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You searched for: EV230813 (EV-TRACK ID)
Showing 1 - 6 of 6
Showing 1 - 6 of 6
Details | EV-TRACK ID | Experiment nr. | Species | Sample type | Separation protocol | First author | Year | EV-METRIC |
---|---|---|---|---|---|---|---|---|
EV230813 | 2/6 | Escherichia coli | W3110 |
(d)(U)C DG Filtration UF |
Kim OY | 2017 | 72% | |
Study summaryFull title
All authors
Kim OY, Park HT, Dinh NTH, Choi SJ, Lee J, Kim JH, Lee SW, Gho YS
Journal
Nat Commun
Abstract
Gram-negative bacteria actively secrete outer membrane vesicles, spherical nano-meter-sized proteoli (show more...)
EV-METRIC
72% (96th percentile of all experiments on the same sample type)
Reported
Not reported Not applicable EV-enriched
proteins
Protein analysis: analysis of three or more EV-enriched proteins
non
EV-enriched protein
Protein analysis: assessment of a non-EV-enriched protein
qualitative
and quantitative analysis
Particle analysis: implementation of both qualitative and quantitative methods. For the quantitative method, the reporting of measured EV concentration is expected.
electron
microscopy images
Particle analysis: inclusion of a widefield and close-up electron microscopy image
density
gradient
Separation method: density gradient, at least as validation of results attributed to EVs
EV density
Separation method: reporting of obtained EV density
ultracentrifugation specifics
Separation method: reporting of g-forces, duration and rotor type of ultracentrifugation steps
antibody
specifics
Protein analysis: antibody clone/reference number and dilution
lysate
preparation
Protein analysis: lysis buffer composition
Study dataSample type
Cell culture supernatant
Sample origin
msbB deletion mutant
Focus vesicles
outer membrane vesicle
Separation protocol
Separation protocol
(Differential) (ultra)centrifugation
Density gradient Filtration Ultrafiltration Protein markers
EV: None
non-EV: None Proteomics
yes
Show all info
Study aim
Function
Sample
Species
Escherichia coli
Sample Type
Cell culture supernatant
EV-producing cells
W3110
EV-harvesting Medium
Serum free medium
Separation Method
(Differential) (ultra)centrifugation
dUC: centrifugation steps
Between 800 g and 10,000 g
Equal to or above 150,000 g Pelleting performed
Yes
Pelleting: time(min)
180
Pelleting: speed (g)
150000
Density gradient
Type
Discontinuous
Number of initial discontinuous layers
3
Lowest density fraction
10%
Highest density fraction
50%
Orientation
Bottom-up
Speed (g)
200000
Duration (min)
120
Fraction processing
None
Filtration steps
0.2 or 0.22 µm/ 0.45 µm
Ultra filtration
Cut-off size (kDa)
100
Membrane type
Hollowfiber
Characterization: Protein analysis
Protein Concentration Method
Bradford
Proteomics database
ProteomeXchange Consortium
Characterization: Lipid analysis
No
Characterization: Particle analysis
DLS
Report type
Mean
Reported size (nm)
38.7
EM
EM-type
Transmission-EM
Image type
Wide-field
|
||||||||
EV230813 | 4/6 | Staphylococcus aureus | S. aureus |
(d)(U)C DG Filtration UF |
Kim OY | 2017 | 58% | |
Study summaryFull title
All authors
Kim OY, Park HT, Dinh NTH, Choi SJ, Lee J, Kim JH, Lee SW, Gho YS
Journal
Nat Commun
Abstract
Gram-negative bacteria actively secrete outer membrane vesicles, spherical nano-meter-sized proteoli (show more...)
EV-METRIC
58% (92nd percentile of all experiments on the same sample type)
Reported
Not reported Not applicable EV-enriched
proteins
Protein analysis: analysis of three or more EV-enriched proteins
non
EV-enriched protein
Protein analysis: assessment of a non-EV-enriched protein
qualitative
and quantitative analysis
Particle analysis: implementation of both qualitative and quantitative methods. For the quantitative method, the reporting of measured EV concentration is expected.
