",isbn:"978-1-80356-678-8",printIsbn:"978-1-80356-677-1",pdfIsbn:"978-1-80356-679-5",doi:null,price:0,priceEur:0,priceUsd:0,slug:null,numberOfPages:0,isOpenForSubmission:!0,isSalesforceBook:!1,isNomenclature:!1,hash:"6dcb071a2e978694b6b1cb9c20afc1a3",bookSignature:"Prof. Hai-Zhi Song",publishedDate:null,coverURL:"https://cdn.intechopen.com/books/images_new/11494.jpg",keywords:"Electric Field Effect, Nano-Materials, Electric Field Design, Antenna, Microelectronics, Optoelectronics, Electric Field Stimulation, Brain and Nerve, Electric Field Imaging, Atomic Electric Field, Space Science, Climate",numberOfDownloads:null,numberOfWosCitations:0,numberOfCrossrefCitations:null,numberOfDimensionsCitations:null,numberOfTotalCitations:null,isAvailableForWebshopOrdering:!0,dateEndFirstStepPublish:"March 22nd 2022",dateEndSecondStepPublish:"May 26th 2022",dateEndThirdStepPublish:"July 25th 2022",dateEndFourthStepPublish:"October 13th 2022",dateEndFifthStepPublish:"December 12th 2022",dateConfirmationOfParticipation:null,remainingDaysToSecondStep:"a month",secondStepPassed:!0,areRegistrationsClosed:!1,currentStepOfPublishingProcess:3,editedByType:null,kuFlag:!1,biosketch:"A pioneering researcher in the fields of new materials, optoelectronic devices, and quantum information processing, appointed vice director of the Science and Technology Committee of SWITP, author/co-author of more than 170 research papers, and holder of 40 patents.",coeditorOneBiosketch:null,coeditorTwoBiosketch:null,coeditorThreeBiosketch:null,coeditorFourBiosketch:null,coeditorFiveBiosketch:null,editors:[{id:"196114",title:"Prof.",name:"Hai-Zhi",middleName:null,surname:"Song",slug:"hai-zhi-song",fullName:"Hai-Zhi Song",profilePictureURL:"https://mts.intechopen.com/storage/users/196114/images/system/196114.jpg",biography:"Curriculum Vitae\n\nName: Hai-Zhi Song \nGender: male\nDate of Birth: Oct. 20, 1968\nPlace of Birth: Shanxi, China\nAffiliation and Address: \nSouthwest Institute of Technical Physics\nNo.7, Section 4, Renminnan Road, Chengdu 610041, China\nAnd\nInstitute of Fundamental and Frontier Sciences,\nUniversity of Electronic Science and Technology of China,\nNo. 4, Section 2, Jianshebei Road, Chengdu 610054, China\n\nWork Phone: +86-28-68180751, +86-28-83208728\nMobile Phone: +86-158-28239155\nFax: +86-28-83201896\nE-mail: hzsong1296@163.com, hzsong@uestc.edu.cn\n \nEducation \nSept, 1990 – July, 1995:Peking University, PhD, Thesis “Visible luminescence of porous silicon and its mechanism”, Researches on hydrogen-influenced Schottky diodes and silicon-based light-emitting materials. \nSept, 1986 – July, 1990:Nanjing University, Bachelor of Science, Thesis “Study of refractory metal silicides”, Research on Ohmic contact of semiconductors.\n\nWork Experience \nJuly, 1995 – Sept. 1997: Nanjing University, Nanjing, China, Postdoctoral Researcher, Research on silicon-based light-emitting materials. \nOct, 1997 – Sept. 1998: Catholic University Leuven, Leuven, Belgium, Visiting free Researcher, Research on amorphous semiconductors. \nOct, 1998 – Sept. 2001: Tsukuba University, Tsukuba, Japan, Assistant Professor, Research on semiconductor quantum dots. \nOct, 2001 – March 2012: Fujitsu Lab. Ltd., Atsugi, Japan, Researcher/Senior Researcher, Researches on Semiconductor Quantum Dots for Quantum Information, Semiconductor Optoelectronic Materials and Devices. \nApril, 2012 – March 2014: University of Tokyo, Tokyo, Japan, Senior Researcher, Researches on Quantum Information Processing Devices. \nApril, 2014 – now: Southwest Institute of Technical Physics, Chengdu, China, Professor, Researches on Semiconductor Optoelectronic Materials and Devices. \nJune, 2015 – now: University of Electronic Science and Technology, Chengdu, China, Professor, Researches on Nanoscaled Semiconductors and Quantum Information Processing Devices.\n \nAchievements\nSystematically studied the property of porous silicon materials and verified their mechanism; found green and ultraviolet luminescence, and clarified the multiple luminescence mechanisms of nanocrystalline-silicon embedded in SiO2, which is valuable to silicon-based optoelectronic integration; realized enhanced hole mobility in amorphous silicon, verified the existence of deep trap states in amorphous selenium, providing ways to improve amorphous optoelectronic materials. \nDiscovered lateral coupling between self-assembled quantum dots (QDs) and their tuning effect to 2D electron gas; illustrated and deeply explained the metal-insulator transition in 2D ordered QD arrays, all of which are worth in optoelectronic application of semiconductor QDs. \nDeveloped Sb-free technique to double the InAs/GaAs QD density and suppress the atomic interdiffusion, helped producing 1.3 um QD lasers, which won Japanese national prizes and had been merchandized; developed 1.06 um quantum-well lasers, which have been used to produce pure-green lasers robust against high temperature. \nFound a way to access buried QDs by scanning tunneling microscope; achieved a way to prepare diluted QDs by post-annealing and clarified its mechanisms; invented a technique to control the size and site of QDs by atomic-force microscopy lithography, and an apparatus to detect single electron spin states by optically-detected magnetic resonance; designed a few types of micropillar cavities applicable to realize 1.55 um highly-efficient, even coherent (strongly coupled) InAs/InP QD single photon sources; produced fiber-integrated photon-entangled sources, all of which are very useful to the applications of QDs in quantum information processing. \nDeveloped focal-plane single-photon avalanche detectors, providing central devices for 3D laser detecting and ranging system; explored antimonide middle- and long-wavelength infrared detectors and the surface plasmon enhancement effect in such detectors; advanced the acetone-sensing function of Eu-doped SnO2 nano-belt; found Nickle Phosphide serving as a good catalyst in hydrogen-producing. Realized a series of optoelectronic quantum devices for quantum information processing, such as fiber-integrated photon-pair-entangler, chiplet heralded single photon emitter, fiber quantum memories, quantum number generator, etc.\n\nHonor and Group Memberships \nSelected Scholar of the Recruitment Program of Global Experts, China\nEditorial member of “Laser Technology”\nEditorial member of “Journal of Electronic Science and Technology”\nEditorial member of “Internal J. Mat. Sci. Appl”\nMember of APS (American Physics Society)\nMember of OSA (Optical Society of America)\nPermanent Member of China Physical Science and Technology\nPermanent Member of the Chinese Optical Society\nTechnical committee member of PIERS, organizing a series of “quantum information processing and devices” sessions\nTechnical committee member of ICICM",institutionString:"Southwest University",position:null,outsideEditionCount:0,totalCites:0,totalAuthoredChapters:"2",totalChapterViews:"0",totalEditedBooks:"0",institution:{name:"Southwest University",institutionURL:null,country:{name:"China"}}}],coeditorOne:null,coeditorTwo:null,coeditorThree:null,coeditorFour:null,coeditorFive:null,topics:[{id:"20",title:"Physics",slug:"physics"}],chapters:null,productType:{id:"1",title:"Edited Volume",chapterContentType:"chapter",authoredCaption:"Edited by"},personalPublishingAssistant:{id:"453623",firstName:"Silvia",lastName:"Sabo",middleName:null,title:"Mrs.",imageUrl:"https://mts.intechopen.com/storage/users/453623/images/20396_n.jpg",email:"silvia@intechopen.com",biography:null}},relatedBooks:[{type:"book",id:"8356",title:"Metastable, Spintronics Materials and Mechanics of Deformable Bodies",subtitle:"Recent Progress",isOpenForSubmission:!1,hash:"1550f1986ce9bcc0db87d407a8b47078",slug:"solid-state-physics-metastable-spintronics-materials-and-mechanics-of-deformable-bodies-recent-progress",bookSignature:"Subbarayan Sivasankaran, Pramoda Kumar Nayak and Ezgi Günay",coverURL:"https://cdn.intechopen.com/books/images_new/8356.jpg",editedByType:"Edited by",editors:[{id:"190989",title:"Dr.",name:"Subbarayan",surname:"Sivasankaran",slug:"subbarayan-sivasankaran",fullName:"Subbarayan Sivasankaran"}],productType:{id:"1",chapterContentType:"chapter",authoredCaption:"Edited by"}},{type:"book",id:"1591",title:"Infrared Spectroscopy",subtitle:"Materials Science, Engineering and Technology",isOpenForSubmission:!1,hash:"99b4b7b71a8caeb693ed762b40b017f4",slug:"infrared-spectroscopy-materials-science-engineering-and-technology",bookSignature:"Theophile Theophanides",coverURL:"https://cdn.intechopen.com/books/images_new/1591.jpg",editedByType:"Edited by",editors:[{id:"37194",title:"Dr.",name:"Theophile",surname:"Theophanides",slug:"theophile-theophanides",fullName:"Theophile Theophanides"}],productType:{id:"1",chapterContentType:"chapter",authoredCaption:"Edited by"}},{type:"book",id:"3161",title:"Frontiers in Guided Wave Optics and Optoelectronics",subtitle:null,isOpenForSubmission:!1,hash:"deb44e9c99f82bbce1083abea743146c",slug:"frontiers-in-guided-wave-optics-and-optoelectronics",bookSignature:"Bishnu Pal",coverURL:"https://cdn.intechopen.com/books/images_new/3161.jpg",editedByType:"Edited by",editors:[{id:"4782",title:"Prof.",name:"Bishnu",surname:"Pal",slug:"bishnu-pal",fullName:"Bishnu Pal"}],productType:{id:"1",chapterContentType:"chapter",authoredCaption:"Edited by"}},{type:"book",id:"3092",title:"Anopheles mosquitoes",subtitle:"New insights into malaria vectors",isOpenForSubmission:!1,hash:"c9e622485316d5e296288bf24d2b0d64",slug:"anopheles-mosquitoes-new-insights-into-malaria-vectors",bookSignature:"Sylvie Manguin",coverURL:"https://cdn.intechopen.com/books/images_new/3092.jpg",editedByType:"Edited by",editors:[{id:"50017",title:"Prof.",name:"Sylvie",surname:"Manguin",slug:"sylvie-manguin",fullName:"Sylvie Manguin"}],productType:{id:"1",chapterContentType:"chapter",authoredCaption:"Edited by"}},{type:"book",id:"371",title:"Abiotic Stress in Plants",subtitle:"Mechanisms and Adaptations",isOpenForSubmission:!1,hash:"588466f487e307619849d72389178a74",slug:"abiotic-stress-in-plants-mechanisms-and-adaptations",bookSignature:"Arun Shanker and B. 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1. Introduction
In many kinds of experimental measurements, such as astrophysics, atomic physics, biophysics, geophysics, high energy physics, nuclear physics, plasma physics, solid state physics, bending or torsion elastic, heat propagation or statistical mechanics, the signal measured in the laboratory can be expressed mathematically as a convolution of two functions. The first represents the resolution function called the instrumental signal, which is specific for each setup, and the second is the true sample that contains all physical information. These phenomena can be modelled by an integral equation, which means the unknown function is under the integral operator. The most important type of integral equation applied in physical and technical signal treatments is the Fredholm integral equation of the first kind. The opposite process when used for true sample function determination is known in the literature as experimental data deconvolution. Solution determination of the deconvolution equation does not readily unveil its true mathematical implications concerning the stability of the solutions or other aspects. Thus, from this point of view, the problem is described as improper or ill-posed. The most rigorous methods for solving the deconvolution equation are: regularization, spline function approximation and Fourier transform technique. The essential feature of regularization method is the replacement of a given improper problem with another, auxiliary, correctly posed problem. The second method consists in approximating both the experimental and instrumental signals by piecewise cubic spline. Most often when using this technique, the true sample function belongs to the same piecewise cubic spline class. The topic of this chapter is the application of Fourier transform in experimental data deconvolution for use in nanomaterial structures.
2. Mathematical background of signal deconvolution
As mentioned in the introduction, ill-posed problems from a mathematical point of view have many applications in physics and technologies [1]. In addition to the abovementioned examples, the examples below should be noted.
Solving the Cauchy problem for the Laplace equation, ΔU=0 has a direct application in biophysics as in [2]. The problem consists in determining the biopotential distribution within the body denoted by U, when the body surface potential values are known. The phenomenon is modelled by the Laplace equation, and the Cauchy conditions are U|S=f(S) and ∂U∂n|S=0, where S represents the surface of the body.
The determination of radioactive substances in the body, as in [2], and protein crystallography structures also deal with ill-posed problems: see [3].
The same formalism is used in quantum mechanics to determine the particle scattering cross-section on different targets, as well as in plasma physics in the case of the electron distribution after speed is received from the dispersion curve analysis [2].
An intuitive way of grasping an ill-posed problem can be modelled by the movement of the vibrating string when many forces are acting perpendicularly on the string, as represented in Figure 1.
Figure 1.
