8-well, 1.5 mm-thick cover glass chambers Search Results


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Corning Life Sciences acid washed #1.5 coverslips
( A ) Fixation: 3% PFA in PHEM buffer without any detergent was used as standard fixation in this study (Details in Text and Methods). ( B ) Staining: Fixed samples were immunofluorescently labeled with antibodies to enhance S/N. Samples were usually mounted with Prolong Gold. ( C ) Imaging was performed by spinning disk confocal microscopy (See Materials and methods for details). ( D ) For CA correction, Hec1-9G3 monoclonal antibody was labeled by green and red tagged secondary antibodies (Hec1-9G3-GR). ( E ) Measurements: X, Y, Z coordinates of the centroids of green and red kinetochore fluorescence were determined by 3D Gaussian fitting. Details of equations for separation measurements are in Text, Figures, and Methods. ( F ) Error analysis: computer simulations were used for error analysis of the method. The sources of potential errors in separation measurements were highlighted in pink underline with *. 10.7554/eLife.32418.003 Figure 1—source data 1. Pipeline for obtaining mean 3D separation measurements with nm-scale accuracy. Critical factors were: (1) prepare bright high signal to noise samples to reduce standard deviation (SD) of centroid determination; (2) use mounting media like ProLong Gold to suppress z-axis spherical aberration; (3) use 0.17 mm thick <t>coverslips</t> for all measurements including CA measurement; (4) align imaging system and image using only a small region within the center of camera to suppress SD of CA; and (5) use warmed PFA fixation without pre-extraction or detergent in fixation solution.
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( A ) Fixation: 3% PFA in PHEM buffer without any detergent was used as standard fixation in this study (Details in Text and Methods). ( B ) Staining: Fixed samples were immunofluorescently labeled with antibodies to enhance S/N. Samples were usually mounted with Prolong Gold. ( C ) Imaging was performed by spinning disk confocal microscopy (See Materials and methods for details). ( D ) For CA correction, Hec1-9G3 monoclonal antibody was labeled by green and red tagged secondary antibodies (Hec1-9G3-GR). ( E ) Measurements: X, Y, Z coordinates of the centroids of green and red kinetochore fluorescence were determined by 3D Gaussian fitting. Details of equations for separation measurements are in Text, Figures, and Methods. ( F ) Error analysis: computer simulations were used for error analysis of the method. The sources of potential errors in separation measurements were highlighted in pink underline with *. 10.7554/eLife.32418.003 Figure 1—source data 1. Pipeline for obtaining mean 3D separation measurements with nm-scale accuracy. Critical factors were: (1) prepare bright high signal to noise samples to reduce standard deviation (SD) of centroid determination; (2) use mounting media like ProLong Gold to suppress z-axis spherical aberration; (3) use 0.17 mm thick <t>coverslips</t> for all measurements including CA measurement; (4) align imaging system and image using only a small region within the center of camera to suppress SD of CA; and (5) use warmed PFA fixation without pre-extraction or detergent in fixation solution.
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( A ) Fixation: 3% PFA in PHEM buffer without any detergent was used as standard fixation in this study (Details in Text and Methods). ( B ) Staining: Fixed samples were immunofluorescently labeled with antibodies to enhance S/N. Samples were usually mounted with Prolong Gold. ( C ) Imaging was performed by spinning disk confocal microscopy (See Materials and methods for details). ( D ) For CA correction, Hec1-9G3 monoclonal antibody was labeled by green and red tagged secondary antibodies (Hec1-9G3-GR). ( E ) Measurements: X, Y, Z coordinates of the centroids of green and red kinetochore fluorescence were determined by 3D Gaussian fitting. Details of equations for separation measurements are in Text, Figures, and Methods. ( F ) Error analysis: computer simulations were used for error analysis of the method. The sources of potential errors in separation measurements were highlighted in pink underline with *. 10.7554/eLife.32418.003 Figure 1—source data 1. Pipeline for obtaining mean 3D separation measurements with nm-scale accuracy. Critical factors were: (1) prepare bright high signal to noise samples to reduce standard deviation (SD) of centroid determination; (2) use mounting media like ProLong Gold to suppress z-axis spherical aberration; (3) use 0.17 mm thick <t>coverslips</t> for all measurements including CA measurement; (4) align imaging system and image using only a small region within the center of camera to suppress SD of CA; and (5) use warmed PFA fixation without pre-extraction or detergent in fixation solution.
