Molecular modeling of post-diffusion phase of optical clearing of biological tissues

2021 ◽  
pp. 127-140
Author(s):  
Kirill V. Berezin ◽  
Konstantin N. Dvoretskiy ◽  
Maria L. Chernavina ◽  
Anatoly M. Likhter ◽  
Valery V. Tuchin
Keyword(s):  
Molecular Modeling ◽  
Biological Tissues ◽  
Optical Clearing ◽  
Diffusion Phase

scholarly journals Molecular modeling of post-diffusion stage of biotissue optical clearing under effect of iohexol aqueous solution

2021 ◽  
Vol 2103 (1) ◽  
pp. 012048
Author(s):  
I T Shagautdinova ◽  
A M Likhter ◽  
K V Berezin ◽  
K N Dvoretsky ◽  
V V Nechaev ◽  
...  
Keyword(s):  
Experimental Data ◽  
Molecular Dynamics ◽  
Aqueous Solution ◽  
Molecular Modeling ◽  
Biological Tissues ◽  
Optical Clearing ◽  
X Ray ◽  
Diffusion Stage ◽  
Collagen Peptide ◽  
Main Components

Abstract Interaction of iohexol (Omnipaque), an X-Ray contrast agent, with a mimetic peptide of collagen (GPH)3 as one of the main components of biological tissues has been studied with the use of methods of classical molecular dynamics (GROMACS). Complex molecular modeling of the post-diffusion stage of optical clearing allowed to evaluate such parameters as the average number of hydrogen bonds, formed between the clearing agent and collagen per unit time, and the immersion agent’s effect on changes in the collagen peptide volume. The obtained results are compared with similar results for glycerol, a polyatomic alcohol, and with the existing experimental data on the efficiency of optical clearing of these immersion agents.

Molecular modeling of immersion optical clearing of biological tissues

2018 ◽  
Vol 24 (2) ◽  
Author(s):  
Kirill V. Berezin ◽  
Konstantin N. Dvoretski ◽  
Maria L. Chernavina ◽  
Anatoliy M. Likhter ◽  
Vladimir V. Smirnov ◽  
...  
Keyword(s):  
Molecular Modeling ◽  
Biological Tissues ◽  
Optical Clearing

Optical Clearing of Biological Tissues: Prospects of Application for Multimodal Malignancy Diagnostics

2020 ◽  
pp. 107-131
Author(s):  
Elina A. Genina ◽  
Luís M. C. Oliveira ◽  
Alexey N. Bashkatov ◽  
Valery V. Tuchin
Keyword(s):  
Biological Tissues ◽  
Optical Clearing ◽  
Prospects Of Application

Enhancement of OCT imaging by blood optical clearing in vessels – A feasibility study

2016 ◽  
Vol 5 (2) ◽  
Author(s):  
Olga Zhernovaya ◽  
Valery V. Tuchin ◽  
Martin J. Leahy
Keyword(s):  
Light Scattering ◽  
Blood Vessels ◽  
Feasibility Study ◽  
Biological Tissues ◽  
Intradermal Injection ◽  
Light Transport ◽  
Optical Clearing ◽  
Intravenous Injections ◽  
Oct Imaging ◽  
System Operating

AbstractThe results of a feasibility study of the application of PEG-300 and fructose as two independent optical clearing agents for the reduction of light scattering in biological tissues are presented.An OCT system operating at 1300 nm was used to study optical clearing effects. InThe intradermal injection of fructose in combination with the intravenous injection of PEG-300 led to a rapid optical clearing effect. In the experiments on miceThe experiments on mice have clearly demonstrated that intradermal and intravenous injections of optical clearing agents enhanced light transport through the skin and blood vessels.

QUANTITATIVE CONTROL OF OPTICAL CLEARING EFFECTS STUDIED WITH TISSUE-LIKE PHANTOM

2010 ◽  
Vol 03 (03) ◽  
pp. 195-202 ◽  
Author(s):  
JINGYING JIANG ◽  
WEI CHEN ◽  
QILIANG GONG ◽  
KEXIN XU
Keyword(s):  
Optical Properties ◽  
Biological Tissues ◽  
Porcine Skin ◽  
Tissue Samples ◽  
Optical Clearing ◽  
Tissue Optical Properties ◽  
Application Potential ◽  
The Difference ◽  
Tissue Optical Clearing

