Effective Automatic Recognition of Cultured Cells in Bright Field Images Using Fisher’s Linear Discriminant Preprocessing

2004 ◽  
Author(s):  
Xi Long ◽  
W. Louis Cleveland ◽  
Y. Lawrence Yao
Keyword(s):  
High Throughput ◽  
Cultured Cells ◽  
Single Cells ◽  
Molecular Genetic ◽  
Molecular Genetic Analysis ◽  
Automatic Recognition ◽  
Robotic Systems ◽  
Human Observer ◽  
Bright Field ◽  
Linear Discriminant

Recent progress in the development of methods for molecular genetic analysis (e.g. RT-PCR, microarrays) has brought sensitivities to the level where single cells can be analyzed [1]. To carry out single-cell-level assays on significant numbers of cells, high throughput robotic systems are needed. These systems require identification of cultured cells (often in bright field images) for micromanipulation and subsequent molecular analysis. Given the variability of cell size and morphology, the presence of “trash,” as well as variations in microscope parameters, such as focus and illumination, identification of cultured cells in bright field images is a difficult task that, traditionally, is done by an experienced human observer. However, the use of human observers represents a severe impediment to the development of high throughput robotic systems. Therefore, there is a major need for algorithms that permit automatic recognition of cells in bright field images.

scholarly journals High-throughput single-cell joint analysis of histone modifications and gene expression by Paired-Tag

2021 ◽  
Author(s):  
Chenxu Zhu ◽  
Yanxiao Zhang ◽  
Yang Eric Li ◽  
Jacinta Lucero ◽  
M. Margarita Behrens ◽  
...  
Keyword(s):  
Gene Expression ◽  
Molecular Biology ◽  
Single Cell ◽  
Histone Modifications ◽  
High Throughput ◽  
Cultured Cells ◽  
Single Cells ◽  
Joint Analysis ◽  
Gene Expressions ◽  
Standard Molecular Biology

Abstract We describe here Paired-Tag, a high-throughput multi-omics method for joint profiling of histone modifications and gene expressions in single cells. The assay is based on a combinatorial barcoding indexing strategy that does not require special instruments. It can be performed with nuclei extracted from cultured cells or frozen tissues, in standard molecular biology laboratories.

scholarly journals High-throughput single-cell joint analysis of histone modifications and gene expression by Paired-Tag

2021 ◽  
Author(s):  
Chenxu Zhu ◽  
Yanxiao Zhang ◽  
Yang Eric Li ◽  
Jacinta Lucero ◽  
M. Margarita Behrens ◽  
...  
Keyword(s):  
Gene Expression ◽  
Molecular Biology ◽  
Single Cell ◽  
Histone Modifications ◽  
High Throughput ◽  
Cultured Cells ◽  
Single Cells ◽  
Joint Analysis ◽  
Gene Expressions ◽  
Standard Molecular Biology

Abstract We describe here Paired-Tag, a high-throughput multi-omics method for joint profiling of histone modifications and gene expressions in single cells. The assay is based on a combinatorial barcoding indexing strategy that does not require special instruments. It can be performed with nuclei extracted from cultured cells or frozen tissues, in standard molecular biology laboratories.

scholarly journals Ultra-High-Throughput Multi-Parametric Imaging Flow Cytometry

2019 ◽  
Vol 215 ◽  
pp. 10001
Author(s):  
Andrew deMello ◽  
Anand Rane ◽  
Gregor Holzner ◽  
Stavros Stavrakis
Keyword(s):  
High Throughput ◽  
Single Cells ◽  
Intracellular Localization ◽  
Bright Field ◽  
P Bodies ◽  
Imaging Flow Cytometry ◽  
Cellular Analysis ◽  
Rapid Enumeration ◽  
Stroboscopic Illumination ◽  
Parallel Microchannels

I will present a microfluidic imaging flow cytometer incorporating stroboscopic illumination, for blur-free cellular analysis at throughputs exceeding 100,000 cells per second. By combining passive (inertial or viscoelastic) focusing of cells in parallel microchannels with stroboscopic illumination, such chip-based cytometers are able to extract multi-colour fluorescence and bright-field images of single cells moving at high linear velocities. This in turn allows accurate sizing of individual cells, intracellular localization and analysis of heterogeneous cell suspensions. The method is showcased through the rapid enumeration of apoptotic cells, high-throughput discrimination cell cycle phases and localization of p-bodies.