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( A ) Fixation: 3% PFA in PHEM buffer without any detergent was used as standard fixation in this study (Details in Text and Methods). ( B ) Staining: Fixed samples were immunofluorescently labeled with antibodies to enhance S/N. Samples were usually mounted with Prolong Gold. ( C ) Imaging was performed by spinning disk confocal microscopy (See Materials and methods for details). ( D ) For CA correction, Hec1-9G3 monoclonal antibody was labeled by green and red tagged secondary antibodies (Hec1-9G3-GR). ( E ) Measurements: X, Y, Z coordinates of the centroids of green and red kinetochore fluorescence were determined by 3D Gaussian fitting. Details of equations for separation measurements are in Text, Figures, and Methods. ( F ) Error analysis: computer simulations were used for error analysis of the method. The sources of potential errors in separation measurements were highlighted in pink underline with *. 10.7554/eLife.32418.003 Figure 1—source data 1. Pipeline for obtaining mean 3D separation measurements with nm-scale accuracy. Critical factors were: (1) prepare bright high signal to noise samples to reduce standard deviation (SD) of centroid determination; (2) use mounting media like ProLong Gold to suppress z-axis spherical aberration; (3) use 0.17 mm thick <t>coverslips</t> for all measurements including CA measurement; (4) align imaging system and image using only a small region within the center of camera to suppress SD of CA; and (5) use warmed PFA fixation without pre-extraction or detergent in fixation solution.
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( A ) Fixation: 3% PFA in PHEM buffer without any detergent was used as standard fixation in this study (Details in Text and Methods). ( B ) Staining: Fixed samples were immunofluorescently labeled with antibodies to enhance S/N. Samples were usually mounted with Prolong Gold. ( C ) Imaging was performed by spinning disk confocal microscopy (See Materials and methods for details). ( D ) For CA correction, Hec1-9G3 monoclonal antibody was labeled by green and red tagged secondary antibodies (Hec1-9G3-GR). ( E ) Measurements: X, Y, Z coordinates of the centroids of green and red kinetochore fluorescence were determined by 3D Gaussian fitting. Details of equations for separation measurements are in Text, Figures, and Methods. ( F ) Error analysis: computer simulations were used for error analysis of the method. The sources of potential errors in separation measurements were highlighted in pink underline with *. 10.7554/eLife.32418.003 Figure 1—source data 1. Pipeline for obtaining mean 3D separation measurements with nm-scale accuracy. Critical factors were: (1) prepare bright high signal to noise samples to reduce standard deviation (SD) of centroid determination; (2) use mounting media like ProLong Gold to suppress z-axis spherical aberration; (3) use 0.17 mm thick <t>coverslips</t> for all measurements including CA measurement; (4) align imaging system and image using only a small region within the center of camera to suppress SD of CA; and (5) use warmed PFA fixation without pre-extraction or detergent in fixation solution.
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( A ) Fixation: 3% PFA in PHEM buffer without any detergent was used as standard fixation in this study (Details in Text and Methods). ( B ) Staining: Fixed samples were immunofluorescently labeled with antibodies to enhance S/N. Samples were usually mounted with Prolong Gold. ( C ) Imaging was performed by spinning disk confocal microscopy (See Materials and methods for details). ( D ) For CA correction, Hec1-9G3 monoclonal antibody was labeled by green and red tagged secondary antibodies (Hec1-9G3-GR). ( E ) Measurements: X, Y, Z coordinates of the centroids of green and red kinetochore fluorescence were determined by 3D Gaussian fitting. Details of equations for separation measurements are in Text, Figures, and Methods. ( F ) Error analysis: computer simulations were used for error analysis of the method. The sources of potential errors in separation measurements were highlighted in pink underline with *. 10.7554/eLife.32418.003 Figure 1—source data 1. Pipeline for obtaining mean 3D separation measurements with nm-scale accuracy. Critical factors were: (1) prepare bright high signal to noise samples to reduce standard deviation (SD) of centroid determination; (2) use mounting media like ProLong Gold to suppress z-axis spherical aberration; (3) use 0.17 mm thick <t>coverslips</t> for all measurements including CA measurement; (4) align imaging system and image using only a small region within the center of camera to suppress SD of CA; and (5) use warmed PFA fixation without pre-extraction or detergent in fixation solution.
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( A ) Fixation: 3% PFA in PHEM buffer without any detergent was used as standard fixation in this study (Details in Text and Methods). ( B ) Staining: Fixed samples were immunofluorescently labeled with antibodies to enhance S/N. Samples were usually mounted with Prolong Gold. ( C ) Imaging was performed by spinning disk confocal microscopy (See Materials and methods for details). ( D ) For CA correction, Hec1-9G3 monoclonal antibody was labeled by green and red tagged secondary antibodies (Hec1-9G3-GR). ( E ) Measurements: X, Y, Z coordinates of the centroids of green and red kinetochore fluorescence were determined by 3D Gaussian fitting. Details of equations for separation measurements are in Text, Figures, and Methods. ( F ) Error analysis: computer simulations were used for error analysis of the method. The sources of potential errors in separation measurements were highlighted in pink underline with *. 10.7554/eLife.32418.003 Figure 1—source data 1. Pipeline for obtaining mean 3D separation measurements with nm-scale accuracy. Critical factors were: (1) prepare bright high signal to noise samples to reduce standard deviation (SD) of centroid determination; (2) use mounting media like ProLong Gold to suppress z-axis spherical aberration; (3) use 0.17 mm thick <t>coverslips</t> for all measurements including CA measurement; (4) align imaging system and image using only a small region within the center of camera to suppress SD of CA; and (5) use warmed PFA fixation without pre-extraction or detergent in fixation solution.