electron
microscopy images
Particle analysis: inclusion of a widefield and close-up electron microscopy image
density
gradient
Separation method: density gradient, at least as validation of results attributed to EVs
EV density
Separation method: reporting of obtained EV density
ultracentrifugation specifics
Separation method: reporting of g-forces, duration and rotor type of ultracentrifugation steps
antibody
specifics
Protein analysis: antibody clone/reference number and dilution
lysate
preparation
Protein analysis: lysis buffer composition
Study dataSample type
Cell culture supernatant
Sample origin
Control condition
Focus vesicles
extracellular vesicle
Separation protocol
Separation protocol
(Differential) (ultra)centrifugation
Density gradient Filtration Ultrafiltration Protein markers
EV: None
non-EV: None Proteomics
yes
Show all info
Study aim
Function
Sample
Species
Staphylococcus aureus
Sample Type
Cell culture supernatant
EV-producing cells
S. aureus
EV-harvesting Medium
Serum free medium
Separation Method
(Differential) (ultra)centrifugation
dUC: centrifugation steps
Between 800 g and 10,000 g
Equal to or above 150,000 g Pelleting performed
Yes
Pelleting: time(min)
180
Pelleting: speed (g)
150000
Density gradient
Type
Discontinuous
Number of initial discontinuous layers
3
Lowest density fraction
10%
Highest density fraction
50%
Orientation
Bottom-up
Speed (g)
200000
Duration (min)
120
Fraction processing
None
Filtration steps
0.2 or 0.22 µm/ 0.45 µm
Ultra filtration
Cut-off size (kDa)
100
Membrane type
Hollowfiber
Characterization: Protein analysis
Protein Concentration Method
Bradford
Proteomics database
ProteomeXchange Consortium
Characterization: Lipid analysis
No
Characterization: Particle analysis
EM
EM-type
Transmission-EM
Image type
Wide-field
|
||||||||
EV230813 | 1/6 | Escherichia coli | W3110 |
(d)(U)C DG Filtration UF |
Kim OY | 2017 | 43% | |
Study summaryFull title
All authors
Kim OY, Park HT, Dinh NTH, Choi SJ, Lee J, Kim JH, Lee SW, Gho YS
Journal
Nat Commun
Abstract
Gram-negative bacteria actively secrete outer membrane vesicles, spherical nano-meter-sized proteoli (show more...)
EV-METRIC
43% (81st percentile of all experiments on the same sample type)
Reported
Not reported Not applicable EV-enriched
proteins
Protein analysis: analysis of three or more EV-enriched proteins
non
EV-enriched protein
Protein analysis: assessment of a non-EV-enriched protein
qualitative
and quantitative analysis
Particle analysis: implementation of both qualitative and quantitative methods. For the quantitative method, the reporting of measured EV concentration is expected.
electron
microscopy images
Particle analysis: inclusion of a widefield and close-up electron microscopy image
density
gradient
Separation method: density gradient, at least as validation of results attributed to EVs
EV density
Separation method: reporting of obtained EV density
ultracentrifugation specifics
Separation method: reporting of g-forces, duration and rotor type of ultracentrifugation steps
antibody
specifics
Protein analysis: antibody clone/reference number and dilution
lysate
preparation
Protein analysis: lysis buffer composition
Study dataSample type
Cell culture supernatant
Sample origin
Control condition
Focus vesicles
outer membrane vesicle
Separation protocol
Separation protocol
(Differential) (ultra)centrifugation
Density gradient Filtration Ultrafiltration Protein markers
EV: None
non-EV: None Proteomics
no
Show all info
Study aim
Function
Sample
Species
Escherichia coli
Sample Type
Cell culture supernatant
EV-producing cells
W3110
EV-harvesting Medium
Serum free medium
Separation Method
(Differential) (ultra)centrifugation
dUC: centrifugation steps
Between 800 g and 10,000 g
Equal to or above 150,000 g Pelleting performed
Yes
Pelleting: time(min)
180
Pelleting: speed (g)
150000
Density gradient
Type
Discontinuous
Number of initial discontinuous layers
3
Lowest density fraction
10%
Highest density fraction
50%
Orientation
Bottom-up
Speed (g)
200000
Duration (min)
120
Fraction processing
None
Filtration steps
0.2 or 0.22 µm/ 0.45 µm
Ultra filtration
Cut-off size (kDa)
100
Membrane type
Hollowfiber
Characterization: Protein analysis
None
Protein Concentration Method
Bradford
Characterization: Lipid analysis
No
Characterization: Particle analysis
DLS
Report type
Mean
Reported size (nm)
38.6
EM
EM-type
Transmission-EM
Image type
Wide-field
|
||||||||
EV230813 | 3/6 | Salmonella enterica | S. enterica |
(d)(U)C DG Filtration UF |
Kim OY | 2017 | 29% | |
Study summaryFull title
All authors
Kim OY, Park HT, Dinh NTH, Choi SJ, Lee J, Kim JH, Lee SW, Gho YS
Journal
Nat Commun
Abstract
Gram-negative bacteria actively secrete outer membrane vesicles, spherical nano-meter-sized proteoli (show more...)
