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curate potential cesa6 delivery events  (Oxford Instruments)
99
Oxford Instruments curate potential cesa6 delivery events
( A ) CESA exocytosis event. (Top panel) Time series (top panel) and kymograph (bottom panel) of tdTomato-KEULE and <t>CIT-CESA6</t> during a CESA exocytosis event. The kymograph shows evidence for CSC-vesicle tethering at the cell membrane (start of static phase) and successful CSC secretion as an active complex (steady movement phase, see text). ( B ) Distribution of distances between the positions of CIT-CESA6 signals at start of static phase and the nearest tdTomato-KEULE spot, as estimated by MLE PSF fitting. Data shown both for observed CIT-CESA6 locations and simulated random locations. ( C ) Differences of the observed vs expected CESA6-KEULE distance frequencies in ( B ), portraying over- and under-representation (green and red respectively). ( D ) Examples of colocalization and fitted positions for events in ( B ). ( E ) Bayesian likelihood ratios of the observed frequency of distances between 0 and 40 nm given bias δ over δ(0.5). The position of the peak value indicates the most likely, or maximum a posteriori probability (MAP), value for the bias δ for the observed frequency given the expected frequency. ( F ) Bayesian analysis of the MAP(δ) for each distance bin, MAP(δ) = 0.5 indicates no difference from expected. Error bars are 95% confidence intervals expressed as the highest posterior density (HPD, the shortest interval containing 95% of the probability density). ( G ) CESA6 delivery rates in wild type and keule mutant cells. Data acquired from 8 cells on 8 seedlings. (Scale bars = 1µm).
Curate Potential Cesa6 Delivery Events, supplied by Oxford Instruments, used in various techniques. Bioz Stars score: 99/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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renewable systems  (MathWorks Inc)
96
MathWorks Inc renewable systems
( A ) CESA exocytosis event. (Top panel) Time series (top panel) and kymograph (bottom panel) of tdTomato-KEULE and <t>CIT-CESA6</t> during a CESA exocytosis event. The kymograph shows evidence for CSC-vesicle tethering at the cell membrane (start of static phase) and successful CSC secretion as an active complex (steady movement phase, see text). ( B ) Distribution of distances between the positions of CIT-CESA6 signals at start of static phase and the nearest tdTomato-KEULE spot, as estimated by MLE PSF fitting. Data shown both for observed CIT-CESA6 locations and simulated random locations. ( C ) Differences of the observed vs expected CESA6-KEULE distance frequencies in ( B ), portraying over- and under-representation (green and red respectively). ( D ) Examples of colocalization and fitted positions for events in ( B ). ( E ) Bayesian likelihood ratios of the observed frequency of distances between 0 and 40 nm given bias δ over δ(0.5). The position of the peak value indicates the most likely, or maximum a posteriori probability (MAP), value for the bias δ for the observed frequency given the expected frequency. ( F ) Bayesian analysis of the MAP(δ) for each distance bin, MAP(δ) = 0.5 indicates no difference from expected. Error bars are 95% confidence intervals expressed as the highest posterior density (HPD, the shortest interval containing 95% of the probability density). ( G ) CESA6 delivery rates in wild type and keule mutant cells. Data acquired from 8 cells on 8 seedlings. (Scale bars = 1µm).
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filter designer tool  (MathWorks Inc)
93
MathWorks Inc filter designer tool
( A ) CESA exocytosis event. (Top panel) Time series (top panel) and kymograph (bottom panel) of tdTomato-KEULE and <t>CIT-CESA6</t> during a CESA exocytosis event. The kymograph shows evidence for CSC-vesicle tethering at the cell membrane (start of static phase) and successful CSC secretion as an active complex (steady movement phase, see text). ( B ) Distribution of distances between the positions of CIT-CESA6 signals at start of static phase and the nearest tdTomato-KEULE spot, as estimated by MLE PSF fitting. Data shown both for observed CIT-CESA6 locations and simulated random locations. ( C ) Differences of the observed vs expected CESA6-KEULE distance frequencies in ( B ), portraying over- and under-representation (green and red respectively). ( D ) Examples of colocalization and fitted positions for events in ( B ). ( E ) Bayesian likelihood ratios of the observed frequency of distances between 0 and 40 nm given bias δ over δ(0.5). The position of the peak value indicates the most likely, or maximum a posteriori probability (MAP), value for the bias δ for the observed frequency given the expected frequency. ( F ) Bayesian analysis of the MAP(δ) for each distance bin, MAP(δ) = 0.5 indicates no difference from expected. Error bars are 95% confidence intervals expressed as the highest posterior density (HPD, the shortest interval containing 95% of the probability density). ( G ) CESA6 delivery rates in wild type and keule mutant cells. Data acquired from 8 cells on 8 seedlings. (Scale bars = 1µm).
Filter Designer Tool, supplied by MathWorks Inc, used in various techniques. Bioz Stars score: 93/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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simulink design optimization  (MathWorks Inc)
