LIMS1 | OmnibusX

I. Expression across cell types

Name	Number of supported studies	Average coverage
fibroblast	41 studies	32% ± 12%	Explore
endothelial cell	39 studies	35% ± 15%	Explore
macrophage	37 studies	40% ± 13%	Explore
pericyte	34 studies	36% ± 14%	Explore
endothelial cell of lymphatic vessel	26 studies	55% ± 19%	Explore
smooth muscle cell	25 studies	25% ± 7%	Explore
classical monocyte	24 studies	36% ± 13%	Explore
conventional dendritic cell	23 studies	35% ± 12%	Explore
mast cell	21 studies	26% ± 12%	Explore
non-classical monocyte	21 studies	41% ± 11%	Explore
regulatory T cell	20 studies	28% ± 7%	Explore
monocyte	18 studies	40% ± 12%	Explore
ciliated cell	17 studies	40% ± 17%	Explore
CD4-positive, alpha-beta T cell	17 studies	24% ± 9%	Explore
astrocyte	16 studies	34% ± 18%	Explore
dendritic cell	15 studies	40% ± 17%	Explore
microglial cell	15 studies	47% ± 14%	Explore
myeloid cell	15 studies	45% ± 16%	Explore
connective tissue cell	13 studies	33% ± 13%	Explore
endothelial cell of vascular tree	13 studies	31% ± 12%	Explore
basal cell	13 studies	29% ± 15%	Explore
myofibroblast cell	12 studies	28% ± 9%	Explore
natural killer cell	12 studies	20% ± 5%	Explore
T cell	11 studies	22% ± 6%	Explore
platelet	11 studies	65% ± 19%	Explore
type I pneumocyte	10 studies	29% ± 8%	Explore
vein endothelial cell	10 studies	33% ± 16%	Explore
epithelial cell	9 studies	42% ± 25%	Explore
adipocyte	9 studies	59% ± 12%	Explore
oligodendrocyte	9 studies	25% ± 8%	Explore
alveolar macrophage	8 studies	39% ± 13%	Explore
CD4-positive, alpha-beta memory T cell	8 studies	30% ± 9%	Explore
naive thymus-derived CD4-positive, alpha-beta T cell	8 studies	19% ± 3%	Explore
CD8-positive, alpha-beta T cell	8 studies	23% ± 7%	Explore
abnormal cell	8 studies	23% ± 12%	Explore
mesothelial cell	8 studies	30% ± 12%	Explore
T follicular helper cell	8 studies	37% ± 11%	Explore
hematopoietic stem cell	8 studies	45% ± 17%	Explore
oligodendrocyte precursor cell	8 studies	27% ± 11%	Explore
mononuclear phagocyte	7 studies	42% ± 14%	Explore
GABAergic neuron	7 studies	32% ± 14%	Explore
renal alpha-intercalated cell	7 studies	41% ± 16%	Explore
endothelial cell of artery	7 studies	29% ± 9%	Explore
leukocyte	7 studies	33% ± 13%	Explore
B cell	7 studies	20% ± 4%	Explore
megakaryocyte	6 studies	87% ± 15%	Explore
club cell	6 studies	23% ± 6%	Explore
Mueller cell	6 studies	26% ± 8%	Explore
capillary endothelial cell	6 studies	23% ± 7%	Explore
effector memory CD4-positive, alpha-beta T cell	6 studies	28% ± 12%	Explore
hematopoietic precursor cell	5 studies	37% ± 19%	Explore
neutrophil	5 studies	29% ± 9%	Explore
CD16-negative, CD56-bright natural killer cell, human	5 studies	24% ± 1%	Explore
progenitor cell	5 studies	20% ± 3%	Explore
lymphocyte	5 studies	39% ± 18%	Explore
cardiac muscle cell	5 studies	35% ± 8%	Explore
retinal cone cell	5 studies	26% ± 8%	Explore
type II pneumocyte	5 studies	23% ± 4%	Explore
neuron	5 studies	40% ± 19%	Explore
exhausted T cell	4 studies	35% ± 16%	Explore
mature NK T cell	4 studies	23% ± 7%	Explore
glial cell	4 studies	25% ± 9%	Explore
plasma cell	4 studies	30% ± 12%	Explore
retinal bipolar neuron	4 studies	22% ± 5%	Explore
retinal rod cell	4 studies	22% ± 4%	Explore
inflammatory macrophage	4 studies	33% ± 15%	Explore
effector CD4-positive, alpha-beta T cell	4 studies	37% ± 14%	Explore
intermediate monocyte	4 studies	49% ± 12%	Explore
glutamatergic neuron	4 studies	44% ± 14%	Explore
megakaryocyte-erythroid progenitor cell	4 studies	64% ± 23%	Explore
enteroendocrine cell	4 studies	32% ± 6%	Explore
CD8-positive, alpha-beta memory T cell	4 studies	24% ± 9%	Explore
gamma-delta T cell	4 studies	37% ± 7%	Explore
goblet cell	4 studies	32% ± 26%	Explore
T-helper 17 cell	4 studies	27% ± 6%	Explore
interneuron	4 studies	37% ± 22%	Explore
secretory cell	4 studies	27% ± 7%	Explore
deuterosomal cell	3 studies	23% ± 2%	Explore
renal beta-intercalated cell	3 studies	52% ± 23%	Explore
innate lymphoid cell	3 studies	27% ± 10%	Explore
tissue-resident macrophage	3 studies	46% ± 10%	Explore
rod bipolar cell	3 studies	42% ± 16%	Explore
CD4-positive helper T cell	3 studies	21% ± 6%	Explore
effector memory CD8-positive, alpha-beta T cell	3 studies	18% ± 1%	Explore
hepatocyte	3 studies	36% ± 23%	Explore
granulocyte	3 studies	33% ± 18%	Explore
muscle cell	3 studies	33% ± 7%	Explore
pancreatic ductal cell	3 studies	39% ± 17%	Explore
ependymal cell	3 studies	30% ± 17%	Explore
adventitial cell	3 studies	25% ± 4%	Explore
chondrocyte	3 studies	28% ± 6%	Explore
Schwann cell	3 studies	20% ± 3%	Explore
transit amplifying cell	3 studies	38% ± 24%	Explore
T-helper 1 cell	3 studies	25% ± 2%	Explore
central memory CD4-positive, alpha-beta T cell	3 studies	26% ± 5%	Explore
CD4-positive, alpha-beta cytotoxic T cell	3 studies	44% ± 12%	Explore
effector CD8-positive, alpha-beta T cell	3 studies	22% ± 5%	Explore