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( A ) Fixation: 3% PFA in PHEM buffer without any detergent was used as standard fixation in this study (Details in Text and Methods). ( B ) Staining: Fixed samples were immunofluorescently labeled with antibodies to enhance S/N. Samples were usually mounted with Prolong Gold. ( C ) Imaging was performed by spinning disk confocal microscopy (See Materials and methods for details). ( D ) For CA correction, Hec1-9G3 monoclonal antibody was labeled by green and red tagged secondary antibodies (Hec1-9G3-GR). ( E ) Measurements: X, Y, Z coordinates of the centroids of green and red kinetochore fluorescence were determined by 3D Gaussian fitting. Details of equations for separation measurements are in Text, Figures, and Methods. ( F ) Error analysis: computer simulations were used for error analysis of the method. The sources of potential errors in separation measurements were highlighted in pink underline with *. 10.7554/eLife.32418.003 Figure 1—source data 1. Pipeline for obtaining mean 3D separation measurements with nm-scale accuracy. Critical factors were: (1) prepare bright high signal to noise samples to reduce standard deviation (SD) of centroid determination; (2) use mounting media like ProLong Gold to suppress z-axis spherical aberration; (3) use 0.17 mm thick <t>coverslips</t> for all measurements including CA measurement; (4) align imaging system and image using only a small region within the center of camera to suppress SD of CA; and (5) use warmed PFA fixation without pre-extraction or detergent in fixation solution.
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( A ) Fixation: 3% PFA in PHEM buffer without any detergent was used as standard fixation in this study (Details in Text and Methods). ( B ) Staining: Fixed samples were immunofluorescently labeled with antibodies to enhance S/N. Samples were usually mounted with Prolong Gold. ( C ) Imaging was performed by spinning disk confocal microscopy (See Materials and methods for details). ( D ) For CA correction, Hec1-9G3 monoclonal antibody was labeled by green and red tagged secondary antibodies (Hec1-9G3-GR). ( E ) Measurements: X, Y, Z coordinates of the centroids of green and red kinetochore fluorescence were determined by 3D Gaussian fitting. Details of equations for separation measurements are in Text, Figures, and Methods. ( F ) Error analysis: computer simulations were used for error analysis of the method. The sources of potential errors in separation measurements were highlighted in pink underline with *. 10.7554/eLife.32418.003 Figure 1—source data 1. Pipeline for obtaining mean 3D separation measurements with nm-scale accuracy. Critical factors were: (1) prepare bright high signal to noise samples to reduce standard deviation (SD) of centroid determination; (2) use mounting media like ProLong Gold to suppress z-axis spherical aberration; (3) use 0.17 mm thick <t>coverslips</t> for all measurements including CA measurement; (4) align imaging system and image using only a small region within the center of camera to suppress SD of CA; and (5) use warmed PFA fixation without pre-extraction or detergent in fixation solution.
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( A ) Fixation: 3% PFA in PHEM buffer without any detergent was used as standard fixation in this study (Details in Text and Methods). ( B ) Staining: Fixed samples were immunofluorescently labeled with antibodies to enhance S/N. Samples were usually mounted with Prolong Gold. ( C ) Imaging was performed by spinning disk confocal microscopy (See Materials and methods for details). ( D ) For CA correction, Hec1-9G3 monoclonal antibody was labeled by green and red tagged secondary antibodies (Hec1-9G3-GR). ( E ) Measurements: X, Y, Z coordinates of the centroids of green and red kinetochore fluorescence were determined by 3D Gaussian fitting. Details of equations for separation measurements are in Text, Figures, and Methods. ( F ) Error analysis: computer simulations were used for error analysis of the method. The sources of potential errors in separation measurements were highlighted in pink underline with *. 10.7554/eLife.32418.003 Figure 1—source data 1. Pipeline for obtaining mean 3D separation measurements with nm-scale accuracy. Critical factors were: (1) prepare bright high signal to noise samples to reduce standard deviation (SD) of centroid determination; (2) use mounting media like ProLong Gold to suppress z-axis spherical aberration; (3) use 0.17 mm thick <t>coverslips</t> for all measurements including CA measurement; (4) align imaging system and image using only a small region within the center of camera to suppress SD of CA; and (5) use warmed PFA fixation without pre-extraction or detergent in fixation solution.
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Image Search Results