EV-METRIC
29% (67th percentile of all experiments on the same sample type)
Reported
Not reported Not applicable EV-enriched
proteins
Protein analysis: analysis of three or more EV-enriched proteins
non
EV-enriched protein
Protein analysis: assessment of a non-EV-enriched protein
qualitative
and quantitative analysis
Particle analysis: implementation of both qualitative and quantitative methods. For the quantitative method, the reporting of measured EV concentration is expected.
electron
microscopy images
Particle analysis: inclusion of a widefield and close-up electron microscopy image
density
gradient
Separation method: density gradient, at least as validation of results attributed to EVs
EV density
Separation method: reporting of obtained EV density
ultracentrifugation specifics
Separation method: reporting of g-forces, duration and rotor type of ultracentrifugation steps
antibody
specifics
Protein analysis: antibody clone/reference number and dilution
lysate
preparation
Protein analysis: lysis buffer composition
Study dataSample type
Cell culture supernatant
Sample origin
Control condition
Focus vesicles
outer membrane vesicle
Separation protocol
Separation protocol
(Differential) (ultra)centrifugation
Density gradient Filtration Ultrafiltration Protein markers
EV: None
non-EV: None Proteomics
no
Show all info
Study aim
Function
Sample
Species
Salmonella enterica
Sample Type
Cell culture supernatant
EV-producing cells
S. enterica
EV-harvesting Medium
Serum free medium
Separation Method
(Differential) (ultra)centrifugation
dUC: centrifugation steps
Between 800 g and 10,000 g
Equal to or above 150,000 g Pelleting performed
Yes
Pelleting: time(min)
180
Pelleting: speed (g)
150000
Density gradient
Type
Discontinuous
Number of initial discontinuous layers
3
Lowest density fraction
10%
Highest density fraction
50%
Orientation
Bottom-up
Speed (g)
200000
Duration (min)
120
Fraction processing
None
Filtration steps
0.2 or 0.22 µm/ 0.45 µm
Ultra filtration
Cut-off size (kDa)
100
Membrane type
Hollowfiber
Characterization: Protein analysis
None
Protein Concentration Method
Bradford
Characterization: Lipid analysis
No
Characterization: Particle analysis
None
|
||||||||
EV230813 | 5/6 | Staphylococcus aureus | S. aureus |
(d)(U)C DG Filtration UF |
Kim OY | 2017 | 29% | |
Study summaryFull title
All authors
Kim OY, Park HT, Dinh NTH, Choi SJ, Lee J, Kim JH, Lee SW, Gho YS
Journal
Nat Commun
Abstract
Gram-negative bacteria actively secrete outer membrane vesicles, spherical nano-meter-sized proteoli (show more...)
EV-METRIC
29% (67th percentile of all experiments on the same sample type)
Reported
Not reported Not applicable EV-enriched
proteins
Protein analysis: analysis of three or more EV-enriched proteins
non
EV-enriched protein
Protein analysis: assessment of a non-EV-enriched protein
qualitative
and quantitative analysis
Particle analysis: implementation of both qualitative and quantitative methods. For the quantitative method, the reporting of measured EV concentration is expected.
electron
microscopy images
Particle analysis: inclusion of a widefield and close-up electron microscopy image
density
gradient
Separation method: density gradient, at least as validation of results attributed to EVs
EV density
Separation method: reporting of obtained EV density
ultracentrifugation specifics
Separation method: reporting of g-forces, duration and rotor type of ultracentrifugation steps
antibody
specifics
Protein analysis: antibody clone/reference number and dilution
lysate
preparation
Protein analysis: lysis buffer composition
Study dataSample type
Cell culture supernatant
Sample origin
LTA mutant
Focus vesicles
extracellular vesicle
Separation protocol
Separation protocol
(Differential) (ultra)centrifugation
Density gradient Filtration Ultrafiltration Protein markers
EV: None
non-EV: None Proteomics
no
Show all info
Study aim
Function
Sample
Species
Staphylococcus aureus
Sample Type
Cell culture supernatant
EV-producing cells
S. aureus
EV-harvesting Medium
Serum free medium
Separation Method
(Differential) (ultra)centrifugation
dUC: centrifugation steps
Between 800 g and 10,000 g
Equal to or above 150,000 g Pelleting performed
Yes
Pelleting: time(min)
180
Pelleting: speed (g)
150000
Density gradient
Type
Discontinuous
Number of initial discontinuous layers
3
Lowest density fraction
10%
Highest density fraction
50%
Orientation
Bottom-up
Speed (g)
200000
Duration (min)
120
Fraction processing
None
Filtration steps
0.2 or 0.22 µm/ 0.45 µm
Ultra filtration
Cut-off size (kDa)
100
Membrane type
Hollowfiber
Characterization: Protein analysis
None
Protein Concentration Method
Bradford
Characterization: Lipid analysis
No
Characterization: Particle analysis
None
|
||||||||
EV230813 | 6/6 | Lactobacillus acidophilus | L. acidophilus |
(d)(U)C DG Filtration UF |
Kim OY | 2017 | 29% | |
Study summaryFull title
All authors
Kim OY, Park HT, Dinh NTH, Choi SJ, Lee J, Kim JH, Lee SW, Gho YS
Journal
Nat Commun
Abstract
Gram-negative bacteria actively secrete outer membrane vesicles, spherical nano-meter-sized proteoli (show more...)