Tissue optical clearing by use of optical clearing agents (OCAs) has been proven to have potential to reduce the highly scattering effect of biological tissues in optical techniques. However, the difference in tissue samples could lead to unreliable results, making it difficult to quantitatively control the dose of OCAs during the course of tissue optical clearing. In this work, in order to study the effects of optical clearing, we customized tissue-like phantoms with optical properties of some biological tissue. Diffuse reflectance and total transmittance of tissue-like phantoms with different OCAs (DMSO or glycerol) and porcine skin tissues were measured. Then optical property parameters were calculated by inverse adding-doubling (IAD) algorithm. Results showed that OCAs could lead to a reduction in scattering of tissue-like phantoms as it did to porcine skin tissue in vitro. Furthermore, a series of relational expressions could be fit to quantitatively describe the relationship between the doses of OCAs and the reduction of scattering effects. Therefore, proper tissue-like phantom could facilitate optical clearing to be used in quantitative control of tissue optical properties, and further promote the application potential of optical clearing to light-based noninvasive diagnostic and therapeutic techniques.

scholarly journals PARAMETRIC STUDY OF TISSUE OPTICAL CLEARING BY LOCALIZED MECHANICAL COMPRESSION USING COMBINED FINITE ELEMENT AND MONTE CARLO SIMULATION

2010 ◽  
Vol 03 (03) ◽  
pp. 203-211 ◽  
Author(s):  
WILLIAM C. VOGT ◽  
HAIOU SHEN ◽  
GE WANG ◽  
CHRISTOPHER G. RYLANDER
Keyword(s):  
Finite Element ◽  
Monte Carlo ◽  
Optical Properties ◽  
Light Transmission ◽  
Compressive Strain ◽  
Monte Carlo Model ◽  
Biological Tissues ◽  
Optical Clearing ◽  
Tissue Optical Properties ◽  
Tissue Optical Clearing

Tissue Optical Clearing Devices (TOCDs) have been shown to increase light transmission through mechanically compressed regions of naturally turbid biological tissues. We hypothesize that zones of high compressive strain induced by TOCD pins produce localized water displacement and reversible changes in tissue optical properties. In this paper, we demonstrate a novel combined mechanical finite element model and optical Monte Carlo model which simulates TOCD pin compression of an ex vivo porcine skin sample and modified spatial photon fluence distributions within the tissue. Results of this simulation qualitatively suggest that light transmission through the skin can be significantly affected by changes in compressed tissue geometry as well as concurrent changes in tissue optical properties. The development of a comprehensive multi-domain model of TOCD application to tissues such as skin could ultimately be used as a framework for optimizing future design of TOCDs.

Optical clearing for multiscale biological tissues

2017 ◽  
Vol 11 (2) ◽  
pp. e201700187 ◽  
Author(s):  
Tingting Yu ◽  
Yisong Qi ◽  
Hui Gong ◽  
Qingming Luo ◽  
Dan Zhu
Keyword(s):  
Biological Tissues ◽  
Optical Clearing

scholarly journals Software development for estimation of optical clearing agent’s diffusion coefficients in biological tissues

2015 ◽  
pp. 255-269 ◽  
Author(s):  
Pedro Peixoto ◽  
Luís Oliveira ◽  
Maria Inês Carvalho ◽  
Elisabete Nogueira ◽  
Valery Tuchin
Keyword(s):  
Software Development ◽  
Diffusion Coefficients ◽  
Biological Tissues ◽  
Optical Clearing

scholarly journals Мониторинг процесса иммерсионного оптического просветления коллагеновых волокон с помощью оптической когерентной томографии

2019 ◽  
Vol 127 (8) ◽  
pp. 337
Author(s):  
М.Е. Швачкина ◽  
Д.Д. Яковлев ◽  
Е.Н. Лазарева ◽  
А.Б. Правдин ◽  
Д.A. Яковлев
Keyword(s):  
Optical Coherence Tomography ◽  
Optical Properties ◽  
Biological Tissues ◽  
Dehydration Process ◽  
Immersion Liquid ◽  
Reliable Technique ◽  
Optical Clearing ◽  
Osmotic Effect

AbstractFuture development of the method of immersion optical clearing of biological tissues—this method is widely used in the study of the morphology and pathologies of tissues in vitro and considered promising for in vivo applications in biophysical research and medicine—requires knowledge of the details of interaction of immersion liquids with the tissue, in particular, the characteristics both of the tissue dehydration process, which is caused by the osmotic effect of the immersion liquid, and the process of diffusion of the immersion agent (IA) into the tissue. The optical properties of skin dermis, eye sclera, tendon, and many other tissues are determined by the properties of collagen bundles, abundant in these tissues. In the present work, a convenient and reliable technique for monitoring the optical properties and geometry of collagen bundles in the course of their immersion clearing in vitro, based on optical coherence tomography (OCT), is proposed. The main advantage of this technique is that it allows one to monitor changes in the geometric and optical properties of the tissue simultaneously, without interrupting the natural course of the immersion clearing process, and to obtain reliable estimates of the characteristic times and rates of both the process of tissue dehydration and process of diffusion of the IA into the tissue.

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