( A ) Fixation: 3% PFA in PHEM buffer without any detergent was used as standard fixation in this study (Details in Text and Methods). ( B ) Staining: Fixed samples were immunofluorescently labeled with antibodies to enhance S/N. Samples were usually mounted with Prolong Gold. ( C ) Imaging was performed by spinning disk confocal microscopy (See Materials and methods for details). ( D ) For CA correction, Hec1-9G3 monoclonal antibody was labeled by green and red tagged secondary antibodies (Hec1-9G3-GR). ( E ) Measurements: X, Y, Z coordinates of the centroids of green and red kinetochore fluorescence were determined by 3D Gaussian fitting. Details of equations for separation measurements are in Text, Figures, and Methods. ( F ) Error analysis: computer simulations were used for error analysis of the method. The sources of potential errors in separation measurements were highlighted in pink underline with *. 10.7554/eLife.32418.003 Figure 1—source data 1. Pipeline for obtaining mean 3D separation measurements with nm-scale accuracy. Critical factors were: (1) prepare bright high signal to noise samples to reduce standard deviation (SD) of centroid determination; (2) use mounting media like ProLong Gold to suppress z-axis spherical aberration; (3) use 0.17 mm thick coverslips for all measurements including CA measurement; (4) align imaging system and image using only a small region within the center of camera to suppress SD of CA; and (5) use warmed PFA fixation without pre-extraction or detergent in fixation solution.

