Showing posts with label chemometrics. Show all posts
Showing posts with label chemometrics. Show all posts

Friday, May 5, 2017

Abstract-Terahertz spectroscopy detection of genetically modified sugar beets containing the Xa21 gene based on chemometrics methods


Jianjun Liu

https://www.osapublishing.org/jot/abstract.cfm?uri=jot-83-10-627&origin=search

Because traditional detection of genetically modified organisms (GMOs) has the disadvantages of being costly, time consuming, and awkward to perform, a novel method for the detection of GMOs based on terahertz spectroscopy combined with chemometrics methods is proposed. In this work, terahertz spectrum data of a genetically modified sugar beet and its parents are pretreated by using principal component analysis and then using the weighted discriminant analysis model, which is an improved discriminant analysis that applys a weighted algorithm to the detection of a genetically modified sugar beet and its parents. It is found from the experimental results that the samples are expressed by the zonation of saline minerals. By analyzing this phenomenon, it is easy to identify these genetically modified sugar beets. By combining terahertz spectroscopy with chemometrics methods, this paper provides a precise, fast, convenient, and nondestructive method for the detection of GMOs.
© 2017 Optical Society of America

Tuesday, November 10, 2015

Identifying explosives by chemometrics with terahertz spectral imaging


Joyce Bou Sleiman, Jean-Baptiste Perraud, Bruno Bousquet, Jean-Paul Gillet, Norbert Palka and Patrick Mounaix

http://spie.org/x116235.xml?highlight=x2406&ArticleID=x116235
Applying data analysis techniques to terahertz spectral imaging enables automated identification of three explosive chemical products comprising two materials.
9 November 2015, SPIE Newsroom. DOI: 10.1117/2.1201511.006208
Real-time, direct detection of chemicals commonly used in explosives is a perpetual requirement in transport and transportation security. Recently, investigations have shown that imaging and spectroscopy in the terahertz (THz) region offer effective techniques for detection of explosives and drugs. To take advantage of THz spectra and images, chemometrics (extracting chemical information by data modeling or manipulation) is essential for advanced data processing.1
THz spectroscopy enables identification of chemical substances by absorbance spectra (containing peaks or ‘ fingerprints’) that are specific to each powder.2 We investigated THz spectral imaging using a time-domain spectral imager, and raster scanned the different samples. This technique provides an image where each pixel consists of an entire absorbance spectrum. To automate the procedure of explosives recognition, we used two chemometric techniques on the THz spectral images. First, we applied the unsupervised principal component analysis (PCA) method to the series of data to be analyzed, and extracted similarities and differences between the data. Then we used partial least squares discriminant analysis (PLS-DA) to categorize samples in different classes. As objects for our study, we produced three pellets, each containing explosive materials. The first contained 80mg of cyclotrimethylenetrinitramine (RDX), the second 80mg of pentaerythritol tetranitrate (PETN), and the third a mixture of 40mg RDX and 40mg PETN. These are shown in Figure 1(a).
 
Figure 1. (a) Photo of three sample pellets containing the explosive materials cyclotrimethylenetrinitramine (RDX), pentaerythritol tetranitrate (PETN), and a mixture of the two (RDX/PETN). (b) Absorbance image of the three pellets between 0 and 3THz. (c) Absorbance spectra of the pure RDX (red), PETN (green), and their mixture (blue) diluted in 320mg of polyethylene (PE) as a binder.
PCA is the best-known unsupervised multivariate approach to describe both variations and similarities between data sets. It works by optimizing projections on variables called principal components, which are calculated from linear combinations of the original variables, and it allows for reduction in dimension of the data set.3 In our approach, we applied PCA to the THz absorbance image of the three explosives. We demonstrated that the 1452 pixels of the image are organized into three main groups of points corresponding to the three types of explosives. Applying PCA to image processing enhanced the image contrast, making it easier to interpret. Figure 2 shows that the frequencies 1.87THz—in Figure 2(b)—and 2.32THz—in Figure 2(d)—do not allow any discrimination between the three pellets. By contrast, the frequencies 0.8THz—in Figure 2(a)—and 2THz—in Figure 2(c)—display good contrast between the samples. PCA automatically provides the best contrast retrievable from the original data set. Indeed, the image reconstructed from the PCA scores—shown in Figure 2(e)—clearly reveals the highest contrast, as highlighted by the color code.
 
Figure 2. Terahertz (THz) images of the three pellets at (a) 0.8THz, (b) 1.87THz, (c) 2THz, and (d) 2.32THz. (e) Principal component analysis (PC1) scores are shown as a color code.
Partial least squares discriminant analysis (PLS-DA) is a multivariate technique applied for classification purposes. It differs from PCA by a learning step in which the model is trained to sort the input data into classes according to output values.4 We developed the PLS-DA model and applied it to the explosive pellets, with a particular focus on the pixels belonging to the central zone of each. In this way, we aimed to sort the data into three classes of explosives. We built the model with 360 pixels, with the aim of predicting 330 pixels unknown to the model. The results show 100% good classification of the pixels in the right classes as RDX, PETN, and the RDX/PETN mixture. Therefore, our approach was successful in classifying these three explosive products using THz absorbance spectra.
In summary, combining chemometrics and THz measurements provides a reliable method for identifying several illicit and dangerous substances. In our work, we showed the potential of PCA applied to THz absorbance images in automatically distinguishing different illegal products in images, without any preliminary learning phase. Furthermore, we revealed and identified specific explosives by applying PLS-DA to absorbance THz images, and classing each pixel as RDX, PETN, or an RDX/PETN mixture. Moreover, these chemometric analyses show the potential to distinguish an explosive mixture even when there is a significant resemblance in the absorbance spectra, or an overlap in the frequency range.
In future work, we will consider analyzing more complex data sets including a larger number of explosives. Furthermore, we will apply our study to explosive powders as well as pellets, to create real-world conditions for security applications.
This work was sponsored by the Agence Nationale de la Recherche, within the framework of the InPoSec (Integrated Postal Security) project.5