EV-METRIC
29% (67th percentile of all experiments on the same sample type)
Reported
Not reported Not applicable EV-enriched
proteins
Protein analysis: analysis of three or more EV-enriched proteins
non
EV-enriched protein
Protein analysis: assessment of a non-EV-enriched protein
qualitative
and quantitative analysis
Particle analysis: implementation of both qualitative and quantitative methods. For the quantitative method, the reporting of measured EV concentration is expected.
electron
microscopy images
Particle analysis: inclusion of a widefield and close-up electron microscopy image
density
gradient
Separation method: density gradient, at least as validation of results attributed to EVs
EV density
Separation method: reporting of obtained EV density
ultracentrifugation specifics
Separation method: reporting of g-forces, duration and rotor type of ultracentrifugation steps
antibody
specifics
Protein analysis: antibody clone/reference number and dilution
lysate
preparation
Protein analysis: lysis buffer composition
Study dataSample type
Cell culture supernatant
Sample origin
Control condition
Focus vesicles
extracellular vesicle
Separation protocol
Separation protocol
(Differential) (ultra)centrifugation
Density gradient Filtration Ultrafiltration Protein markers
EV: None
non-EV: None Proteomics
no
Show all info
Study aim
Function
Sample
Species
Lactobacillus acidophilus
Sample Type
Cell culture supernatant
EV-producing cells
L. acidophilus
EV-harvesting Medium
Serum free medium
Separation Method
(Differential) (ultra)centrifugation
dUC: centrifugation steps
Between 800 g and 10,000 g
Equal to or above 150,000 g Pelleting performed
Yes
Pelleting: time(min)
180
Pelleting: speed (g)
150000
Density gradient
Type
Discontinuous
Number of initial discontinuous layers
3
Lowest density fraction
10%
Highest density fraction
50%
Orientation
Bottom-up
Speed (g)
200000
Duration (min)
120
Fraction processing
None
Filtration steps
0.2 or 0.22 µm/ 0.45 µm
Ultra filtration
Cut-off size (kDa)
100
Membrane type
Hollowfiber
Characterization: Protein analysis
None
Protein Concentration Method
Bradford
Characterization: Lipid analysis
No
Characterization: Particle analysis
EM
EM-type
Transmission-EM
Image type
Wide-field
|
||||||||
1 - 6 of 6 |
EV-TRACK ID | EV230813 | |||||
---|---|---|---|---|---|---|
species | Escherichia coli | Staphylococcus aureus | Escherichia coli | Salmonella enterica | Staphylococcus aureus | Lactobacillus acidophilus |
sample type | Cell culture | Cell culture | Cell culture | Cell culture | Cell culture | Cell culture |
cell type | W3110 | S. aureus | W3110 | S. enterica | S. aureus | L. acidophilus |
condition | msbB deletion mutant | Control condition | Control condition | Control condition | LTA mutant | Control condition |
separation protocol | dUC/ Density gradient/ Filtration/ Ultrafiltration | dUC/ Density gradient/ Filtration/ Ultrafiltration | dUC/ Density gradient/ Filtration/ Ultrafiltration | dUC/ Density gradient/ Filtration/ Ultrafiltration | dUC/ Density gradient/ Filtration/ Ultrafiltration | dUC/ Density gradient/ Filtration/ Ultrafiltration |
vesicle related term | outer membrane vesicle | EV | outer membrane vesicle | outer membrane vesicle | EV | EV |
Exp. nr. | 2 | 4 | 1 | 3 | 5 | 6 |
EV-METRIC % | 72 | 58 | 43 | 29 | 29 | 29 |