COPS6 | OmnibusX

I. Expression across cell types

Name	Number of supported studies	Average coverage
natural killer cell	29 studies	24% ± 6%	Explore
fibroblast	29 studies	30% ± 14%	Explore
B cell	23 studies	22% ± 7%	Explore
CD8-positive, alpha-beta T cell	23 studies	24% ± 8%	Explore
endothelial cell	23 studies	29% ± 13%	Explore
smooth muscle cell	22 studies	32% ± 10%	Explore
pericyte	22 studies	31% ± 10%	Explore
CD4-positive, alpha-beta T cell	21 studies	22% ± 6%	Explore
regulatory T cell	19 studies	23% ± 5%	Explore
T cell	16 studies	22% ± 5%	Explore
basal cell	14 studies	29% ± 16%	Explore
ciliated cell	14 studies	35% ± 14%	Explore
gamma-delta T cell	14 studies	25% ± 12%	Explore
CD16-positive, CD56-dim natural killer cell, human	13 studies	26% ± 8%	Explore
myofibroblast cell	13 studies	33% ± 10%	Explore
connective tissue cell	13 studies	35% ± 13%	Explore
endothelial cell of lymphatic vessel	12 studies	29% ± 11%	Explore
conventional dendritic cell	12 studies	26% ± 16%	Explore
mature NK T cell	12 studies	23% ± 5%	Explore
capillary endothelial cell	12 studies	22% ± 7%	Explore
macrophage	12 studies	24% ± 9%	Explore
epithelial cell	12 studies	37% ± 19%	Explore
mast cell	11 studies	18% ± 2%	Explore
CD8-positive, alpha-beta memory T cell	11 studies	24% ± 8%	Explore
memory B cell	11 studies	20% ± 3%	Explore
naive thymus-derived CD4-positive, alpha-beta T cell	10 studies	21% ± 5%	Explore
naive thymus-derived CD8-positive, alpha-beta T cell	10 studies	23% ± 6%	Explore
non-classical monocyte	10 studies	27% ± 14%	Explore
CD16-negative, CD56-bright natural killer cell, human	10 studies	26% ± 7%	Explore
abnormal cell	10 studies	28% ± 13%	Explore
naive B cell	10 studies	18% ± 4%	Explore
CD4-positive, alpha-beta memory T cell	9 studies	20% ± 4%	Explore
classical monocyte	9 studies	24% ± 12%	Explore
endothelial cell of artery	9 studies	22% ± 5%	Explore
vein endothelial cell	9 studies	21% ± 7%	Explore
mucosal invariant T cell	9 studies	21% ± 4%	Explore
endothelial cell of vascular tree	8 studies	23% ± 6%	Explore
neuron	7 studies	35% ± 15%	Explore
astrocyte	7 studies	25% ± 11%	Explore
plasmacytoid dendritic cell	7 studies	26% ± 7%	Explore
plasma cell	6 studies	35% ± 11%	Explore
plasmablast	6 studies	39% ± 24%	Explore
secretory cell	6 studies	29% ± 17%	Explore
effector CD8-positive, alpha-beta T cell	6 studies	24% ± 5%	Explore
effector memory CD8-positive, alpha-beta T cell	6 studies	29% ± 8%	Explore
monocyte	6 studies	20% ± 5%	Explore
innate lymphoid cell	6 studies	22% ± 6%	Explore
T follicular helper cell	6 studies	20% ± 1%	Explore
oligodendrocyte precursor cell	6 studies	26% ± 8%	Explore
