Journal: Journal of Synchrotron Radiation

Article Title: Non-rigid image registration to reduce beam-induced blurring of cryo-electron microscopy images

doi: 10.1107/S0909049512044408

Figure Lengend Snippet: Voronoi diagram used for non-rigid registration. The first and last image within a series of ten images were averaged. The motion vectors between tracked gold particles are shown as red vectors. The Voronoi diagram is shown in blue. This diagram is used to non-rigidly register the region within the yellow outline.

Article Snippet: These points can be used to construct a Voronoi diagram (Okabe et al. , 2000 ) which decomposes the plane into regions, named Voronoi cells.

Techniques:

Journal: Frontiers in Genetics

Article Title: Disease Risk Assessment Using a Voronoi-Based Network Analysis of Genes and Variants Scores

doi: 10.3389/fgene.2017.00029

Figure Lengend Snippet: Identification of the threshold for clustering based on the Chi-square model fitting to the background distribution of the normalized Voronoi cell density of the autoimmune associated gene-variant map . The red curve represents the fit by the Chi-square distribution to the cumulative distribution of the background (80% of the normalized Voronoi cell density) of autoimmune associated data points (blue circle). The threshold (dashed line) was determined at 3.96, and at the significance level of 90%. The subplot shows the identified threshold (dashed line) on the cumulative distribution of the normalized Voronoi cell density of the entire data points associated with autoimmune.

Article Snippet: Here we propose the relative risk using a Voronoi network algorithm that identifies disease-associated clusters containing genes, whose Voronoi cell densities were above a certain threshold, obtained from the Chi-square distribution fitted to the background data.

Techniques: Variant Assay

Journal: Frontiers in Genetics

Article Title: Disease Risk Assessment Using a Voronoi-Based Network Analysis of Genes and Variants Scores

doi: 10.3389/fgene.2017.00029

Figure Lengend Snippet: Autoimmune associated clusters identified by the Voronoi tessellation network analysis . (A) Voronoi tessellation of data points, in which four detected clusters are highlighted in colored cells. (B) Genes of data points belonging to the same clusters identified by Voronoi tessellation in (A) .

Article Snippet: Here we propose the relative risk using a Voronoi network algorithm that identifies disease-associated clusters containing genes, whose Voronoi cell densities were above a certain threshold, obtained from the Chi-square distribution fitted to the background data.

Techniques:

Journal: Methods in enzymology

Article Title: Fundamentals of three-dimensional reconstruction from projections

doi: 10.1016/S0076-6879(10)82001-4

Figure Lengend Snippet: Principle of the Gridding-based Direct Fourier 3D Reconstruction algorithm (GDFR). (a) 2D FFT of input projection image. (b) The reverse gridding is used to resample 2D Fourier input image into 2D polar Fourier coordinates. (c) “Gridding weights” are computed as cell areas of a 2D Voronoi diagram on a unit sphere (grey polygons) to compensate for the non-uniform distribution of the grid points. (d) Gridding using a convolution kernel with subsequent 3D inverse FFT yields samples on a 3D Cartesian grid. (e) Removal of weights in real space yields the reconstructed 3D object.

Article Snippet: Such weights can be obtained as volumes of 3D Voronoi cells obtained from the distribution of sampling points ( Okabe et al. , 2000 ).

Techniques:

Journal: Journal of Functional Biomaterials

Article Title: Advancing 3D Dental Implant Finite Element Analysis: Incorporating Biomimetic Trabecular Bone with Varied Pore Sizes in Voronoi Lattices

doi: 10.3390/jfb15040094

Figure Lengend Snippet: Comparative analysis of biomimetic Voronoi latticed spongy bone structures with four distinct pore sizes, ( a ) 1.0 mm, ( b ) 1.5 mm, ( c ) 2.0 mm, and ( d ) 2.5 mm, designed using nTopology (nTop 4.17.3) software.

