scholarly journals C3VFC: A Method for Tracing and Quantification of Microglia in 3D Temporal Images

2021 ◽  
Vol 11 (13) ◽  
pp. 6078
Author(s):  
Tiffany T. Ly ◽  
Jie Wang ◽  
Kanchan Bisht ◽  
Ukpong Eyo ◽  
Scott T. Acton
Keyword(s):  
Vector Field ◽  
Critical Points ◽  
State Of The Art ◽  
Temporal Data ◽  
Entire Structure ◽  
Tracing Algorithm ◽  
Vector Field Convolution ◽  
Multiple Cells ◽  
Tracing Method ◽  
Over Time

Automatic glia reconstruction is essential for the dynamic analysis of microglia motility and morphology, notably so in research on neurodegenerative diseases. In this paper, we propose an automatic 3D tracing algorithm called C3VFC that uses vector field convolution to find the critical points along the centerline of an object and trace paths that traverse back to the soma of every cell in an image. The solution provides detection and labeling of multiple cells in an image over time, leading to multi-object reconstruction. The reconstruction results can be used to extract bioinformatics from temporal data in different settings. The C3VFC reconstruction results found up to a 53% improvement on the next best performing state-of-the-art tracing method. C3VFC achieved the highest accuracy scores, in relation to the baseline results, in four of the five different measures: Entire structure average, the average bi-directional entire structure average, the different structure average, and the percentage of different structures.

scholarly journals Visual4DTracker: a tool to interact with 3D + t image stacks

2021 ◽  
Vol 22 (1) ◽  
Author(s):  
Ermanno Cordelli ◽  
Paolo Soda ◽  
Giulio Iannello
Keyword(s):  
Synthetic Data ◽  
Time Lapse ◽  
Temporal Data ◽  
Image Stack ◽  
Biological Phenomena ◽  
Insulin Granules ◽  
Matlab Package ◽  
User Friendly ◽  
Drosophila Cells ◽  
Over Time

Abstract Background Biological phenomena usually evolves over time and recent advances in high-throughput microscopy have made possible to collect multiple 3D images over time, generating $$3D+t$$ 3 D + t (or 4D) datasets. To extract useful information there is the need to extract spatial and temporal data on the particles that are in the images, but particle tracking and feature extraction need some kind of assistance. Results This manuscript introduces our new freely downloadable toolbox, the Visual4DTracker. It is a MATLAB package implementing several useful functionalities to navigate, analyse and proof-read the track of each particle detected in any $$3D+t$$ 3 D + t stack. Furthermore, it allows users to proof-read and to evaluate the traces with respect to a given gold standard. The Visual4DTracker toolbox permits the users to visualize and save all the generated results through a user-friendly graphical user interface. This tool has been successfully used in three applicative examples. The first processes synthetic data to show all the software functionalities. The second shows how to process a 4D image stack showing the time-lapse growth of Drosophila cells in an embryo. The third example presents the quantitative analysis of insulin granules in living beta-cells, showing that such particles have two main dynamics that coexist inside the cells. Conclusions Visual4DTracker is a software package for MATLAB to visualize, handle and manually track $$3D+t$$ 3 D + t stacks of microscopy images containing objects such cells, granules, etc.. With its unique set of functions, it remarkably permits the user to analyze and proof-read 4D data in a friendly 3D fashion. The tool is freely available at https://drive.google.com/drive/folders/19AEn0TqP-2B8Z10kOavEAopTUxsKUV73?usp=sharing

The Causal Tracing Method of Fast Moving Consumer Goods Logistics Quality Based on Extended Spanning Tree

2013 ◽  
Vol 694-697 ◽  
pp. 3480-3483
Author(s):  
Shou Wen Ji ◽  
Zeng Rong Su ◽  
Zhi Hua Zhang
Keyword(s):  
Consumer Goods ◽  
Fast Moving ◽  
Spanning Tree ◽  
Spanning Trees ◽  
Logic Model ◽  
Fast Moving Consumer Goods ◽  
Tracing Algorithm ◽  
Tracing Method ◽  
Logistics Quality

The paper analyzes the extended spanning trees elements corresponding to fast-moving consumer goods (FMCG) logistics quality. According to extended spanning tree, we establish a logic model of FMCGs logistics quality causal tracing. At last, the paper gives out tracing algorithm and specific tracing process of FMCG logistics quality based on extended spanning tree.

scholarly journals On attracting sets in artificial networks: cross activation

2018 ◽  
Vol 16 ◽  
pp. 01005
Author(s):  
Felix Sadyrbaev
Keyword(s):  
Dynamical Systems ◽  
Differential Equations ◽  
Mathematical Models ◽  
Ordinary Differential Equations ◽  
Critical Points ◽  
Regulatory Networks ◽  
Main Diagonal ◽  
Sigmoidal Function ◽  
Genomic Regulatory Networks ◽  
Over Time

Mathematical models of artificial networks can be formulated in terms of dynamical systems describing the behaviour of a network over time. The interrelation between nodes (elements) of a network is encoded in the regulatory matrix. We consider a system of ordinary differential equations that describes in particular also genomic regulatory networks (GRN) and contains a sigmoidal function. The results are presented on attractors of such systems for a particular case of cross activation. The regulatory matrix is then of particular form consisting of unit entries everywhere except the main diagonal. We show that such a system can have not more than three critical points. At least n–1 eigenvalues corresponding to any of the critical points are negative. An example for a particular choice of sigmoidal function is considered.