II. Expression across tissues

Name	Number of supported studies	Average coverage
lung	18 studies	29% ± 12%	Explore
peripheral blood	13 studies	23% ± 9%	Explore
brain	13 studies	29% ± 12%	Explore
intestine	8 studies	23% ± 11%	Explore
kidney	7 studies	22% ± 4%	Explore
eye	7 studies	24% ± 11%	Explore
liver	6 studies	30% ± 16%	Explore
heart	5 studies	27% ± 5%	Explore
breast	5 studies	20% ± 5%	Explore
uterus	4 studies	34% ± 17%	Explore
adipose	4 studies	34% ± 16%	Explore
bone marrow	3 studies	32% ± 18%	Explore
lymph node	3 studies	28% ± 10%	Explore
prostate	3 studies	17% ± 3%	Explore

Tissue	GTEx Coverage	GTEx Average TPM	GTEx Number of samples	TCGA Coverage	TCGA Average TPM	TCGA Number of samples
esophagus	100%	2910.06	1445 / 1445	100%	42.86	183 / 183
lung	100%	5506.17	578 / 578	100%	35.96	1155 / 1155
ovary	100%	2996.54	180 / 180	100%	31.49	429 / 430
breast	100%	4296.25	459 / 459	99%	32.83	1111 / 1118
stomach	100%	2212.09	359 / 359	99%	31.10	284 / 286
bladder	100%	3310.19	21 / 21	99%	27.94	500 / 504
uterus	100%	3435.82	170 / 170	99%	31.28	453 / 459
intestine	100%	3264.36	965 / 966	99%	27.31	520 / 527
prostate	100%	2849.57	244 / 245	99%	31.65	496 / 502
kidney	100%	2358.76	89 / 89	98%	33.56	885 / 901
thymus	100%	2711.84	651 / 653	98%	19.11	592 / 605
adrenal gland	100%	4997.83	258 / 258	97%	25.65	222 / 230
skin	100%	3138.06	1804 / 1809	94%	29.92	443 / 472
pancreas	86%	1026.16	282 / 328	96%	34.82	171 / 178
brain	75%	940.64	1993 / 2642	100%	24.56	702 / 705
liver	92%	1028.35	207 / 226	81%	13.73	329 / 406
adipose	100%	5171.38	1204 / 1204	0%	0	0 / 0
blood vessel	100%	5088.91	1335 / 1335	0%	0	0 / 0
lymph node	0%	0	0 / 0	100%	39.86	29 / 29
muscle	100%	5634.28	803 / 803	0%	0	0 / 0
spleen	100%	2158.40	241 / 241	0%	0	0 / 0
tonsil	0%	0	0 / 0	100%	32.23	45 / 45
ureter	0%	0	0 / 0	100%	10.87	1 / 1
heart	97%	2494.36	831 / 861	0%	0	0 / 0
peripheral blood	96%	2392.94	894 / 929	0%	0	0 / 0
eye	0%	0	0 / 0	50%	5.50	40 / 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_0001837	Biological process	epithelial to mesenchymal transition
GO_0071560	Biological process	cellular response to transforming growth factor beta stimulus
GO_0043547	Biological process	positive regulation of GTPase activity
GO_0045184	Biological process	establishment of protein localization
GO_0010811	Biological process	positive regulation of cell-substrate adhesion
GO_0010628	Biological process	positive regulation of gene expression
GO_2001046	Biological process	positive regulation of integrin-mediated signaling pathway
GO_0045216	Biological process	cell-cell junction organization
GO_0050678	Biological process	regulation of epithelial cell proliferation
GO_0043123	Biological process	positive regulation of canonical NF-kappaB signal transduction
GO_0051894	Biological process	positive regulation of focal adhesion assembly
