scholarly journals Physical and Methodological Perspectives on the Optical Properties of Biological Samples: A Review

Photonics ◽  
2021 ◽  
Vol 8 (12) ◽  
pp. 540
Author(s):  
George I. Lambrou ◽  
Anna Tagka ◽  
Athanasios Kotoulas ◽  
Argyro Chatziioannou ◽  
George K. Matsopoulos
Keyword(s):  
Optical Properties ◽  
Biological Samples ◽  
Biological Systems ◽  
Disease Diagnosis ◽  
High Energy ◽  
X Rays ◽  
Γ Radiation ◽  
Theoretical Concepts ◽  
Tissue Optical Properties ◽  
Depth Study

The optical properties of biological systems can be measured by imaging and microscopy methodologies. The use of X-rays, γ-radiation and electron microscopy provides information about the contents and functions of the systems. The need to develop imaging methods and analyses to measure these optical properties is increasing. On the other hand, biological samples are easily penetrated by a high-energy input, which has revolutionized the field of tissue optical properties and has now reached a point where light can be applied in the diagnosis and treatment of diseases. To this end, developing methodologies would allow the in-depth study of optical properties of tissues. In the present work, we review the literature focusing on optical properties of biological systems and tissues. We have reviewed the literature for related articles on biological samples’ optical properties. We have reported on the theoretical concepts and the applications of Monte Carlo simulations in the studies of optical properties of biological samples. Optical properties of biological samples are of paramount importance for the understanding of biological samples as well as for their applications in disease diagnosis and therapy.

Mapping DNA and protein in biological samples using the scanning transmission x-ray microscope

1994 ◽  
Vol 52 ◽  
pp. 50-51
Author(s):  
X. Zhang ◽  
R. Balhorn ◽  
C. Jacobsen ◽  
J. Kirz ◽  
S. Williams
Keyword(s):  
Biological Samples ◽  
National Laboratory ◽  
Local Environment ◽  
High Energy ◽  
Brookhaven National Laboratory ◽  
High Energy Resolution ◽  
X Rays ◽  
X Ray ◽  
Scanning Transmission ◽  
Absorption Edges

The Scanning Transmission soft X-ray Microscope (STXM) at the XIA beamline at the National Synchrotron Light Source, Brookhaven National Laboratory, has achieved 50 nm Rayleigh resolution and has been used to image wet biological samples using the natural absorption differences between carbon and water in the water window (between carbon and oxygen K-absorption edges). The step-like jumps in the absorption of soft x-rays by materials as a function of energy have been used for elemental mapping. Examination of these absorption "edges" with high energy resolution resolves fine absorption structures. These fine structures are strongly affected by the atom's local environment, such that they carry detailed information about the atom's chemical state. We have used this chemical sensitivity to distinguish between materials which have similar elemental composition but are chemically different. Images with 50 nm resolution and spectra from a spot size less than (0.2 (μm)2 can be acquired routinely.Figure 1 shows the x-ray absorption fine structure spectra at the carbon absorption edge from DNA and bovine serum albumin (BSA, a typical protein) taken using the STXM.

Influence of Structure on the Soft X-Ray Optical Properties of Metallic Multilayers

1991 ◽  
Vol 229 ◽  
Author(s):  
J. M. Slaughter ◽  
Patrick A. Kearney ◽  
Charles M. Falco
Keyword(s):  
Optical Properties ◽  
Electron Diffraction ◽  
High Energy ◽  
Energy Electron ◽  
Ex Situ ◽  
Scanning Tunneling ◽  
X Rays ◽  
Actual Performance ◽  
Rutherford Back Scattering ◽  
X Ray