Journal: eLife

Article Title: An optimized method for 3D fluorescence co-localization applied to human kinetochore protein architecture

doi: 10.7554/eLife.32418

Figure Lengend Snippet: ( A ) Fixation: 3% PFA in PHEM buffer without any detergent was used as standard fixation in this study (Details in Text and Methods). ( B ) Staining: Fixed samples were immunofluorescently labeled with antibodies to enhance S/N. Samples were usually mounted with Prolong Gold. ( C ) Imaging was performed by spinning disk confocal microscopy (See Materials and methods for details). ( D ) For CA correction, Hec1-9G3 monoclonal antibody was labeled by green and red tagged secondary antibodies (Hec1-9G3-GR). ( E ) Measurements: X, Y, Z coordinates of the centroids of green and red kinetochore fluorescence were determined by 3D Gaussian fitting. Details of equations for separation measurements are in Text, Figures, and Methods. ( F ) Error analysis: computer simulations were used for error analysis of the method. The sources of potential errors in separation measurements were highlighted in pink underline with *. 10.7554/eLife.32418.003 Figure 1—source data 1. Pipeline for obtaining mean 3D separation measurements with nm-scale accuracy. Critical factors were: (1) prepare bright high signal to noise samples to reduce standard deviation (SD) of centroid determination; (2) use mounting media like ProLong Gold to suppress z-axis spherical aberration; (3) use 0.17 mm thick coverslips for all measurements including CA measurement; (4) align imaging system and image using only a small region within the center of camera to suppress SD of CA; and (5) use warmed PFA fixation without pre-extraction or detergent in fixation solution.

Article Snippet: Cells were grown on acid washed #1.5 coverslips (~0.17 mm thick, Corning).

Techniques: Staining, Labeling, Imaging, Confocal Microscopy, Fluorescence, Standard Deviation, Extraction

(A) List of Delta, S(2D), S(3D), Z-offset, and zS(3D) (Z-offset subtracted) for the mean separation between CENP-T(M) and Hec1(9G3) in samples with or without large Z-offset. (B) List of Delta, S(2D), S(3D), Z-offset, and zS(3D) in samples with #1, #1.5, and #2  coverslips.  The value zS(3D) was calculated from the S(3D) data after subtraction of the mean Z-offset in the middle of the spindle from the Sz values. All values were mean ±SD.

Journal: eLife

Article Title: An optimized method for 3D fluorescence co-localization applied to human kinetochore protein architecture

doi: 10.7554/eLife.32418

Figure Lengend Snippet: (A) List of Delta, S(2D), S(3D), Z-offset, and zS(3D) (Z-offset subtracted) for the mean separation between CENP-T(M) and Hec1(9G3) in samples with or without large Z-offset. (B) List of Delta, S(2D), S(3D), Z-offset, and zS(3D) in samples with #1, #1.5, and #2 coverslips. The value zS(3D) was calculated from the S(3D) data after subtraction of the mean Z-offset in the middle of the spindle from the Sz values. All values were mean ±SD.

Article Snippet: Cells were grown on acid washed #1.5 coverslips (~0.17 mm thick, Corning).

Techniques:

Measured variability of coverslip thickness within #1, #1.5, and #2 coverslips.

Journal: eLife

Article Title: An optimized method for 3D fluorescence co-localization applied to human kinetochore protein architecture

doi: 10.7554/eLife.32418

Figure Lengend Snippet: Measured variability of coverslip thickness within #1, #1.5, and #2 coverslips.

Article Snippet: Cells were grown on acid washed #1.5 coverslips (~0.17 mm thick, Corning).

Techniques: