SUITABILITY AND UTILITY OF COMPUTATIONAL ANALYSIS TOOLS: CHARACTERIZATION OF ERYTHROCYTE PARAMETER VARIATION

2002 ◽  
Author(s):  
R. E. ALTENBAUGH ◽  
K. J. KAUFFMAN ◽  
J. S. EDWARDS
Keyword(s):  
Computational Analysis ◽  
Parameter Variation ◽  
Analysis Tools

scholarly journals RA3 is a reference-guided approach for epigenetic characterization of single cells

2021 ◽  
Vol 12 (1) ◽  
Author(s):  
Shengquan Chen ◽  
Guanao Yan ◽  
Wenyu Zhang ◽  
Jinzhao Li ◽  
Rui Jiang ◽  
...  
Keyword(s):  
Single Cell ◽  
Computational Analysis ◽  
Reference Data ◽  
Single Cells ◽  
Chromatin Accessibility ◽  
Biological Variation ◽  
Superior Performance ◽  
High Dimensionality ◽  
High Degree

AbstractThe recent advancements in single-cell technologies, including single-cell chromatin accessibility sequencing (scCAS), have enabled profiling the epigenetic landscapes for thousands of individual cells. However, the characteristics of scCAS data, including high dimensionality, high degree of sparsity and high technical variation, make the computational analysis challenging. Reference-guided approaches, which utilize the information in existing datasets, may facilitate the analysis of scCAS data. Here, we present RA3 (Reference-guided Approach for the Analysis of single-cell chromatin Accessibility data), which utilizes the information in massive existing bulk chromatin accessibility and annotated scCAS data. RA3 simultaneously models (1) the shared biological variation among scCAS data and the reference data, and (2) the unique biological variation in scCAS data that identifies distinct subpopulations. We show that RA3 achieves superior performance when used on several scCAS datasets, and on references constructed using various approaches. Altogether, these analyses demonstrate the wide applicability of RA3 in analyzing scCAS data.

scholarly journals Computational analysis and characterization of UCE-like elements (ULEs) in plant genomes

2012 ◽  
Vol 22 (12) ◽  
pp. 2455-2466 ◽  
Author(s):  
K. Kritsas ◽  
S. E. Wuest ◽  
D. Hupalo ◽  
A. D. Kern ◽  
T. Wicker ◽  
...  
Keyword(s):  
Computational Analysis ◽  
Plant Genomes

Analysis Tools for Thermally Driven Microfluidics

2010 ◽  
Author(s):  
M. Sigurdson ◽  
C. D. Meinhart
Keyword(s):  
Heat Pipe ◽  
Electronics Cooling ◽  
Velocity Fields ◽  
Microfluidic Systems ◽  
Infrared Thermometry ◽  
Analysis Tools ◽  
Thermally Driven ◽  
Temperature And Velocity Fields ◽  
Fluorescence Thermometry

Thermally driven microfluidics, that is, flow that is driven by a temperature gradient, has applications from lab-on-a-chip to electronics cooling. Development of such devices requires tools to predict and probe temperature and velocity fields. We have developed analytical, numerical, and experimental analysis tools for design and characterization of thermally driven microfluidic systems. We demonstrate these tools through the analysis of two different systems: an electrothermal microstirring biochip, and a high aspect heat pipe for cooling. First, a numerical model is developed for temperature and velocity fields, in a hybrid electrothermal-buoyancy microstirring device. An analytical tool, the electrothermal Rayleigh number, is used to further explore the relative importance of electrothermal and buoyancy driven flow. Finally, two experimental thermometry techniques are described: fluorescence thermometry and infrared thermometry. These analytical, numerical, and experimental tools are useful in the design of thermally driven microfluidic systems, as demonstrated here through the development and analysis of microstirring and heat pipe systems.

Computational analysis and physico-chemical characterization of an inclusion compound between praziquantel and methyl-β-cyclodextrin for use as an alternative in the treatment of schistosomiasis

2010 ◽  
Vol 70 (1-2) ◽  
pp. 19-28 ◽  
Author(s):  
Stella Gomes Rodrigues ◽  
Izabel de Souza Chaves ◽  
Nathalie Ferreira Silva Melo ◽  
Marcelo Bispo Jesus ◽  
Leonardo Fernandes Fraceto ◽  
...  
Keyword(s):  
Inclusion Compound ◽  
Computational Analysis ◽  
Chemical Characterization ◽  
Physico Chemical

scholarly journals SYNTHESIS, CRYSTAL STRUCTURE, HIRSHFELD SURFACE ANALYSIS AND QUANTUM CHEMICAL CALCULATIONS OF [Cu2(C6H9N3S)2(ClO4)2] π-COMPLEX WITH 2-ALLYLAMINO-5-METHYL-1,3,4-THIADIAZOLE

2021 ◽  
Vol 26 (1(77)) ◽  
pp. 16-25
Author(s):  
Yu. I. Slyvka ◽  
E. A. Goreshnik ◽  
N. T. Pokhodylo ◽  
М. G. Mys’kiv
Keyword(s):  
Crystal Structure ◽  
Computational Analysis ◽  
Structure Characterization ◽  
Electrochemical Technique ◽  
The Novel ◽  
X Ray Diffraction ◽  
X Ray ◽  
Π Complex ◽  
Centrosymmetric Dimers

This work is focused on the synthesis and structure characterization of the novel Cu(I) π-complex [Cu2(Thiaz1)2(ClO4)2] (1) with 2-allylamino-5-methyl-1,3,4-thiadiazole (Thiaz1) ligand. The crystals of the compound were obtained by means of the alternating-current electrochemical technique and studied using single crystal X-ray diffraction. The crystal structure of the complex 1 is constructed from the centrosymmetric dimers, in which two copper(I) ions are coordinated by two Thiaz1 molecules through thiadiazole N atoms and allylic C=C bond. Energy framework computational analysis for structure 1 has been performed.  

scholarly journals A reference-guided approach for epigenetic characterization of single cells

2020 ◽  
Author(s):  
Shengquan Chen ◽  
Guanao Yan ◽  
Wenyu Zhang ◽  
Jinzhao Li ◽  
Rui Jiang ◽  
...  
Keyword(s):  
Single Cell ◽  
Computational Analysis ◽  
Reference Data ◽  
Single Cells ◽  
Chromatin Accessibility ◽  
Biological Variation ◽  
Superior Performance ◽  
High Dimensionality ◽  
High Degree

AbstractThe recent advancements in single-cell technologies, including single-cell chromatin accessibility sequencing (scCAS), have enabled profiling the epigenetic landscapes for thousands of individual cells. However, the characteristics of scCAS data, including high dimensionality, high degree of sparsity and high technical variation, make the computational analysis challenging. Reference-guided approach, which utilizes the information in existing datasets, may facilitate the analysis of scCAS data. We present RA3 (Reference-guided Approach for the Analysis of single-cell chromatin Acessibility data), which utilizes the information in massive existing bulk chromatin accessibility and annotated scCAS data. RA3 simultaneously models 1) the shared biological variation among scCAS data and the reference data, and 2) the unique biological variation in scCAS data that identifies distinct subpopulations. We show that RA3 achieves superior performance in many scCAS datasets. We also present several approaches to construct the reference data to demonstrate the wide applicability of RA3.

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