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You searched for: EV240101 (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 |
---|---|---|---|---|---|---|---|---|
EV240101 | 1/6 | Stool bacteria | Fresh colonic contents |
(d)(U)C DG Filtration |
Shen Q | 2022 | 56% | |
Study summaryFull title
All authors
Shen Q, Huang Z, Ma L, Yao J, Luo T, Zhao Y, Xiao Y, Jin Y
Journal
Gut Microbes
Abstract
Inflammatory bowel disease (IBD) is a global disease with no cure. Disruption of the microbial ecosy (show more...)
EV-METRIC
56% (83rd 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
Fresh colonic contents
Sample origin
Control condition
Focus vesicles
extracellular vesicle
Separation protocol
Separation protocol
(Differential) (ultra)centrifugation
Density gradient Filtration Adj. k-factor
0 (washing)
Protein markers
EV: CD9/ TSG101
non-EV: None Proteomics
no
EV density (g/ml)
30-45%
Show all info
Study aim
Function/Identification of content (omics approaches)
Sample
Species
Stool bacteria
Sample Type
Fresh colonic contents
Separation Method
(Differential) (ultra)centrifugation
dUC: centrifugation steps
Between 800 g and 10,000 g
Between 10,000 g and 50,000 g Equal to or above 150,000 g Pelleting performed
Yes
Pelleting: speed (g)
150000
Wash: volume per pellet (ml)
20
Wash: time (min)
15
Wash: speed (g)
150000
Wash: adjusted k-factor
TDB
Density gradient
Type
Discontinuous
Number of initial discontinuous layers
4
Lowest density fraction
8%
Highest density fraction
60%
Total gradient volume, incl. sample (mL)
10
Sample volume (mL)
1
Orientation
Top-down
Speed (g)
150000
Duration (min)
180
Fraction volume (mL)
1.5
Fraction processing
Centrifugation
Pelleting: volume per fraction
15
Pelleting: speed (g)
150000
Pelleting: adjusted k-factor
TDB
Filtration steps
0.22µm or 0.2µm
Characterization: Protein analysis
Protein Concentration Method
Not determined
Western Blot
Detected EV-associated proteins
CD9/ TSG101
Characterization: RNA analysis
RNA analysis
Type
(RT)(q)PCR/ RNA sequencing
Proteinase treatment
No
RNAse treatment
No
Characterization: Lipid analysis
No
Characterization: Particle analysis
NTA
Report type
Median
Reported size (nm)
143.17352
EV concentration
Yes
EM
EM-type
Transmission-EM
Image type
Close-up, Wide-field
Extra information
The fresh colonic samples are referred to as EVs. I think I made a mistake and these are eukaryotic EVs, and not EVs from stool bacteria.
|
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EV240101 | 2/6 | Stool bacteria | Fresh colonic contents |
(d)(U)C DG Filtration |
Shen Q | 2022 | 44% | |
Study summaryFull title
All authors
Shen Q, Huang Z, Ma L, Yao J, Luo T, Zhao Y, Xiao Y, Jin Y
Journal
Gut Microbes
Abstract
Inflammatory bowel disease (IBD) is a global disease with no cure. Disruption of the microbial ecosy (show more...)
