SMC5 | OmnibusX

I. Expression across cell types

Name	Number of supported studies	Average coverage
endothelial cell	24 studies	29% ± 13%	Explore
fibroblast	22 studies	30% ± 12%	Explore
natural killer cell	15 studies	22% ± 5%	Explore
pericyte	14 studies	27% ± 12%	Explore
astrocyte	14 studies	32% ± 14%	Explore
B cell	13 studies	20% ± 4%	Explore
smooth muscle cell	13 studies	25% ± 9%	Explore
regulatory T cell	13 studies	20% ± 3%	Explore
CD16-negative, CD56-bright natural killer cell, human	12 studies	20% ± 3%	Explore
basal cell	12 studies	33% ± 16%	Explore
CD16-positive, CD56-dim natural killer cell, human	11 studies	20% ± 4%	Explore
CD8-positive, alpha-beta T cell	11 studies	18% ± 3%	Explore
ciliated cell	11 studies	26% ± 10%	Explore
oligodendrocyte	11 studies	31% ± 12%	Explore
naive B cell	10 studies	20% ± 4%	Explore
glutamatergic neuron	10 studies	38% ± 24%	Explore
microglial cell	10 studies	30% ± 11%	Explore
oligodendrocyte precursor cell	10 studies	35% ± 15%	Explore
epithelial cell	10 studies	35% ± 17%	Explore
type I pneumocyte	9 studies	27% ± 11%	Explore
macrophage	9 studies	31% ± 12%	Explore
T cell	8 studies	23% ± 4%	Explore
mast cell	8 studies	21% ± 6%	Explore
endothelial cell of lymphatic vessel	8 studies	32% ± 14%	Explore
GABAergic neuron	8 studies	39% ± 18%	Explore
CD4-positive, alpha-beta T cell	8 studies	19% ± 3%	Explore
adipocyte	8 studies	26% ± 7%	Explore
gamma-delta T cell	8 studies	21% ± 7%	Explore
effector memory CD8-positive, alpha-beta T cell	7 studies	19% ± 2%	Explore
memory B cell	7 studies	20% ± 4%	Explore
CD8-positive, alpha-beta memory T cell	7 studies	21% ± 2%	Explore
neuron	6 studies	35% ± 17%	Explore
interneuron	6 studies	39% ± 21%	Explore
mucosal invariant T cell	6 studies	18% ± 2%	Explore
club cell	6 studies	35% ± 14%	Explore
dendritic cell	6 studies	28% ± 9%	Explore
type II pneumocyte	6 studies	33% ± 8%	Explore
non-classical monocyte	5 studies	23% ± 7%	Explore
mature NK T cell	5 studies	20% ± 3%	Explore
naive thymus-derived CD4-positive, alpha-beta T cell	5 studies	19% ± 1%	Explore
myeloid cell	5 studies	24% ± 4%	Explore
lymphocyte	5 studies	30% ± 10%	Explore
respiratory goblet cell	5 studies	36% ± 14%	Explore
connective tissue cell	5 studies	26% ± 10%	Explore
monocyte	5 studies	26% ± 6%	Explore
goblet cell	5 studies	33% ± 27%	Explore
myofibroblast cell	5 studies	26% ± 11%	Explore
plasmacytoid dendritic cell	5 studies	21% ± 5%	Explore
CD4-positive, alpha-beta memory T cell	4 studies	19% ± 2%	Explore
leukocyte	4 studies	21% ± 5%	Explore
granule cell	4 studies	28% ± 5%	Explore
precursor B cell	4 studies	21% ± 3%	Explore
cardiac muscle cell	4 studies	24% ± 2%	Explore
mesothelial cell	4 studies	30% ± 7%	Explore
T follicular helper cell	4 studies	19% ± 2%	Explore
abnormal cell	4 studies	28% ± 14%	Explore
conventional dendritic cell	3 studies	32% ± 8%	Explore
naive thymus-derived CD8-positive, alpha-beta T cell	3 studies	20% ± 3%	Explore
GABAergic interneuron	3 studies	24% ± 9%	Explore
glial cell	3 studies	29% ± 3%	Explore
progenitor cell	3 studies	27% ± 9%	Explore
mononuclear phagocyte	3 studies	21% ± 5%	Explore
vein endothelial cell	3 studies	30% ± 18%	Explore
retinal cone cell	3 studies	21% ± 4%	Explore
Mueller cell	3 studies	22% ± 8%	Explore
glycinergic amacrine cell	3 studies	20% ± 4%	Explore
secretory cell	3 studies	24% ± 3%	Explore
effector memory CD4-positive, alpha-beta T cell	3 studies	20% ± 3%	Explore
endothelial cell of vascular tree	3 studies	32% ± 16%	Explore
hepatocyte	3 studies	40% ± 22%	Explore
ependymal cell	3 studies	55% ± 14%	Explore
adventitial cell	3 studies	24% ± 7%	Explore
alveolar macrophage	3 studies	26% ± 7%	Explore
chondrocyte	3 studies	30% ± 14%	Explore
muscle cell	3 studies	30% ± 15%	Explore
transit amplifying cell	3 studies	41% ± 26%	Explore
effector memory CD8-positive, alpha-beta T cell, terminally differentiated	3 studies	18% ± 2%	Explore
mural cell	3 studies	31% ± 9%	Explore
mucus secreting cell	3 studies	33% ± 12%	Explore