93
MathWorks Inc simulink design optimization
( A ) CESA exocytosis event. (Top panel) Time series (top panel) and kymograph (bottom panel) of tdTomato-KEULE and <t>CIT-CESA6</t> during a CESA exocytosis event. The kymograph shows evidence for CSC-vesicle tethering at the cell membrane (start of static phase) and successful CSC secretion as an active complex (steady movement phase, see text). ( B ) Distribution of distances between the positions of CIT-CESA6 signals at start of static phase and the nearest tdTomato-KEULE spot, as estimated by MLE PSF fitting. Data shown both for observed CIT-CESA6 locations and simulated random locations. ( C ) Differences of the observed vs expected CESA6-KEULE distance frequencies in ( B ), portraying over- and under-representation (green and red respectively). ( D ) Examples of colocalization and fitted positions for events in ( B ). ( E ) Bayesian likelihood ratios of the observed frequency of distances between 0 and 40 nm given bias δ over δ(0.5). The position of the peak value indicates the most likely, or maximum a posteriori probability (MAP), value for the bias δ for the observed frequency given the expected frequency. ( F ) Bayesian analysis of the MAP(δ) for each distance bin, MAP(δ) = 0.5 indicates no difference from expected. Error bars are 95% confidence intervals expressed as the highest posterior density (HPD, the shortest interval containing 95% of the probability density). ( G ) CESA6 delivery rates in wild type and keule mutant cells. Data acquired from 8 cells on 8 seedlings. (Scale bars = 1µm).
Simulink Design Optimization, supplied by MathWorks Inc, used in various techniques. Bioz Stars score: 93/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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cst hfss simulator  (Cell Signaling Technology Inc)
86
Cell Signaling Technology Inc cst hfss simulator
( A ) CESA exocytosis event. (Top panel) Time series (top panel) and kymograph (bottom panel) of tdTomato-KEULE and <t>CIT-CESA6</t> during a CESA exocytosis event. The kymograph shows evidence for CSC-vesicle tethering at the cell membrane (start of static phase) and successful CSC secretion as an active complex (steady movement phase, see text). ( B ) Distribution of distances between the positions of CIT-CESA6 signals at start of static phase and the nearest tdTomato-KEULE spot, as estimated by MLE PSF fitting. Data shown both for observed CIT-CESA6 locations and simulated random locations. ( C ) Differences of the observed vs expected CESA6-KEULE distance frequencies in ( B ), portraying over- and under-representation (green and red respectively). ( D ) Examples of colocalization and fitted positions for events in ( B ). ( E ) Bayesian likelihood ratios of the observed frequency of distances between 0 and 40 nm given bias δ over δ(0.5). The position of the peak value indicates the most likely, or maximum a posteriori probability (MAP), value for the bias δ for the observed frequency given the expected frequency. ( F ) Bayesian analysis of the MAP(δ) for each distance bin, MAP(δ) = 0.5 indicates no difference from expected. Error bars are 95% confidence intervals expressed as the highest posterior density (HPD, the shortest interval containing 95% of the probability density). ( G ) CESA6 delivery rates in wild type and keule mutant cells. Data acquired from 8 cells on 8 seedlings. (Scale bars = 1µm).
Cst Hfss Simulator, supplied by Cell Signaling Technology Inc, used in various techniques. Bioz Stars score: 86/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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image processing toolbox95  (MathWorks Inc)
96
MathWorks Inc image processing toolbox95
( A ) CESA exocytosis event. (Top panel) Time series (top panel) and kymograph (bottom panel) of tdTomato-KEULE and <t>CIT-CESA6</t> during a CESA exocytosis event. The kymograph shows evidence for CSC-vesicle tethering at the cell membrane (start of static phase) and successful CSC secretion as an active complex (steady movement phase, see text). ( B ) Distribution of distances between the positions of CIT-CESA6 signals at start of static phase and the nearest tdTomato-KEULE spot, as estimated by MLE PSF fitting. Data shown both for observed CIT-CESA6 locations and simulated random locations. ( C ) Differences of the observed vs expected CESA6-KEULE distance frequencies in ( B ), portraying over- and under-representation (green and red respectively). ( D ) Examples of colocalization and fitted positions for events in ( B ). ( E ) Bayesian likelihood ratios of the observed frequency of distances between 0 and 40 nm given bias δ over δ(0.5). The position of the peak value indicates the most likely, or maximum a posteriori probability (MAP), value for the bias δ for the observed frequency given the expected frequency. ( F ) Bayesian analysis of the MAP(δ) for each distance bin, MAP(δ) = 0.5 indicates no difference from expected. Error bars are 95% confidence intervals expressed as the highest posterior density (HPD, the shortest interval containing 95% of the probability density). ( G ) CESA6 delivery rates in wild type and keule mutant cells. Data acquired from 8 cells on 8 seedlings. (Scale bars = 1µm).
Image Processing Toolbox95, supplied by MathWorks Inc, used in various techniques. Bioz Stars score: 96/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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horn schunck method  (MathWorks Inc)
