scholarly journals Reply To: Molecular Brightness analysis of GPCR oligomerization in the presence of spatial heterogeneity

2019 ◽  
Author(s):  
Michael R. Stoneman ◽  
Gabriel Biener ◽  
Valerică Raicu
Keyword(s):  
Spatial Heterogeneity ◽  
Fluorescence Intensity ◽  
Intensity Fluctuation ◽  
Regions Of Interest ◽  
Cellular Structures ◽  
Two Dimensional ◽  
Analysis Process ◽  
Brightness Analysis ◽  
Molecular Brightness ◽  
Selection Of

Annibale and Lohse have recently suggested a way1 in which the two-dimensional fluorescence intensity fluctuation (2D FIF) spectrometry2 may be further refined. Their main suggestion is to include a step in the analysis process where a case-by-case inspection of individual regions of interest of a membrane allows for selection of portions of the membrane which are “as homogenous as possible” and thereby exclude intensity spots potentially related to other sub-cellular structures. By incorporating that proposal into an objective and reproducible algorithm, here we show that 2D FIF has a built-in capability to automatically filter out such contributions, and that further removal of inhomogeneities does not alter the final results.

scholarly journals Quantifying membrane protein oligomerization using two-dimensional fluorescence intensity fluctuation spectrometry

2019 ◽  
Author(s):  
Michael R. Stoneman ◽  
Gabriel Biener ◽  
Richard J. Ward ◽  
John D. Pediani ◽  
Dammar Badu ◽  
...  
Keyword(s):  
Membrane Protein ◽  
Fluorescence Intensity ◽  
Laser Scanning ◽  
Intensity Fluctuation ◽  
Membrane Receptors ◽  
Protein Oligomerization ◽  
Two Dimensional ◽  
Receptor Concentration ◽  
Standard Laser ◽  
Detailed Protocol

Abstract Current methods for determining membrane protein association in cells are either very time consuming, require complicated procedures, or lack the sensitivity needed to assess the effect of concentration or ligand binding on the observed oligomerization. To overcome these limitations, we provide a detailed protocol for quantifying the relative abundance and stability of oligomers of differing sizes using two-dimensional fluorescence intensity fluctuation (2D-FIF) spectrometry. The approach can be implemented using a standard laser scanning fluorescence microscope along with custom written software for image analysis. This method may be applied to evaluate the extent of oligomerization as a function of receptor concentration and is particularly suited to assess the effects of agonists and antagonists on the oligomeric size of membrane receptors of interest.

Bridging the Gap between Quantitative and Qualitative Historical Research: an application of multiple regression analysis and homogeneity analysis with alternating least squares

1996 ◽  
Vol 8 (3) ◽  
pp. 133-144 ◽  
Author(s):  
María del Mar del Pozo Andrés ◽  
Jacques F A Braster
Keyword(s):  
Least Squares ◽  
Multiple Regression ◽  
Historical Research ◽  
Alternating Least Squares ◽  
Categorical Variables ◽  
Two Dimensional ◽  
Homogeneity Analysis ◽  
Regression Approach ◽  
Dimensional Picture ◽  
Selection Of

In this article we propose two research techniques that can bridge the gap between quantitative and qualitative historical research. These are: (1) a multiple regression approach that gives information about general patterns between numerical variables and the selection of outliers for qualitative analysis; (2) a homogeneity analysis with alternating least squares that results in a two-dimensional picture in which the relationships between categorical variables are graphically presented.

scholarly journals Two-Dimensional Fluorescence Intensity Distribution Analysis: Theory and Applications

2000 ◽  
Vol 78 (4) ◽  
pp. 1703-1713 ◽  
Author(s):  
Peet Kask ◽  
Kaupo Palo ◽  
Nicolas Fay ◽  
Leif Brand ◽  
Ülo Mets ◽  
...  
Keyword(s):  
Fluorescence Intensity ◽  
Intensity Distribution ◽  
Distribution Analysis ◽  
Two Dimensional ◽  
Analysis Theory ◽  
Fluorescence Intensity Distribution Analysis

scholarly journals Buckling of regular, chiral and hierarchical honeycombs under a general macroscopic stress state

