Gene description for LIMS1
Gene name LIM and senescent cell antigen-like domains 1
Gene symbol LIMS1
Other names/aliases PINCH
PINCH-1
PINCH1
Species Homo sapiens
 Database cross references - LIMS1
ExoCarta ExoCarta_3987
Vesiclepedia VP_3987
Entrez Gene 3987
HGNC 6616
MIM 602567
UniProt P48059  
 LIMS1 identified in exosomes derived from the following tissue/cell type
Bone marrow mesenchymal stem cells 36408942    
Bone marrow mesenchymal stem cells 36408942    
Bone marrow mesenchymal stem cells 36408942    
Bone marrow mesenchymal stem cells 36408942    
Gastric cancer cells 33991177    
Gastric cancer cells 33991177    
Gastric cancer cells 33991177    
Neuroblastoma cells 25944692    
Platelets 25332113    
Platelets 25332113    
Platelets 25332113    
Retinal pigment epithelial cells 35333565    
Retinal pigment epithelial cells 35333565    
Thymus 23844026    
 Gene ontology annotations for LIMS1
Molecular Function
    actin binding GO:0003779 IEA
    protein binding GO:0005515 IPI
    zinc ion binding GO:0008270 IDA
    protein kinase binding GO:0019901 IPI
Biological Process
    epithelial to mesenchymal transition GO:0001837 IMP
    positive regulation of gene expression GO:0010628 IMP
    positive regulation of cell-substrate adhesion GO:0010811 IMP
    tumor necrosis factor-mediated signaling pathway GO:0033209 IMP
    positive regulation of canonical NF-kappaB signal transduction GO:0043123 IMP
    positive regulation of GTPase activity GO:0043547 IMP
    establishment of protein localization GO:0045184 IMP
    cell-cell junction organization GO:0045216 IBA
    negative regulation of DNA-templated transcription GO:0045892 IDA
    regulation of epithelial cell proliferation GO:0050678 IMP
    positive regulation of focal adhesion assembly GO:0051894 IMP
    cellular response to transforming growth factor beta stimulus GO:0071560 IEP
    cell-cell adhesion GO:0098609 IBA
    positive regulation of substrate adhesion-dependent cell spreading GO:1900026 IBA
    positive regulation of substrate adhesion-dependent cell spreading GO:1900026 IMP
    positive regulation of integrin-mediated signaling pathway GO:2001046 IBA
Subcellular Localization
    cytoplasm GO:0005737 IBA
    cytosol GO:0005829 TAS
    plasma membrane GO:0005886 IEA
    cell-cell junction GO:0005911 IBA
    cell-cell junction GO:0005911 IMP
    focal adhesion GO:0005925 HDA
    focal adhesion GO:0005925 IDA
    focal adhesion GO:0005925 IDA
    perinuclear region of cytoplasm GO:0048471 IDA
 Experiment description of studies that identified LIMS1 in exosomes
1
Experiment ID 489
MISEV standards
✔
EM
Biophysical techniques
✔
Cd9|Cd81|Cd63|Gapdh|Sdcbp|Lamp1|Aqp1|Rab5a|Icam1|Cd82|Itga2b|Tsg101|Lamp2|Rab35|Flot1|Flot2|Cd151|Rab5b|Tfrc|Uchl1
Enriched markers
✔
Canx
Negative markers
✔
NTA
Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 36408942    
Organism Rattus norvegicus
Experiment description Quantitative proteomic analysis of exosomes from umbilical cord mesenchymal stem cells and rat bone marrow stem cells
Authors "Xu X, Yin F, Guo M, Gan G, Lin G, Wen C, Wang J, Song P, Wang J, Qi ZQ, Zhong CQ."