EV-METRIC
44% (33rd 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
Fresh colonic contents
Sample origin
Acute colitis model
Focus vesicles
extracellular vesicle
Separation protocol
Separation protocol
(Differential) (ultra)centrifugation
Density gradient Filtration Adj. k-factor
0 (washing)
Protein markers
EV: CD9/ TSG101
non-EV: None Proteomics
no
EV density (g/ml)
30-45%
Show all info
Study aim
Function/Identification of content (omics approaches)
Sample
Species
Stool bacteria
Sample Type
Fresh colonic contents
Separation Method
(Differential) (ultra)centrifugation
dUC: centrifugation steps
Between 800 g and 10,000 g
Between 10,000 g and 50,000 g Equal to or above 150,000 g Pelleting performed
Yes
Pelleting: speed (g)
150000
Wash: volume per pellet (ml)
20
Wash: time (min)
15
Wash: speed (g)
150000
Wash: adjusted k-factor
TDB
Density gradient
Type
Discontinuous
Number of initial discontinuous layers
4
Lowest density fraction
8%
Highest density fraction
60%
Total gradient volume, incl. sample (mL)
10
Sample volume (mL)
1
Orientation
Top-down
Speed (g)
150000
Duration (min)
180
Fraction volume (mL)
1.5
Fraction processing
Centrifugation
Pelleting: volume per fraction
15
Pelleting: speed (g)
150000
Pelleting: adjusted k-factor
TDB
Filtration steps
0.22µm or 0.2µm
Characterization: Protein analysis
Protein Concentration Method
Not determined
Western Blot
Detected EV-associated proteins
CD9/ TSG101
Characterization: RNA analysis
RNA analysis
Type
(RT)(q)PCR/ RNA sequencing
Proteinase treatment
No
RNAse treatment
No
Characterization: Lipid analysis
No
Characterization: Particle analysis
NTA
Report type
Median
Reported size (nm)
143.17352
EM
EM-type
Transmission-EM
Image type
Close-up, Wide-field
|
||||||||
EV240101 | 3/6 | Stool bacteria | Fresh colonic contents |
(d)(U)C DG Filtration |
Shen Q | 2022 | 44% | |
Study summaryFull title
All authors
Shen Q, Huang Z, Ma L, Yao J, Luo T, Zhao Y, Xiao Y, Jin Y
Journal
Gut Microbes
Abstract
Inflammatory bowel disease (IBD) is a global disease with no cure. Disruption of the microbial ecosy (show more...)
EV-METRIC
44% (33rd 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
Fresh colonic contents
Sample origin
Chronic colitis model
Focus vesicles
extracellular vesicle
Separation protocol
Separation protocol
(Differential) (ultra)centrifugation
Density gradient Filtration Adj. k-factor
0 (washing)
Protein markers
EV: CD9/ TSG101
non-EV: None Proteomics
no
EV density (g/ml)
30-45%
Show all info
Study aim
Function/Identification of content (omics approaches)
Sample
Species
Stool bacteria
Sample Type
Fresh colonic contents
Separation Method
(Differential) (ultra)centrifugation
dUC: centrifugation steps
Between 800 g and 10,000 g
Between 10,000 g and 50,000 g Equal to or above 150,000 g Pelleting performed
Yes
Pelleting: speed (g)
150000
Wash: volume per pellet (ml)
20
Wash: time (min)
15
Wash: speed (g)
150000
Wash: adjusted k-factor
TDB
Density gradient
Type
Discontinuous
Number of initial discontinuous layers
4
Lowest density fraction
8%
Highest density fraction
60%
Total gradient volume, incl. sample (mL)
10
Sample volume (mL)
1
Orientation
Top-down
Speed (g)
150000
Duration (min)
180
Fraction volume (mL)
1.5
Fraction processing
Centrifugation
Pelleting: volume per fraction
15
Pelleting: speed (g)
150000
Pelleting: adjusted k-factor
TDB
Filtration steps
0.22µm or 0.2µm
Characterization: Protein analysis
Protein Concentration Method
Not determined
Western Blot
Detected EV-associated proteins
CD9/ TSG101
Characterization: RNA analysis
RNA analysis
Type
(RT)(q)PCR/ RNA sequencing
Proteinase treatment
No
RNAse treatment
No
Characterization: Lipid analysis
No
Characterization: Particle analysis
NTA
Report type
Median
Reported size (nm)
143.17352
EM
EM-type
Transmission-EM
Image type
Close-up, Wide-field
|
||||||||
EV240101 | 4/6 | NA | NA |
(d)(U)C Filtration |
Shen Q | 2022 | 0% | |
Study summaryFull title
All authors
Shen Q, Huang Z, Ma L, Yao J, Luo T, Zhao Y, Xiao Y, Jin Y
Journal
Gut Microbes
Abstract
Inflammatory bowel disease (IBD) is a global disease with no cure. Disruption of the microbial ecosy (show more...)