Physical model of the vibrating string
In terms of the mathematical equation, the phenomenon described above has a correspondent in physics spectroscopy used in the study of nanomaterials. In the first instance, it is considered that in the point of abscissa xk, force f→k acts perpendicularly to the direction of the string. The string movement in the vertical plane at an arbitrary point s is given by the proportionality relationship,
h(s)=g(s,xk)f(xk)E1
\n\t\t\t
where g(s,xk) characterizes the impact of force f→(xk) on the movement h(s). Using the same considerations, for N forces f→1,f→2,⋯,f→N that act independently in N points of abscissa x1,\n\t\t\t\tx2,..., xN in the direction perpendicular to the string, the string movements will be obtained as h1,\n\t\t\t\th2,..., hN. Therefore the movement associated with an arbitrary point of the string of abscissa s is described by the relation below
When a force is distributed continuously along the entire string, the movement of the point s of the string will be given by
h(s)=∫0lg(s,x)f(x)dxE3
\n\t\t\t
where l represents the length of the string.
The function f is the density of force, which means the force per unit length, and f(x)dx represents the force that acts on the arc element dx. The function g is called the influence function because it shows the degree of influence of the distribution force f on displacement h.
The equation (3) is named the Fredholm integral equation of the first kind, and it is a particular case of the integral equation,
l(s)f(s)+∫abg(s,x)f(x)dx=h(s),c≤x≤dE4
\n\t\t\t
where l, g and h are continuous known functions. If function l is null, then equation (4) represents an integral equation of the first kind. If function l has no zero on [c,d] then the equation (4) is of the second kind, while if l has some zeros on [c,d] then the equation (4) is of the third kind.
Although the aim of this chapter is signal deconvolution using the Fourier transform, it is important to mentionthe other two methods used to solve equation (4) when l≡0, that is, the regularization method and the spline approach.
Hadamard stated that a problem is well posed if it has a unique solution, and the solution depends continuously on the data [4]. Any problem that is not a well-posed problem is an ill-posed one. The Fredholm equation of the first kind is ill posed because small changes in the data generate huge modification of the unknown function.
2.1. Regularization method
This method consists in the replacement of the ill-posed problem (4) with l≡0 by a well-posed problem, and there are many scientific papers that develop different types of regularization method depending on kernel type and other specific needs. Below we describe the Tikhonov regularization method applied to the equation (4) with l≡0. Let X and Y be Hilbert spaces and ‖⋅‖ be the norm on Hilbert space. If the kernel g is smooth, the operator G:X→Y\n\t\t\t\t
The regularization method consists in the determination of the approximate solution of the equation (4) of the first kind as a minimization of the following functional
Φa(f)=‖G-h‖2+α‖Lf‖2,∀f∈XE7
\n\t\t\t\t
The value α>0 represents the regularization parameter and L is a linear operator defined below
Lf=a0(f−f^)+a1f\'+a2f\'\'E8
\n\t\t\t\t
where ai has the value 0 or 1; and f\' and f\'\' are the first and the second derivative of f. Function f^ represents a trial solution for equation (4) with l≡0. The regularization order for the operator L is the same as the derivability order of f. The regularization parameter should be chosen carefully, because a good minimum for the functional (7) does not always lead to an adequate solution for equation (4) with l≡0 as in [4]. The discrimination procedure of the equation (4) with l≡0 and functional (7) depends on the specifics of each type of problem such as domain, type of kernel, etc., but this is not the subject of this chapter: see [4-6].
Some disadvantages of the regularization method, which is an iterative method, are the fact that it is very sensitive to the noise present in the experimental function and is time consuming.
If the kernel g of the equation (4) with l≡0 has a delayed argument then the equation is called a convolution equation, and is widely applied in physical spectroscopy. The general form of a convolution equation is given by
h(s)=∫−∞∞g(s−x)f(x)dxE9
\n\t\t\t\t
After the change of variable x=t-s it is found that (9) is equivalent by the equation
h(s)=∫−∞∞g(t)f(t−s)dtE10
\n\t\t\t
2.2. Spline technique
Spline functions for signal deconvolution technique help eliminate the drawbacks mentioned above [7]. The advantage of the method proposed in [7] lies in the fact that Beniaminy’s method is a one-step method. In this case, the true sample function f is represented as a piecewise cubic spline function, and after the substitution of it into equation (10), the experimental function h becomes a piecewise cubic spline function with the same knots but different coefficients. The connection between the coefficients of functions h and f are given by the moments of instrumental function g. Thus, if function f has the form
with ξk,k=1,n−1¯ are the knots and ak, bk, ck and dk are the coefficients of the spline function f. They are chosen such that the function together with its first two derivatives is continuous. Replacing (12) in (11), the experimental function has the form
and Mk=∫−∞∞tkg(t)dt represents the moment of order k. Beniaminy considered that experimental function h given by (14) is a cubic spline function. In [8] it is shown that that function h is not a spline function due to the lack of the continuity in the first two derivatives of h. However, the algorithm from [7] gives good results, but the quality of the true sample function depends on how wide the instrumental function is. In order to obtain the true sample function f given by (12) and (13), we calculate spline coefficients of the experimental function and using these values and (14) obtain the coefficients ak, bk, ck and dk.
2.3. Solving the convolution equation using Fourier transform
Take the functions h, f, and g whose Fourier transform is given by the functions H, F and G. By applying the Fourier transform operator on both members of equation (10) we obtain
The relation (18) is known as the convolution theorem. If direct and inverse Fourier transform operators and convolution product are respectively denoted by TF, TF-1 and *, then the relation (18) is written symbolically as
TF(h)=TF(f)TF(g)=FG=TF(f∗g)
\n\t\t\t\t
and
TF−1(FG)=h=f∗g
\n\t\t\t\t
In this way, the process of the inverse Fourier transform applied to function F determines f signal. In X-ray diffraction theory this is known as the Stokes method.
Experimental signals h, coded by (1), (3), (5) and (6) for a set of supported gold catalyst (Au/SiO2), and instrumental contribution g measured on a gold foil, are presented in Figure 2.
Figure 2.
The experimental relative intensities h of the supported gold catalysts and instrumental function g
3. Why is the technique of deconvolution used in nanomaterials science?
In the scientific literature we can see many authors display serious confusion about the concept of deconvolution. Often, when they decompose the experimental signal h according to certain specific criteria, some say that it has achieved the deconvolution of the initial signal. This fact may be accepted only if the instrumental function g from equation (11) is described by the Dirac distribution. Only in this case is the true sample function f identical to the experimental signal h. Unfortunately, no instrumental function of any measuring device can be described by the Dirac distribution.
It is well known that the macroscopic physical properties of various materials depend directly on their density of states (DS). The DS is directly linked to crystallographic properties. For physical systems that belong to the long order class, moving the crystallographic lattice in the whole real space will reproduce the whole structure. The nanostructured materials, which belong to the short-range class, are obtained by moving the lattice in the three crystallographic directions at the limited distances, generating crystallites whose size is no greater than a few hundred angstroms. In this case, the DS is drastically modified in comparison with the previous class of materials. From a physical point of view the DS is closely related to the nanomaterials’ dimensionality, so crystallite size gives direct information about new topological properties. It can emphasize that amorphous, disordered or weak crystalline materials can have new bonding and anti-bonding options. The systems consisting of nanoparticles whose dimensions do not exceed 50 Å have the majority of atoms practically situated on the surface for the most part. Additionally, the behaviour of crystallites whose size is between 50 Å and 300 Å is described on the basis of quantum mechanics to explain the advanced properties of the tunnelling effect. All these reasons lead to the search for an adequate method to determine reliable information such as effective particle size, microstrains of lattice, and particle distribution function. This information is obtained by Fourier deconvolution of the instrumental and experimental X-ray line profiles (XRLP) approximated by Gauss, Cauchy and Voigt distributions and generalized by Fermi function (GFF) as in [9]. The powder reflection broadening of the nanomaterials is normally caused by small size, crystallites and distortions within crystallites due to dislocation configurations. It is the most valuable and cheapest technique for the structural determination of crystalline nanomaterials.
Generally speaking, in X-ray diffraction on powder, the most accurate and reliable analysis of the signals is given by the convolution equation (10) where h, g and f are experimental data, instrumental contribution of setup experimental spectrum, and true sample function as a solution of equation (10), respectively.
Figure 3.
Numerical solution of the deconvolution equation (19) determined by an algebraic discretization
Let us consider the experimental signals of (111) X-ray line profile of supported nickel catalyst, and the instrumental function given by nickel foil obtained by a synchrotron radiation setup at 201 points with a constant step of 0.040 in 2θ variables, as shown in Figure 3.
The convolution equation (9) can be approximated in different ways, but the simplest approximation is given by following the algebraic system
h(xi)=∑j=−201201g(xi−sj)f(sj)Δsj…i=1,201E19
\n\t\t\t
where Δsj is a constant step in 2θ variables. It turns out that the roots f(sj) of system (19) do not lead to a smooth signal, but yield a curve which makes for enhanced oscillations. Its behaviour is given by f signal in Figure 3. This result is given by a computer code written in Maple 11 language, a sequence of which is presented in Appendix 1. From a physical point of view, this type of solution is impracticable because the crystallite size in nanostructured systems is contained in the tails of XRLP. Therefore, the lobes of the XRLP must be sufficiently smooth. As shown in the inset of Figure 3, this condition is not met.. It would be possible to improve the quality of signal f trying to extend the definition interval for signal g. Thus we will approximate the unbounded integral on a bounded interval, but one that is sufficiently large.
This depends on the performances of the computer system and on the algorithm developed for solving inhomogeneous systems of linear equations with sizes of at least several thousand.
4. Distributions frequently used in physics and chemical signal deconvolution applied in nanomaterials science
It is known that, from a mathematical point of view, the XRLP are described by the symmetric or asymmetric distributions. As in [10,11] a large variety of functions for analysis of XRLP, such as Voigt (V), pseudo-Voigt (pV) and Pearson VII (P7), are proposed.
4.1. Gauss distribution
Many results such as the propagation of uncertainties and the least square method can be derived analytically in explicit form when the relevant variables are normally distributed. Gauss distribution is defined by mathematical relation
IG=I0GπγGexp[−(x−aγG)2]E20
\n\t\t\t\t
where I0G, a and γG are the profile area, gravitational centre measured in 2θ variable, and broadening of the XRLP, respectively. The nth moment, n=0,1 is given by relations
μ0G=∫−∞+∞IG(x)dx=I0G,μ1G=a
\n\t\t\t\t
The integral width δG and full width at half maximum FWHMG are given by relations
δG=πγGandFWHMG=2ln2γG\n\t\t\t\t
If both signals h and g are described by Gaussian distributions and take into account the relationship (18), the full width and FWHM of the true sample function are expressed by the relations
γG,f=γG,h2−γG,g2FWHMG,f=2ln2γG,fE21
4.2. Cauchy distribution
The Cauchy distribution, also called the Lorentzian distribution, is a continuous distribution that describes population distribution of electron levels with multiple applications in physical spectroscopy. Its analytical expression is given by relation
IC=I0CπγCγC2+(x−a)2E22
\n\t\t\t\t
where I0C,\n\t\t\t\t\ta and γC are profile surface, gravitational centre and broadening of the XRLP, respectively. The nth moment n=0,1 is given by relations
μ0C=∫−∞+∞IC(x)dx=I0Cand μ1C=a
\n\t\t\t\t
The integral widths δG and full width at half maximum FWHMC are given by relations
δC=πγCandFWHMC=2γC
\n\t\t\t\t
The deconvolution of two signals h and g determined by Cauchy distributions is also a Cauchy distribution whose full width δC,f and FWHMC,f are given by relations
δC,f=δC,h−δC,gandFWHMC,f=2δC,fE23
\n\t\t\t
4.3. Generalized Fermi function
Although extensive research over the past few decades has made progress in XRLP global approximations, their complete analytical properties have not been reported in the literature. Unfortunately, most of them have complicated forms, and they are not easy to handle mathematically. Recently, as in [9,11], a simple function with a minimal number of parameters named the generalized Fermi function (GFF), suitable for minimization and with remarkable analytical properties, was presented from a purely phenomenological point of view. It is given by the relationship,
h(s)=Ae−a(s−c)+eb(s−c)E24
\n\t\t\t\t
where A, a, b, c are unknown parameters. The values A, c describe the amplitude and the position of the peak, and a, b control its shape. If b=0, the h function reproduces the Fermi-Dirac electronic energy distribution. The GFF has remarkable mathematical properties, with direct use in determining the moments, the integral width, and the Fourier transform of the XRLP, as well as the true sample function. Here we give its properties without proofs.
By setting
s\'=s−cρ=(a+b)/2q=(a−b)/2
\n\t\t\t\t
we obtain
h(s\')=A2(coshqs\'+sinhqs\'coshρs\')E25
\n\t\t\t\t
the limit of h function for infinite arguments is finite, so limh(s\')=0 when s\'→±∞ ;
the zero, first and second order moments (µ0, µ1, µ2) of the h function are given by the relations
if we consider the functions f and g defined by equation (25), by their deconvolution we can compute the |F(L)| function, which is used in Warren and Averbach’s analysis in [12]. Therefore, the magnitude of F(L) function has the following form:
|F(L)|=AhρgAgρhcos2α+sinh2βLcos2γ+sinh2δL,E28
\n\t\t\t\t
where the arguments of trigonometric and hyperbolic functions are expressed by
α=πqg2ρg,β=π2ρg,γ=πqh2ρh,δ=π2ρh
\n\t\t\t\t
The subscripts g and h refer to the instrumental and experimental XRLP. Taking into account the convolution theorem, the true sample function f is given by the relationship
The last integral cannot be accurately resolved. In order to do so we have to consider some arguments. The Fourier transform of f is the F function, given by the relations
F(L)=|F(L)|exp(iθ(L)),θ(L)=arctanℑ(F(L))ℜ(F(L))
\n\t\t\t\t
where θ means the angle function, and ℜ(F) and ℑ(F) are the real and imaginary parts of the complex function F, respectively. The arguments α, β, γ and δ from equation (28) depend only on the asymmetry parameters a and b of the g and f functions. If the XRLP asymmetry is not very large (i.e., a and b parameters are close enough as values) the cos2α≈1, cos2γ≈1 approximations are reliable. Therefore, we obtain ℑ(F)<<ℜ(F), θ(L) ≈ 0 and the magnitude of the Fourier transform for the true XRLP sample can be expressed as
|F(L)|=AhρgAgρhcoshπ2Lρgcoshπ2LρhE29
\n\t\t\t\t
(vii) if we consider the previous approximation, the true XRLP sample is given by an inverse Fourier transform of the F function, and consequently we have
(viii) the integral width of the true XRLP sample can be expressed by the δf function
δf(ρh,ρg)=π2ρhcosπρh2ρg(cosπρhρg+1)E31
\n\t\t\t
4.4. Voigt distribution applied in X-ray line profile analysis
Before briefly describing the mathematical properties of the Voigt distribution, let us examine the physical concept underlying the approximation of the XRLP by Voigt distribution and the convolution process.
