VIM | OmnibusX

I. Expression across cell types

Name	Number of supported studies	Average coverage
endothelial cell	50 studies	74% ± 24%	Explore
macrophage	49 studies	71% ± 24%	Explore
fibroblast	49 studies	81% ± 24%	Explore
B cell	44 studies	59% ± 21%	Explore
T cell	41 studies	65% ± 23%	Explore
natural killer cell	40 studies	58% ± 22%	Explore
pericyte	40 studies	81% ± 25%	Explore
CD8-positive, alpha-beta T cell	40 studies	69% ± 23%	Explore
CD4-positive, alpha-beta T cell	35 studies	71% ± 24%	Explore
smooth muscle cell	34 studies	77% ± 26%	Explore
conventional dendritic cell	33 studies	90% ± 14%	Explore
dendritic cell	32 studies	82% ± 22%	Explore
mast cell	30 studies	81% ± 22%	Explore
endothelial cell of lymphatic vessel	30 studies	85% ± 20%	Explore
plasmacytoid dendritic cell	30 studies	87% ± 18%	Explore
classical monocyte	29 studies	93% ± 8%	Explore
monocyte	28 studies	76% ± 22%	Explore
plasma cell	28 studies	70% ± 23%	Explore
regulatory T cell	28 studies	78% ± 17%	Explore
non-classical monocyte	27 studies	88% ± 17%	Explore
mature NK T cell	22 studies	64% ± 22%	Explore
gamma-delta T cell	21 studies	72% ± 23%	Explore
connective tissue cell	21 studies	88% ± 20%	Explore
memory B cell	20 studies	74% ± 13%	Explore
naive thymus-derived CD4-positive, alpha-beta T cell	20 studies	73% ± 26%	Explore
naive B cell	19 studies	54% ± 17%	Explore
neutrophil	17 studies	63% ± 23%	Explore
capillary endothelial cell	17 studies	71% ± 21%	Explore
myeloid cell	17 studies	70% ± 31%	Explore
mucosal invariant T cell	16 studies	76% ± 22%	Explore
endothelial cell of artery	16 studies	83% ± 20%	Explore
astrocyte	16 studies	52% ± 29%	Explore
CD16-negative, CD56-bright natural killer cell, human	15 studies	59% ± 20%	Explore
naive thymus-derived CD8-positive, alpha-beta T cell	15 studies	80% ± 20%	Explore
CD16-positive, CD56-dim natural killer cell, human	15 studies	58% ± 15%	Explore
myofibroblast cell	15 studies	93% ± 12%	Explore
vein endothelial cell	15 studies	80% ± 18%	Explore
endothelial cell of vascular tree	15 studies	82% ± 23%	Explore
epithelial cell	14 studies	53% ± 27%	Explore
effector memory CD8-positive, alpha-beta T cell	13 studies	63% ± 27%	Explore
CD8-positive, alpha-beta memory T cell	13 studies	77% ± 20%	Explore
innate lymphoid cell	12 studies	71% ± 23%	Explore
plasmablast	12 studies	77% ± 19%	Explore
CD4-positive, alpha-beta memory T cell	12 studies	84% ± 16%	Explore
leukocyte	11 studies	73% ± 20%	Explore
mesothelial cell	11 studies	77% ± 29%	Explore
abnormal cell	10 studies	56% ± 30%	Explore
IgG plasma cell	10 studies	51% ± 24%	Explore
basal cell	10 studies	44% ± 24%	Explore
platelet	9 studies	53% ± 24%	Explore
effector CD8-positive, alpha-beta T cell	9 studies	85% ± 16%	Explore
IgA plasma cell	9 studies	66% ± 25%	Explore
hematopoietic stem cell	9 studies	73% ± 28%	Explore
adipocyte	9 studies	58% ± 24%	Explore
ciliated cell	9 studies	44% ± 24%	Explore
alveolar macrophage	8 studies	82% ± 24%	Explore
type I pneumocyte	8 studies	28% ± 10%	Explore
type II pneumocyte	8 studies	30% ± 9%	Explore
mononuclear phagocyte	8 studies	69% ± 26%	Explore
