scholarly journals Quantitative Analysis of 4 × 4 Mueller Matrix Transformation Parameters for Biomedical Imaging

Photonics ◽  
2019 ◽  
Vol 6 (1) ◽  
pp. 34 ◽  
Author(s):  
Wei Sheng ◽  
Weipeng Li ◽  
Ji Qi ◽  
Teng Liu ◽  
Honghui He ◽  
...  
Keyword(s):  
Polar Decomposition ◽  
Mueller Matrix ◽  
Matrix Transformation ◽  
Matrix Elements ◽  
Tissue Slices ◽  
Tissue Samples ◽  
Microscopic Imaging ◽  
Imaging Results ◽  
Transformation Parameters ◽  
Bulk Tissue

Mueller matrix polarimetry is a potentially powerful technique for obtaining microstructural information of biomedical specimens. Thus, it has found increasing application in both backscattering imaging of bulk tissue samples and transmission microscopic imaging of thin tissue slices. Recently, we proposed a technique to transform the 4 × 4 Mueller matrix elements into a group of parameters, which have explicit associations with specific microstructural features of samples. In this paper, we thoroughly analyze the relationships between the Mueller matrix transformation parameters and the characteristic microstructures of tissues by using experimental phantoms and Monte Carlo simulations based on different tissue mimicking models. We also adopt quantitative evaluation indicators to compare the Mueller matrix transformation parameters with the Mueller matrix polar decomposition parameters. The preliminary imaging results of bulk porcine colon tissues and thin human pathological tissue slices demonstrate the potential of Mueller matrix transformation parameters as biomedical diagnostic indicators. Also, this study provides quantitative criteria for parameter selection in biomedical Mueller matrix imaging.

scholarly journals Comparative Study of Modified Mueller Matrix Transformation and Polar Decomposition Parameters for Transmission and Backscattering Tissue Polarimetries

2021 ◽  
Vol 11 (21) ◽  
pp. 10416
Author(s):  
Binguo Chen ◽  
Yuxiang Lan ◽  
Haoyu Zhai ◽  
Liangyu Deng ◽  
Honghui He ◽  
...  
Keyword(s):  
Optical Properties ◽  
Comparative Analysis ◽  
Comparative Study ◽  
Polar Decomposition ◽  
Mueller Matrix ◽  
Clinical Applications ◽  
Matrix Transformation ◽  
Tissue Samples ◽  
Axis Orientation ◽  
Transmission Imaging

Mueller matrix polarimetry is widely used in biomedical studies and applications, for it can provide abundant microstructural information about tissues. Recently, several methods have been proposed to decompose the Mueller matrix into groups of parameters related to specific optical properties which can be used to reveal the microstructural information of tissue samples more clearly and quantitatively. In this study, we thoroughly compare the differences among the parameters derived from the Mueller matrix polar decomposition (MMPD) and Mueller matrix transformation (MMT), which are two popular methods in tissue polarimetry studies and applications, while applying them on different tissue samples for both backscattering and transmission imaging. Based on the Mueller matrix data obtained using the setups, we carry out a comparative analysis of the parameters derived from both methods representing the same polarization properties, namely depolarization, linear retardance, fast axis orientation and diattenuation. IN particular, we propose several modified MMT parameters, whose abilities are also analyzed for revealing the information about the specific type of tissue samples. The results presented in this study evaluate the applicability of the original and modified MMT parameters, then give the suggestions for appropriate parameter selection in tissue polarimetry, which can be helpful for future biomedical and clinical applications.