leukocyte	5 studies	21% ± 6%	Explore
epithelial cell of proximal tubule	5 studies	25% ± 6%	Explore
mesothelial cell	5 studies	34% ± 16%	Explore
amacrine cell	5 studies	35% ± 16%	Explore
goblet cell	5 studies	26% ± 10%	Explore
hematopoietic precursor cell	4 studies	36% ± 17%	Explore
pancreatic A cell	4 studies	39% ± 14%	Explore
exhausted T cell	4 studies	31% ± 8%	Explore
kidney loop of Henle epithelial cell	4 studies	23% ± 2%	Explore
progenitor cell	4 studies	27% ± 8%	Explore
retinal ganglion cell	4 studies	57% ± 28%	Explore
precursor B cell	4 studies	27% ± 9%	Explore
type I pneumocyte	4 studies	28% ± 9%	Explore
effector CD4-positive, alpha-beta T cell	4 studies	25% ± 4%	Explore
luminal hormone-sensing cell of mammary gland	4 studies	20% ± 5%	Explore
glutamatergic neuron	4 studies	36% ± 16%	Explore
dendritic cell	4 studies	38% ± 21%	Explore
effector memory CD4-positive, alpha-beta T cell	4 studies	27% ± 10%	Explore
enteroendocrine cell	4 studies	32% ± 16%	Explore
oligodendrocyte	4 studies	25% ± 9%	Explore
respiratory goblet cell	3 studies	28% ± 14%	Explore
type B pancreatic cell	3 studies	48% ± 8%	Explore
kidney distal convoluted tubule epithelial cell	3 studies	31% ± 9%	Explore
neural crest cell	3 studies	33% ± 2%	Explore
retinal bipolar neuron	3 studies	40% ± 13%	Explore
OFF-bipolar cell	3 studies	36% ± 15%	Explore
lymphocyte	3 studies	27% ± 12%	Explore
club cell	3 studies	28% ± 8%	Explore
immature B cell	3 studies	20% ± 5%	Explore
pro-B cell	3 studies	27% ± 3%	Explore
type II pneumocyte	3 studies	31% ± 13%	Explore
retina horizontal cell	3 studies	41% ± 16%	Explore
retinal cone cell	3 studies	46% ± 13%	Explore
retinal rod cell	3 studies	34% ± 9%	Explore
intraepithelial lymphocyte	3 studies	26% ± 6%	Explore
Mueller cell	3 studies	30% ± 7%	Explore
CD4-positive helper T cell	3 studies	33% ± 21%	Explore
erythroblast	3 studies	35% ± 26%	Explore
germinal center B cell	3 studies	22% ± 2%	Explore
myoepithelial cell	3 studies	29% ± 6%	Explore
GABAergic neuron	3 studies	31% ± 10%	Explore
pancreatic ductal cell	3 studies	43% ± 16%	Explore
intestinal crypt stem cell	3 studies	22% ± 4%	Explore
glial cell	3 studies	33% ± 20%	Explore
erythrocyte	3 studies	35% ± 17%	Explore
group 3 innate lymphoid cell	3 studies	27% ± 12%	Explore
transit amplifying cell	3 studies	19% ± 3%	Explore
interneuron	3 studies	27% ± 11%	Explore
T-helper 1 cell	3 studies	21% ± 2%	Explore
hematopoietic stem cell	3 studies	21% ± 3%	Explore
effector memory CD8-positive, alpha-beta T cell, terminally differentiated	3 studies	24% ± 5%	Explore
double negative thymocyte	3 studies	38% ± 18%	Explore