progenitor cell	8 studies	54% ± 34%	Explore
T follicular helper cell	8 studies	50% ± 30%	Explore
effector CD4-positive, alpha-beta T cell	7 studies	84% ± 26%	Explore
glial cell	7 studies	72% ± 24%	Explore
microglial cell	7 studies	61% ± 23%	Explore
neuron	7 studies	49% ± 21%	Explore
melanocyte	7 studies	86% ± 21%	Explore
erythrocyte	7 studies	47% ± 23%	Explore
CD4-positive helper T cell	6 studies	80% ± 15%	Explore
CD4-positive, alpha-beta cytotoxic T cell	6 studies	65% ± 29%	Explore
effector memory CD8-positive, alpha-beta T cell, terminally differentiated	6 studies	62% ± 26%	Explore
hematopoietic precursor cell	6 studies	79% ± 19%	Explore
lymphocyte	6 studies	74% ± 29%	Explore
precursor B cell	6 studies	69% ± 17%	Explore
immature B cell	6 studies	71% ± 9%	Explore
Mueller cell	6 studies	78% ± 19%	Explore
intermediate monocyte	6 studies	87% ± 20%	Explore
effector memory CD4-positive, alpha-beta T cell	6 studies	91% ± 8%	Explore
granulocyte	6 studies	87% ± 14%	Explore
central memory CD8-positive, alpha-beta T cell	5 studies	81% ± 15%	Explore
exhausted T cell	5 studies	70% ± 20%	Explore
Schwann cell	5 studies	82% ± 27%	Explore
T-helper 17 cell	5 studies	87% ± 15%	Explore
group 3 innate lymphoid cell	5 studies	79% ± 13%	Explore
secretory cell	5 studies	74% ± 17%	Explore
adventitial cell	5 studies	77% ± 32%	Explore
inflammatory macrophage	5 studies	78% ± 13%	Explore
double negative thymocyte	5 studies	86% ± 6%	Explore
pancreatic A cell	4 studies	47% ± 23%	Explore
monocyte-derived dendritic cell	4 studies	96% ± 4%	Explore
podocyte	4 studies	94% ± 2%	Explore
epithelial cell of proximal tubule	4 studies	55% ± 28%	Explore
pro-B cell	4 studies	78% ± 10%	Explore
club cell	4 studies	55% ± 31%	Explore
chondrocyte	4 studies	56% ± 25%	Explore
enteroendocrine cell	4 studies	32% ± 22%	Explore
T-helper 1 cell	4 studies	88% ± 15%	Explore
Langerhans cell	3 studies	94% ± 1%	Explore
endothelial cell of sinusoid	3 studies	32% ± 17%	Explore
GABAergic neuron	3 studies	29% ± 10%	Explore
interneuron	3 studies	56% ± 29%	Explore
glomerular endothelial cell	3 studies	27% ± 6%	Explore
erythroblast	3 studies	43% ± 18%	Explore
neural crest cell	3 studies	99% ± 1%	Explore
thymocyte	3 studies	75% ± 13%	Explore
common myeloid progenitor	3 studies	64% ± 32%	Explore
retina horizontal cell	3 studies	22% ± 4%	Explore
retinal pigment epithelial cell	3 studies	60% ± 13%	Explore
endocardial cell	3 studies	58% ± 19%	Explore
tissue-resident macrophage	3 studies	66% ± 15%	Explore
intraepithelial lymphocyte	3 studies	72% ± 12%	Explore
germinal center B cell	3 studies	26% ± 15%	Explore
myoepithelial cell	3 studies	92% ± 6%	Explore
IgM plasma cell	3 studies	37% ± 23%	Explore
muscle cell	3 studies	75% ± 5%	Explore
acinar cell	3 studies	39% ± 12%	Explore
pancreatic ductal cell	3 studies	36% ± 7%	Explore
megakaryocyte-erythroid progenitor cell	3 studies	93% ± 2%	Explore
central memory CD4-positive, alpha-beta T cell	3 studies	96% ± 1%	Explore
double-positive, alpha-beta thymocyte	3 studies	89% ± 12%	Explore
progenitor cell of mammary luminal epithelium	3 studies	46% ± 21%	Explore