During decades of research, Warren and Averbach [12] introduced the X-ray diffraction concept for the mosaic structure model, in which the atoms are arranged in blocks, each block itself being an ideal crystal, but with adjacent blocks that do not accurately fit together. They considered that the XRLP h represents the convolution between the true sample f and the instrumental function g, produced by a well-annealed sample. The effective crystallite size Deff and lattice disorder parameter <εhkl> were analysed as a set of independent events in a likelihood concept. Based on Fourier convolution produced between f and g signals and the mosaic structural model, the analytical form of the Fourier transform for the true sample function was obtained. The normalized F was described as the product of two factors, F(s)(L) and F(ε)(L) , where variable L represents the distance perpendicular to the (hkl) reflection planes. The factor F(s)(L) describes the contribution of crystallite size and stocking fault probability, while the factor F(ε)(L) gives information about the microstrain of the lattice. The general form of the Fourier transform of the true sample for cubic lattices was given by relationships
where s=2(sinθλ−sinθ0λ), erf(x)=2π∫0xe−t2dt, erfc(x)=1−erf(x) is the complementary error function [13] and β=2π2〈εL2〉hklh02a2,γ=1Deff(hkl). The last relation from the mathematical point of view represents a Voigt distribution. If we take into account the properties of the Gauss and Cauchy distributions, the Voigt distribution can be generalized by relation
and the convolution of two Voigt functions is also a Voigt function.
The integral width of a true sample function has the two components given by the Gauss and Cauchy contributions
δG,f2=1π(δG,h2−δG,g2),δC,f=1π(δC,h−δC,g)E39
\n\t\t\t\t
Balzar and Popa are among the leading scientists in the field of Fourier analysis of X-ray diffraction profiles, and they suggested that each Gauss and Cauchy component contains information about the average crystallite size (δS) and distortion of the lattice (δD) as in [14]. From the algebraic point of view, they proposed the following relationship
δG,f2=δSG,f2+δDG,f2,δC,f=δSC,f+δDC,fE40
\n\t\t\t\t
Based on the new concept introduced by them, the two components of the Fourier transform are given by the relations
The particle size distribution function, P(L) is determined from the second derivative of strain-corrected Fourier transform of the true sample function. The volume-weighted column-length PV and surface-weighted column-length PS distributions are given by the following [14]:
5. Experimental section, data analysis and results
A series of four supported gold catalysts were studied by X-ray diffraction (XRD) in order to determine the average particle size of the gold, the microstrain of the lattice as well as the size and microstrain distribution functions by XRLP deconvolution using Fourier transform technique. The gold catalyst samples with up to 5 wt% gold content were prepared by impregnation of the SiO2 support with aqueous solution of HAuCl4×3H2O and homogeneous deposition-precipitation using urea as the precipitating agent method, respectively. The X-ray diffraction data of the supported gold catalysts displayed in Figure 3 were collected using a Rigaku horizontal powder diffractometer with rotated anode in Bragg-Brentano geometry with Ni-filtered Cu Kα radiation, λ = 1.54178 Å, at room temperature. The typical experimental conditions were: 60 sec for each step, initial angle 2θ = 320, and a step of 0.020, and each profile was measured at 2700 points. The XRD method is based on the deconvolution of the experimental XRLP (111) and (222) using Fourier transform procedure by fitting the XRLP with the Gauss, Cauchy, GFF and Voigt distributions. The Fourier analysis of XRLP validity depends strongly on the magnitude and nature of the errors propagated in the data analysis. The scientific literature treated three systematic errors: uncorrected constant background, truncation, and effect of sampling for the observed profile at a finite number of points that appear in discrete Fourier analysis. In order to minimize propagation of these systematic errors, a global approximation of the XRLP is adopted instead of the discrete calculus. The reason for this choice was the simplicity and mathematical elegance of the analytical Fourier transform magnitude and the integral width of the true XRLP given by equations (20)-(24), (31), (34) and (38), as in [15]. The robustness of these approximations for the XRLP arises from the possibility of using the analytical forms of the Fourier transform instead of a numerical fast Fourier transform (FFT). It is well known that the validity of the numerical FFT depends drastically on the filtering technique what was adopted in [16]. In this way, the validity of the nanostructural parameters is closely related to the accuracy of the Fourier transform magnitude of the true XRLP.
Experimental relative intensities (111) with respect to 2θ values for (1) system are shown in Figure 4. The next steps consist in background correction of XRLP by polynomial procedures, finding the best parameters for the distributions adopted using the method of least squares or nonlinear fit, and then deconvoluting them using instrumental function. The main steps in the data analysis of the investigated systems are shown in Figure 4.
Figure 4.
Various stages of processing for X-ray line profile (111) of the sample (1)
Experimental relative intensities (222) with respect to 2θ values for (6) system are shown in Figure 5.
The Fourier transforms normalized for the true sample function of the investigated samples (1) and (6) were calculated by three distinct methods, based on relations (28), (32) and (41), and are displayed in Figure 6.
The microstrain and particle size distribution functions determined by Fourier deconvolution of a single XRLP were calculated using equation (32), and are plotted in Figure 7.
The credibility of the parameters describing the investigated nanostructure systems depends primarily on the process of approximation of XRLP. This criterion is expressed by the root mean squares of residuals (rmsr) of data analysis and is given by relation
Various stages of processing for X-ray line profile (222) of the sample (6)
Figure 6.
Fourier transform of true sample function of XRLP (111) and (222) for systems (1) and (6): blue - general relation, red - GFF, green - Voigt distribution
The rmsr values for all distributions used in XRLP approximation process are given in Table 1. The rmsr values are closely related to the spectral noise of experimental data. Here it is shown that a model based on GFF and Voigt distribution may be more realistic and accurate.
The integral widths and FWHM of the true sample functions calculated for all distributions were determined using the relations (21), (23), (31) and (38). Their values are presented in Table 2.
Figure 7.
Size and microstrain distribution functions of (111) XRLP for system (1)
\n\t\t
\n\t\t
\n\t\t
\n\t\t
\n\t\t
\n\t\t
\n\t\t
\n\t\t\t
\n\t\t\t\tSample\n\t\t\t
\n\t\t\t
\n\t\t\t\thkl\n\t\t\t
\n\t\t\t
\n\t\t\t\tDistribution\n\t\t\t
\n\t\t
\n\t\t
\n\t\t\t
\n\t\t\t\tGFF\n\t\t\t
\n\t\t\t
\n\t\t\t\tGauss\n\t\t\t
\n\t\t\t
\n\t\t\t\tCauchy\n\t\t\t
\n\t\t\t
\n\t\t\t\tVoigt\n\t\t\t
\n\t\t
\n\t\t
\n\t\t\t
(1)
\n\t\t\t
111
\n\t\t\t
26.2658
\n\t\t\t
47.6477
\n\t\t\t
40.6091
\n\t\t\t
26.9398
\n\t\t
\n\t\t
\n\t\t\t
222
\n\t\t\t
14.8795
\n\t\t\t
15.2648
\n\t\t\t
16.0429
\n\t\t\t
15.1880
\n\t\t
\n\t\t
\n\t\t\t
(3)
\n\t\t\t
111
\n\t\t\t
21.5743
\n\t\t\t
31.4428
\n\t\t\t
28.0142
\n\t\t\t
22.1633
\n\t\t
\n\t\t
\n\t\t\t
222
\n\t\t\t
12.5725
\n\t\t\t
12.4615
\n\t\t\t
12.6212
\n\t\t\t
12.4534
\n\t\t
\n\t\t
\n\t\t\t
(5)
\n\t\t\t
111
\n\t\t\t
18.1273
\n\t\t\t
26.6941
\n\t\t\t
21.8148
\n\t\t\t
17.4276
\n\t\t
\n\t\t
\n\t\t\t
222
\n\t\t\t
13.2033
\n\t\t\t
13.3122
\n\t\t\t
13.2599
\n\t\t\t
13.2771
\n\t\t
\n\t\t
\n\t\t\t
(6)
\n\t\t\t
111
\n\t\t\t
28.1267
\n\t\t\t
31.8679
\n\t\t\t
36.0040
\n\t\t\t
35.5948
\n\t\t
\n\t\t
\n\t\t\t
222
\n\t\t\t
18.8487
\n\t\t\t
20.5945
\n\t\t\t
33.2718
\n\t\t\t
19.9656
\n\t\t
\n\t
Table 1.
Values for rmsr for investigated samples
Because the experimental XRLP was measured for both (111) and (222), the surface-weighted column-length PS and volume-weighted column-length PV distribution functions were determined using relations (42,43) implemented in BREADTH software [17]. Additionally, it has found that the Gumbel distribution is the most adequate function for the global approximation of both probabilities’ curves, and the results are shown in Figure 8.
The global structural parameters obtained for the investigated samples are summarized in Table 3 and Table 4.
Values for integral width and full width at half maximum for investigated samples
a* represents FWHM
Figure 8.
Surface-weighted column-length distribution function, PS, and volume-weighted column-length distribution function, PV, for (5) and (6) systems
\n\t\t
\n\t\t
\n\t\t
\n\t\t
\n\t\t
\n\t\t
\n\t\t
\n\t\t
\n\t\t
\n\t\t
\n\t\t\t
\n\t\t\t\tSample\n\t\t\t
\n\t\t\t
\n\t\t\t\tGFF approximation\n\t\t\t
\n\t\t\t
\n\t\t\t\tSingle Voigt approximation\n\t\t\t
\n\t\t
\n\t\t
\n\t\t\t
\n\t\t\t
D111Sch
\n\t
D111\n\t
\n\t
D222Sch
\n
D222\n
\n
D111Sch
\n
D111\n
\n
D222Sch
\n
D222\n
\n
\n
\n\t
(1)
\n\t
180
\n\t
168
\n\t
180
\n\t
139
\n\t
145
\n\t
154
\n\t
118
\n\t
145
\n
\n
\n\t
(3)
\n\t
143
\n\t
135
\n\t
139
\n\t
130
\n\t
116
\n\t
118
\n\t
98
\n\t
139
\n
\n
\n\t
(5)
\n\t
183
\n\t
171
\n\t
145
\n\t
112
\n\t
153
\n\t
151
\n\t
108
\n\t
95
\n
\n
\n\t
(6)
\n\t
398
\n\t
309
\n\t
313
\n\t
263
\n\t
249
\n\t
384
\n\t
199
\n\t
303
\n
\n
Table 3.
Values for crystallite size determined by Scherrer method, and effective crystallite size using single XRLP approximations
\n\t
\n\t
\n\t
\n\t
\n\t
\n\t
\n\t\t
Sample
\n\t\t
hkl
\n\t\t
〈D〉S±ΔDS [Å]
\n
〈D〉V±ΔDV \n[Å]\n
\n
〈ε2(DV/2)〉1/2±Δ〈ε2(DV/2)〉1/2
\n
\n
\n\t
(1)
\n\t
[111/222]
\n\t
90±12
\n\t
133±15.
\n\t
0.211E-02 ± 0.152E-03
\n
\n
\n\t
(3)
\n\t
[111/222]
\n\t
69±13
\n\t
104± 17
\n\t
0.262E-02 ± 0.288E-03
\n
\n
\n\t
(5)
\n\t
[111/222]
\n\t
106±30
\n\t
153±41
\n\t
0.280E-02 ± 0.216E-03
\n
\n
\n\t
(6)
\n\t
[111/222]
\n\t
214±72
\n\t
233±79
\n\t
0.105E-02 ± 0.522E-03
\n
\n
Table 4.
Values for the average crystallite size and microstrain using double Voigt approaches
Hydrogen chemisorption, transmission electron microscopy (TEM), magnetization, electronic paramagnetic resonance (EPR) and other methods could also be used to determine the average diameter of particles by taking into account a prior spherical form for the grains. By XRD method we can obtain the crystallite sizes that have different values for different crystallographic planes. There is a large difference between the particle size and the crystallite size due to the different physical meaning of the two concepts. It is possible that the particles of the supported gold catalysts are made up of many gold crystallites.
The size of the crystallites determined by equations (32) and (41), corresponding to (111) and (222) planes, have different values. The crystallite sizes D111Sch and D222Sch are determined by the Scherrer method [18] without taking into account the microstrain of the lattice. The values D111 and D222 were determined by Fourier deconvolution method for single XRLP, while the averages of DV and DS were calculated by a double Voigt approach. The difference between the crystallites’ size can be explained by the fact that the analytical models are different due to the different approaches. This means that the geometry of the crystallites is not spherical [18]. The microstrain parameter of the lattice can also be correlated with the effective crystallite size in the following way: the value of the effective crystallite size increases when the microstrain value decreases.