96
MathWorks Inc horn schunck method
( A ) CESA exocytosis event. (Top panel) Time series (top panel) and kymograph (bottom panel) of tdTomato-KEULE and <t>CIT-CESA6</t> during a CESA exocytosis event. The kymograph shows evidence for CSC-vesicle tethering at the cell membrane (start of static phase) and successful CSC secretion as an active complex (steady movement phase, see text). ( B ) Distribution of distances between the positions of CIT-CESA6 signals at start of static phase and the nearest tdTomato-KEULE spot, as estimated by MLE PSF fitting. Data shown both for observed CIT-CESA6 locations and simulated random locations. ( C ) Differences of the observed vs expected CESA6-KEULE distance frequencies in ( B ), portraying over- and under-representation (green and red respectively). ( D ) Examples of colocalization and fitted positions for events in ( B ). ( E ) Bayesian likelihood ratios of the observed frequency of distances between 0 and 40 nm given bias δ over δ(0.5). The position of the peak value indicates the most likely, or maximum a posteriori probability (MAP), value for the bias δ for the observed frequency given the expected frequency. ( F ) Bayesian analysis of the MAP(δ) for each distance bin, MAP(δ) = 0.5 indicates no difference from expected. Error bars are 95% confidence intervals expressed as the highest posterior density (HPD, the shortest interval containing 95% of the probability density). ( G ) CESA6 delivery rates in wild type and keule mutant cells. Data acquired from 8 cells on 8 seedlings. (Scale bars = 1µm).
Horn Schunck Method, supplied by MathWorks Inc, used in various techniques. Bioz Stars score: 96/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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mathworks based signal processing toolbox  (MathWorks Inc)
98
MathWorks Inc mathworks based signal processing toolbox
( A ) CESA exocytosis event. (Top panel) Time series (top panel) and kymograph (bottom panel) of tdTomato-KEULE and <t>CIT-CESA6</t> during a CESA exocytosis event. The kymograph shows evidence for CSC-vesicle tethering at the cell membrane (start of static phase) and successful CSC secretion as an active complex (steady movement phase, see text). ( B ) Distribution of distances between the positions of CIT-CESA6 signals at start of static phase and the nearest tdTomato-KEULE spot, as estimated by MLE PSF fitting. Data shown both for observed CIT-CESA6 locations and simulated random locations. ( C ) Differences of the observed vs expected CESA6-KEULE distance frequencies in ( B ), portraying over- and under-representation (green and red respectively). ( D ) Examples of colocalization and fitted positions for events in ( B ). ( E ) Bayesian likelihood ratios of the observed frequency of distances between 0 and 40 nm given bias δ over δ(0.5). The position of the peak value indicates the most likely, or maximum a posteriori probability (MAP), value for the bias δ for the observed frequency given the expected frequency. ( F ) Bayesian analysis of the MAP(δ) for each distance bin, MAP(δ) = 0.5 indicates no difference from expected. Error bars are 95% confidence intervals expressed as the highest posterior density (HPD, the shortest interval containing 95% of the probability density). ( G ) CESA6 delivery rates in wild type and keule mutant cells. Data acquired from 8 cells on 8 seedlings. (Scale bars = 1µm).
Mathworks Based Signal Processing Toolbox, supplied by MathWorks Inc, used in various techniques. Bioz Stars score: 98/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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ansys version 17.0  (ANSYS inc)
90
ANSYS inc ansys version 17.0
( A ) CESA exocytosis event. (Top panel) Time series (top panel) and kymograph (bottom panel) of tdTomato-KEULE and <t>CIT-CESA6</t> during a CESA exocytosis event. The kymograph shows evidence for CSC-vesicle tethering at the cell membrane (start of static phase) and successful CSC secretion as an active complex (steady movement phase, see text). ( B ) Distribution of distances between the positions of CIT-CESA6 signals at start of static phase and the nearest tdTomato-KEULE spot, as estimated by MLE PSF fitting. Data shown both for observed CIT-CESA6 locations and simulated random locations. ( C ) Differences of the observed vs expected CESA6-KEULE distance frequencies in ( B ), portraying over- and under-representation (green and red respectively). ( D ) Examples of colocalization and fitted positions for events in ( B ). ( E ) Bayesian likelihood ratios of the observed frequency of distances between 0 and 40 nm given bias δ over δ(0.5). The position of the peak value indicates the most likely, or maximum a posteriori probability (MAP), value for the bias δ for the observed frequency given the expected frequency. ( F ) Bayesian analysis of the MAP(δ) for each distance bin, MAP(δ) = 0.5 indicates no difference from expected. Error bars are 95% confidence intervals expressed as the highest posterior density (HPD, the shortest interval containing 95% of the probability density). ( G ) CESA6 delivery rates in wild type and keule mutant cells. Data acquired from 8 cells on 8 seedlings. (Scale bars = 1µm).
Ansys Version 17.0, supplied by ANSYS inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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model predictive control fcs mpc  (MathWorks Inc)