II. Expression across tissues

Name	Number of supported studies	Average coverage
peripheral blood	22 studies	74% ± 20%	Explore
lung	18 studies	59% ± 20%	Explore
eye	11 studies	36% ± 19%	Explore
intestine	10 studies	62% ± 22%	Explore
kidney	9 studies	52% ± 27%	Explore
liver	7 studies	37% ± 24%	Explore
bone marrow	7 studies	57% ± 27%	Explore
lymph node	7 studies	60% ± 24%	Explore
heart	7 studies	33% ± 16%	Explore
uterus	6 studies	75% ± 20%	Explore
pancreas	5 studies	32% ± 10%	Explore
brain	5 studies	39% ± 16%	Explore
adipose	4 studies	70% ± 21%	Explore
placenta	4 studies	39% ± 18%	Explore
prostate	4 studies	26% ± 15%	Explore
skin	4 studies	57% ± 22%	Explore
breast	4 studies	66% ± 8%	Explore
ovary	3 studies	75% ± 24%	Explore
adrenal gland	3 studies	51% ± 24%	Explore
stomach	3 studies	43% ± 27%	Explore
thymus	3 studies	72% ± 18%	Explore

Tissue	GTEx Coverage	GTEx Average TPM	GTEx Number of samples	TCGA Coverage	TCGA Average TPM	TCGA Number of samples
thymus	99%	77029.19	646 / 653	99%	768.63	596 / 605
skin	95%	100907.34	1716 / 1809	100%	1373.39	472 / 472
breast	100%	114674.23	457 / 459	94%	350.84	1048 / 1118
ovary	100%	165644.41	180 / 180	85%	262.61	364 / 430
lung	99%	58555.90	571 / 578	76%	201.61	874 / 1155
uterus	99%	68765.41	169 / 170	58%	280.00	266 / 459
bladder	90%	47353.05	19 / 21	43%	129.42	219 / 504
kidney	39%	15197.46	35 / 89	90%	830.98	814 / 901
esophagus	67%	33062.57	969 / 1445	50%	109.92	91 / 183
intestine	73%	35719.37	710 / 966	39%	91.20	205 / 527
adrenal gland	36%	11312.76	94 / 258	73%	252.64	169 / 230
prostate	66%	26743.68	162 / 245	42%	69.72	210 / 502
adipose	100%	146707.31	1204 / 1204	0%	0	0 / 0
blood vessel	100%	221853.44	1335 / 1335	0%	0	0 / 0
eye	0%	0	0 / 0	100%	1950.66	80 / 80
spleen	98%	42448.49	235 / 241	0%	0	0 / 0
lymph node	0%	0	0 / 0	93%	345.92	27 / 29
pancreas	4%	1343.27	14 / 328	89%	318.96	158 / 178
stomach	37%	16016.85	133 / 359	53%	111.64	151 / 286
brain	12%	4349.11	330 / 2642	74%	525.54	524 / 705
peripheral blood	80%	46652.54	743 / 929	0%	0	0 / 0
tonsil	0%	0	0 / 0	71%	168.34	32 / 45
heart	59%	27889.83	511 / 861	0%	0	0 / 0
liver	1%	282.04	2 / 226	25%	70.43	101 / 406
muscle	9%	2766.53	71 / 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_0060020	Biological process	Bergmann glial cell differentiation
GO_0043488	Biological process	regulation of mRNA stability
GO_0031175	Biological process	neuron projection development
GO_0010628	Biological process	positive regulation of gene expression
GO_0070307	Biological process	lens fiber cell development
GO_0045109	Biological process	intermediate filament organization
GO_0010977	Biological process	negative regulation of neuron projection development
GO_0032967	Biological process	positive regulation of collagen biosynthetic process
GO_0071222	Biological process	cellular response to lipopolysaccharide
GO_0014002	Biological process	astrocyte development
GO_0071225	Biological process	cellular response to muramyl dipeptide
GO_0071346	Biological process	cellular response to type II interferon
GO_0005856	Cellular component	cytoskeleton
GO_0005886	Cellular component	plasma membrane
GO_0005815	Cellular component	microtubule organizing center
GO_0070062	Cellular component	extracellular exosome
GO_0005777	Cellular component	peroxisome
GO_0031252	Cellular component	cell leading edge
GO_0005882	Cellular component	intermediate filament
GO_0005925	Cellular component	focal adhesion
GO_0016363	Cellular component	nuclear matrix
GO_0045111	Cellular component	intermediate filament cytoskeleton
GO_0005829	Cellular component	cytosol
GO_0045335	Cellular component	phagocytic vesicle
GO_0005737	Cellular component	cytoplasm
GO_0030424	Cellular component	axon
GO_0019904	Molecular function	protein domain specific binding
GO_0060090	Molecular function	molecular adaptor activity
GO_0005200	Molecular function	structural constituent of cytoskeleton
GO_0042802	Molecular function	identical protein binding
GO_0005212	Molecular function	structural constituent of eye lens
GO_0097110	Molecular function	scaffold protein binding
GO_1990254	Molecular function	keratin filament binding
GO_0005515	Molecular function	protein binding
GO_0003725	Molecular function	double-stranded RNA binding