Journal name Proteomics
Publication year 2023
Sample Bone marrow mesenchymal stem cells
Sample name BMSC - Passage 6
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
Mass spectometry
2
Experiment ID 490
MISEV standards
✔
EM
Biophysical techniques
✔
Cd9|Cd81|Cd63|Gapdh|Sdcbp|Lamp1|Aqp1|Rab5a|Icam1|Cd82|Itga2b|Tsg101|Lamp2|Rab35|Flot1|Flot2|Cd151|Rab5b|Tfrc|Uchl1
Enriched markers
✔
Canx
Negative markers
✔
NTA
Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 36408942    
Organism Rattus norvegicus
Experiment description Quantitative proteomic analysis of exosomes from umbilical cord mesenchymal stem cells and rat bone marrow stem cells
Authors "Xu X, Yin F, Guo M, Gan G, Lin G, Wen C, Wang J, Song P, Wang J, Qi ZQ, Zhong CQ."
Journal name Proteomics
Publication year 2023
Sample Bone marrow mesenchymal stem cells
Sample name BMSC - Passage 7
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
Mass spectometry
3
Experiment ID 491
MISEV standards
✔
EM
Biophysical techniques
✔
Cd9|Cd81|Cd63|Gapdh|Sdcbp|Lamp1|Aqp1|Rab5a|Icam1|Cd82|Itga2b|Tsg101|Lamp2|Rab35|Flot1|Flot2|Cd151|Rab5b|Tfrc|Uchl1
Enriched markers
✔
Canx
Negative markers
✔
NTA
Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 36408942    
Organism Rattus norvegicus
Experiment description Quantitative proteomic analysis of exosomes from umbilical cord mesenchymal stem cells and rat bone marrow stem cells
Authors "Xu X, Yin F, Guo M, Gan G, Lin G, Wen C, Wang J, Song P, Wang J, Qi ZQ, Zhong CQ."
Journal name Proteomics
Publication year 2023
Sample Bone marrow mesenchymal stem cells
Sample name BMSC - Passage 8
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
Mass spectometry
4
Experiment ID 492
MISEV standards
✔
EM
Biophysical techniques
✔
Cd9|Cd81|Cd63|Gapdh|Sdcbp|Lamp1|Aqp1|Rab5a|Icam1|Cd82|Itga2b|Tsg101|Lamp2|Rab35|Flot1|Flot2|Cd151|Rab5b|Tfrc|Uchl1
Enriched markers
✔
Canx
Negative markers
✔
NTA
Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 36408942    
Organism Rattus norvegicus
Experiment description Quantitative proteomic analysis of exosomes from umbilical cord mesenchymal stem cells and rat bone marrow stem cells
Authors "Xu X, Yin F, Guo M, Gan G, Lin G, Wen C, Wang J, Song P, Wang J, Qi ZQ, Zhong CQ."
Journal name Proteomics
Publication year 2023
Sample Bone marrow mesenchymal stem cells
Sample name BMSC - Passage 9
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
Mass spectometry
5
Experiment ID 363
MISEV standards
✘ Biophysical techniques
✔
TSG101|GAPDH|AQP1|CD151|CD81|CD82|CD9|EPCAM|FLOT1|FLOT2|ICAM1|ITGA2B|LAMP2|RAB35|RAB5A|RAB5B|SDCBP|TFRC|UCHL1
Enriched markers
✔
DCLK1
Negative markers
✔
NTA
Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 33991177    
Organism Homo sapiens
Experiment description Cancer stem cell marker DCLK1 reprograms small extracellular vesicles toward migratory phenotype in gastric cancer cells
Authors "Carli ALE, Afshar-Sterle S, Rai A, Fang H, O'Keefe R, Tse J, Ferguson FM, Gray NS, Ernst M, Greening DW, Buchert M."
Journal name Proteomics
Publication year 2021
Sample Gastric cancer cells
Sample name MKN1 - 100K pellet
Isolation/purification methods Differential centrifugation
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
Mass spectrometry
6
Experiment ID 364
MISEV standards
✘ Biophysical techniques
✔
TSG101|GAPDH|AQP1|CD151|CD81|CD82|CD9|EPCAM|FLOT1|FLOT2|ICAM1|ITGA2B|LAMP2|RAB35|RAB5A|RAB5B|SDCBP|TFRC|UCHL1
Enriched markers
✔
DCLK1
Negative markers
✔
NTA
Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 33991177    
Organism Homo sapiens
Experiment description Cancer stem cell marker DCLK1 reprograms small extracellular vesicles toward migratory phenotype in gastric cancer cells
Authors "Carli ALE, Afshar-Sterle S, Rai A, Fang H, O'Keefe R, Tse J, Ferguson FM, Gray NS, Ernst M, Greening DW, Buchert M."