EV-METRIC
0% (median: 14% 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
NA
Sample origin
NA
Focus vesicles
Bacterial extracellular vesicles
Separation protocol
Separation protocol
(Differential) (ultra)centrifugation
Filtration Protein markers
EV: None
non-EV: None Proteomics
no
Show all info
Study aim
Function/Identification of content (omics approaches)
Sample
Species
NA
Sample Type
NA
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: speed (g)
150000
Wash: volume per pellet (ml)
20
Wash: time (min)
120
Wash: speed (g)
150000
Filtration steps
0.22µm or 0.2µm
Characterization: Protein analysis
None
Protein Concentration Method
BCA
Characterization: RNA analysis
RNA analysis
Type
(RT)(q)PCR/ RNA sequencing
Proteinase treatment
No
RNAse treatment
No
Characterization: Lipid analysis
No
Characterization: Particle analysis
None
|
||||||||
EV240101 | 5/6 | NA | NA |
(d)(U)C Filtration |
Shen Q | 2022 | 0% | |
Study summaryFull title
All authors
Shen Q, Huang Z, Ma L, Yao J, Luo T, Zhao Y, Xiao Y, Jin Y
Journal
Gut Microbes
Abstract
Inflammatory bowel disease (IBD) is a global disease with no cure. Disruption of the microbial ecosy (show more...)
EV-METRIC
0% (median: 14% 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
NA
Sample origin
NA
Focus vesicles
Bacterial extracellular vesicles
Separation protocol
Separation protocol
(Differential) (ultra)centrifugation
Filtration Protein markers
EV: None
non-EV: None Proteomics
no
Show all info
Study aim
Function/Identification of content (omics approaches)
Sample
Species
NA
Sample Type
NA
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: speed (g)
150000
Wash: volume per pellet (ml)
20
Wash: time (min)
120
Wash: speed (g)
150000
Filtration steps
0.22µm or 0.2µm
Characterization: Protein analysis
None
Protein Concentration Method
BCA
Characterization: RNA analysis
RNA analysis
Type
(RT)(q)PCR/ RNA sequencing
Proteinase treatment
No
RNAse treatment
No
Characterization: Lipid analysis
No
Characterization: Particle analysis
None
|
||||||||
EV240101 | 6/6 | NA | NA |
(d)(U)C Filtration |
Shen Q | 2022 | 0% | |
Study summaryFull title
All authors
Shen Q, Huang Z, Ma L, Yao J, Luo T, Zhao Y, Xiao Y, Jin Y
Journal
Gut Microbes
Abstract
Inflammatory bowel disease (IBD) is a global disease with no cure. Disruption of the microbial ecosy (show more...)
EV-METRIC
0% (median: 14% 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
NA
Sample origin
NA
Focus vesicles
Bacterial extracellular vesicles
Separation protocol
Separation protocol
(Differential) (ultra)centrifugation
Filtration Protein markers
EV: None
non-EV: None Proteomics
no
Show all info
Study aim
Function/Identification of content (omics approaches)
Sample
Species
NA
Sample Type
NA
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: speed (g)
150000
Wash: volume per pellet (ml)
20
Wash: time (min)
120
Wash: speed (g)
150000
Filtration steps
0.22µm or 0.2µm
Characterization: Protein analysis
None
Protein Concentration Method
BCA
Characterization: RNA analysis
RNA analysis
Type
(RT)(q)PCR/ RNA sequencing
Proteinase treatment
No
RNAse treatment
No
Characterization: Lipid analysis
No
Characterization: Particle analysis
None
|
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1 - 6 of 6 |
EV-TRACK ID | EV240101 | |||||
---|---|---|---|---|---|---|
species | Stool bacteria | Stool bacteria | Stool bacteria | NA | NA | NA |
sample type | Fresh colonic contents | Fresh colonic contents | Fresh colonic contents | NA | NA | NA |
condition | Control condition | Acute colitis model | Chronic colitis model | NA | NA | NA |
separation protocol | dUC/ Density gradient/ Filtration | dUC/ Density gradient/ Filtration | dUC/ Density gradient/ Filtration | dUC/ Filtration | dUC/ Filtration | dUC/ Filtration |
vesicle related term | EV | EV | EV | Bacterial EVs | Bacterial EVs | Bacterial EVs |
Exp. nr. | 1 | 2 | 3 | 4 | 5 | 6 |
EV-METRIC % | 56 | 44 | 44 | 0 | 0 | 0 |