AbstractMultilayer thin film structures for reflecting soft x-rays are now being fabricated in a number of laboratories. However, understanding of. the optical properties of these structures is presently limited by lack of knowledge of the microstructure of the layers, as well as of the details of the interfaces. In this paper we present results from our studies of multilayers grown by molecular beam epitaxy (MBE), characterized in situ by reflection high energy electron diffraction (RHEED), low energy electron diffraction (LEED), Auger, and x-ray photoelectron spectroscopy (XPS), and characterized ex situ by scanning tunneling microscopy (STM), transmission electron microscopy (TEM), x-ray diffraction, and Rutherford back scattering (RBS). In the case of Mo/Si multilayers, we observe the formation of an amorphous interfacial silicide, which can have a positive effect on the performance of these evaporated multilayer mirrors. We observe a contraction in the period of these multilayers as the deposition temperature is raised from 50 °C to 250 °C, corresponding to an increase in the thickness of the interfacial silicide. This contraction indicates that the silicide is more dense than the average atomic density of its components. We also discuss Ag/B and Pd/B multilayers, which have very similar theoretical performance. However, due to differences in the multilayer structures formed, the actual performance of multilayers made from these materials is radically different. The structural differences originate from different growth modes for Ag and Pd on B.

The Basic Physical Principles of Ion, Electron, and X-Ray Detectors and Their Application to Microanalysis

1985 ◽  
Vol 43 ◽  
pp. 154-157
Author(s):  
A.J. Tousimis
Keyword(s):  
Ion Beam ◽  
Depth Resolution ◽  
Sample Surface ◽  
High Energy ◽  
X Rays ◽  
X Ray ◽  
Electrons And Ions ◽  
Spatial Depth ◽  
Minimum Surface Area ◽  
Physical Principles

An integral and of prime importance of any microtopography and microanalysis instrument system is its electron, x-ray and ion detector(s). The resolution and sensitivity of the electron microscope (TEM, SEM, STEM) and microanalyzers (SIMS and electron probe x-ray microanalyzers) are closely related to those of the sensing and recording devices incorporated with them.Table I lists characteristic sensitivities, minimum surface area and depth analyzed by various methods. Smaller ion, electron and x-ray beam diameters than those listed, are possible with currently available electromagnetic or electrostatic columns. Therefore, improvements in sensitivity and spatial/depth resolution of microanalysis will follow that of the detectors. In most of these methods, the sample surface is subjected to a stationary, line or raster scanning photon, electron or ion beam. The resultant radiation: photons (low energy) or high energy (x-rays), electrons and ions are detected and analyzed.

“Cartography” in 7-Dimensions at CHESS: Mapping of Structure in Real Space, Reciprocal Space, and Time Using High-Energy X-rays

2020 ◽  
Vol 33 (6) ◽  
pp. 11-16
Author(s):  
K. E. Nygren, ◽  
D. C. Pagan, ◽  
J. P. C. Ruff ◽  
E. Arenholz ◽  
J. D. Brock
Keyword(s):  
High Energy ◽  
Real Space ◽  
Reciprocal Space ◽  
X Rays ◽  
Space And Time

scholarly journals Machine learning estimation of tissue optical properties

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Brett H. Hokr ◽  
Joel N. Bixler
Keyword(s):  
Neural Network ◽  
Optical Properties ◽  
Biological Tissues ◽  
Homogeneous Layer ◽  
In Vivo Measurement ◽  
Tissue Optical Properties ◽  
The Neural Network ◽  
Spatio Temporal ◽  
Fully Connected

AbstractDynamic, in vivo measurement of the optical properties of biological tissues is still an elusive and critically important problem. Here we develop a technique for inverting a Monte Carlo simulation to extract tissue optical properties from the statistical moments of the spatio-temporal response of the tissue by training a 5-layer fully connected neural network. We demonstrate the accuracy of the method across a very wide parameter space on a single homogeneous layer tissue model and demonstrate that the method is insensitive to parameter selection of the neural network model itself. Finally, we propose an experimental setup capable of measuring the required information in real time in an in vivo environment and demonstrate proof-of-concept level experimental results.

scholarly journals The interstellar medium in young supernova remnants: key to the production of cosmic X-rays and $\gamma $-rays

2021 ◽  
Vol 366 (6) ◽  
Author(s):  
Hidetoshi Sano ◽  
Yasuo Fukui
Keyword(s):  
Interstellar Medium ◽  
Supernova Remnants ◽  
Cosmic Ray ◽  
High Energy ◽  
X Rays ◽  
Interstellar Gas ◽  
High Energy Radiation ◽  
Dense Cores ◽  
The Relationship ◽  
Turbulent Velocity Field