Article Snippet: In particular, it focuses on using biomimetic Voronoi lattice architectures with different pore diameters to effectively mimic human cancellous bone characteristics.

Techniques: Software

Journal: Journal of Functional Biomaterials

Article Title: Advancing 3D Dental Implant Finite Element Analysis: Incorporating Biomimetic Trabecular Bone with Varied Pore Sizes in Voronoi Lattices

doi: 10.3390/jfb15040094

Figure Lengend Snippet: Biomimetic Voronoi-latticed trabecular bone constructed in nTopology featuring the following: ( a ) open-cell randomized lattice graph, ( b ) truncated thicken lattice graph, ( c ) finite element (FE) volume mesh, ( d ) FE boundary configuration utilizing body nodes. Each red squares with blue arros are the zoomed and detailed view for clarity purpose of images from ( a – d ).

Article Snippet: In particular, it focuses on using biomimetic Voronoi lattice architectures with different pore diameters to effectively mimic human cancellous bone characteristics.

Techniques: Construct

Journal: Journal of Functional Biomaterials

Article Title: Advancing 3D Dental Implant Finite Element Analysis: Incorporating Biomimetic Trabecular Bone with Varied Pore Sizes in Voronoi Lattices

doi: 10.3390/jfb15040094

Figure Lengend Snippet: Detailed meshing of dental implant components and Voronoi lattice biomimetic bone, with an emphasis on the mesh configuration, as illustrated in the zoomed section.

Article Snippet: In particular, it focuses on using biomimetic Voronoi lattice architectures with different pore diameters to effectively mimic human cancellous bone characteristics.

Techniques:

Journal: Journal of Functional Biomaterials

Article Title: Advancing 3D Dental Implant Finite Element Analysis: Incorporating Biomimetic Trabecular Bone with Varied Pore Sizes in Voronoi Lattices

doi: 10.3390/jfb15040094

Figure Lengend Snippet: Effects of pore size variation on structural parameters of biomimetic Voronoi lattice trabecular bone.

Article Snippet: In particular, it focuses on using biomimetic Voronoi lattice architectures with different pore diameters to effectively mimic human cancellous bone characteristics.

Techniques: Pore Size

Journal: Journal of Functional Biomaterials

Article Title: Advancing 3D Dental Implant Finite Element Analysis: Incorporating Biomimetic Trabecular Bone with Varied Pore Sizes in Voronoi Lattices

doi: 10.3390/jfb15040094

Figure Lengend Snippet: Relative density and porosity of biomimetic Voronoi lattice trabecular bone across various pore sizes.

Article Snippet: In particular, it focuses on using biomimetic Voronoi lattice architectures with different pore diameters to effectively mimic human cancellous bone characteristics.

Techniques:

Journal: Journal of Functional Biomaterials

Article Title: Advancing 3D Dental Implant Finite Element Analysis: Incorporating Biomimetic Trabecular Bone with Varied Pore Sizes in Voronoi Lattices

doi: 10.3390/jfb15040094

Figure Lengend Snippet: Maximum von Mises stress distribution in double-sliced assembled implant parts for four biomimetic Voronoi-latticed trabecular bones: ( a ) VTB10, ( b ) VTB15, ( c ) VTB20, and ( d ) VTB25.

Article Snippet: In particular, it focuses on using biomimetic Voronoi lattice architectures with different pore diameters to effectively mimic human cancellous bone characteristics.

Techniques:

Journal: Journal of Functional Biomaterials

Article Title: Advancing 3D Dental Implant Finite Element Analysis: Incorporating Biomimetic Trabecular Bone with Varied Pore Sizes in Voronoi Lattices

doi: 10.3390/jfb15040094

Figure Lengend Snippet: Contour von Mises stress distribution in dental implants and retaining screws across biomimetic Voronoi-latticed trabecular bone pore sizes: ( a ) VTB10, ( b ) VTB15, ( c ) VTB20, ( d ) VTB25 for implants, and ( e ) VTB10, ( f ) VTB15, ( g ) VTB20, ( h ) VTB25 for retaining screws.