QUANTITATIVE MUELLER MATRIX POLARIMETRY TECHNIQUES FOR BIOLOGICAL TISSUES

2012 ◽  
Vol 05 (03) ◽  
pp. 1250017 ◽  
Author(s):  
HONGHUI HE ◽  
NAN ZENG ◽  
DONGZHI LI ◽  
RAN LIAO ◽  
HUI MA
Keyword(s):  
Early Stage ◽  
Structural Characteristics ◽  
Potential Method ◽  
Biological Tissues ◽  
Anisotropic Scattering ◽  
Mueller Matrix ◽  
Matrix Transformation ◽  
Scattering Media ◽  
Tissue Samples ◽  
The Media

We propose and conduct both the rotating linear polarization imaging (RLPI) and Mueller matrix transformation (MMT) measurements of different biological tissue samples, and testify the capability of the Mueller matrix polarimetry for the anisotropic scattering media. The independent parameters extracted from the RLPI and MMT techniques are compared and analyzed. The tissue experimental results show that the parameters are closely related to the structural characteristics of the turbid scattering media, including the sizes of the scatterers, the angular distribution and order of alignment of the fibers. The results and conclusions in this paper may provide a potential method for the detection of precancerous and early stage cancerous tissues. Also, such studies represent the Mueller matrix transformation procedure which results in a set of parameters linking up the Mueller matrix elements to the structural and optical properties of the media.

A possible quantitative Mueller matrix transformation technique for anisotropic scattering media/Eine mögliche quantitative Müller-Matrix-Transformations-Technik für anisotrope streuende Medien

2013 ◽  
Vol 2 (2) ◽  
Author(s):  
Honghui He ◽  
Nan Zeng ◽  
E Du ◽  
Yihong Guo ◽  
Dongzhi Li ◽  
...  
Keyword(s):  
Biological Tissues ◽  
Anisotropic Scattering ◽  
Mueller Matrix ◽  
Polar Coordinates ◽  
Matrix Transformation ◽  
Matrix Transformations ◽  
Matrix Elements ◽  
Scattering Media ◽  
Structural And Optical Properties ◽  
Analytical Functions

AbstractBy conducting both the experiments on samples containing well-aligned fibers and Monte Carlo simulations based on the sphere cylinder scattering model (SCSM), we present a Mueller matrix transformation (MMT) method for quantitatively characterizing the properties of anisotropic scattering media. We obtained a set of parameters by fitting the Mueller matrix elements to trigonometric curves in polar coordinates. These new parameters can be expressed as analytical functions of the Mueller matrix elements and display simple relationships to the structural and optical properties of the anisotropic scattering media, such as the anisotropy, the direction of the fibers, and the sizes of the scatterers. Experimental results on biological tissues show that these new parameters can be used in biomedical research. However, further studies are still necessary to correlate the MMT parameters to pathological features.

Comparative study of 3 x 3 Mueller matrix transformation and polar decomposition

2021 ◽  
pp. 126756
Author(s):  
Ahmar Khaliq ◽  
Sumara Ashraf ◽  
Banat Gul ◽  
Iftikhar Ahmad
Keyword(s):  
Comparative Study ◽  
Polar Decomposition ◽  
Mueller Matrix ◽  
Matrix Transformation

Pol-SAR Classification Based on Generalized Polar Decomposition of Mueller Matrix

2016 ◽  
Vol 13 (4) ◽  
pp. 565-569 ◽  
Author(s):  
Hanning Wang ◽  
Zhimin Zhou ◽  
John Turnbull ◽  
Qian Song ◽  
Feng Qi
Keyword(s):  
Polar Decomposition ◽  
Mueller Matrix

scholarly journals A method for imaging single molecules at the plasma membrane of live cells within tissue slices

2020 ◽  
Vol 153 (1) ◽  
Author(s):  
Gregory I. Mashanov ◽  
Tatiana A. Nenasheva ◽  
Tatiana Mashanova ◽  
Catherine Maclachlan ◽  
Nigel J.M. Birdsall ◽  
...  
Keyword(s):  
Plasma Membrane ◽  
Cell Lines ◽  
Single Molecule ◽  
Cardiac Tissue ◽  
Single Molecules ◽  
Live Cells ◽  
Biological Macromolecules ◽  
Tissue Slices ◽  
Tissue Samples ◽  
Mammalian Cell Lines