IV. Literature review

[source]

Gene name	VIM
Protein name	Vimentin Vimentin isoform 2
Synonyms	HEL113
Description	FUNCTION: Vimentins are class-III intermediate filaments found in various non-epithelial cells, especially mesenchymal cells. Vimentin is attached to the nucleus, endoplasmic reticulum, and mitochondria, either laterally or terminally. .; FUNCTION: Involved with LARP6 in the stabilization of type I collagen mRNAs for CO1A1 and CO1A2. . FUNCTION: Involved with LARP6 in the stabilization of type I collagen mRNAs for CO1A1 and CO1A2. .; FUNCTION: Vimentins are class-III intermediate filaments found in various non-epithelial cells, especially mesenchymal cells. Vimentin is attached to the nucleus, endoplasmic reticulum, and mitochondria, either laterally or terminally. . FUNCTION: Involved with LARP6 in the stabilization of type I collagen mRNAs for CO1A1 and CO1A2. .; FUNCTION: Vimentins are class-III intermediate filaments found in various non-epithelial cells, especially mesenchymal cells. Vimentin is attached to the nucleus, endoplasmic reticulum, and mitochondria, either laterally or terminally. . FUNCTION: Involved with LARP6 in the stabilization of type I collagen mRNAs for CO1A1 and CO1A2. . FUNCTION: Involved with LARP6 in the stabilization of type I collagen mRNAs for CO1A1 and CO1A2. .; FUNCTION: Vimentins are class-III intermediate filaments found in various non-epithelial cells, especially mesenchymal cells. Vimentin is attached to the nucleus, endoplasmic reticulum, and mitochondria, either laterally or terminally. . FUNCTION: Vimentins are class-III intermediate filaments found in various non-epithelial cells, especially mesenchymal cells. Vimentin is attached to the nucleus, endoplasmic reticulum, and mitochondria, either laterally or terminally. .
Accessions	B0YJC4 B0YJC5 ENST00000544301.7 A0A0S2Z4T0 P08670 V9HWE1 ENST00000478746.1 ENST00000469543.5 A0A1B0GVG8 ENST00000487938.5 ENST00000224237.9 ENST00000497849.1 A0A1B0GTT5

VIM report

I. Expression across cell types

II. Expression across tissues

III. Associated gene sets

IV. Literature review