Article Snippet: In particular, it focuses on using biomimetic Voronoi lattice architectures with different pore diameters to effectively mimic human cancellous bone characteristics.

Techniques:

Journal: Journal of Functional Biomaterials

Article Title: Advancing 3D Dental Implant Finite Element Analysis: Incorporating Biomimetic Trabecular Bone with Varied Pore Sizes in Voronoi Lattices

doi: 10.3390/jfb15040094

Figure Lengend Snippet: Maximum von Mises stresses in biomimetic Voronoi lattice trabecular and cortical bones for ( a ) VTB10, ( b ) VTB15, ( c ) VTB20, and ( d ) VTB25.

Article Snippet: In particular, it focuses on using biomimetic Voronoi lattice architectures with different pore diameters to effectively mimic human cancellous bone characteristics.

Techniques:

Journal: Journal of Functional Biomaterials

Article Title: Advancing 3D Dental Implant Finite Element Analysis: Incorporating Biomimetic Trabecular Bone with Varied Pore Sizes in Voronoi Lattices

doi: 10.3390/jfb15040094

Figure Lengend Snippet: Contour plots of the magnitude of displacements in biomimetic Voronoi lattice trabecular bone for pore sizes: ( a ) VTB10, ( b ) VTB15, ( c ) VTB20, ( d ) VTB25.

Article Snippet: In particular, it focuses on using biomimetic Voronoi lattice architectures with different pore diameters to effectively mimic human cancellous bone characteristics.

Techniques:

Journal: Journal of Functional Biomaterials

Article Title: Advancing 3D Dental Implant Finite Element Analysis: Incorporating Biomimetic Trabecular Bone with Varied Pore Sizes in Voronoi Lattices

doi: 10.3390/jfb15040094

Figure Lengend Snippet: Maximum displacement response in axial, mesiodistal, and buccolingual directions for biomimetic Voronoi lattice trabecular bones: ( a ) VTB10, ( b ) VTB15, ( c ) VTB20, and ( d ) VTB25.

Article Snippet: In particular, it focuses on using biomimetic Voronoi lattice architectures with different pore diameters to effectively mimic human cancellous bone characteristics.

Techniques:

Journal: Journal of Functional Biomaterials

Article Title: Advancing 3D Dental Implant Finite Element Analysis: Incorporating Biomimetic Trabecular Bone with Varied Pore Sizes in Voronoi Lattices

doi: 10.3390/jfb15040094

Figure Lengend Snippet: Dynamic reaction forces in dental implant assemblies across biomimetic Voronoi-latticed trabecular bone pore sizes: ( a ) VTB10, ( b ) VTB15, ( c ) VTB20, and ( d ) VTB25.

Article Snippet: In particular, it focuses on using biomimetic Voronoi lattice architectures with different pore diameters to effectively mimic human cancellous bone characteristics.

Techniques:

Journal: Scientific Reports

Article Title: Volumetric body composition analysis of the Cancer Genome Atlas reveals novel body composition traits and molecular markers Associated with Renal Carcinoma outcomes

doi: 10.1038/s41598-024-76280-6

Figure Lengend Snippet: Table defining body composition parameters calculated from the five tissue types segmented by DAFS (Voronoi Health Analytics).

Article Snippet: Karteek Popuri, Vincent Chow, Da Ma, and M. Faisal Beg developed the body composition software from Voronoi Health Analytics, Inc.