GO_1900026	Biological process	positive regulation of substrate adhesion-dependent cell spreading
GO_0098609	Biological process	cell-cell adhesion
GO_0045892	Biological process	negative regulation of DNA-templated transcription
GO_0033209	Biological process	tumor necrosis factor-mediated signaling pathway
GO_0005886	Cellular component	plasma membrane
GO_0048471	Cellular component	perinuclear region of cytoplasm
GO_0005925	Cellular component	focal adhesion
GO_0005911	Cellular component	cell-cell junction
GO_0005829	Cellular component	cytosol
GO_0005737	Cellular component	cytoplasm
GO_0019901	Molecular function	protein kinase binding
GO_0008270	Molecular function	zinc ion binding
GO_0005515	Molecular function	protein binding

IV. Literature review

[source]

Gene name	LIMS1
Protein name	LIM and senescent cell antigen-like-containing domain protein LIM zinc finger domain containing 1 LIM and senescent cell antigen-like-containing domain protein 1 (Particularly interesting new Cys-His protein 1) (PINCH-1) (Renal carcinoma antigen NY-REN-48)
Synonyms	PINCH PINCH1
Description	FUNCTION: Adapter protein in a cytoplasmic complex linking beta-integrins to the actin cytoskeleton, bridges the complex to cell surface receptor tyrosine kinases and growth factor receptors. Involved in the regulation of cell survival, cell proliferation and cell differentiation. FUNCTION: Adapter protein in a cytoplasmic complex linking beta-integrins to the actin cytoskeleton, bridges the complex to cell surface receptor tyrosine kinases and growth factor receptors. . FUNCTION: Adapter protein in a cytoplasmic complex linking beta-integrins to the actin cytoskeleton, bridges the complex to cell surface receptor tyrosine kinases and growth factor receptors. . FUNCTION: Adapter protein in a cytoplasmic complex linking beta-integrins to the actin cytoskeleton, bridges the complex to cell surface receptor tyrosine kinases and growth factor receptors. . FUNCTION: Adapter protein in a cytoplasmic complex linking beta-integrins to the actin cytoskeleton, bridges the complex to cell surface receptor tyrosine kinases and growth factor receptors. .
Accessions	F8WE10 ENST00000338045.7 [P48059-3] ENST00000695516.1 ENST00000695519.1 ENST00000422797.5 ENST00000695517.1 ENST00000695522.1 P48059 ENST00000332345.10 [P48059-1] ENST00000393310.5 [P48059-1] ENST00000695520.1 A0A8Q3WLX8 ENST00000434274.2 F8WC86 ENST00000695518.1 [P48059-1] A0A8Q3WLN4 ENST00000695521.1 [P48059-1] ENST00000544547.6 [P48059-2] A0A0M3HER1 ENST00000542845.3 A0A8Q3WKI3 A0A8Q3WKJ2 ENST00000409441.5 [P48059-5] F8WB59 ENST00000414829.2 ENST00000695523.1 A0A8Q3WKK6 A0A8Q3WKP0 ENST00000410093.5 [P48059-4]

LIMS1 report

I. Expression across cell types

II. Expression across tissues

III. Associated gene sets

IV. Literature review