95
MathWorks Inc model predictive control fcs mpc
( A ) CESA exocytosis event. (Top panel) Time series (top panel) and kymograph (bottom panel) of tdTomato-KEULE and <t>CIT-CESA6</t> during a CESA exocytosis event. The kymograph shows evidence for CSC-vesicle tethering at the cell membrane (start of static phase) and successful CSC secretion as an active complex (steady movement phase, see text). ( B ) Distribution of distances between the positions of CIT-CESA6 signals at start of static phase and the nearest tdTomato-KEULE spot, as estimated by MLE PSF fitting. Data shown both for observed CIT-CESA6 locations and simulated random locations. ( C ) Differences of the observed vs expected CESA6-KEULE distance frequencies in ( B ), portraying over- and under-representation (green and red respectively). ( D ) Examples of colocalization and fitted positions for events in ( B ). ( E ) Bayesian likelihood ratios of the observed frequency of distances between 0 and 40 nm given bias δ over δ(0.5). The position of the peak value indicates the most likely, or maximum a posteriori probability (MAP), value for the bias δ for the observed frequency given the expected frequency. ( F ) Bayesian analysis of the MAP(δ) for each distance bin, MAP(δ) = 0.5 indicates no difference from expected. Error bars are 95% confidence intervals expressed as the highest posterior density (HPD, the shortest interval containing 95% of the probability density). ( G ) CESA6 delivery rates in wild type and keule mutant cells. Data acquired from 8 cells on 8 seedlings. (Scale bars = 1µm).
Model Predictive Control Fcs Mpc, supplied by MathWorks Inc, used in various techniques. Bioz Stars score: 95/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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matlab matlab  (MathWorks Inc)
96
MathWorks Inc matlab matlab
( A ) CESA exocytosis event. (Top panel) Time series (top panel) and kymograph (bottom panel) of tdTomato-KEULE and <t>CIT-CESA6</t> during a CESA exocytosis event. The kymograph shows evidence for CSC-vesicle tethering at the cell membrane (start of static phase) and successful CSC secretion as an active complex (steady movement phase, see text). ( B ) Distribution of distances between the positions of CIT-CESA6 signals at start of static phase and the nearest tdTomato-KEULE spot, as estimated by MLE PSF fitting. Data shown both for observed CIT-CESA6 locations and simulated random locations. ( C ) Differences of the observed vs expected CESA6-KEULE distance frequencies in ( B ), portraying over- and under-representation (green and red respectively). ( D ) Examples of colocalization and fitted positions for events in ( B ). ( E ) Bayesian likelihood ratios of the observed frequency of distances between 0 and 40 nm given bias δ over δ(0.5). The position of the peak value indicates the most likely, or maximum a posteriori probability (MAP), value for the bias δ for the observed frequency given the expected frequency. ( F ) Bayesian analysis of the MAP(δ) for each distance bin, MAP(δ) = 0.5 indicates no difference from expected. Error bars are 95% confidence intervals expressed as the highest posterior density (HPD, the shortest interval containing 95% of the probability density). ( G ) CESA6 delivery rates in wild type and keule mutant cells. Data acquired from 8 cells on 8 seedlings. (Scale bars = 1µm).
Matlab Matlab, supplied by MathWorks Inc, used in various techniques. Bioz Stars score: 96/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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matlab code  (MathWorks Inc)
95
MathWorks Inc matlab code
( A ) CESA exocytosis event. (Top panel) Time series (top panel) and kymograph (bottom panel) of tdTomato-KEULE and <t>CIT-CESA6</t> during a CESA exocytosis event. The kymograph shows evidence for CSC-vesicle tethering at the cell membrane (start of static phase) and successful CSC secretion as an active complex (steady movement phase, see text). ( B ) Distribution of distances between the positions of CIT-CESA6 signals at start of static phase and the nearest tdTomato-KEULE spot, as estimated by MLE PSF fitting. Data shown both for observed CIT-CESA6 locations and simulated random locations. ( C ) Differences of the observed vs expected CESA6-KEULE distance frequencies in ( B ), portraying over- and under-representation (green and red respectively). ( D ) Examples of colocalization and fitted positions for events in ( B ). ( E ) Bayesian likelihood ratios of the observed frequency of distances between 0 and 40 nm given bias δ over δ(0.5). The position of the peak value indicates the most likely, or maximum a posteriori probability (MAP), value for the bias δ for the observed frequency given the expected frequency. ( F ) Bayesian analysis of the MAP(δ) for each distance bin, MAP(δ) = 0.5 indicates no difference from expected. Error bars are 95% confidence intervals expressed as the highest posterior density (HPD, the shortest interval containing 95% of the probability density). ( G ) CESA6 delivery rates in wild type and keule mutant cells. Data acquired from 8 cells on 8 seedlings. (Scale bars = 1µm).
Matlab Code, supplied by MathWorks Inc, used in various techniques. Bioz Stars score: 95/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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Image Search Results