Journal name Proteomics
Publication year 2021
Sample Gastric cancer cells
Sample name MKN1 - 100K pellet
Isolation/purification methods Differential centrifugation
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
Mass spectrometry
7
Experiment ID 365
MISEV standards
✘ Biophysical techniques
✔
TSG101|GAPDH|AQP1|CD151|CD81|CD82|CD9|EPCAM|FLOT1|FLOT2|ICAM1|ITGA2B|LAMP2|RAB35|RAB5A|RAB5B|SDCBP|TFRC|UCHL1
Enriched markers
✔
DCLK1
Negative markers
✔
NTA
Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 33991177    
Organism Homo sapiens
Experiment description Cancer stem cell marker DCLK1 reprograms small extracellular vesicles toward migratory phenotype in gastric cancer cells
Authors "Carli ALE, Afshar-Sterle S, Rai A, Fang H, O'Keefe R, Tse J, Ferguson FM, Gray NS, Ernst M, Greening DW, Buchert M."
Journal name Proteomics
Publication year 2021
Sample Gastric cancer cells
Sample name MKN1 - 100K pellet
Isolation/purification methods Differential centrifugation
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
Mass spectrometry
8
Experiment ID 224
MISEV standards
✔
EM|AFM
Biophysical techniques
✔
Alix|TSG101|CD63|CD81
Enriched markers
✔
GOLGA2
Negative markers
✘ Particle analysis
Identified molecule protein
Identification method Mass spectrometry
PubMed ID 25944692    
Organism Homo sapiens
Experiment description Proteogenomic analysis reveals exosomes are more oncogenic than ectosomes
Authors "Keerthikumar S, Gangoda L, Liem M, Fonseka P, Atukorala I, Ozcitti C, Mechler A, Adda CG, Ang CS, Mathivanan S"
Journal name Oncotarget
Publication year 2015
Sample Neuroblastoma cells
Sample name SH-SY5Y
Isolation/purification methods Differential centrifugation
Ultracentrifugation
OptiPrep density gradient
Flotation density 1.10 g/mL
Molecules identified in the study Protein
Methods used in the study Mass spectrometry
Western blotting
9
Experiment ID 231
MISEV standards
✘ Biophysical techniques
✔
Alix|CD63|CD9
Enriched markers
✘ Negative markers
✔
NTA
Particle analysis
Identified molecule protein
Identification method Mass spectrometry
PubMed ID 25332113    
Organism Homo sapiens
Experiment description Lipidomic and proteomic characterization of platelet extracellular vesicle subfractions from senescent platelets
Authors "Pienimaeki-Roemer A, Kuhlmann K, Bottcher A, Konovalova T, Black A, Orso E, Liebisch G, Ahrens M, Eisenacher M, Meyer HE, Schmitz G."
Journal name Transfusion
Publication year 2015
Sample Platelets
Sample name PL-Exs - Rep 1
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Optiprep density gradient
Flotation density 1.12-1.15 g/mL
Molecules identified in the study Protein
Lipids
Methods used in the study Western blotting
Mass spectrometry
10
Experiment ID 232
MISEV standards
✘ Biophysical techniques
✘ Enriched markers
✘ Negative markers
✘ Particle analysis
Identified molecule protein
Identification method Mass spectrometry
PubMed ID 25332113    
Organism Homo sapiens
Experiment description Lipidomic and proteomic characterization of platelet extracellular vesicle subfractions from senescent platelets
Authors "Pienimaeki-Roemer A, Kuhlmann K, Bottcher A, Konovalova T, Black A, Orso E, Liebisch G, Ahrens M, Eisenacher M, Meyer HE, Schmitz G."
Journal name Transfusion
Publication year 2015
Sample Platelets
Sample name PL-Exs - Rep 2
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Optiprep density gradient
Flotation density 1.12-1.15 g/mL
Molecules identified in the study Protein
Methods used in the study Mass spectrometry
11
Experiment ID 233
MISEV standards
✘ Biophysical techniques
✘ Enriched markers
✘ Negative markers
✘ Particle analysis
Identified molecule protein
Identification method Mass spectrometry
PubMed ID 25332113    
Organism Homo sapiens
Experiment description Lipidomic and proteomic characterization of platelet extracellular vesicle subfractions from senescent platelets
Authors "Pienimaeki-Roemer A, Kuhlmann K, Bottcher A, Konovalova T, Black A, Orso E, Liebisch G, Ahrens M, Eisenacher M, Meyer HE, Schmitz G."
Journal name Transfusion
Publication year 2015
Sample Platelets
Sample name PL-Exs - Rep 3
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Optiprep density gradient
Flotation density 1.12-1.15 g/mL
Molecules identified in the study Protein
Methods used in the study Mass spectrometry
12
Experiment ID 834
MISEV standards
✔
EM
Biophysical techniques
✔
LAMP2|CD63|FLOT1|ITGA2B|ICAM1|CD9|CD151|TFRC|RAB5A|GAPDH|AQP1|TSG101
Enriched markers
✔
CANX
Negative markers
✔
NTA
Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 35333565    
Organism Homo sapiens
Experiment description LAMP2A regulates the loading of proteins into exosomes
Authors "Ferreira JV, da Rosa Soares A, Ramalho J, Máximo Carvalho C, Cardoso MH, Pintado P, Carvalho AS, Beck HC, Matthiesen R, Zuzarte M, Girão H, van Niel G, Pereira P"
Journal name Sci Adv
Publication year 2022
Sample Retinal pigment epithelial cells
Sample name ARPE-19
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
Mass spectrometry
13
Experiment ID 835
MISEV standards
✔
EM
Biophysical techniques
✔
CD63|FLOT1|ITGA2B|ICAM1|CD9|CD151|TFRC|RAB5A|GAPDH|AQP1|TSG101
Enriched markers
✔
CANX
Negative markers
✔
NTA
Particle analysis
Identified molecule Protein
Identification method Mass spectrometry
PubMed ID 35333565    
Organism Homo sapiens
Experiment description LAMP2A regulates the loading of proteins into exosomes
Authors "Ferreira JV, da Rosa Soares A, Ramalho J, Máximo Carvalho C, Cardoso MH, Pintado P, Carvalho AS, Beck HC, Matthiesen R, Zuzarte M, Girão H, van Niel G, Pereira P"
Journal name Sci Adv
Publication year 2022
Sample Retinal pigment epithelial cells
Sample name ARPE-19
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Western blotting
Mass spectrometry
14
Experiment ID 217
MISEV standards
✔
EM
Biophysical techniques
✔
TSG101|CD81|CD9|CD63
Enriched markers
✘ Negative markers
✔
NTA
Particle analysis
Identified molecule protein
Identification method Mass spectrometry
PubMed ID 23844026    
Organism Homo sapiens
Experiment description Characterization of human thymic exosomes.
Authors "Skogberg G, Gudmundsdottir J, van der Post S, Sandstrom K, Bruhn S, Benson M, Mincheva-Nilsson L, Baranov V, Telemo E, Ekwall O."