2014 ◽  
Vol 470 (2167) ◽  
pp. 20130856 ◽  
Author(s):  
Babak Haghpanah ◽  
Jim Papadopoulos ◽  
Davood Mousanezhad ◽  
Hamid Nayeb-Hashemi ◽  
Ashkan Vaziri
Keyword(s):  
Finite Element ◽  
Stress State ◽  
Closed Form ◽  
Plane Stress ◽  
Plane Stress State ◽  
Cellular Structures ◽  
Two Dimensional ◽  
Buckling Strength ◽  
Macroscopic Stress ◽  
Unit Cells

An approach to obtain analytical closed-form expressions for the macroscopic ‘buckling strength’ of various two-dimensional cellular structures is presented. The method is based on classical beam-column end-moment behaviour expressed in a matrix form. It is applied to sample honeycombs with square, triangular and hexagonal unit cells to determine their buckling strength under a general macroscopic in-plane stress state. The results were verified using finite-element Eigenvalue analysis.

Two-dimensional gel selection of protein binding sites on DNA

1993 ◽  
Vol 14 (1) ◽  
pp. 259-265 ◽  
Author(s):  
Andrea Boffini ◽  
Pierre Prentki
Keyword(s):  
Protein Binding ◽  
Binding Sites ◽  
Two Dimensional ◽  
Protein Binding Sites ◽  
Selection Of

Automated selection of regions of interest for quantitative analysis of lung textures in digital chest radiographs

1993 ◽  
Vol 20 (4) ◽  
pp. 975-982 ◽  
Author(s):  
Xuan Chen ◽  
Kunio Doi ◽  
Shigehiko Katsuragawa ◽  
Heber MacMahon
Keyword(s):  
Quantitative Analysis ◽  
Regions Of Interest ◽  
Chest Radiographs ◽  
Digital Chest ◽  
Selection Of

Exact analysis of the bending of wide beams by a modified elastica approach

2011 ◽  
Vol 225 (11) ◽  
pp. 2759-2764 ◽  
Author(s):  
L F Campanile ◽  
R Jähne ◽  
A Hasse
Keyword(s):  
Finite Element ◽  
Substantial Reduction ◽  
Short Review ◽  
Computational Effort ◽  
Two Dimensional ◽  
Finite Element Calculations ◽  
Dimensional Finite Element ◽  
Wide Beams ◽  
Insight Into ◽  
Selection Of

Classical beam models do not account for partial restraint of anticlastic bending and are therefore inherently inaccurate. This article proposes a modification of the exact Bernoulli–Euler equation which allows for an exact prediction of the beam's deflection without the need of two-dimensional finite element calculations. This approach offers a substantial reduction in the computational effort, especially when coupled with a fast-solving schema like the circle-arc method. Besides the description of the new method and its validation, this article offers an insight into the somewhat disregarded topic of anticlastic bending by a short review of the published theories and a selection of representative numerical results.

Implementation of p and h-p Versions of the Finite Element Method

1992 ◽  
Author(s):  
Ye-Chen Lai ◽  
Timothy C. S. Liang ◽  
Zhenxue Jia
Keyword(s):  
Finite Element Method ◽  
Finite Element ◽  
Elastic Analysis ◽  
Two Dimensional ◽  
The Finite Element Method ◽  
Shape Functions ◽  
Linear Elastic ◽  
Finite Element Software ◽  
Analysis Process ◽  
Adaptive Analysis

Abstract Based on hierarchic shape functions and an effective convergence procedure, the p-version and h-p adaptive analysis capabilities were incorporated into a finite element software system, called COSMOS/M. The range of the polynomial orders can be varied from 1 to 10 for two dimensional linear elastic analysis. In the h-p adaptive analysis process, a refined mesh are first achieved via adaptive h-refinement. The p-refinement is then added on to the h-version designed mesh by uniformly increasing the degree of the polynomials. Some numerical results computed by COSMOS/M are presented to illustrate the performance of these p and h-p analysis capabilities.

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