Recent advances in light microscopy allow individual biological macromolecules to be visualized in the plasma membrane and cytosol of live cells with nanometer precision and ∼10-ms time resolution. This allows new discoveries to be made because the location and kinetics of molecular interactions can be directly observed in situ without the inherent averaging of bulk measurements. To date, the majority of single-molecule imaging studies have been performed in either unicellular organisms or cultured, and often chemically fixed, mammalian cell lines. However, primary cell cultures and cell lines derived from multi-cellular organisms might exhibit different properties from cells in their native tissue environment, in particular regarding the structure and organization of the plasma membrane. Here, we describe a simple approach to image, localize, and track single fluorescently tagged membrane proteins in freshly prepared live tissue slices and demonstrate how this method can give information about the movement and localization of a G protein–coupled receptor in cardiac tissue slices. In principle, this experimental approach can be used to image the dynamics of single molecules at the plasma membrane of many different soft tissue samples and may be combined with other experimental techniques.

EPCO-33. CELL-TYPE PROPORTION DECONVOLUTION OF PEDIATRIC CENTRAL NERVOUS SYSTEM TUMORS FROM SINGLE NUCLEI RNA-seq UNCOVERS UNDERLYING TRANSCRIPTOMIC CHANGES FROM BULK TUMOR RNA-seq COMPARED TO NORMAL BRAIN

2021 ◽  
Vol 23 (Supplement_6) ◽  
pp. vi9-vi9
Author(s):  
Min Kyung Lee ◽  
Nasim Azizgolshani ◽  
Fred Kolling ◽  
Lananh Nguyen ◽  
George Zanazzi ◽  
...  
Keyword(s):  
Central Nervous System ◽  
Rna Sequencing ◽  
Differentially Expressed ◽  
Normal Brain ◽  
Rna Seq ◽  
Cell Type ◽  
Tissue Samples ◽  
Pediatric Brain ◽  
Bulk Tissue ◽  
Unadjusted Analysis

Abstract Identifying transcriptomic alterations in pediatric central nervous system (pCNS) tumors often relies on transcriptomic profiles from bulk tissue RNA-sequencing that can be confounded by varying cell type proportions across tumor and normal brain tissues. We utilized single nuclei RNA-sequencing (snRNA-seq) and bulk RNA-seq in 33 pCNS tumors and 3 non-diseased pediatric brain tissue samples collected from the Norris Cotton Cancer Center to identify variation in gene expression in bulk tissue attributed to overrepresentation of specific cell-type populations when determining differentially expressed genes comparing pCNS tumors to normal pediatric brain tissues. snRNA-seq of 43,515 nuclei (mean = 1,209 nuclei/sample) revealed large proportions of astrocytes (median = 0.45, range = 0.24–0.93) and oligodendrocytes (median = 0.37, range = 0.00–0.66) in pCNS tumors. Compared to normal pediatric brain, proportions of astrocytes were significantly higher (P = 9.2E-03) and neurons were significantly lower (P = 9.4E-03) in pCNS tumors. Differential expression analyses comparing bulk RNA-sequencing data from pCNS tumors to normal pediatric brain identified 902 additional differentially expressed genes (# DE genes = 1,802) when adjusting for astrocyte and neuron proportions compared with unadjusted analysis (# DE genes = 900). In cell-type proportion unadjusted analysis, top DE genes included astrocyte-specific markers, GFAP and CIITA, both of which were found to be not significantly differentially expressed in cell-type proportion adjusted analysis. Indeed, pathways enrichment analysis revealed DE genes in unadjusted models were associated with processes of the neurons and astrocytes such as interferon signaling and postsynaptic signal transmission. After adjustment for astrocyte and neuron proportions, DE genes were associated with defensins and DNA replication-related processes. Our results highlight new potential biological pathways essential in pCNS tumors and indicate the significance of the distribution of varying cell types in tissue samples when conducting studies to investigate transcriptomic alterations in bulk tissue of pCNS tumors.

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