Journal name PLoS One
Publication year 2013
Sample Thymus
Sample name Normal-Thymus
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Mass spectrometry
 Protein-protein interactions for LIMS1
  Protein Interactor ExoCarta ID Identification method PubMed Species
1 PA2G4 5036
Co-fractionation Homo sapiens
2 TRIP6 7205
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
3 Cct4 12464
Affinity Capture-MS Mus musculus
4 PLEKHA4 57664
Affinity Capture-MS Homo sapiens
5 Myh10 77579
Affinity Capture-MS Mus musculus
6 KPRP 448834
Two-hybrid Homo sapiens
7 PARVG 64098
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
8 ACP6 51205
Affinity Capture-MS Homo sapiens
9 TYMS 7298
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
10 SCNM1  
Two-hybrid Homo sapiens
11 BTF3 689
Affinity Capture-MS Homo sapiens
12 MYO15B 80022
Two-hybrid Homo sapiens
13 ZNF564  
Two-hybrid Homo sapiens
14 MYH7 4625
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
15 RSU1 6251
Affinity Capture-MS Homo sapiens
Co-fractionation Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Two-hybrid Homo sapiens
Affinity Capture-MS Homo sapiens
16 SRRT 51593
Affinity Capture-MS Homo sapiens
17 CMAS 55907
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
18 CUL3 8452
Affinity Capture-MS Homo sapiens
19 SGOL1  
Affinity Capture-MS Homo sapiens
20 EGFR 1956
Negative Genetic Homo sapiens
21 CWF19L2  
Two-hybrid Homo sapiens
22 FAM90A1  
Two-hybrid Homo sapiens
23 RABGAP1 23637
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
24 METTL2B 55798
Co-fractionation Homo sapiens
25 TCEA2  
Two-hybrid Homo sapiens
26 ZNF587  
Two-hybrid Homo sapiens
27 LPXN 9404
Two-hybrid Homo sapiens
28 NCK2 8440
Reconstituted Complex Homo sapiens
Two-hybrid Homo sapiens
Two-hybrid Homo sapiens
Reconstituted Complex Homo sapiens
29 Hoxa1  
Two-hybrid Mus musculus
PCA Mus musculus
Affinity Capture-Western Mus musculus
30 RAD51D  
Two-hybrid Homo sapiens
31 PARVB 29780
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
32 FKBP5 2289
Affinity Capture-MS Homo sapiens
33 ZIM2  
Two-hybrid Homo sapiens
34 GEM  
Two-hybrid Homo sapiens
35 PTK2 5747
Co-fractionation Homo sapiens
36 TMEM132A 54972
Affinity Capture-MS Homo sapiens
37 REPS1 85021
Affinity Capture-MS Homo sapiens
38 KIF22  
Affinity Capture-MS Homo sapiens
39 INO80B 83444
Two-hybrid Homo sapiens
40 PXN 5829
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
41 ZNF410  
Two-hybrid Homo sapiens
42 ACADM 34
Co-fractionation Homo sapiens
43 EHMT2 10919
Two-hybrid Homo sapiens
44 STK11 6794
Affinity Capture-MS Homo sapiens
45 LDLR 3949
Negative Genetic Homo sapiens
46 BMP2K 55589
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
47 COL8A1 1295
Two-hybrid Homo sapiens
48 SNW1 22938
Affinity Capture-MS Homo sapiens
49 HNRNPU 3192
Co-fractionation Homo sapiens
50 PARVA 55742
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Co-fractionation Homo sapiens
51 ILK 3611
Two-hybrid Homo sapiens
Affinity Capture-Western Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Two-hybrid Homo sapiens
Affinity Capture-MS Homo sapiens
Reconstituted Complex Homo sapiens
Affinity Capture-MS Homo sapiens
Co-fractionation Homo sapiens
Affinity Capture-MS Homo sapiens
Co-crystal Structure Homo sapiens
Reconstituted Complex Homo sapiens
Affinity Capture-MS Homo sapiens
Co-fractionation Homo sapiens
52 Sidt2  
Affinity Capture-MS Mus musculus
53 PML 5371
Affinity Capture-MS Homo sapiens
54 ZNF417  
Two-hybrid Homo sapiens
55 ASPM 259266
Affinity Capture-MS Homo sapiens
56 MYO18A 399687
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
57 XRCC5 7520
Affinity Capture-MS Homo sapiens
58 MYH4  
Affinity Capture-MS Homo sapiens
Affinity Capture-MS Homo sapiens
59 CDC5L 988
Affinity Capture-MS Homo sapiens
60 RBBP8  
Two-hybrid Homo sapiens
61 CATSPER1  
Two-hybrid Homo sapiens
View the network image/svg+xml



Perform bioinformatics analysis of your extracellular vesicle data set using FunRich, a open access standalone tool. NEW UPDATED VERSION OF FunRich available for download (12/09/2016) from here