The main procedures of the SIZE.mws software dedicated to Fourier analysis of the XRLP by GFF and Voigt distributions written in Maple 11 language are presented in Appendix 2.
6. Conclusions
In the present chapter, it is shown that XRD analysis provides more information for understanding the physical properties of nanomaterial structure. Powder X-ray diffraction is the cheapest and most reliable method compared with hydrogen chemisorptions, TEM techniques, magnetic measurements, EPR, etc. The main conclusions that can be drawn from these studies are:
For XRLP analysis, a global approximation should be applied rather than a numerical Fourier analysis. The former analysis is better than a numerical calculation because it can minimize the systematic errors that could appear in the traditional Fourier analysis.
Our numerical results show that by using the GFF and the Voigt distribution we successfully obtained reliable global nanostructural parameters;
Cauchy and Gauss distributions used for XRLP approximation give roughly structural information;
Powder X-ray diffraction gives the most detailed nanostructural results, such as: average crystallite size, microstrain, and distribution functions of crystallite size and microstrain;
Surface-weighted domain size depends only on Cauchy integral breadth, while volume-weighted domain size depends on Cauchy and Gauss integral breadths;
To obtain valid structural results, it is important to have: a good S/N ratio of the experimental spectra, a good deconvolution technique for the experimental and instrumental spectra, and an adequate computer package and programs for data analysis.
twok:=2*k;\nfor `i` from 1 to k\ndo\nh[`i`]:=intensity_h[`i`]:\nend do:\nh[`k`+1]:=0:\n`j`:=1:\nfor `i` from `k`+2 to twok+1\ndo\nh[`i`]:=intensity_h[`j`]:\n`j`:=`j`+1:\nend do:\nprint(h);
g array determination
`j`:=1:\nfor `i` from -twok to -k\ndo\ng[`i`]:=intensity_g[`j`]:\n`j`:=`j`+1;\nend do:\n`j`:=1:\nfor `i` from -k to -1\ndo\ng[`i`]:=intensity_g[`j`]:\n`j`:=`j`+1:\nend do:\ng[0]:=0.:\nfor `i` from 1 to k\ndo\ng[`i`]:=intensity_g[`i`]:\nend do:\n`j`:=1:\nfor `i` from k+1 to twok\ndo\ng[`i`]:=intensity_g[`j`]:\n`j`:=`j`+1:\nend do:\nprint(g):
a matrix determination
for `i` from 1 to twok+1\ndo\nfor `j` from 1 to twok+1\ndo\na[`i`,`j`]:=0.:\nend do:\nend do:\n`i1`:=0:\nfor `i` from -k to k\ndo\n`j1`:=0:\n`i1`:=`i1`+1:\nfor `j` from -k to k\ndo\n`j1`:=`j1`+1:\na[`i1`,`j1`]:=g[`i`-`j`]*deltatwotheta;\nend do:\nend do:\nprint(a);
solving integral deconvolution equation by direct discretization
f:=linsolve(a,h):\nfor `i` from 1 to twok+1\ndo\ntwotheta_f[`i`]:=twotheta_h[1]+(`i`-1)*deltatwotheta:\nintensity_f[`i`]:=eval(f[`i`]);\nend do:\np_h:=plot([twotheta_h[`ihh`],intensity_h[`ihh`],`ihh`=1..k],color=red,style=LINE,thickness=2,axes=boxed,gridlines,labels=["2theta",""]):\np_g:=plot([twotheta_g[`igg`],intensity_g[`igg`],`igg`=1..k],\ncolor=blue,style=LINE,thickness=2,axes=boxed,gridlines,\nlabels=["2theta",""]):\np_f:=plot([twotheta_f[`iff`],intensity_f[`iff`],`iff`=1..twok+1],\ncolor=green,style=LINE,thickness=2,axes=boxed,gridlines,\nlabels=["2theta",""]):\ndisplay({p_h,p_g,p_f});\nfd:= fopen("f",WRITE,TEXT):\nfor `i` from 1 to k\ndo\nfprintf(fd,"%g %g\\n",twotheta_f[`i`],intensity_f[`i`]):\nend do:\nfclose(fd):
Appendix 2
Fourier transform of true sample function procedure
f_GFF_freq:=proc(freq)\nlocal arg_in,arg_sa;\narg_in:=(Pi*q_in)/(2*rho_in) + I *(Pi*Pi*freq)/rho_in;\narg_sa:=(Pi*q_sa)/(2*rho_sa) + I * (Pi*Pi*freq)/rho_sa;\n(ampl_sa/ampl_in)*(rho_in/rho_sa)*cos(arg_in)/cos(arg_sa);\nend:
Module of Fourier transform of true sample function procedure
Financial support received from the European Union through the European Regional Development Fund, Project ID 1822/SMIS CSNR 48797 CETATEA, is gratefully acknowledged. In particular, one of the topics covered by the book Fourier Transform of the Signals will be a useful starting point in accomplishing one of its major objectives, energy recovery from ambient pollution. Additionally, the authors are grateful to the staff of Beijing Synchrotron Radiation Facilities for beam time and for their technical assistance in XRD measurements.
\n',keywords:null,chapterPDFUrl:"https://cdn.intechopen.com/pdfs/47831.pdf",chapterXML:"https://mts.intechopen.com/source/xml/47831.xml",downloadPdfUrl:"/chapter/pdf-download/47831",previewPdfUrl:"/chapter/pdf-preview/47831",totalDownloads:1725,totalViews:320,totalCrossrefCites:1,totalDimensionsCites:1,totalAltmetricsMentions:0,impactScore:0,impactScorePercentile:12,impactScoreQuartile:1,hasAltmetrics:0,dateSubmitted:"June 3rd 2014",dateReviewed:"October 22nd 2014",datePrePublished:null,datePublished:"June 3rd 2015",dateFinished:"November 14th 2014",readingETA:"0",abstract:null,reviewType:"peer-reviewed",bibtexUrl:"/chapter/bibtex/47831",risUrl:"/chapter/ris/47831",book:{id:"4538",slug:"fourier-transform-signal-processing-and-physical-sciences"},signatures:"Adrian Bot, Nicolae Aldea and Florica Matei",authors:[{id:"114681",title:"Dr.",name:"Nicolae",middleName:null,surname:"Aldea",fullName:"Nicolae Aldea",slug:"nicolae-aldea",email:"naldea@itim-cj.ro",position:null,profilePictureURL:"//cdnintech.com/web/frontend/www/assets/author.svg",institution:{name:"National Institute for Research and Development of Isotopic and Molecular Technologies",institutionURL:null,country:{name:"Romania"}}}],sections:[{id:"sec_1",title:"1. Introduction",level:"1"},{id:"sec_2",title:"2. Mathematical background of signal deconvolution",level:"1"},{id:"sec_2_2",title:"2.1. Regularization method",level:"2"},{id:"sec_3_2",title:"2.2. Spline technique",level:"2"},{id:"sec_4_2",title:"2.3. Solving the convolution equation using Fourier transform",level:"2"},{id:"sec_6",title:"3. Why is the technique of deconvolution used in nanomaterials science?",level:"1"},{id:"sec_7",title:"4. Distributions frequently used in physics and chemical signal deconvolution applied in nanomaterials science",level:"1"},{id:"sec_7_2",title:"4.1. Gauss distribution",level:"2"},{id:"sec_8_2",title:"4.2. Cauchy distribution",level:"2"},{id:"sec_9_2",title:"4.3. Generalized Fermi function",level:"2"},{id:"sec_10_2",title:"4.4. Voigt distribution applied in X-ray line profile analysis",level:"2"},{id:"sec_12",title:"5. Experimental section, data analysis and results",level:"1"},{id:"sec_13",title:"6. Conclusions",level:"1"},{id:"sec_14",title:"Appendix 1",level:"1"},{id:"sec_15",title:"Appendix 2",level:"1"},{id:"sec_16",title:"Acknowledgments",level:"1"}],chapterReferences:[{id:"B1",body:'Kabanikin S. Inverse and Ill-Posed Problems: Theory and Applications. Berlin/Boston: Walter de Gruyter GmbH; 2011.'},{id:"B2",body:'Nedelcov I. P. Improper Problems in Computational Physics. Computer Physics Communications 1972; 4(2)157-163.'},{id:"B3",body:'Read R. J. Intensity Statistics in the Presence of Translational Noncrystallographic Symmetry. Acta Crystallographica Section D 2013; 69(2) 176-183.'},{id:"B4",body:'Kleefeld A., Cottbus B. T. U. Numerical Results for Linear Fredholm Integral Equations of the First Kind over Surfaces in 3D. International Journal of Computer Mathematics 2010; 1(1) 1-16.'},{id:"B5",body:'Naumova V., Pereverzyev S. V. Multi-penalty Regularization with a Component-wise Penalization. Inverse Problems 2013; 29(7) 1-16.'},{id:"B6",body:'Kabanikin S., editor. Regularization Theory for Ill-posed Problems: Selected Topics. Inverse and Ill Posed Problems Series 58. Berlin/Boston: Walter de Gruyter GmbH; 2013.'},{id:"B7",body:'Beniaminy I., Deutsch M. A Spline Based Method for Experimental Data Deconvolution. Computer Physics Communications 1980; 21(2): 271-277.'},{id:"B8",body:'Fredrikze H., Verkerk P. Comment on “A spline based method for experimental data deconvolution”. Computer Physics Communications 1981; 24(1), 5-7.'},{id:"B9",body:'Aldea N., Tiusan C., Zapotinschi R. A New Approach Used to Evaluation the Crystallite Size of Supported Metal Catalysts by Single X-Ray Profile Fourier Transform Implemented on Maple V. In: Borcherds P., Bubak M., Maksymowicz A., editors. 8th Joint EPS-APS International Conference on Physics Computing, PC ’96 17-21 September 1996, Krakow: Academic Computer Centre CYFRONET-KRAKOW; 1996.'},{id:"B10",body:'Balzar D., Ledbetter H. J. Voigt-Function Modeling in Fourier-Analysis of Size and X-ray Diffraction Peaks-Peaks. Journal of Applied Crystallography 1993; 26(1) 97-103.'},{id:"B11",body:'Aldea N., Gluhoi A., Marginean P., Cosma C., Yaning X. Extended X-Ray Absorption Fine Structure and X-Ray Diffraction Studies on Supported Nickel Catalysts. Spectrochimica Acta Part 2000; 55(7) 997-1008.'},{id:"B12",body:'Aldea N., Barz B., Pintea S., Matei F. Theoretical Approach Regarding Nanometrology of the Metal Nanoclusters Used in Heterogeneous Catalysis by Powder X-Ray Diffraction Method. Journal of Optoelectronics and Advanced Materials 2007; 9(10) 3293-3296.'},{id:"B13",body:'Gradstein I. S., Rijik L. M. Tables of Integrals, Sums, Series, and Products. Moscow: Fizmatgiz; 1962.'},{id:"B14",body:'Balzar D., Popa N. C. Crystallite Size and Residual Strain/Stress Modeling in Rietveld Refine. In: Meittemeijer E. J., Scardi P., editors. Diffraction Analysis of the Microstructure of Materials. Berlin Heidelberg New York: Springer-Verlag; 2003, pp. 125-144.'},{id:"B15",body:'Lazar M., Valer A., Pintea S., Barz B., Ducu C., Malinovschi V., Xie Yaning Aldea N. Preparation and Structural Characterization by XRD and XAS of the Supported Gold Catalysts. Journal of Optoelectronics and Advanced Materials 2008; 10(9) 2244-2251.'},{id:"B16",body:'Walker J. S. Fast Fourier Transform. 2nd ed. New York, London, Tokyo: Boca Raton CRC; 1997.'},{id:"B17",body:'Balzar D. BREADTH- a Program for Analyzing Diffraction Line Broadening. Journal of Applied Crystallography 1995; 28(2) 244-245.'},{id:"B18",body:'Rednic V., Aldea N., Marginean P., Rada M., Bot A., Zhonghua W., Zhang J., Matei F. Heat Treatment Influence on the Structural Properties of Supported Ni Nanoclusters. Metals and Materials International 2014; 20(4) 641-646.'}],footnotes:[],contributors:[{corresp:null,contributorFullName:"Adrian Bot",address:null,affiliation:'
National Institute for Research and Development of Isotopic and Molecular Technologies, Cluj-Napoca, Romania
University of Agricultural Sciences and Veterinary Medicine, Cluj-Napoca, Romania
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1. Introduction
Cervical cancer is the fourth most prevalent cancer among women worldwide. Human Papillomavirus (HPV) is known to be the main cause of cervical cancer [1]. It is well-known that cervical cancer has long latency period. Pre-malignant abnormalities in cervical cells can take up to a decade to progress to carcinoma. Early diagnosis of pre-cancerous cervical cells and treatment help in halting the progression of this fatal cancer [2]. The five year survival rate for patients suffering from cervical cancer has been documented to be over 60% [3]. In spite of the long latency period for cervical cancer to develop, the mortality rate among cervical cancer patients is high in developing countries due to shortage of skilled clinicians and lack of effective screening tools [4, 5].