Joyce Bou Sleiman, Jean-Baptiste Perraud, Jean-Paul Gillet, Patrick Mounaix, Bruno Bousquet
Laboratory for the Integration of Materials Systems
University of Bordeaux
Bordeaux, France
Norbert Palka
Institute of Optoelectronics
Military University of Technology
Warsaw, Poland

References:
1. J. Bou Sleiman, J. B. Perraud, B. Bousquet, J. P. Guillet, N. Palka, P. Mounaix, Discrimination and identification of RDX/PETN explosives by chemometrics applied to terahertz time-domain spectral imaging, Proc. SPIE 9651, p. 965109, 2015.doi:10.1117/12.2197442
2. M. R. Leahy-Hoppa, M. J. Fitch, R. Osiander, Terahertz spectroscopy techniques for explosives detection, Anal. Bioanal. Chem. 395, p. 247-257, 2009.
3. J. El Haddad, B. Bousquet, L. Canioni, P. Mounaix, Review in terahertz spectral analysis,Trends Anal. Chem. 44, p. 98-105, 2013.
4. S. Chevallier, D. Bertrand, A. Kohler, P. Courcoux, Application of PLS-DA in multivariate image analysis, J. Chemom. 20(5), p. 221-229, 2006.
5. http://www.inposec.eu Integrated Postal Security project. Accessed 3 November 2015.

Wednesday, July 8, 2015

Abstract-Discrimination of Transgenic Rice containing the Cry1Ab Protein using Terahertz Spectroscopy and Chemometrics

  • Wendao Xu,
  • Lijuan Xie,
  • Zunzhong Ye,
  • Weilu Gao,
  • Yang Yao,
  • Min Chen,
  • Jianyuan Qin
  • & Yibin Ying
  • Spectroscopic techniques combined with chemometrics methods have proven to be effective tools for the discrimination of objects with similar properties. In this work, terahertz time-domain spectroscopy (THz-TDS) combined with discriminate analysis (DA) and principal component analysis (PCA) with derivative pretreatments was performed to differentiate transgenic rice (Hua Hui 1, containing the Cry1Ab protein) from its parent (Ming Hui 63). Both rice samples and the Cry1Ab protein were ground and pressed into pellets for terahertz (THz) measurements. The resulting time-domain spectra were transformed into frequency-domain spectra, and then, the transmittances of the rice and Cry1Ab protein were calculated. By applying the first derivative of the THz spectra in conjunction with the DA model, the discrimination of transgenic from non-transgenic rice was possible with accuracies up to 89.4% and 85.0% for the calibration set and validation set, respectively. The results indicated that THz spectroscopic techniques and chemometrics methods could be new feasible ways to differentiate transgenic rice.

    Thursday, May 1, 2014

    Abstract-Chemometrics Applied to Quantitative Analysis of Ternary Mixtures by Terahertz Spectroscopy



    Université de Bordeaux, CNRS, LOMA, UMR 5798, Talence, F-33400, France
    Anal. Chem., Article ASAP
    DOI: 10.1021/ac500253b
    Publication Date (Web): April 16, 2014
    Copyright © 2014 American Chemical Society
    *E-mail: bruno.bousquet@u-bordeaux.fr. Tel:+33 (0)5 40 00 28 70. Fax: +33 (0)5 40 00 69 70

    Chemometrics was applied to qualitative and quantitative analyses of terahertz spectra obtained in transmission mode. A series of mixtures of three pure analytes, namely, citric acid, d-(−)fructose, and α-lactose monohydrate under various concentrations, was prepared as pressed pellets with polyethylene as binder. Then, terahertz absorbance spectra were recorded by terahertz time domain spectroscopy and analyzed. First, principal component analysis allowed one to correctly locate the samples into a ternary diagram. Second, quantitative analysis was achieved by partial least-squares (PLS) regression and artificial neural networks (ANN). The concentrations were predicted with values of relative mean square error lower than 0.9% for the three constituents. As a conclusion, chemometrics was demonstrated to be very efficient for the analysis of the ternary mixtures prepared for this study.

    Wednesday, April 16, 2014

    Abstract- Chemometrics applied to quantitative analysis of ternary mixtures by Terahertz spectroscopy



    Josette EL HADDAD , Frederick De Miollis , Joyce 
    Anal. Chem., Just Accepted Manuscript
    DOI: 10.1021/ac500253b
    Publication Date (Web): April 16, 2014
    Copyright © 2014 American Chemical Society
    http://pubs.acs.org/doi/abs/10.1021/ac500253b
    Chemometrics was applied to qualitative and quantitative analyses of terahertz spectra obtained in transmission mode. A series of mixtures of three pure products, namely citric acid, D-(-) fructose and α-lactose monohydrate under various concentrations were prepared as pressed pellets with polyethylene as binder. Then terahertz absorbance spectra were recorded by terahertz time domain spectroscopy and analyzed. Firstly, principal component analysis allowed to correctly locating the samples into a ternary diagram. Secondly, quantitative analysis was achieved by partial least square (PLS) regression and artificial neural networks (ANN). The concentrations were predicted with values of relative mean square error lower than 0.9 % for the three constituents. As a conclusion, chemometrics was demonstrated to be very efficient for the analysis of the ternary mixtures prepared for this study.