( A ) CESA exocytosis event. (Top panel) Time series (top panel) and kymograph (bottom panel) of tdTomato-KEULE and CIT-CESA6 during a CESA exocytosis event. The kymograph shows evidence for CSC-vesicle tethering at the cell membrane (start of static phase) and successful CSC secretion as an active complex (steady movement phase, see text). ( B ) Distribution of distances between the positions of CIT-CESA6 signals at start of static phase and the nearest tdTomato-KEULE spot, as estimated by MLE PSF fitting. Data shown both for observed CIT-CESA6 locations and simulated random locations. ( C ) Differences of the observed vs expected CESA6-KEULE distance frequencies in ( B ), portraying over- and under-representation (green and red respectively). ( D ) Examples of colocalization and fitted positions for events in ( B ). ( E ) Bayesian likelihood ratios of the observed frequency of distances between 0 and 40 nm given bias δ over δ(0.5). The position of the peak value indicates the most likely, or maximum a posteriori probability (MAP), value for the bias δ for the observed frequency given the expected frequency. ( F ) Bayesian analysis of the MAP(δ) for each distance bin, MAP(δ) = 0.5 indicates no difference from expected. Error bars are 95% confidence intervals expressed as the highest posterior density (HPD, the shortest interval containing 95% of the probability density). ( G ) CESA6 delivery rates in wild type and keule mutant cells. Data acquired from 8 cells on 8 seedlings. (Scale bars = 1µm).