The cervix which is the innermost part of uterus is sub-divided between the endo-cervix and ecto-cervix regions. The endo-cervix is composed of glandular cells whereas the ecto-cervix is made up of squamous cells. Transformation zone is the place where these regions adjoin, and where most of the cervical cancer is known to originate [6]. Starting with the transformation zone the cells in the squamous region are typically classified as basal, para-basal, intermediate and superficial respectively. The majority of cells in a typical Pap-smear cell sample used for examination by clinicians are from the intermediate and superficial outer layers. The classification of precancerous cells as low grade and high grade is established through Bethesda system [7, 8] which is based on morphological changes in the cells (particularly the cell nuclei). Traditionally the detection of precancerous cervical cells is primarily performed using cytological screening. The widespread usage of liquid based cytology (LBC) in recent years has made the process of sample preparation and examination more uniform. However, screening methods based on visual inspection can suffer from both inter- and intra-observer variability. Machine learning based approaches have gained attention in this regard [9, 10, 11, 12, 13] and standard benchmark datasets of cervical cell images have been created [14, 15]. The goal of machine learning approaches is to make the process of cell classification at least semi-automated and to provide an assisting tool for cyto-pathologists.
The machine learning based studies have focused mainly on the 2D bright-field images of the cervical cells and their nuclei. Since cells are 3D objects, we believe that additional morphological information in the third (depth) dimension of cells, if available, can provide new information and help any image based cell classification. Digital Holographic Microscopy (DHM) is an interferometric imaging technology [16, 17, 18] which can fill this gap and provide quantitative phase information that may then be related to the depth dimension of the cells. When a coherent beam of light of wavelength λ is transmitted through a cell, the wave-front undergoes a phase change given by:
ϕxy=2πλ∫dznxyz.E1
Here n(x,y,z) represents the refractive index distribution within the cell relative to its surroundings. It is important to understand that phase provides new non-redundant information that cannot be derived from the usual 2D bright-field images. The phase change ϕxy cannot be measured directly by a 2D array sensor but may be recorded in the form of an interference fringe pattern. Here the coherent light source is first split into two beams, one of the beams passes through the cell sample and the other reference beam travels through free space before the two beams are recombined to record an interference pattern. As per Eq. (1), the phase function contains information on optical path length (product of refractive index and thickness) through the cell sample at location xy. While quantitative phase images have been shown to provide interesting new information about cancer cell morphology [19, 20, 21, 22], clinically this modality is not yet popular and clinician are not trained to interpret quantitative phase images. We therefore follow a protocol where a focused bright-field image of a cervical cell is recorded along with phase image of the cell in the same focus plane. This way the clinicians can correlate with their traditional knowledge and treat phase images as an additional channel of morphological information. Recently we demonstrated such an approach for unsupervised organization of cervical cell images [23]. In the present imaging study over a much larger sample size with samples collected from different clinical sites, we examine the structural changes in phase images of cervical cell nuclei and highlight their potential importance for cell classification. Even though 2D images are able to distinguish between the major stages of normal cells, the phase images allow one to observe the morphological changes as the cells evolve through these stages. Additionally we examine the structural characteristics of abnormal samples as identified by practicing cyto-pathologists.
Traditional DHM systems are based on single-shot off-axis interference configuration or the multi-shot phase shifting con-figuration. The single-shot off-axis systems are simpler and cheaper to build but the conventional Fourier filtering approach for phase reconstruction in these systems leads to sub-optimal phase resolution. The multi-shot phase shifting configurations offer full resolution but are hardware intensive and require stringent vibration isolation thus making them difficult to employ in clinical settings. In recent years our group has developed optimization based phase reconstruction algorithms [24, 25, 26, 27] for single-shot DHM systems which offer the simplicity of hardware without compromising on resolution and quantitative phase accuracy. The full diffraction-limited resolution capability of our system allows us to treat the bright-field and phase images on par (with respect to their lateral resolution). The single-shot operation also reduces the cost of building a DHM system making it more accessible for wider deployment. Based on our imaging study we find that the phase images contain important morphological information associated with different classes of normal as well as abnormal cells. Further this phase information is seen to be robust across the samples from three clinical sites. Also the samples consisted of age group of 17–60 years of the subjects. The cell morphology captured as numerical parameters from the phase images can provide valuable additional information to clinicians over what they usually access with routine bright-field microscopy. Our results suggest that phase imaging can become an important clinical modality, and it should be possible to design phase-based software tools for clinicians to make better informed decisions with this new information. The Chapter is organized as follows. In Section 2 we explain the technique of digital holographic microscopy (DHM) and the nature of quantitative phase images along with our phase reconstruction methodology. Section 3 briefly describes the details of the cell samples used. The results are discussed in Section 4. In Section 4.1 we start by showing images of cervical cells in both bright-field and phase modalities to illustrate morphological changes in cervical cell nuclei. This is followed by PCA analysis of the cell data based on the morphological parameters derived from the cell images in Section 4.2. In Section 4.3 we describe our analysis to understand if the most important phase parameters for normal cells are consistent across different patients from same clinical site, across different clinical sites and between different age groups. Finally in Section 5 we provide concluding remarks.
2. Digital holographic microscopy (DHM)
DHM is an interferometric modality where the recorded image data Hxy represents interference between the object wave Oxy representing the light which has interacted with the cell sample and the reference wave Rxy that has not interacted with the sample is described as:
H=R2+O2+R∗O+RO∗.E2
Here ∗ represents the complex conjugation of the corresponding wave-function. In the image plane holography case as in the present study, Oxy represents the resultant image field corresponding to the cell sample slide when observed through a 40x infinity corrected imaging system [23]. The interference is possible due to the use of a laser source which ensures that the object and reference waves remain temporally coherent at the detector plane and produce interference fringes with good contrast. Since our DHM system is also fitted with a white light LED illumination which allows recording of the cell sample in the usual bright-field mode for ease of interpretation by a clinician.
Reconstruction of single-shot holograms is traditionally performed using the Fourier transform method. However, due to the low-pass filtering nature of this method image plane phase recoveries with full pixel resolution cannot be obtained using this approach. This poses a problem as the bright-field images available will then seem to have higher resolution even though both have been recorded using the same microscope objective. In order to have both bright-field and phase images with same diffraction-limited resolution, we reconstruct of the complex object wave Oxy using a sparse optimization method that has been developed by our group in recent years. In particular, recovery of the complex image field Oxy is posed as an optimization problem where we minimize a cost function of the form:
COO∗=C1+C2=H−R2+O2+R∗O+RO∗2+ψOO∗.E3
Here …2 denotes the squared L2-norm of the quantity inside. The reference beam Rxy is estimated by a separate calibration step involving recording of a straight line interference fringe pattern without any sample followed by accurate estimation of carrier frequency to fractional fringe accuracy [28]. The first term of the cost function represents the least square data fit and the second term ψOO∗ is a suitable image domain constraint. We use the modified Huber penalty function as a constraint and use an adaptive alternating minimization scheme explained in detail elsewhere [23, 26] for recovering the complex object function Oxy in the image plane. The modified Huber penalty is defined as:
ψOO∗=∑k=allpixels1+∇Ok2δ2−1.E4
The tuning parameter δ is made proportional to the median of the gradient magnitudes of the image solution in a given iteration. The Huber penalty acts like the edge preserving Total Variation penalty at pixels where the gradient magnitude ∣∇O∣ is much larger than δ and acts like the smoothing quadratic penalty for pixels where the gradient magnitude is small compared to δ. Further the adaptive optimization strategy makes sure that the change in the solution due to error minimizing step is balanced by that due to Huber minimization step in every iteration. We point out that the optimization problem above involves real valued data (hologram H) whose solution is complex valued. The steepest descent directions evaluated in the algorithm need to be evaluated using Wirtinger derivatives with respect to O∗. In particular we note that the Wirtinger derivatives for the two terms of the cost function in Eq. (3) is given by:
∇O∗C1=−2H−R+O2⋅R+O,E5
and
∇O∗C2=−∇⋅∇O1+∇O2δ2.E6
It is important to note that the optimization procedure operates fully in the image domain making it possible to employ it over a region of interest and thus allowing full resolution reconstruction in near real time. In our study, a 256×256 pixel ROI phase reconstruction requires few seconds (<25 iterations) in a MATLAB implementation on a desktop with 3.1 GHz processor. The data consistency error for the reconstructed solution is within 5% relative error. A user can therefore select a region of interest near a cell nucleus for object wave reconstruction. The resolution and noise advantage of this optimization procedure over traditional Fourier filtering approach has been shown in a series of publications [24, 25, 26, 27, 29], as a result, we will not discuss this point here once again. However for completeness we summarize the advantages of the optimization method in comparison to the traditional methods for image plane hologram processing in Table 1.
Processing method
Single/Multi-shot
Resolution
Fourier filtering
Single-shot
Low resolution
Phase shifting
Multi-shot
Full diffraction-limited
Optimization
Single-shot
Full diffraction-limited
Table 1.
Summary of resolution performance of image plane digital holographic methods.
The phase map ϕxy as in Eq. (1) is the argument of the recovered complex object field Oxy and is given by arctangent of the ratio of imaginary and real parts:
ϕxy=arctanImOxyReOxy.E7
Since the arctangent function is defined only over the range −ππ the phase map defined in Eq. (4) is wrapped. A 2D unwrapping procedure based on the transport of intensity equation (TIE) [30] has been employed in our work in order to associate physical meaning to the phase map in accordance to Eq. (1). The steps involved in imaging are summarized in supplementary (Figure 1). A Pap-smear sample is first imaged in both bright-field and holographic modalities using a dual mode digital holographic microscope (fabricated by Holmarc Opto-Mechatronics Pvt. Ltd., Kochi, India). The holographic (or interferometric) image is used further for phase reconstruction as explained above. Table 2 provides details about a number of morphological parameters derived from the cell images in the bright-field and quantitative phase modes. The morphological parameters were decided in consultation with practicing cyto-pathologists who participated in this study. We summarize them in Table 2 for convenience of the reader. The N/C ratio which is the ratio of nucleus to cytoplasm areas has been included as list of three labels (low = 1, medium = 2, high = 3). This is because we found that a number of cells in the patient samples appeared in clusters and it was difficult to find boundaries of cytoplasm in simple automated manner in such cases.
Figure 1.
Steps in imaging chain (a) Pap-smear slide, (b) dual-mode DHM system, (c) illustrative example of a bright-field image and a hologram recorded using the DHM system, (d) computer used for reading image from camera, phase reconstruction and computing morphological parameters from the bright-field and phase images, (e) illustrative example of phase map of a cell nucleus rendered as a surface plot.
R, G, B componentsAverage R, G, B values computed over mask M
Variance of
R, G, B componentsVariance of R, G, B values computed over mask M.
N/C Ratio
Ratio of areas (Nucleus)/(Cytoplasm) Labels assigned: low =1, mid =2, high = 3
Quantitative phase
Mean and maximum phase
ϕ¯ and maximum of ϕ computed over mask M
Optical volume
(Area) × (ϕ¯) Computed over mask M.
Variance of phase
Variance σϕ2 computed over mask M.
Roughness at scales
1, 0.75, 0.5, 0.25 ∑jk∣∇ϕjk∣ computed over mask M.
Moment of inertia
of nucleus ∑jkϕjkdjk2djk = distance between centroid and other pixels in mask M. Provides information about material distribution.
Shift between geometric and phase centroid
∣r→geom−r→phase∣
Table 2.
Morphological parameters evaluated for each cell nucleus imaged in this study. More details about these parameters are provided in Table 1 of ref. [23].
M denotes a binary (0, 1) mask for individual cell nucleus, q denotes phase map. Both are defined over ROI of 256 × 256 pixels centered on cell nucleus.
3. Details of samples
We imaged a total of 48,006 cervical cells from 291 Pap-smear slides from three different hospitals in Delhi: AIIMS (All India Institute of Medical Sciences, New Delhi), LHMC (Lady Hardinge Medical College, New Delhi) and MAMC (Maulana Azad Medical College, New Delhi) (see Table 3). The samples were upto three years old (not from current patients) and stored in the repositories at the respective sites. They were collected by following the standard protocols for the Pap-smear examination. The patients varied in age from 16–70 years and came from varied geographical locations in India. The cell samples can be prepared conventionally or with Liquid-based cytology (LBC). For each method staining is performed with Pap stain for visualization with bright-field microscopy. For our study we have used both types of samples. Two of the sites used liquid based cytology (LBC) slides prepared via ThinPrep and SurePath systems; while third site used conventional Pap-smears. In LBC method, samples are collected in liquid vials and the slide is prepared semi-automatically. The advantage of LBC is uniformity in sample preparation. On the other hand in conventional cytology the sample is applied directly to a slide for microscopic investigation. Table 3 provides details about number of cells imaged. The classification of normal vs. abnormal cells in these samples was provided based on the bright-field images by practicing cyto-pathologists (S. R. M., M. S.,K. A., S.S.). The normal cells here include the superficial and intermediate cells while the abnormal cells include LSIL, HSIL, SCC, ASC-H and ASC-US type of cells [31].
Details about cell samples used for imaging from the three clinical sites.
As determined by clinicians.
