of the APP intracellular domain (AICD), regulates dopaminergic neuron apoptosis . Acts as a positive regulator of innate immunity by mediating phosphorylation of RIPK2 downstream of NOD1 and NOD2, thereby enhancing RIPK2 activation . Independent of its kinase activity, inhibits the proteasomal degradation of MAPT, thus promoting MAPT oligomerization and secretion . In addition, has GTPase activity via its Roc domain which regulates LRRK2 kinase activity . .
Accessions	A0A7P0TAW6 ENST00000680453.1 ENST00000679532.1 A0A7P0Z4D9 ENST00000680425.1 A0A1B0GUQ3 A0A7P0Z468 ENST00000680018.1 A0A7P0T9F8 A0A7P0T8S1 ENST00000680790.1 ENST00000644108.1 ENST00000343742.6 ENST00000430804.5 Q5S007 E9PC85 H7C3B6 A0A7P0TB00 ENST00000298910.12 ENST00000416796.5 A0A7P0T8T5 C9JBF0 A0A7P0TAJ2 ENST00000636518.1 A0A7P0T8T1 ENST00000680422.1 A0A2R8Y4F8 ENST00000679683.1 Q17RV3 ENST00000681696.1 ENST00000679360.1 A0A218N881

LRRK2 report

I. Expression across cell types

II. Expression across tissues

III. Associated gene sets

IV. Literature review