AbstractWe review recent progress in elucidating the relationship between high-energy radiation and the interstellar medium (ISM) in young supernova remnants (SNRs) with ages of ∼2000 yr, focusing in particular on RX J1713.7−3946 and RCW 86. Both SNRs emit strong nonthermal X-rays and TeV $\gamma $ γ -rays, and they contain clumpy distributions of interstellar gas that includes both atomic and molecular hydrogen. We find that shock–cloud interactions provide a viable explanation for the spatial correlation between the X-rays and ISM. In these interactions, the supernova shocks hit the typically pc-scale dense cores, generating a highly turbulent velocity field that amplifies the magnetic field up to 0.1–1 mG. This amplification leads to enhanced nonthermal synchrotron emission around the clumps, whereas the cosmic-ray electrons do not penetrate the clumps. Accordingly, the nonthermal X-rays exhibit a spatial distribution similar to that of the ISM on the pc scale, while they are anticorrelated at sub-pc scales. These results predict that hadronic $\gamma $ γ -rays can be emitted from the dense cores, resulting in a spatial correspondence between the $\gamma $ γ -rays and the ISM. The current pc-scale resolution of $\gamma $ γ -ray observations is too low to resolve this correspondence. Future $\gamma $ γ -ray observations with the Cherenkov Telescope Array will be able to resolve the sub-pc-scale $\gamma $ γ -ray distribution and provide clues to the origin of these cosmic $\gamma $ γ -rays.

scholarly journals Introducing the HD+B model for pulsar wind nebulae: a hybrid hydrodynamics/radiative approach

2020 ◽  
Vol 494 (3) ◽  
pp. 4357-4370
Author(s):  
B Olmi ◽  
D F Torres
Keyword(s):  
Gamma Ray ◽  
High Energy ◽  
Theoretical Modelling ◽  
X Rays ◽  
Pulsar Wind Nebulae ◽  
New Approach ◽  
Energy Gamma ◽  
Radiative Model ◽  
Pulsar Wind

ABSTRACT Identification and characterization of a rapidly increasing number of pulsar wind nebulae is, and will continue to be, a challenge of high-energy gamma-ray astrophysics. Given that such systems constitute -by far- the most numerous expected population in the TeV regime, such characterization is important not only to learn about the sources per se from an individual and population perspective, but also to be able to connect them with observations at other frequencies, especially in radio and X-rays. Also, we need to remove the emission from nebulae in highly confused regions of the sky for revealing other underlying emitters. In this paper, we present a new approach for theoretical modelling of pulsar wind nebulae: a hybrid hydrodynamic-radiative model able to reproduce morphological features and spectra of the sources, with relatively limited numerical cost.

scholarly journals Measurement of tissue optical properties by the use of oblique-incidence optical fiber reflectometry

1997 ◽  
Vol 36 (1) ◽  
pp. 136 ◽  
Author(s):  
Shao-Pow Lin ◽  
Lihong Wang ◽  
Steven L. Jacques ◽  
Frank K. Tittel
Keyword(s):  
Optical Properties ◽  
Optical Fiber ◽  
Oblique Incidence ◽  
Tissue Optical Properties

Detector commissioning and development for PETRA-III

2010 ◽  
Vol 1 (SRMS-7) ◽  
Author(s):  
David Pennicard ◽  
Heinz Graafsma ◽  
Michael Lohmann
Keyword(s):  
High Speed ◽  
Materials Science ◽  
Dynamic Range ◽  
Photon Counting ◽  
High Energy ◽  
X Rays ◽  
Silicon Detectors ◽  
Time Resolved ◽  
Wide Range ◽  
Synchrotron Light

The new synchrotron light source PETRA-III produced its first beam last year. The extremely high brilliance of PETRA-III and the large energy range of many of its beamlines make it useful for a wide range of experiments, particularly in materials science. The detectors at PETRA-III will need to meet several requirements, such as operation across a wide dynamic range, high-speed readout and good quantum efficiency even at high photon energies. PETRA-III beamlines with lower photon energies will typically be equipped with photon-counting silicon detectors for two-dimensional detection and silicon drift detectors for spectroscopy and higher-energy beamlines will use scintillators coupled to cameras or photomultiplier tubes. Longer-term developments include ‘high-Z’ semiconductors for detecting high-energy X-rays, photon-counting readout chips with smaller pixels and higher frame rates and pixellated avalanche photodiodes for time-resolved experiments.

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