Harmonicity of vector fields on a class of Lorentzian solvable Lie groups

2018 ◽  
Vol 18 (3) ◽  
pp. 337-344 ◽  
Author(s):  
Ju Tan ◽  
Shaoqiang Deng
Keyword(s):  
Vector Field ◽  
Lie Groups ◽  
Lie Algebras ◽  
Critical Points ◽  
Vector Fields ◽  
Energy Functional ◽  
Smooth Vector ◽  
Solvable Lie Groups ◽  
Invariant Vector ◽  
Invariant Vector Fields

AbstractIn this paper, we consider a special class of solvable Lie groups such that for any x, y in their Lie algebras, [x, y] is a linear combination of x and y. We investigate the harmonicity properties of invariant vector fields of this kind of Lorentzian Lie groups. It is shown that any invariant unit time-like vector field is spatially harmonic. Moreover, we determine all vector fields which are critical points of the energy functional restricted to the space of smooth vector fields.

scholarly journals Evolution of anatomical concept usage over time: Mining 200 years of biodiversity literature

2017 ◽  
Author(s):  
Prashanti Manda ◽  
Todd J Vision
Keyword(s):  
Scientific Literature ◽  
Concept Drift ◽  
Multiple Time ◽  
Temporal Data Mining ◽  
Temporal Data ◽  
Initial State ◽  
Time Periods ◽  
Historic Record ◽  
Concept Usage ◽  
Over Time

The scientific literature contains an historic record of the changing ways in which we describe the world. Shifts in understanding of scientific concepts are reflected in the introduction of new terms and the changing usage and context of existing ones. We conducted an ontology-based temporal data mining analysis of biodiversity literature from the 1700s to 2000s to quantitatively measure how the context of usage for vertebrate anatomical concepts has changed over time. The corpus of literature was divided into nine non-overlapping time periods with comparable amounts of data and context vectors of anatomical concepts were compared to measure the magnitude of concept drift both between adjacent time periods and cumulatively relative to the initial state. Surprisingly, we found that while anatomical concept drift between adjacent time periods was substantial (55% to 68%), it was of the same magnitude as cumulative concept drift across multiple time periods. Such a process, bound by an overall mean drift, fits the expectations of a mean-reverting process.

scholarly journals Procedures for Condition Mapping Using 360° Images

2020 ◽  
Vol 9 (1) ◽  
pp. 34
Author(s):  
Luigi Barazzetti ◽  
Mattia Previtali ◽  
Marco Scaioni
Keyword(s):  
Data Collection ◽  
Data Acquisition ◽  
Virtual Environment ◽  
Temporal Data ◽  
Novel Approach ◽  
Multi Temporal ◽  
Immersive Visualization ◽  
Over Time

The identification of deterioration mechanisms and their monitoring over time is an essential phase for conservation. This work aimed at developing a novel approach for deterioration mapping and monitoring based on 360° images, which allows for simple and rapid data collection. The opportunity to capture the whole scene around a 360° camera reduces the number of images needed in a condition mapping project, resulting in a powerful solution to document small and narrow spaces. The paper will describe the implemented workflow for deterioration mapping based on 360° images, which highlights pathologies on surfaces and quantitatively measures their extension. Such a result will be available as standard outputs as well as an innovative virtual environment for immersive visualization. The case of multi-temporal data acquisition will be considered and discussed as well. Multiple 360° images acquired at different epochs from slightly different points are co-registered to obtain pixel-to-pixel correspondence, providing a solution to quantify and track deterioration effects.

scholarly journals A Computational Model of Tonal Tension Profile of Chord Progressions in the Tonal Interval Space

Entropy ◽  
2020 ◽  
Vol 22 (11) ◽  
pp. 1291
Author(s):  
María Navarro-Cáceres ◽  
Marcelo Caetano ◽  
Gilberto Bernardes ◽  
Mercedes Sánchez-Barba ◽  
Javier Merchán Sánchez-Jara
Keyword(s):  
State Of The Art ◽  
Objective Measure ◽  
Global Changes ◽  
Voice Leading ◽  
Relative Importance ◽  
Tonal Music ◽  
Harmonic Motion ◽  
Proposed Model ◽  
Interval Space ◽  
Over Time

In tonal music, musical tension is strongly associated with musical expression, particularly with expectations and emotions. Most listeners are able to perceive musical tension subjectively, yet musical tension is difficult to be measured objectively, as it is connected with musical parameters such as rhythm, dynamics, melody, harmony, and timbre. Musical tension specifically associated with melodic and harmonic motion is called tonal tension. In this article, we are interested in perceived changes of tonal tension over time for chord progressions, dubbed tonal tension profiles. We propose an objective measure capable of capturing tension profile according to different tonal music parameters, namely, tonal distance, dissonance, voice leading, and hierarchical tension. We performed two experiments to validate the proposed model of tonal tension profile and compared against Lerdahl’s model and MorpheuS across 12 chord progressions. Our results show that the considered four tonal parameters contribute differently to the perception of tonal tension. In our model, their relative importance adopts the following weights, summing to unity: dissonance (0.402), hierarchical tension (0.246), tonal distance (0.202), and voice leading (0.193). The assumption that listeners perceive global changes in tonal tension as prototypical profiles is strongly suggested in our results, which outperform the state-of-the-art models.

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