4. Results
4.1 Illustrative bright-field and phase images of various cervical cell types
In this section we begin by providing sample images of cervical cell nuclei that were obtained using our dual-mode DHM system. While quantitative information obtained in terms of morphological parameters is certainly important, a large number of clinical sites worldwide typically use visual examination of cells using a bright-field microscope for cell classification. The importance of changes in nucleus structure in cancer diagnosis is already well-known [32]. With the illustrative examples in this section, we wish to qualitatively describe the morphological features observed in quantitative phase images of cervical cell nuclei in various stages. The simultaneous presentation of bright-field images (that pathologists can correlate to) and the quantitative phase images as shown here is important in our opinion from the perspective of clinical users. It is important to note that our single-shot full resolution phase reconstruction technique allows us to observe the quantitative phase images with the same resolution as the bright-field images. The examples shown here also aim to illustrate that the information contained in the quantitative phase images is different in nature from that in the bright-field images. Quantitative analysis of the images using morphological parameters as described in Table 2 will be provided in the following sections. In Figure 2 we show illustrative examples of normal cells in the intraepithelial squamous layer. A progression from intermediate to superficial stages is shown in Figure 2(a)–(j) respectively. As a cell progresses from intermediate to superficial stage the chromatin in the cell nucleus is known to condense. The superficial cells are in the outermost layer of ecto-cervix and have highly condensed pyknotic nucleus. While in the bright-field images the area of the nucleus is progressively decreasing and the color of the nucleus gets darker from intermediate to superficial stages, the accompanying phase map of the nucleus is seen to get taller by approximately a factor of 2. This change in the optical height profile cannot be inferred from the 2D bright-field images and the phase map is therefore seen to provide new morphological information. Further, from the phase profiles we also see that the evolution of the cells from intermediate to superficial stage happens via a continuous change. Next in Figures 3–5 we examine the abnormal cell classes low grade squamous intraepithelial lesion (LSIL), high grade squamous intraepithelial lesion (HSIL) and squamous cell carcinoma (SCC) which progressively indicate higher grade abnormalities. The class LSIL consists of abnormal superficial and intermediate cells. Variable degrees of hyper-chromasia, nuclear size variation with coarsely granulated chromatin are identifiers of a typical LSIL cell. In the HSIL class, the degree of nuclear enlargement and hyper-chromasia is more than LSIL and the cells here are found in sheet-like aggregates. In both LSIL and HSIL cases the phase profiles of the cell nuclei are seen to have increased roughness or corrugations compared to the normal cells. In the SCC class which is considered to be a confirmed case of malignant cervical smear, the phase profile of the nucleus shows sharp narrow peaks with large phase values. It is once again important to note that the phase profile clearly provides new morphological information that is not readily available in the 2D bright-field images. Apart from the main classes above, the Bethesda system defines a class Atypical Squamous Cells ASC which include the samples that cannot be categorized as normal or abnormal typically. The nuclei in this class are typically larger in area, however, as seen in Figure 6, the average phase value in the nucleus is slightly lower compared to the LSIL, HSIL or SCC classes. In both ASC-US and ASC-H classes (Figure 6), the phase profile has undulations but the phase structure of ASC-H is flatter with lower average phase value in the nucleus as compared to that of the ASC-US cells. Further in some ASC nuclei, we observe local peaks in phase profile located near the nuclear boundary leading to a dip in the center. Finally we show rare abnormal cell cases in Figure 7 that include inflamed, reactive, moon-type, virus-infected and koliocytotic classes. Just a few examples of these rare cells were present in our sample set. The phase profile for all these types appears corrugated with lower average phase values except for the virus infected cell type. While only a few representative images of each cell type have been shown simultaneously in bright-field and phase mode, we clearly observe that the phase profile offers distinctive morphological features that are not currently utilized in the clinical practice. This new information if incorporated in cyto-pathological examination, can be potentially valuable to clinicians.
Figure 2.
Maturation of cells in intra-epithelial squamous layer from intermediate to superficial is shown from (a)-(j) in both bright-field and phase modes. The phase maps correspond to the ROIs marked in the bright-field images. As the nuclei progress to superficial stage, the nucleus area gets smaller and the phase profile is seen to get taller by approximately a factor of 2.
Figure 3.
Illustration of LSIL cells, the three columns show the bright-field image, selected ROI and the phase image of the ROI.
Figure 4.
Illustration of HSIL cells, the three columns show the bright-field image, selected ROI and the phase image of the ROI.
Figure 5.
Illustration of SCC cells, the three columns show the bright-field image, selected ROI and the phase image of the ROI.
Figure 6.
Illustration of (a), (b): ASC-US cells and (c), (d): ASC-H cells, the three columns show the bright-field image, selected nucleus ROI and the phase image of the ROI.
Figure 7.
Illustration of rare abnormal cell types: (a) inflamed, (b) reactive, (c) moon-type, (d) virus-infected and (e) koliocytotic; the three columns show the bright-field image, selected nucleus ROI and the phase image of the ROI.
4.2 PCA analysis of quantitative parameters obtained from bright-field and phase images of cervical cell nuclei
A MATLAB based software was designed to compute a number of morphological parameters associated with cell nuclei that are listed in Table 2 from each of the cell nuclei imaged in bright-field as well as quantitative phase mode. The cell nucleus measurement data was therefore consisted of an (N × p) matrix with N = 48,006 and p = 20. Note that one parameter in the measurement set is the N/C ratio which was given three labels (low =1, mid =2, high =3) based on visual inspection of nuclei. This was done so that a number of cells of interest that appeared in clusters for which determining the cytoplasm boundary was difficult could be used in the analysis. All the other parameters were measured over the nucleus region in an automated fashion. For the present analysis, the cells were nominally labeled as superficial, intermediate and abnormal (including LSIL, HSIL, ASC-US, ASC-H, SCC) by practicing cyto-pathologists (S. R. M., M. S., K. A., S.S.). Since the number of abnormal cells was much smaller (1.6%) compared to the normal (superficial and intermediate) cells, a truncated data-set with 450 randomly selected cells from each of the three types (superficial, intermediate and abnormal) as per prior labelling was used to train the PCA. Denoting the truncated data matrix with 1350 rows and 20 columns (representing the measurements) with each column in standard form (zero mean and standard deviation 1) by A, the PCA solves the eigenvalue problem:
ATAuk=μkuk.E8
Here the superscript “T” stands for the transpose of the matrix A. The eigenvectors uk are mutually orthogonal and are called as the principal vectors. All the cell data corresponding to the 48006 cells was then projected on the PCA vectors. The plot of first two components of PCA for all the cells is shown in Figure 8. The color coding of black, blue, and red corresponds to cells that were labeled separately by cyto-pathologists as superficial, intermediate and abnormal (all classes) respectively based on the bright-field images of the nuclei. Typical bright-field and phase images of cells from the three different regions of the PCA plot are also shown for illustration. The PCA plot based on bright-field and phase information separates most of the cells in three different classes, despite some overlap in adjacent classes. In particular, it is interesting to observe that almost all the cells labeled as abnormal fall in the bottom right corner of the PCA plot. We further examine four cells labeled as 1, 2, 3, 4 on the PCA plot that showed unexpected classification when phase parameters were used. Cells 1, 2 were labeled abnormal by the pathologist but were seen to be well within the intermediate region. Similarly the cells 3, 4 were labeled as intermediate but were observed to be well within the abnormal (red points) class. For a closer examination of this anomaly, we show bright-field and phase images of these cells in Figure 9. A re-examination of these cell images by pathologists suggested the following. Cell 1 is koliocytotic (abnormal) but it appears to have a dried up cytoplasm and leading to low phase values in the nucleus. The cell 2 is actually very similar to intermediate cells in general, but the pathologists labeled it as abnormal due to comparatively smaller sizes of other nuclei on the particular sample slide. The parameters associated with cell 3 are similar to abnormal cells but it is a rare example of enlarged intermediate cell. Finally cell 4 has folded cytoplasm leading to higher phase values although the cell may be considered to be of the intermediate class. Re-examination of these and other similar anomalies reveal that cervical cell classification has some aspects beyond simple numerical measurements performed on cell images (either in phase or bright-field modes) that need to be taken into account by any automated cell classification methodology. The issues like folding of cell cytoplasm can for example be minimized with the LBC preparation methodology. PCA analysis was used here because the plot as in Figure 8 can be generated essentially in an unsupervised manner, however, it is certainly not the best classification methodology available today. In future we hope to test the possibility of cell classification using more advanced machine learning ideas applied to this data.
Figure 8.
Data corresponding to 48006 cells projected onto the first two PCA vectors. The color coding of black, blue, and red corresponds to cells that were labeled by cyto-pathologists as superficial, intermediate and abnormal (all classes) respectively.
Figure 9.
Examples of intermediate and abnormal cells falling well within the abnormal and intermediate regions of the PCA plot in Figure 8.
We further performed a leave-one-out analysis of the PCA for the cell data to determine which of the 20 measurements influenced the PCA scores the most [33]. If the PCA eigenvectors are arranged as columns of a matrix U the scores Z for the data corresponding to the principal components may be expressed as:
Z=AU.E9
The plot in Figure 8 thus corresponds to the first two columns of the score matrix Z. For the leave-one-out analysis, the PCA was performed at a time with only 19 parameters by leaving one of the measured parameters one by one. The data matrix, the eigenvector matrix and the score matrix corresponding to the case where j-th measurement (j=1,2,3,…,20) is left out may be denoted by A−j,U−j and Z−j respectively. The importance of the j-th measurement is judged by the Procrustese distance Dj between the first M=2 columns of the score matrices Z and Z−j. A specific parameter will be judged to influence the PCA the most if its corresponding Procustes distance Dj is higher. The top five morphological parameters in order of importance are shown in Table 4. The relative Procrustes distances are calculated by dividing all the distances Dj with j=123…20 by the maximum among them. We find that among the top five parameters that influenced the PCA scores the most, three were derived from the phase images while two were derived from the bright-field images. It may be noted from Table 4 that two phase based parameters (moment of inertia and optical volume) influence the PCA more than the commonly used N/C ratio criterion. We therefore believe that quantitative phase may prove to be an important future imaging modality in addition to the commonly used bright-field microscopy for cervical cell classification.
Morphological parameter
Modality
Relative Procrustes Distance Dj
Moment of inertia
Phase
1.0
Optical volume
Phase
0.85
N/C Ratio
Bright-field
0.83
Perimeter of nucleus
Bright-field
0.79
Mean phase of nucleus
Phase
0.76
Table 4.
Relative importance of numerical parameters using leave-one-out analysis applied to PCA.
4.3 Consistency of phase parameters
Quantitative phase is not a standard clinical methodology for cell classification, however, as we showed in Section 4.2, quantitative phase may become an important modality to consider for future clinical use. It is therefore important to understand if the phase parameters for cervical nuclei are consistent across different subjects from same clinical site, age group of subjects or clinical sites with different sample preparation methodologies. Since our leave-one-out PCA analysis suggested that optical volume and moment of inertia are the most important phase parameters as explained in the previous section, we have plotted a few hundred randomly selected normal cells (superficial and intermediate) with respect to these phase parameters in Figure 10. In Figure 10(a) we show the plot for 200 normal cells each for five different patients from a single clinical site. Figure 10(b) shows the same plot for 200 cells each from three different clinical sites with different sample preparation protocols. In Figure 10(c) we show the plot once again for 500 normal cells for two different age groups (below and above 30 years). From these plots we observe that the normal cells from different categories as above show highly overlapping distributions for the most important phase parameters. We believe that this observation is very important for standardization and usage of quantitative phase imaging methodology in future clinical practice.
Figure 10.
Verification of consistency of the two most important phase parameters (moment of inertia and optical volume) decided based on the leave-one-out analysis; (a) plot of 200 cells each for 5 patients from the same clinical site (AIIMS), (b) plot of 200 cells each from three clinical sites with different sample preparation protocols, (c) plot of 500 cells each for patients below and above 30 years of age. The numerical values of moment of inertia and optical volume are normalized to standard form (zero mean and standard deviation one).
4.4 Observations on quantitative phase imaging of unstained cervical cells
In this section we briefly describe an interesting possibility of quantitative phase imaging of unstained cervical cell samples with two typical images of normal cells as shown in Figure 11. For unstained cervical cell samples, the Pap smear was prepared using the conventional method and cells were fixed with ethyl alcohol. While the staining protocols used in Pap-smear sample is a gold standard for diagnosis by cyto-pathologists, we note here that compared to stained cells, the phase signal observed from nuclei of unstained unprocessed cell samples is almost three times higher in magnitude. While interpretation of images of the unstained cells and their phase may require one to go through a learning process, the possibility of using unstained cell samples for diagnostic practice may offer an attractive alternative as the cell sample preparations will not involve any wet-lab processing and recurring costs associated with reagents.
Figure 11.
Illustration of bright-field and phase imaging of unstained cervical cells: (a), (d): Bright-field images of unstained cells, (b), (e): Nucleus ROI selected from the bright-field image, (c), (f): Phase map of the unstained nuclei.
5. Conclusions
In conclusion we have reported an image based study of cervical cells at various stages using bright-field as well as quantitative phase microscopy. Over 48000 cells have been imaged individually. The phase images of the cell nuclei were reconstructed using an optimization approach that provided same resolution as the bright-field images. This image data-set may be valuable for future application development using advance machine learning methods. The visual inspection of images shows interesting features in the phase images as the cells evolve from intermediate to superficial stages with distinct features associated with abnormal cells. This finding based on visual inspection is confirmed in the PCA analysis of the morphological parameters of cells derived from both the bright-field and phase images of cell nuclei. A leave-one-out analysis applied to the PCA scores suggests that apart from the N/C ratio that has been used for identifying abnormal cells for decades, the other two parameters that influence the PCA the most are optical volume and moment of inertia of nucleus - both of which are derived from phase images. A consistency study suggests that the phase parameters associated with normal cells show highly overlapping distributions for multiple patients from same clinical site, for three clinical sites with different sample preparation protocols and for patients in two age groups. The consistency of phase parameter distributions for these cases further suggest that phase is a robust modality that can certainly be used in a standardized manner in clinical practice. We believe that quantitative phase may become an important imaging modality in addition to the bright-field imaging that is solely used in the current clinical practice. While this study has been performed for cervical cells we believe that our conclusions regarding importance of quantitative phase may possibly have a wider applicability.