Techniques: Marker

Journal: Scientific Reports

Article Title: Volumetric body composition analysis of the Cancer Genome Atlas reveals novel body composition traits and molecular markers Associated with Renal Carcinoma outcomes

doi: 10.1038/s41598-024-76280-6

Figure Lengend Snippet: Representative body composition segmentation performed by DAFS (Voronoi Health Analytics). Representative non-segmented sagittal CT image of the abdomen and pelvis (panel A) and corresponding segmented image (panel B), with subcutaneous adipose tissue (SAT;teal), visceral adipose tissue (VAT;yellow), inter/intramuscular adipose tissue (IMAT; green), skeletal muscle (SKM; red), and bone (purple). Body composition parameters were calculated for the volume defined by the entire lumbar spine (white dashed box, panel B). Representative axial CT at the L3 vertebral body midpoint without segmentation (panel C) and its corresponding automated segmentation (panel D). A magnified view of the paraspinal tissues (panel D, white dashed box) is provided for improved visualization of IMAT (green) within the paraspinal musculature (panel E).

Article Snippet: Karteek Popuri, Vincent Chow, Da Ma, and M. Faisal Beg developed the body composition software from Voronoi Health Analytics, Inc.

Techniques:

Journal: Scientific Reports

Article Title: Volumetric body composition analysis of the Cancer Genome Atlas reveals novel body composition traits and molecular markers Associated with Renal Carcinoma outcomes

doi: 10.1038/s41598-024-76280-6

Figure Lengend Snippet: Distribution of body composition parameters for each individual lumbar level according to sex. Box-and-whisker plots shows distribution of different body composition parameters (panels A-L) in females (red, n = 384) and males (blue, n = 365). Line within box represents the median, box represents interquartile range, and lines represent maximum and minimum values in our cohort. Significance between sex and among lumbar level was established by repeated measures two-way ANOVA (i.e., FDR q -value < 5%). * indicates q -value < 0.05. ** indicates q -value < 0.005. *** indicates q -value < 0.0005. ns indicates q -value > 0.05.

Article Snippet: Karteek Popuri, Vincent Chow, Da Ma, and M. Faisal Beg developed the body composition software from Voronoi Health Analytics, Inc.

Techniques: Whisker Assay

Journal: Scientific Reports

Article Title: Volumetric body composition analysis of the Cancer Genome Atlas reveals novel body composition traits and molecular markers Associated with Renal Carcinoma outcomes

doi: 10.1038/s41598-024-76280-6

Figure Lengend Snippet: Distribution of body composition parameters for the volume of the entire lumbar spine according to sex. Box-and-whisker plots shows distribution of different body composition parameters (panels A-L) in females (red, n = 309) and males (blue, n = 308). The line within the box represents the median, the box represents the interquartile range, and vertical lines represent maximum and minimum values in the cohort. The SKMI was not analyzed here, as this measurement pertains to cross-sectional area, not volume. **** indicates a q -value of < 0.0001. ns indicates q -value > 0.05.

Article Snippet: Karteek Popuri, Vincent Chow, Da Ma, and M. Faisal Beg developed the body composition software from Voronoi Health Analytics, Inc.

Techniques: Whisker Assay

Journal: Scientific Reports

Article Title: Volumetric body composition analysis of the Cancer Genome Atlas reveals novel body composition traits and molecular markers Associated with Renal Carcinoma outcomes

doi: 10.1038/s41598-024-76280-6

Figure Lengend Snippet: Two-tailed Spearman correlation coefficients (ρ) between body composition parameters for the volume of the whole lumbar spine and BMI. Not stratified (panel A, n = 228), stratified by sex (panel B), and stratified by the two most represented self-determined race categories (panel C). Fisher-z-transformed correlations did not differ significantly between groups stratified by sex and self-determined race (i.e., unpaired t-test q -value < 5%).

Article Snippet: Karteek Popuri, Vincent Chow, Da Ma, and M. Faisal Beg developed the body composition software from Voronoi Health Analytics, Inc.