Molecular Characterization and Genetic Diversity Study in F3 Population of Rice

2013 ◽  
Vol 20 (1-2) ◽  
pp. 1-8
Author(s):  
MM Rahman ◽  
L Rahman ◽  
SN Begum ◽  
F Nur
Keyword(s):  
Genetic Distance ◽  
Gene Diversity ◽  
Random Amplified Polymorphic Dna ◽  
Molecular Genetic ◽  
Molecular Genetic Analysis ◽  
Polymorphic Loci ◽  
Rice Genotypes ◽  
High Level ◽  
Genetic Diversity Study ◽  
Diversity Study

Random Amplified Polymorphic DNA (RAPD) assay was initiated for molecular genetic analysis among 13 F3 rice lines and their parents. Four out of 15 decamer random primers were used to amplify genomic DNA and the primers yielded a total of 41 RAPD markers of which 37 were considered as polymorphic with a mean of 9.25 bands per primer. The percentage of polymorphic loci was 90.24. The highest percentage of polymorphic loci (14.63) and gene diversity (0.0714) was observed in 05-6 F3 line and the lowest polymorphic loci (0.00) and gene diversity (0.00) was found in 05-12 and 05-15 F3 lines. So, relatively high level of genetic variation was found in 05-6 F3 line and it was genetically more diverse compared to others. The average co-efficient of gene differentiation (GST) and gene flow (Nm) values across all the loci were 0.8689 and 0.0755, respectively. The UPGMA dendrogram based on the Nei’s genetic distance differentiated the rice genotypes into two main clusters: PNR-519, 05-19, 05-14, 05-12 and 05-17 grouped in cluster 1. On the other hand, Baradhan, 05-9, 05-13, 05-11, 05-5, 05-6, 05-1, 05-4, 05-15 and 05-25 were grouped in cluster 2. The highest genetic distance (0.586) was found between 05-4 and 05-17 F3 lines and they remain in different cluster.DOI: http://dx.doi.org/10.3329/pa.v20i1-2.16839 Progress. Agric. 20(1 & 2): 1 – 8, 2009

Diagnosis and Management of Cardiomyopathies – A Focus on Genetics, Cardiac Magnetic Resonance and Clinical Features

2011 ◽  
Vol 7 (3) ◽  
pp. 225
Author(s):  
Gianfranco Sinagra ◽  
Michele Moretti ◽  
Giancarlo Vitrella ◽  
Marco Merlo ◽  
Rossana Bussani ◽  
...  
Keyword(s):  
Clinical Practice ◽  
Cardiac Magnetic Resonance ◽  
Magnetic Resonance ◽  
Imaging Techniques ◽  
Molecular Genetic ◽  
Molecular Genetic Analysis ◽  
Routine Clinical Practice ◽  
Clinical Approach ◽  
Diagnosis And Management ◽  
Made In

In recent years, outstanding progress has been made in the diagnosis and treatment of cardiomyopathies. Genetics is emerging as a primary point in the diagnosis and management of these diseases. However, molecular genetic analyses are not yet included in routine clinical practice, mainly because of their elevated costs and execution time. A patient-based and patient-oriented clinical approach, coupled with new imaging techniques such as cardiac magnetic resonance, can be of great help in selecting patients for molecular genetic analysis and is crucial for a better characterisation of these diseases. This article will specifically address clinical, magnetic resonance and genetic aspects of the diagnosis and management of cardiomyopathies.

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