Acknowledgments
The authors acknowledge financial support from Department of Science and Technology India (Award: IDP/MED/34/2016) and Biotechnology Industry Research Assistance Council India (Awards: FT/12/02(110)/15/0237 and BT/SIBRI45/733/17). The unstained sample shown in Figure 11 of this chapter was shared by Dr. R. Sankaranarayanan (RTI International India). Incubation support from FITT-IIT Delhi is gratefully acknowledged.
Conflict of interest
The authors declare no conflict of interest.
\n',keywords:"cervical cell imaging, quantitative phase, cell classification and characterization, early cancer diagnosis",chapterPDFUrl:"https://cdn.intechopen.com/pdfs/76751.pdf",chapterXML:"https://mts.intechopen.com/source/xml/76751.xml",downloadPdfUrl:"/chapter/pdf-download/76751",previewPdfUrl:"/chapter/pdf-preview/76751",totalDownloads:192,totalViews:0,totalCrossrefCites:0,dateSubmitted:null,dateReviewed:"February 6th 2021",datePrePublished:"May 13th 2021",datePublished:"March 16th 2022",dateFinished:"May 13th 2021",readingETA:"0",abstract:"We summarize a study involving simultaneous imaging of cervical cells from Pap-smear samples using bright-field and quantitative phase microscopy. The optimization approach to phase reconstruction used in our study enables full diffraction limited performance from single-shot holograms and is thus suitable for reducing cost of a quantitative phase microscope system. Over 48000 cervical cells from patient samples obtained from three clinical sites have been imaged in this study. The clinical sites used different sample preparation methodologies and the subjects represented a range of age groups and geographical diversity. Visual examination of quantitative phase images of cervical cell nuclei show distinct morphological features that we believe have not appeared in the prior literature. A PCA based analysis of numerical parameters derived from the bright-field and quantitative phase images of the cervical cells shows good separation of superficial, intermediate and abnormal cells. The distribution of phase based parameters of normal cells is also shown to be highly overlapping among different patients from the same clinical site, patients across different clinical sites and for two age groups (below and above 30 years), thus suggesting robustness and possibility of standardization of quantitative phase as an imaging modality for cell classification in future clinical usage.",reviewType:"peer-reviewed",bibtexUrl:"/chapter/bibtex/76751",risUrl:"/chapter/ris/76751",signatures:"Sarita Ahlawat, Purnima Sharma, Ankita Pandey, Durga Bisht, Aanisa Jan, Apoorv Pant, Ritika Malik, Sandeep R. 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Introduction",level:"1"},{id:"sec_2",title:"2. Digital holographic microscopy (DHM)",level:"1"},{id:"sec_3",title:"3. Details of samples",level:"1"},{id:"sec_4",title:"4. Results",level:"1"},{id:"sec_4_2",title:"4.1 Illustrative bright-field and phase images of various cervical cell types",level:"2"},{id:"sec_5_2",title:"4.2 PCA analysis of quantitative parameters obtained from bright-field and phase images of cervical cell nuclei",level:"2"},{id:"sec_6_2",title:"4.3 Consistency of phase parameters",level:"2"},{id:"sec_7_2",title:"4.4 Observations on quantitative phase imaging of unstained cervical cells",level:"2"},{id:"sec_9",title:"5. Conclusions",level:"1"},{id:"sec_10",title:"Acknowledgments",level:"1"},{id:"sec_13",title:"Conflict of interest",level:"1"}],chapterReferences:[{id:"B1",body:'Schiffman M, Castle PE, Jeronimo J, Rodriguez AC, Wacholder S. Human papillomavirus and cervical cancer. The Lancet 2007; 370: 890–907.'},{id:"B2",body:'Andrae B, Andersson TML, Lambert PC, Kemetli L, Silfverdal L, Strander B, Ryd W, Dillner J, Tornberg S, Sparen P. Screening and cervical cancer cure: population based cohort study. BMJ 2012; 344:e900 doi: 10.1136/bmj.e900'},{id:"B3",body:'Benard VB, Watson M, Saraiya M, Harewood R, Townsend JS, Stroup AM, Weir HK, Allemani C. Cervical cancer survival in the United States by race and stage (2001–2009): Findings from the CONCORD-2 study. Cancer 2017; 123: 5119–5137.'},{id:"B4",body:'Cronje H. Screening for cervical cancer in developing countries. International Journal of Gynecology & Obstetrics 2004; 84: 101–108.'},{id:"B5",body:'Sankaranarayanan R, Nene BM, Shastri SS, Jayant K, Muwonge R, Budukh AM, Hingmire S, Malvi SG, Thorat R, Kothari A, Chinoy R, Kelkar R, Kane S, Desai S, Keskar VR, Rajeshwarkar R, Panse N, Dinshaw KA. HPV screening for cervical cancer in rural India. New England Journal of Medicine 2009; 360: 1385–1394.'},{id:"B6",body:'Small Jr W, Bacon MA, Bajaj A, Chuang LT, Fisher BJ, Harkenrider MM, Jhingran A, Kitchener H, Mileshkin LR, Viswanathan AN, Geffney DK. Cervical cancer: a global health crisis. Cancer 2017; 123(13): 2404–2412.'},{id:"B7",body:'Solomon D, Davey D, Kurman R, Moriarty A, O’Connor D, Prey M, Raab S, Sherman M, Wilbur D, Wright Jr. T, Young N. The 2001 Bethesda System: terminology for reporting results of cervical cytology. JAMA 2002; 287: 2114–2119.'},{id:"B8",body:'Nayar R, Wilbur DC (ed.s). The Bethesda system for reporting cervical cytology: definitions, criteria, and explanatory notes. Springer International Publishing 2015.'},{id:"B9",body:'Marinakis Y, Dounias G, Jantzen J. Pap smear diagnosis using a hybrid intelligent scheme focusing on genetic algorithm based feature selection and nearest neighbor classification. Computers in Biology and Medicine 2009; 39: 69–78.'},{id:"B10",body:'GençTav A, Aksoy S, ÖNder S. Unsupervised segmentation and classification of cervical cell images. Pattern Recognition 2012; 45: 4151–4168.'},{id:"B11",body:'Chankong T, Theera-Umpon N, Auephanwiriyakul S. Automatic cervical cell segmentation and classification in Pap smears. Computer Methods and Programs in Biomedicine 2014; 113: 539–556.'},{id:"B12",body:'Song Y, Zhang L, Chen S, Ni D, Lei B, Wang T. Accurate Segmentation of Cervical Cytoplasm and Nuclei Based on Multiscale Convolutional Network and Graph Partitioning. IEEE Trans on Biomedical Engineering 2015; 62:2421–2433.'},{id:"B13",body:'Zhang L, Le Lu, Nogues I, Summers RM, Liu S, Yao J. DeepPap: Deep Convolutional Networks for Cervical Cell Classification. IEEE Journal of Biomedical and Health Informatics 2017; 21: 1633–1643.'},{id:"B14",body:'Jantzen J, Norup J, Dounias G, Bjerregaard B. Pap-smear Benchmark Data For Pattern Classification. In: Proc. NiSIS (Nature Inspired Smart Information Systems); 2005: 1–9.'},{id:"B15",body:'Plissiti ME, Nikou C. Cervical cell classification based exclusively on nucleus features. In: Lecture Notes on Computer Science Springer. 2012; 7325: 483–490.'},{id:"B16",body:'Kim MK. Principles and techniques of digital holographic microscopy. SPIE Reviews 2010; 1: 018005.'},{id:"B17",body:'Park Y, Depeursinge C, Popescu G. Quantitative phase imaging in biomedicine. Nature Photonics 2018; 12: 578–589.'},{id:"B18",body:'Kemper B, Illy E. Digital Holographic Microscopy. PhotonicsViews 2020; 17(1): 32–35.'},{id:"B19",body:'Mihailescu M, Paun I, Scarlat E, Grigorescu I, Nedelcu O, Radu R. Digital holographic microscopy for phase images of cervical cells 3D structure. In: Conference on Lasers and Electro-optics/Pacific Rim, Optical Society of America 2015: paper 27P69.'},{id:"B20",body:'Benzerdjeb N, Garbar C, Camparo P, Sevestre H. Digital holographic microscopy as screening tool for cervical cancer preliminary study. Cancer Cytopathology 2016; 124: 573–580.'},{id:"B21",body:'Lam VK, Nguyen TC, Chung BM, Nehmetallah G, Raub CB. Quantitative assessment of cancer cell morphology and motility using telecentric digital holographic microscopy and machine learning. Cytometry Part A 2018; 93: 334–345.'},{id:"B22",body:'Lam VK, Nguyen T, Phan T, Chung BM, Nehmetallah G, Raub CB. Machine Learning with Optical Phase Signatures for Phenotypic Profiling of Cell Lines. Cytometry Part A 2019; 95: 757–768.'},{id:"B23",body:'Mangal J, Monga R, Mathur SR, Ahlawat S, Khare K, Unsupervised organization of cervical cells using bright-field and single-shot digital holographic microscopy. Journal of Biophotonics 2019; 12: e201800409.'},{id:"B24",body:'Khare K, Samsheerali PT, Joseph J. Single shot high resolution digital holography. Opt. Express 2013; 21: 2581–2591.'},{id:"B25",body:'Singh M, Khare K. Single-shot interferogram analysis for accurate reconstruction of step phase objects. J. Opt. Soc. Am. A 2017; 34: 349–355.'},{id:"B26",body:'Singh M, Khare K. Single-shot full resolution region-of-interest (ROI) reconstruction in image plane digital holographic microscopy. J. Mod. Opt. 2018; 65: 1127–1134.'},{id:"B27",body:'Rajora S, Butola M, Khare K. Mean gradient descent: an optimization approach for single-shot interferogram analysis. J. Opt. Soc. Am. A 2019; 36: D7–D13.'},{id:"B28",body:'Singh M and Khare K. Accurate efficient carrier estimation for single shot digital holographic imaging. Opt. Lett. 2016; 41:4871–4874.'},{id:"B29",body:'Singh M, Khare K, Jha AK, Prabhakar S, Singh RP. Accurate multipixel phase measurement with classical-light interferometry. Phys. Rev. A 2015; 91:021801.'},{id:"B30",body:'Pandey N, Ghosh A, Khare K. Two-dimensional phase unwrapping using the transport of intensity equation. Applied Optics 2016; 55: 2418–2425.'},{id:"B31",body:'Gray W, McKee G. Diagnostic Cytopathology 2 ed. Churchill Livingstone, Philadelphia. 2002.'},{id:"B32",body:'Zink D, Fischer AH, Nickerson JA. Nuclear structure in cancer cells. Nature Reviews Cancer 2004; 4: 677–687.'},{id:"B33",body:'Krzanowski W. Cross-validation in principal component analysis. Biometrics 1987: 575–584.'}],footnotes:[],contributors:[{corresp:null,contributorFullName:"Sarita Ahlawat",address:null,affiliation:'
Phase Laboratories Pvt Ltd, Technology Business Incubator Unit, Indian Institute of Technology Delhi, Hauz Khas, India
Department of Physics, Indian Institute of Technology Delhi, Hauz Khas, India
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The Open Access Publishing Fee (OAPF) is payable only after your book chapter, monograph or journal article is accepted for publication.
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OAPF Publishing Options
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1,400 GBP Chapter - Edited Volume
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During the launching phase journals do not charge an APC, rather they will be funded by IntechOpen.
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Services included are:
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An online manuscript tracking system to facilitate your work
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Personal contact and support throughout the publishing process from your dedicated Author Service Manager
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English language copyediting and proofreading, including the correction of grammatical, spelling, and other common errors
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XML Typesetting and pagination - web (PDF, HTML) and print files preparation
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Discoverability - electronic citation and linking via DOI
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Permanent and unrestricted online access to your work
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What isn't covered by the Open Access Publishing Fee?
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If your manuscript:
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If a manuscript requires Heavy Editing or Language Polishing, this will incur additional fees.
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Your Author Service Manager will inform you of any items not covered by the OAPF and provide exact information regarding those additional costs before proceeding.
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To explore funding opportunities and learn more about how you can finance your IntechOpen publication, go to our Open Access Funding page. IntechOpen offers expert assistance to all of its Authors. We can support you in approaching funding bodies and institutions in relation to publishing fees by providing information about compliance with the Open Access policies of your funder or institution. We can also assist with communicating the benefits of Open Access in order to support and strengthen your funding request and provide personal guidance through your application process. You can contact us at funders@intechopen.com for further details or assistance.
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Added Value of Publishing with IntechOpen
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Choosing to publish with IntechOpen ensures the following benefits:
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Indexing and listing across major repositories, see details ...