Techniques: Two Tailed Test, Transformation Assay

Journal: Scientific Reports

Article Title: Volumetric body composition analysis of the Cancer Genome Atlas reveals novel body composition traits and molecular markers Associated with Renal Carcinoma outcomes

doi: 10.1038/s41598-024-76280-6

Figure Lengend Snippet: Hazard ratios (HR) of various body composition metrics in male and female patients, calculated utilizing multivariable Cox regression analysis accounting for patient age and stage. Body composition parameters calculated at a single L3 mid slice level (Panel A, n = 224). Volumetric body composition metrics calculated across the entire lumbar spine (Panel B, n = 194). * indicates a p -value of < 0.05. ** indicates a p -value of < 0.01. *** indicates a p -value of < 0.001. **** indicates a p -value of < 0.0001. ns indicates a p -value of ≥ 0.05. DNC indicates that the model did not converge.

Article Snippet: Karteek Popuri, Vincent Chow, Da Ma, and M. Faisal Beg developed the body composition software from Voronoi Health Analytics, Inc.

Techniques:

Journal: Scientific Reports

Article Title: Volumetric body composition analysis of the Cancer Genome Atlas reveals novel body composition traits and molecular markers Associated with Renal Carcinoma outcomes

doi: 10.1038/s41598-024-76280-6

Figure Lengend Snippet: Analysis of adipose tissue and muscle body composition metrics with normal male kidney gene expression. Hierarchically clustered Spearman correlation coefficients ( r ≥ 0.5 or r ≤-0.5) heatmap of genes that correlate with normalized inter/intramuscular, visceral, and subcutaneous adipose tissue (IMAT/TAT, VAT/TAT, and SAT/TAT) and skeletal muscle (SKM) (Panel A). Top 10 significantly enriched pathways in the high (total genes = 96, Panel B) and low (total genes = 111, Panel C) SKM clusters. Kaplan-Meier analyses of male (panel D, high expression ( n = 146) and low expression ( n = 178)) and female (panel E, high expression ( n = 81) and low expression ( n = 104)) clear cell renal cell carcinoma (TCGA-KIRC) patients stratified by high and low expression of genes involved in valine, leucine, and isoleucine ( i.e., BCAA) degradation. Statistical significance was assessed using the log-rank test.

Article Snippet: Karteek Popuri, Vincent Chow, Da Ma, and M. Faisal Beg developed the body composition software from Voronoi Health Analytics, Inc.

Techniques: Expressing

Journal: Scientific Reports

Article Title: Volumetric body composition analysis of the Cancer Genome Atlas reveals novel body composition traits and molecular markers Associated with Renal Carcinoma outcomes

doi: 10.1038/s41598-024-76280-6

Figure Lengend Snippet: Analysis of adipose tissue and muscle body composition metrics with normal female kidney gene expression. Hierarchical clustered Spearman correlation coefficients ( r ≥ 0.5 or r ≤ -0.5) heatmap of genes that correlate with normalized inter/intramuscular, visceral, and subcutaneous adipose tissue (IMAT/TAT, VAT/TAT, and SAT/TAT) and skeletal muscle (SKM) identifies genes that cluster predominantly with high versus low SAT/TAT and IMAT/TAT (Panel A). Top 10 significantly enriched pathways in the high (total genes = 350, Panel B) and low (total genes = 366, Panel C) SAT/TAT and IMAT/TAT clusters identify acid secretion and oxidative phosphorylation (OXPHOS) as significantly enriched pathways in the “Low SAT” group. Kaplan-Meier analyses of male (panel D, high expression ( n = 132) and low expression ( n = 192)) and female (panel E, high expression ( n = 73) and low expression n = (112)) clear cell renal cell carcinoma (TCGA-KIRC) patients stratified by high and low expression of F-type ATPases (complex V of OXPHOS; see Supplemental Fig. ). Statistical significance assessed using the log-rank test.

Article Snippet: Karteek Popuri, Vincent Chow, Da Ma, and M. Faisal Beg developed the body composition software from Voronoi Health Analytics, Inc.

Techniques: Expressing