II. Expression across tissues

Name	Number of supported studies	Average coverage
lung	12 studies	30% ± 15%	Explore
peripheral blood	12 studies	26% ± 8%	Explore
kidney	7 studies	24% ± 4%	Explore
intestine	7 studies	27% ± 14%	Explore
eye	7 studies	29% ± 12%	Explore
brain	7 studies	28% ± 9%	Explore
lymph node	5 studies	26% ± 8%	Explore
liver	5 studies	28% ± 20%	Explore
uterus	4 studies	32% ± 12%	Explore
skin	4 studies	18% ± 4%	Explore
breast	4 studies	18% ± 2%	Explore
pancreas	3 studies	46% ± 4%	Explore

Tissue	GTEx Coverage	GTEx Average TPM	GTEx Number of samples	TCGA Coverage	TCGA Average TPM	TCGA Number of samples
brain	100%	4812.74	2642 / 2642	100%	172.83	705 / 705
esophagus	100%	5070.67	1445 / 1445	100%	105.45	183 / 183
ovary	100%	4312.92	180 / 180	100%	141.27	430 / 430
pancreas	100%	2105.29	328 / 328	100%	110.56	178 / 178
thymus	100%	4083.88	653 / 653	100%	134.94	605 / 605
uterus	100%	5254.88	170 / 170	100%	148.82	459 / 459
skin	100%	4603.56	1808 / 1809	100%	170.58	472 / 472
prostate	100%	4411.49	245 / 245	100%	136.52	501 / 502
kidney	100%	3856.13	89 / 89	100%	120.19	899 / 901
stomach	100%	3856.31	359 / 359	100%	116.34	285 / 286
intestine	100%	4780.41	966 / 966	100%	126.32	525 / 527
lung	100%	3512.38	577 / 578	100%	122.36	1152 / 1155
adrenal gland	100%	4940.03	258 / 258	100%	131.28	229 / 230
liver	100%	2294.39	225 / 226	100%	94.58	406 / 406
breast	100%	4244.78	459 / 459	99%	126.11	1112 / 1118
bladder	100%	5339.90	21 / 21	99%	134.29	499 / 504
adipose	100%	4183.72	1204 / 1204	0%	0	0 / 0
blood vessel	100%	4998.00	1335 / 1335	0%	0	0 / 0
eye	0%	0	0 / 0	100%	129.22	80 / 80
lymph node	0%	0	0 / 0	100%	170.84	29 / 29
muscle	100%	4893.61	803 / 803	0%	0	0 / 0
spleen	100%	3925.80	241 / 241	0%	0	0 / 0
tonsil	0%	0	0 / 0	100%	127.82	45 / 45
ureter	0%	0	0 / 0	100%	77.07	1 / 1
heart	99%	4081.39	850 / 861	0%	0	0 / 0
peripheral blood	95%	2293.88	882 / 929	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

III. Associated gene sets

GO_2000434	Biological process	regulation of protein neddylation
GO_0045116	Biological process	protein neddylation
GO_0000338	Biological process	protein deneddylation
GO_0008180	Cellular component	COP9 signalosome
GO_0005654	Cellular component	nucleoplasm
GO_0005829	Cellular component	cytosol
GO_0048471	Cellular component	perinuclear region of cytoplasm
GO_0005737	Cellular component	cytoplasm
GO_0005634	Cellular component	nucleus
GO_0140492	Molecular function	metal-dependent deubiquitinase activity
GO_0008233	Molecular function	peptidase activity
GO_0005515	Molecular function	protein binding

IV. Literature review

[source]

Gene name	COPS6
Protein name	COP9 signalosome complex subunit 6 COP9 signalosome subunit 6 COP9 signalosome complex subunit 6 (SGN6) (Signalosome subunit 6) (JAB1-containing signalosome subunit 6) (MOV34 homolog) (Vpr-interacting protein) (hVIP)
Synonyms	CSN6 HVIP
Description	FUNCTION: Component of the COP9 signalosome complex (CSN), a complex involved in various cellular and developmental processes. The CSN complex is an essential regulator of the ubiquitin (Ubl) conjugation pathway by mediating the deneddylation of the cullin subunits of SCF-type E3 ligase complexes, leading to decrease the Ubl ligase activity of SCF-type complexes such as SCF, CSA or DDB2. The complex is also involved in phosphorylation of p53/TP53, c-jun/JUN, IkappaBalpha/NFKBIA, ITPK1 and IRF8, possibly via its association with CK2 and PKD kinases. CSN-dependent phosphorylation of TP53 and JUN promotes and protects degradation by the Ubl system, respectively. Has some glucocorticoid receptor-responsive activity. Stabilizes COP1 through reducing COP1 auto-ubiquitination and decelerating COP1 turnover rate, hence regulates the ubiquitination of COP1 targets. . FUNCTION: Component of the COP9 signalosome complex (CSN), a complex involved in various cellular and developmental processes. .
Accessions	ENST00000419210.1 ENST00000303904.8 E7EM64 H7C3T0 ENST00000426712.1 ENST00000418625.5 Q7L5N1 C9JQK5

COPS6 report

I. Expression across cell types

II. Expression across tissues

III. Associated gene sets

IV. Literature review