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Long-term archiving
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Live Performance Metrics to track readership and the impact of your chapter
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Dissemination and Promotion
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Almost all the parts of this plant, that are, fruit, leaves, flower bud, trunk, and pseudo-stem, can be utilized. This chapter deals with the fiber extracted from the pseudo-stem of the banana plant. It discusses the production of banana pseudo-stem fiber, which includes plantation and harvesting; extraction of banana pseudo-stem fiber; retting; and degumming of the fiber. It also deals with the characteristics of the banana pseudo-stem fiber, such as morphological, physical and mechanical, durability, degradability, thermal, chemical, and antibacterial properties. 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Community- and research-based conservation mechanisms could be an appropriate approach for mitigating the problems pertinent to the loss of medicinal plants and their habitats and for documenting medicinal plants. Chromatography; electrophoretic, macroscopic, and microscopic techniques; and pharmaceutical practice are mainly used for quality control of herbal medicines.",book:{id:"8502",slug:"plant-science-structure-anatomy-and-physiology-in-plants-cultured-in-vivo-and-in-vitro",title:"Plant Science",fullTitle:"Plant Science - Structure, Anatomy and Physiology in Plants Cultured in Vivo and in Vitro"},signatures:"Admasu Moges and Yohannes Moges",authors:[{id:"249746",title:"Ph.D.",name:"Admasu",middleName:null,surname:"Moges",slug:"admasu-moges",fullName:"Admasu Moges"},{id:"297761",title:"MSc.",name:"Yohannes",middleName:null,surname:"Moges",slug:"yohannes-moges",fullName:"Yohannes Moges"}]},{id:"29764",title:"Underlying Causes of Paresthesia",slug:"underlying-causes-of-paresthesia",totalDownloads:192987,totalCrossrefCites:3,totalDimensionsCites:7,abstract:null,book:{id:"1069",slug:"paresthesia",title:"Paresthesia",fullTitle:"Paresthesia"},signatures:"Mahdi Sharif-Alhoseini, Vafa Rahimi-Movaghar and Alexander R. 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The generation of the crop cycle can be hastened by inducing changes in the physiological process such as photosynthesis rate, flowering initiation, and duration. Speed breeding eases multiple trait improvement in a shorter span by integration of high-throughput phenotyping techniques with genotype platforms. The crop breeding cycle is also shortened by the implementation of selection methods such as single-seed descent, single plant selection, and marker-assisted selection.",book:{id:"11621",title:"Plant Breeding - New Perspectives",coverURL:"https://cdn.intechopen.com/books/images_new/11621.jpg"},signatures:"Priyanka Shanmugavel, Gowtham Ramasamy, Geethalakshmi Vellingiri, Rajavel Marimuthu and Kalaimagal Thiyagarajan"},{id:"82529",title:"Molecular and Functional Characterisation of Allergenic Non-specific Lipid Transfer Proteins of Sweet Lupin Seed Species",slug:"molecular-and-functional-characterisation-of-allergenic-non-specific-lipid-transfer-proteins-of-swee",totalDownloads:2,totalDimensionsCites:0,doi:"10.5772/intechopen.102889",abstract:"Non-specific lipid transfer proteins (nsLTPs) are small proteins abundant in plants, which function in transferring phospholipids and galactolipids across the membrane. nsLTPs also play a key role in plant resistance to biotic and abiotic stresses, growth and development, as well as in sexual reproduction, seed development, and germination. In addition, these proteins have previously been identified as food allergens. In the present study, we carried out a molecular and functional comparative characterisation of 25 sequences of nsLTPs of lupin legumes and other species. Extensive analysis was carried out; including comparison of databases, phylogeny, physical–chemical properties, functional properties of post-translational modifications, protein structure conservation, 2-D and 3D modelling, functional interaction analysis, and allergenicity including identification of IgE, T-cell, and B-cell binding epitopes. The results indicated that particular structural features of nsLTPs are essential to the functionality of these proteins, high level of structural stability and conservation. 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Data were collected on plant height, stem girth, number of nodes and leaves, shoot weight, stomata conductant, stay-green, fresh root weight, and dry matter percentage and were analyzed using descriptive statistics and ANOVA. Genotypes differed significantly across and within locations. The higher stress level (25% field capacity – F.C.) resulted in a more significant reduction in vegetative growth than the moderate stress level of 50% F.C.; moisture levels were uniform over time for plant height and stem girth. The response to moisture levels varied widely among genotypes, indicating that they experienced a higher stress condition. Genotypes IITA-TMS-IBA980581, IITA-TMS-IBA010040, and IITA-TMS-IBA010034 were identified with good drought tolerance. 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However, both palm oil and soybean oil production chains are not fully sustainable, leading to socioeconomic and environmental challenges, which have driven the search for new raw materials with sustainability potential. Macauba [Acrocomia aculeata (Jacq.) Lodd. Ex Mart.] is an oleaginous palm distributed mainly in Central and South America, and most of the Brazilian territory. It is one of the species with greater potential for economic exploitation due to its high oil productivity and use of by-products from oil extraction and processing. This chapter addresses the most up-to-date information in biology, oil production, and oil processing from fruit to oil applications.",book:{id:"11627",title:"Oilseed Crops - Biology, Production and Processing",coverURL:"https://cdn.intechopen.com/books/images_new/11627.jpg"},signatures:"Odalys García Cabrera, Larissa Magalhães Grimaldi, Renato Grimaldi and Ana Paula Badan Ribeiro"},{id:"82531",title:"Abnormal Iron Metabolism and Its Effect on Dentistry",slug:"abnormal-iron-metabolism-and-its-effect-on-dentistry",totalDownloads:1,totalDimensionsCites:0,doi:"10.5772/intechopen.104502",abstract:"Iron is a necessary micro-nutrient for proper functioning of the erythropoietic, oxidative and cellular metabolism. The iron balance in the body adversely affects the normal physiologic functioning of the body and structures in the oral cavity. Various abnormalities develop owing to improper iron metabolism in the body which reflects in the oral cavity. The toxicity of iron has to be well understood to immediately identify the hazardous effects which arise owing to it and to manage it. It has been very well mentioned in the chapter. The manifestations of defects of iron metabolism in the oral cavity should be carefully studied to improve the prognosis of the treatment of the same. Disorders related to iron metabolism should be managed for improvement in the quality of life of the patient.",book:{id:"10842",title:"Iron Metabolism - Iron a Double‐Edged Sword",coverURL:"https://cdn.intechopen.com/books/images_new/10842.jpg"},signatures:"Chinmayee Dahihandekar and Sweta Kale Pisulkar"},{id:"82291",title:"The Role of Oxidative Stress in the Onset and Development of Age-Related Macular Degeneration",slug:"the-role-of-oxidative-stress-in-the-onset-and-development-of-age-related-macular-degeneration",totalDownloads:1,totalDimensionsCites:0,doi:"10.5772/intechopen.105599",abstract:"Age-related macular degeneration (AMD) is a complex, degenerative and progressive chronic disease that leads to severe visual loss. The prevalence of early AMD accounts for 18% in the population between 65 and 74 years of age and even 30% in subjects older than 74 years. The articles published in the last decade point out to a significant role of oxidative stress in the onset and development of age-related macular degeneration. Generally, reactive oxygen species (ROS) are produced in the eye during light absorption and physiological metabolic processes. The level of oxidative stress is kept under control by the action of antioxidants and reparative enzymes. Excessive synthesis of ROS leads to increased oxidative modification of lipids, proteins and DNA, causing oxidative damage of cytoplasmic and nuclear cell elements and changes of the extracellular matrix. The accumulation of oxidatively modified compounds in drusen deposits will initiate the onset and development of AMD. The objective of this review was to highlight the mechanisms of oxidative stress in order to elucidate their significance and association with the pathogenesis of AMD.",book:{id:"11671",title:"Importance of Oxidative Stress and Antioxidant System in Health and Disease",coverURL:"https://cdn.intechopen.com/books/images_new/11671.jpg"},signatures:"Emina Čolak, Lepša Žorić, Miloš Mirković, Jana Mirković, Ilija Dragojević, Dijana Mirić, Bojana Kisić and Ljubinka Nikolić"}],onlineFirstChaptersTotal:543},preDownload:{success:null,errors:{}},subscriptionForm:{success:null,errors:{}},aboutIntechopen:{},privacyPolicy:{},peerReviewing:{},howOpenAccessPublishingWithIntechopenWorks:{},sponsorshipBooks:{sponsorshipBooks:[],offset:0,limit:8,total:null},allSeries:{pteSeriesList:[{id:"14",title:"Artificial Intelligence",numberOfPublishedBooks:9,numberOfPublishedChapters:90,numberOfOpenTopics:6,numberOfUpcomingTopics:0,issn:"2633-1403",doi:"10.5772/intechopen.79920",isOpenForSubmission:!0},{id:"7",title:"Biomedical Engineering",numberOfPublishedBooks:12,numberOfPublishedChapters:104,numberOfOpenTopics:3,numberOfUpcomingTopics:0,issn:"2631-5343",doi:"10.5772/intechopen.71985",isOpenForSubmission:!0}],lsSeriesList:[{id:"11",title:"Biochemistry",numberOfPublishedBooks:32,numberOfPublishedChapters:320,numberOfOpenTopics:4,numberOfUpcomingTopics:0,issn:"2632-0983",doi:"10.5772/intechopen.72877",isOpenForSubmission:!0},{id:"25",title:"Environmental Sciences",numberOfPublishedBooks:1,numberOfPublishedChapters:12,numberOfOpenTopics:4,numberOfUpcomingTopics:0,issn:"2754-6713",doi:"10.5772/intechopen.100362",isOpenForSubmission:!0},{id:"10",title:"Physiology",numberOfPublishedBooks:11,numberOfPublishedChapters:141,numberOfOpenTopics:4,numberOfUpcomingTopics:0,issn:"2631-8261",doi:"10.5772/intechopen.72796",isOpenForSubmission:!0}],hsSeriesList:[{id:"3",title:"Dentistry",numberOfPublishedBooks:8,numberOfPublishedChapters:133,numberOfOpenTopics:2,numberOfUpcomingTopics:0,issn:"2631-6218",doi:"10.5772/intechopen.71199",isOpenForSubmission:!0},{id:"6",title:"Infectious Diseases",numberOfPublishedBooks:13,numberOfPublishedChapters:113,numberOfOpenTopics:3,numberOfUpcomingTopics:1,issn:"2631-6188",doi:"10.5772/intechopen.71852",isOpenForSubmission:!0},{id:"13",title:"Veterinary Medicine and Science",numberOfPublishedBooks:11,numberOfPublishedChapters:107,numberOfOpenTopics:3,numberOfUpcomingTopics:0,issn:"2632-0517",doi:"10.5772/intechopen.73681",isOpenForSubmission:!0}],sshSeriesList:[{id:"22",title:"Business, Management and Economics",numberOfPublishedBooks:1,numberOfPublishedChapters:19,numberOfOpenTopics:3,numberOfUpcomingTopics:0,issn:"2753-894X",doi:"10.5772/intechopen.100359",isOpenForSubmission:!0},{id:"23",title:"Education and Human Development",numberOfPublishedBooks:0,numberOfPublishedChapters:5,numberOfOpenTopics:1,numberOfUpcomingTopics:1,issn:null,doi:"10.5772/intechopen.100360",isOpenForSubmission:!0},{id:"24",title:"Sustainable Development",numberOfPublishedBooks:0,numberOfPublishedChapters:17,numberOfOpenTopics:5,numberOfUpcomingTopics:0,issn:null,doi:"10.5772/intechopen.100361",isOpenForSubmission:!0}],testimonialsList:[{id:"6",text:"It is great to work with the IntechOpen to produce a worthwhile collection of research that also becomes a great educational resource and guide for future research endeavors.",author:{id:"259298",name:"Edward",surname:"Narayan",institutionString:null,profilePictureURL:"https://mts.intechopen.com/storage/users/259298/images/system/259298.jpeg",slug:"edward-narayan",institution:{id:"3",name:"University of Queensland",country:{id:null,name:"Australia"}}}},{id:"13",text:"The collaboration with and support of the technical staff of IntechOpen is fantastic. 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His research interests include computer/machine vision, machine learning, pattern recognition, computational intelligence. \nDr. Papakostas served as a reviewer in numerous journals, as a program\ncommittee member in international conferences and he is a member of the IAENG, MIR Labs, EUCogIII, INSTICC and the Technical Chamber of Greece (TEE).",institutionString:null,institution:{name:"International Hellenic University",institutionURL:null,country:{name:"Greece"}}},editorTwo:null,editorThree:null},{id:"25",title:"Evolutionary Computation",coverUrl:"https://cdn.intechopen.com/series_topics/covers/25.jpg",isOpenForSubmission:!0,annualVolume:11421,editor:{id:"136112",title:"Dr.",name:"Sebastian",middleName:null,surname:"Ventura Soto",slug:"sebastian-ventura-soto",fullName:"Sebastian Ventura Soto",profilePictureURL:"https://mts.intechopen.com/storage/users/136112/images/system/136112.png",biography:"Sebastian Ventura is a Spanish researcher, a full professor with the Department of Computer Science and Numerical Analysis, University of Córdoba. 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Saxena is a vice dean and professor at King George's Medical University, Lucknow, India. His research interests involve understanding the molecular mechanisms of host defense during human viral infections and developing new predictive, preventive, and therapeutic strategies for them using Japanese encephalitis virus (JEV), HIV, and emerging viruses as a model via stem cell and cell culture technologies. His research work has been published in various high-impact factor journals (Science, PNAS, Nature Medicine) with a high number of citations. He has received many awards and honors in India and abroad including various Young Scientist Awards, BBSRC India Partnering Award, and Dr. JC Bose National Award of Department of Biotechnology, Min. of Science and Technology, Govt. of India. 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He is a vice-president of the Latin American Society for Travel Medicine (SLAMVI) and a Member of the Council of the International Society for Infectious Diseases (ISID). Since 2014, he has been recognized as a Senior Researcher, at the Ministry of Science of Colombia. He is a professor at the Faculty of Medicine of the Fundacion Universitaria Autonoma de las Americas, in Pereira, Risaralda, Colombia. He is an External Professor, Master in Research on Tropical Medicine and International Health, Universitat de Barcelona, Spain. He is also a professor at the Master in Clinical Epidemiology and Biostatistics, Universidad Científica del Sur, Lima, Peru. In 2021 he has been awarded the “Raul Isturiz Award” Medal of the API. Also, in 2021, he was awarded with the “Jose Felix Patiño” Asclepius Staff Medal of the Colombian Medical College, due to his scientific contributions to COVID-19 during the pandemic. 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