Journal: bioRxiv

Article Title: Cortical microtubules act as a template to organize nano-scale patterning of exocytosis

doi: 10.1101/2024.12.01.626273

Figure Lengend Snippet: ( A ) CESA exocytosis event. (Top panel) Time series (top panel) and kymograph (bottom panel) of tdTomato-KEULE and CIT-CESA6 during a CESA exocytosis event. The kymograph shows evidence for CSC-vesicle tethering at the cell membrane (start of static phase) and successful CSC secretion as an active complex (steady movement phase, see text). ( B ) Distribution of distances between the positions of CIT-CESA6 signals at start of static phase and the nearest tdTomato-KEULE spot, as estimated by MLE PSF fitting. Data shown both for observed CIT-CESA6 locations and simulated random locations. ( C ) Differences of the observed vs expected CESA6-KEULE distance frequencies in ( B ), portraying over- and under-representation (green and red respectively). ( D ) Examples of colocalization and fitted positions for events in ( B ). ( E ) Bayesian likelihood ratios of the observed frequency of distances between 0 and 40 nm given bias δ over δ(0.5). The position of the peak value indicates the most likely, or maximum a posteriori probability (MAP), value for the bias δ for the observed frequency given the expected frequency. ( F ) Bayesian analysis of the MAP(δ) for each distance bin, MAP(δ) = 0.5 indicates no difference from expected. Error bars are 95% confidence intervals expressed as the highest posterior density (HPD, the shortest interval containing 95% of the probability density). ( G ) CESA6 delivery rates in wild type and keule mutant cells. Data acquired from 8 cells on 8 seedlings. (Scale bars = 1µm).

Article Snippet: We therefore designed a graphical user interface in MATLAB that allowed us to efficiently curate potential CESA6 delivery events identified in Imaris and verify whether individual tracks were indeed depicting a CESA6 delivery.

Techniques: Membrane, Mutagenesis

( A ) Comparison of the waiting time distribution from CIT-CESA6 signal stabilization until the detection of the nearest tdTomato-KEULE cluster in observed and simulated data. ( B ) KEULE dynamics in the context of CSC secretion. Histograms of waiting times (left pane) and lifetimes of tdTomato-KEULE clusters co-localized with CIT-CESA6 delivery events (right panel ( B )).

Journal: bioRxiv

Article Title: Cortical microtubules act as a template to organize nano-scale patterning of exocytosis

doi: 10.1101/2024.12.01.626273

Figure Lengend Snippet: ( A ) Comparison of the waiting time distribution from CIT-CESA6 signal stabilization until the detection of the nearest tdTomato-KEULE cluster in observed and simulated data. ( B ) KEULE dynamics in the context of CSC secretion. Histograms of waiting times (left pane) and lifetimes of tdTomato-KEULE clusters co-localized with CIT-CESA6 delivery events (right panel ( B )).

Article Snippet: We therefore designed a graphical user interface in MATLAB that allowed us to efficiently curate potential CESA6 delivery events identified in Imaris and verify whether individual tracks were indeed depicting a CESA6 delivery.

Techniques: Comparison