II. Expression across tissues

Name	Number of supported studies	Average coverage
brain	15 studies	34% ± 19%	Explore
lung	10 studies	24% ± 7%	Explore
peripheral blood	4 studies	23% ± 5%	Explore
heart	4 studies	26% ± 4%	Explore
eye	4 studies	28% ± 17%	Explore
adipose	4 studies	25% ± 6%	Explore
liver	3 studies	33% ± 13%	Explore
intestine	3 studies	20% ± 3%	Explore

Tissue	GTEx Coverage	GTEx Average TPM	GTEx Number of samples	TCGA Coverage	TCGA Average TPM	TCGA Number of samples
esophagus	100%	2767.67	1445 / 1445	100%	32.07	183 / 183
lung	100%	3679.26	578 / 578	100%	22.97	1155 / 1155
breast	100%	3401.02	459 / 459	100%	26.98	1116 / 1118
pancreas	100%	2632.06	328 / 328	99%	23.06	177 / 178
prostate	100%	3432.69	245 / 245	99%	19.68	499 / 502
uterus	100%	3976.45	170 / 170	99%	24.40	455 / 459
thymus	100%	3330.98	653 / 653	99%	23.14	599 / 605
ovary	100%	7361.93	180 / 180	99%	17.44	425 / 430
bladder	100%	3424.81	21 / 21	98%	19.81	496 / 504
stomach	100%	2304.14	359 / 359	98%	23.99	279 / 286
intestine	100%	3020.38	966 / 966	97%	22.90	513 / 527
kidney	100%	1787.80	89 / 89	95%	15.32	857 / 901
brain	95%	1431.79	2513 / 2642	100%	19.70	704 / 705
adrenal gland	100%	1993.39	258 / 258	90%	8.91	208 / 230
liver	100%	1557.47	226 / 226	88%	10.42	359 / 406
skin	100%	3116.63	1809 / 1809	86%	14.00	407 / 472
adipose	100%	3177.86	1204 / 1204	0%	0	0 / 0
blood vessel	100%	3083.33	1335 / 1335	0%	0	0 / 0
lymph node	0%	0	0 / 0	100%	19.52	29 / 29
muscle	100%	2457.32	803 / 803	0%	0	0 / 0
spleen	100%	2763.79	241 / 241	0%	0	0 / 0
tonsil	0%	0	0 / 0	100%	27.70	45 / 45
ureter	0%	0	0 / 0	100%	9.07	1 / 1
heart	98%	1896.69	847 / 861	0%	0	0 / 0
peripheral blood	70%	1563.40	648 / 929	0%	0	0 / 0
eye	0%	0	0 / 0	48%	4.21	38 / 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

III. Associated gene sets

GO_0071459	Biological process	protein localization to chromosome, centromeric region
GO_0016925	Biological process	protein sumoylation
GO_0006303	Biological process	double-strand break repair via nonhomologous end joining
GO_0032204	Biological process	regulation of telomere maintenance
GO_0007059	Biological process	chromosome segregation
GO_0030261	Biological process	chromosome condensation
GO_0006974	Biological process	DNA damage response
GO_0051301	Biological process	cell division
GO_0000722	Biological process	telomere maintenance via recombination
GO_0044828	Biological process	negative regulation by host of viral genome replication
GO_0000724	Biological process	double-strand break repair via homologous recombination
GO_0019827	Biological process	stem cell population maintenance
GO_0034184	Biological process	positive regulation of maintenance of mitotic sister chromatid cohesion
GO_0051984	Biological process	positive regulation of chromosome segregation
GO_0140588	Biological process	chromatin looping
GO_0044772	Biological process	mitotic cell cycle phase transition
GO_0090398	Biological process	cellular senescence
GO_0000775	Cellular component	chromosome, centromeric region
GO_0016607	Cellular component	nuclear speck
GO_0000803	Cellular component	sex chromosome
GO_0005654	Cellular component	nucleoplasm
GO_0030915	Cellular component	Smc5-Smc6 complex
GO_0016605	Cellular component	PML body
GO_0005737	Cellular component	cytoplasm
GO_0030054	Cellular component	cell junction
GO_0000781	Cellular component	chromosome, telomeric region
GO_0035061	Cellular component	interchromatin granule
GO_0035861	Cellular component	site of double-strand break
GO_0005634	Cellular component	nucleus
GO_0003697	Molecular function	single-stranded DNA binding
GO_0000217	Molecular function	DNA secondary structure binding
GO_0005524	Molecular function	ATP binding
GO_0005515	Molecular function	protein binding
GO_0016887	Molecular function	ATP hydrolysis activity

IV. Literature review

[source]

Gene name	SMC5
Protein name	Structural maintenance of chromosomes protein 5 (SMC protein 5) (SMC-5) (hSMC5)
Synonyms	SMC5L1 KIAA0594
Description	FUNCTION: Core component of the SMC5-SMC6 complex, a complex involved in repair of DNA double-strand breaks by homologous recombination. The complex may promote sister chromatid homologous recombination by recruiting the SMC1-SMC3 cohesin complex to double-strand breaks. The complex is required for telomere maintenance via recombination in ALT (alternative lengthening of telomeres) cell lines and mediates sumoylation of shelterin complex (telosome) components which is proposed to lead to shelterin complex disassembly in ALT-associated PML bodies (APBs). Required for recruitment of telomeres to PML nuclear bodies. Required for sister chromatid cohesion during prometaphase and mitotic progression; the function seems to be independent of SMC6. SMC5-SMC6 complex may prevent transcription of episomal DNA, such as circular viral DNA genome . .
Accessions	Q8IY18 ENST00000361138.7

SMC5 report

I. Expression across cell types

II. Expression across tissues

III. Associated gene sets

IV. Literature review